{ "retrieved": "2026-11-02", "species_count": 6, "image_count": 15, "publication_count": 14, "pdf_count": 7, "xml_fulltexts": 1, "species": [ { "name": "光泽肋鳞鱼", "latin": "Peltopleurus nitidus", "notes_en": "Species identification supported by the original description. Wikipedia coverage is genus-level. Institution/publisher figures are exact-species sources but are below 1,000 pixels; a print master was not found.", "notes_zh": "原始描述支持物种对应。维基仅有属级条目。已取得准确物种的机构及出版商图片，但均不足1000像素，尚未找到印刷级原图。" }, { "name": "双翼鱼", "latin": "Dipterus", "notes_en": "The label identifies a genus. Images and direct anatomical research use Dipterus valenciennesi as a documented representative.", "notes_zh": "展签为属级名称；图片和直接解剖研究采用有明确鉴定的代表种 Dipterus valenciennesi。" }, { "name": "早期爬行动物", "latin": "Early reptiles (unspecified)", "notes_en": "No species identity can be inferred from this broad label. Captorhinus images are explicitly comparative early Permian examples.", "notes_zh": "展签未指定物种，无法确定标本身份。Captorhinus 图片仅为早二叠世爬行动物比较材料。" }, { "name": "弓鳍鱼", "latin": "Amia (bowfin)", "notes_en": "The label identifies Amia. Older publications and images use Amia calva; retain that source identification without assigning the exhibit specimen to a species.", "notes_zh": "展签为弓鳍鱼属 Amia。早期论文和图片沿用 Amia calva，保留来源原鉴定，不据此确定展品种名。" }, { "name": "中华狼鳍鱼", "latin": "Lycoptera sinensis", "notes_en": "The NHM holotype photograph is an exact-species match. Other downloaded images show L. davidi or a genus reconstruction and are labelled as comparisons. Wikipedia is genus-level.", "notes_zh": "伦敦自然历史博物馆正模照片为准确物种对应。其余图片为戴氏狼鳍鱼或属级复原图，均明确标记为比较材料。维基为属级条目。" }, { "name": "豹纹鳃棘鲈", "latin": "Plectropomus leopardus", "notes_en": "Wikipedia and downloaded photographs match the species. Chinese Wikipedia uses the shorter title 鳃棘鲈.", "notes_zh": "维基与下载照片对应同一物种；中文维基条目标题为鳃棘鲈。" } ], "publications": [ { "species": "光泽肋鳞鱼", "key": "pelt", "doi": "10.1007/s11434-016-1189-5", "title": "A Middle Triassic stem-neopterygian fish from China sheds new light on the peltopleuriform phylogeny and internal fertilization", "journal": "Science Bulletin", "year": 2016, "scope": "Exact species; original description", "selection": "Direct foundational paper; no exact-species Nature/Science/Cell paper found", "summary_en": "Describes P. nitidus from 11 Luoping specimens and compares a modified male anal fin. The anatomy supports internal fertilization; it is not direct evidence of embryos or live birth.", "summary_zh": "依据罗平11件标本命名该种，比较雄性特化臀鳍。结构支持体内受精，不能等同于发现胚胎或直接证明胎生。", "url": "https://www.sciencedirect.com/science/article/abs/pii/S2095927316305849", "access": "Publisher page saved; abstract and figure access; full PDF unavailable", "local_file": "光泽肋鳞鱼/Literature/10.1007_s11434-016-1189-5_publisher.html", "bibliographic_metadata": { "indexed": { "date-parts": [ [ 2026, 4, 1 ] ], "date-time": "2026-04-01T23:09:47Z", "timestamp": 1775084987638, "version": "3.50.1" }, "reference-count": 32, "publisher": "Elsevier BV", "issue": "22", "license": [ { "start": { "date-parts": [ [ 2016, 11, 1 ] ], "date-time": "2016-11-01T00:00:00Z", "timestamp": 1477958400000 }, "content-version": "tdm", "delay-in-days": 0, "URL": "https://www.elsevier.com/tdm/userlicense/1.0/" }, { "start": { "date-parts": [ [ 2016, 11, 1 ] ], "date-time": "2016-11-01T00:00:00Z", "timestamp": 1477958400000 }, "content-version": "unspecified", "delay-in-days": 0, "URL": "http://www.springer.com/tdm" } ], "content-domain": { "domain": [ "link.springer.com" ], "crossmark-restriction": false }, "short-container-title": [ "Science Bulletin" ], "published-print": { "date-parts": [ [ 2016, 11 ] ] }, "DOI": "10.1007/s11434-016-1189-5", "type": "journal-article", "created": { "date-parts": [ [ 2016, 11, 14 ] ], "date-time": "2016-11-14T06:36:27Z", "timestamp": 1479105387000 }, "page": "1766-1774", "update-policy": "https://doi.org/10.1007/springer_crossmark_policy", "source": "Crossref", "is-referenced-by-count": 17, "title": [ "A Middle Triassic stem-neopterygian fish from China sheds new light on the peltopleuriform phylogeny and internal fertilization" ], "prefix": "10.1016", "volume": "61", "author": [ { "given": "Guang-Hui", "family": "Xu", "sequence": "first", "affiliation": [], "role": [ { "role": "author", "vocabulary": "crossref" } ] }, { "given": "Xin-Ying", "family": "Ma", "sequence": "additional", "affiliation": [], "role": [ { "role": "author", "vocabulary": "crossref" } ] } ], "member": "78", "reference": [ { "key": "10.1007/S11434-016-1189-5_bib1", "series-title": "Viviparity in fishes", "first-page": "303", "article-title": "Evolutionary origins of vivparity in fishes", "author": "Blackburn", "year": "2005" }, { "key": "10.1007/S11434-016-1189-5_bib2", "doi-asserted-by": "crossref", "first-page": "121", "DOI": "10.1080/11250008409439459", "article-title": "Reproductive modes and strategies in vertebrate evolution", "volume": "51", "author": "Angelini", "year": "1984", "journal-title": "Boll Zool" }, { "key": "10.1007/S11434-016-1189-5_bib3", "first-page": "551", "article-title": "The challenges of piscine viviparity", "volume": "40", "author": "Wourms", "year": "1994", "journal-title": "Israel J Zool" }, { "key": "10.1007/S11434-016-1189-5_bib4", "doi-asserted-by": "crossref", "first-page": "1399", "DOI": "10.1002/jmor.10886", "article-title": "Reproductive histology of Tomeurus gracilis Eigenmann, 1909 (Teleostei: Atherinomorpha: Poeciliidae) with comments on evolution of viviparity in atherinomorph fishes", "volume": "271", "author": "Parenti", "year": "2010", "journal-title": "J Morp" }, { "key": "10.1007/S11434-016-1189-5_bib5", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1111/j.1096-3642.2000.tb02194.x", "article-title": "Phylogenetic analysis and taxonomy of the poecilioid fishes (Teleostei: Cyprinodontiformes)", "volume": "130", "author": "Ghedotti", "year": "2000", "journal-title": "Zool J Linn Soc" }, { "key": "10.1007/S11434-016-1189-5_bib6", "doi-asserted-by": "crossref", "first-page": "986", "DOI": "10.1016/j.ympev.2006.06.009", "article-title": "A phylogenetic and biogeographic perspective on the evolution of poeciliid fishes", "volume": "43", "author": "Hrbek", "year": "2007", "journal-title": "Mol Phylogenet Evol" }, { "key": "10.1007/S11434-016-1189-5_bib7", "doi-asserted-by": "crossref", "first-page": "379", "DOI": "10.1111/j.1096-3642.1990.tb01866.x", "article-title": "Reproduction in Middle Triassic actinopterygians; complex fin structures and evidence of viviparity in fossil fishes", "volume": "100", "author": "Bürgin", "year": "1990", "journal-title": "Zool J Linn Soc" }, { "key": "10.1007/S11434-016-1189-5_bib8", "series-title": "Fishes of the world", "author": "Nelson", "year": "2006" }, { "key": "10.1007/S11434-016-1189-5_bib9", "doi-asserted-by": "crossref", "first-page": "489", "DOI": "10.1098/rspb.2006.3749", "article-title": "A new time-scale for ray-finned fish evolution", "volume": "274", "author": "Hurley", "year": "2007", "journal-title": "Proc R Soc B" }, { "key": "10.1007/S11434-016-1189-5_bib10", "doi-asserted-by": "crossref", "first-page": "213", "DOI": "10.1111/pala.12150", "article-title": "The early evolution of ray-finned fishes", "volume": "58", "author": "Friedman", "year": "2015", "journal-title": "Palaeontology" }, { "key": "10.1007/S11434-016-1189-5_bib11", "doi-asserted-by": "crossref", "DOI": "10.1080/02724634.2014.1001515", "article-title": "Taxonomic revision of Plesiofuro mingshuica from the Lower Triassic of northern Gansu, China, and the relationships of early neopterygian clades", "volume": "35", "author": "Xu", "year": "2015", "journal-title": "J Vert Paleont" }, { "key": "10.1007/S11434-016-1189-5_bib12", "doi-asserted-by": "crossref", "first-page": "199", "DOI": "10.1016/j.earscirev.2013.05.014", "article-title": "Exceptional vertebrate biotas from the Triassic of China, and the expansion of marine ecosystems after the Permo-Triassic mass extinction", "volume": "125", "author": "Benton", "year": "2013", "journal-title": "Earth Sci Rev" }, { "key": "10.1007/S11434-016-1189-5_bib13", "unstructured": "Brough J (1939) The Triassic fishes of Besano, Lombardy. British Museum (Natural History), London" }, { "key": "10.1007/S11434-016-1189-5_bib14", "first-page": "205", "article-title": "Triassic fishes from Kueichow, Southwest China", "volume": "3", "author": "Su", "year": "1959", "journal-title": "Vert PaleAsiat" }, { "key": "10.1007/S11434-016-1189-5_bib15", "first-page": "1", "article-title": "Basal ray-finned fishes (Osteichthyes; Actinopterygii) from the Middle Triassic of Monte San Giorgio (Canton Tessin, Switzerland)", "volume": "114", "author": "Bürgin", "year": "1992", "journal-title": "Schweiz Palaont Abh" }, { "key": "10.1007/S11434-016-1189-5_bib16", "doi-asserted-by": "crossref", "first-page": "741", "DOI": "10.1111/1475-4983.00095", "article-title": "Sexual dimorphism in a new species of the actinopterygian Peltopleurus from the Triassic of northern Italy", "volume": "42", "author": "Lombardo", "year": "1999", "journal-title": "Palaeontology" }, { "key": "10.1007/S11434-016-1189-5_bib17", "first-page": "1", "article-title": "Preliminary examination of fish fossils from Upper Triassic Wayao Member of Falang Formation in Guanling of Guizhou", "volume": "45", "author": "Liu", "year": "2006", "journal-title": "Acta Palaeont Sin" }, { "key": "10.1007/S11434-016-1189-5_bib18", "doi-asserted-by": "crossref", "DOI": "10.1098/rsbl.2013.0267", "article-title": "Sexual conflict and the function of genitalic claws in guppies (Poecilia reticulata)", "volume": "9", "author": "Kwan", "year": "2013", "journal-title": "Biol Lett" }, { "key": "10.1007/S11434-016-1189-5_bib19", "first-page": "143", "article-title": "Further notes on palaeoniscoid fishes with a classification of the Chondrostei", "volume": "14", "author": "Gardiner", "year": "1967", "journal-title": "Bull Brit Mus (Nat Hist) Geol" }, { "key": "10.1007/S11434-016-1189-5_bib20", "doi-asserted-by": "crossref", "first-page": "79", "DOI": "10.1127/0077-7749/2011/0186", "article-title": "A new species of Habroichthys Brough, 1939 (Actinopterygii; Peltopleuriformes) from the Pelsonian (Anisian, Middle Triassic) of Yunnan Province, South China", "volume": "262", "author": "Lin", "year": "2011", "journal-title": "Neues Jahrb Geol Palaont Abh" }, { "key": "10.1007/S11434-016-1189-5_bib21", "doi-asserted-by": "crossref", "first-page": "265", "DOI": "10.1080/02724634.1992.10011459", "article-title": "Thoracopterus Bronn (Osteichthyes: Actinopterygii): a gliding fish from the Upper Triassic of Europe", "volume": "12", "author": "Tintori", "year": "1992", "journal-title": "J Vert Paleont" }, { "key": "10.1007/S11434-016-1189-5_bib22", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1111/j.1096-3642.1977.tb00834.x", "article-title": "The Upper Triassic fishes from Polzberg bei Lunz, Austria", "volume": "60", "author": "Griffith", "year": "1977", "journal-title": "Zool J Linn Soc" }, { "key": "10.1007/S11434-016-1189-5_bib23", "article-title": "A new stem-neopterygian fish from the Middle Triassic of China shows the earliest overwater gliding strategy of the vertebrates", "volume": "280", "author": "Xu", "year": "2012", "journal-title": "Proc R Soc B" }, { "key": "10.1007/S11434-016-1189-5_bib24", "doi-asserted-by": "crossref", "DOI": "10.1098/rsbl.2014.0960", "article-title": "A Middle Triassic thoracopterid from China highlights the evolutionary origin of overwater gliding in early ray-finned fishes", "volume": "11", "author": "Xu", "year": "2015", "journal-title": "Biol Lett" }, { "key": "10.1007/S11434-016-1189-5_bib25", "doi-asserted-by": "crossref", "first-page": "338", "DOI": "10.1007/s11434-016-1007-0", "article-title": "A Middle Triassic stem-neopterygian fish from China shows remarkable secondary sexual characteristics", "volume": "61", "author": "Xu", "year": "2016", "journal-title": "Sci Bull" }, { "key": "10.1007/S11434-016-1189-5_bib26", "doi-asserted-by": "crossref", "first-page": "1673", "DOI": "10.1007/s11430-009-0114-z", "article-title": "A conodont-based Middle Triassic age assignment for the Luoping Biota of Yunnan, China", "volume": "52", "author": "Zhang", "year": "2008", "journal-title": "Sci China Ser D Earth Sci" }, { "key": "10.1007/S11434-016-1189-5_bib27", "doi-asserted-by": "crossref", "first-page": "2274", "DOI": "10.1098/rspb.2010.2235", "article-title": "The Luoping biota: exceptional preservation, and new evidence on the Triassic recovery from end-Permian mass extinction", "volume": "278", "author": "Hu", "year": "2011", "journal-title": "Proc R Soc B" }, { "key": "10.1007/S11434-016-1189-5_bib28", "first-page": "189", "article-title": "The cranial anatomy of Polypterus, with special reference to Polypterus bichir", "volume": "56", "author": "Allis", "year": "1922", "journal-title": "J Anat" }, { "key": "10.1007/S11434-016-1189-5_bib29", "doi-asserted-by": "crossref", "first-page": "794", "DOI": "10.1671/0272-4634(2004)024[0794:ANGOTA]2.0.CO;2", "article-title": "A new genus of Triassic actinopterygian with an evaluation of deepened flank scales in fusiform fossil fishes", "volume": "24", "author": "Mutter", "year": "2004", "journal-title": "J Vert Paleont" }, { "key": "10.1007/S11434-016-1189-5_bib30", "doi-asserted-by": "crossref", "DOI": "10.1080/02724634.2014.909819", "article-title": "A new species of Altisolepis (Peltopleuriformes, Actinopterygii) from the Middle Triassic of Southern China", "volume": "35", "author": "Sun", "year": "2015", "journal-title": "J Vert Paleont" }, { "key": "10.1007/S11434-016-1189-5_bib31", "series-title": "PAUP*. Phylogenetic analysis using parsimony (*and other methods), version 4", "author": "Swofford", "year": "2002" }, { "key": "10.1007/S11434-016-1189-5_bib32", "doi-asserted-by": "crossref", "first-page": "389", "DOI": "10.1111/j.1095-8649.1987.tb05764.x", "article-title": "The cyprinodontiform gonopodium, with an atlas of the gonopodia of the fishes of the genus Limia", "volume": "30", "author": "Chambers", "year": "1987", "journal-title": "J Fish Biol" } ], "container-title": [ "Science Bulletin" ], "original-title": [], "language": "en", "link": [ { "URL": "http://link.springer.com/article/10.1007/s11434-016-1189-5/fulltext.html", "content-type": "text/html", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "http://link.springer.com/content/pdf/10.1007/s11434-016-1189-5.pdf", "content-type": "application/pdf", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "https://api.elsevier.com/content/article/PII:S2095927316305849?httpAccept=text/xml", "content-type": "text/xml", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "https://api.elsevier.com/content/article/PII:S2095927316305849?httpAccept=text/plain", "content-type": "text/plain", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "http://link.springer.com/content/pdf/10.1007/s11434-016-1189-5.pdf", "content-type": "application/pdf", "content-version": "vor", "intended-application": "similarity-checking" } ], "deposited": { "date-parts": [ [ 2021, 11, 5 ] ], "date-time": "2021-11-05T18:58:54Z", "timestamp": 1636138734000 }, "score": 1, "resource": { "primary": { "URL": "https://linkinghub.elsevier.com/retrieve/pii/S2095927316305849" } }, "subtitle": [], "short-title": [], "issued": { "date-parts": [ [ 2016, 11 ] ] }, "references-count": 32, "journal-issue": { "issue": "22", "published-print": { "date-parts": [ [ 2016, 11 ] ] } }, "alternative-id": [ "S2095927316305849" ], "URL": "https://doi.org/10.1007/s11434-016-1189-5", "relation": {}, "ISSN": [ "2095-9273" ], "issn-type": [ { "value": "2095-9273", "type": "print" } ], "subject": [], "published": { "date-parts": [ [ 2016, 11 ] ] } } }, { "species": "光泽肋鳞鱼", "key": "pelt_related", "doi": "10.19615/j.cnki.1000-3118.171225", "title": "A large peltopleurid fish (Actinopterygii: Peltopleuriformes) from the Middle Triassic of Yunnan and Guizhou, China", "journal": "Vertebrata PalAsiatica", "year": 2018, "scope": "Related species P. tyrannos; comparison only", "selection": "Specialist comparative paper", "summary_en": "Describes a larger relative, P. tyrannos, and compares peltopleurid morphology and feeding diversity. This is supplementary context, not another description of P. nitidus.", "summary_zh": "描述较大型近亲霸王肋鳞鱼，比较形态及摄食多样性；为近缘比较资料，不是光泽肋鳞鱼的另一份原始描述。", "url": "https://doi.org/10.19615/j.cnki.1000-3118.171225", "access": "PDF saved", "local_file": "光泽肋鳞鱼/Literature/10.19615_j.cnki.1000-3118.171225.pdf", "pages": 15 }, { "species": "双翼鱼", "key": "dipterus", "doi": "10.1002/spp2.1016", "title": "The cranial endocast of the Middle Devonian dipnoan Dipterus valenciennesi and a fossilized dipnoan otoconial mass", "journal": "Papers in Palaeontology", "year": 2015, "scope": "Direct genus representative D. valenciennesi", "selection": "Direct specialist anatomical paper", "summary_en": "Micro-CT reveals a mixture of ancestral and derived endocranial features, including a preserved otoconial mass. Comparisons suggest changes in sensory function and activity through lungfish evolution.", "summary_zh": "显微CT揭示其颅内结构兼有祖征和衍征，并报道耳石团保存；比较结果用于讨论肺鱼感觉功能和活动方式的演化。", "url": "https://onlinelibrary.wiley.com/doi/abs/10.1002/spp2.1016", "access": "Verified citation and summary; full PDF not obtained", "local_file": null }, { "species": "双翼鱼", "key": "lungbrain", "doi": "10.7554/eLife.73461", "title": "Morphometric analysis of lungfish endocasts elucidates early dipnoan palaeoneurological evolution", "journal": "eLife", "year": 2022, "scope": "Comparative dataset includes Dipterus", "selection": "Major comparative research", "summary_en": "Compares 12 lungfish endocasts using 17 measurements. Different sensory regions vary independently, showing that endocranial evolution was uneven rather than a single uniform change.", "summary_zh": "采用17项测量比较12个肺鱼内模，不同感觉相关区域表现出不同变化模式，显示颅内形态并非同步均一演化。", "url": "https://elifesciences.org/articles/73461", "access": "PDF saved", "local_file": "双翼鱼/Literature/10.7554_eLife.73461.pdf", "pages": 30, "bibliographic_metadata": { "indexed": { "date-parts": [ [ 2026, 9, 7 ] ], "date-time": "2026-09-07T18:16:43Z", "timestamp": 1788805003643, "version": "build-2803163510" }, "reference-count": 73, "publisher": "eLife Sciences Publications, Ltd", "license": [ { "start": { "date-parts": [ [ 2022, 7, 12 ] ], "date-time": "2022-07-12T00:00:00Z", "timestamp": 1657584000000 }, "content-version": "vor", "delay-in-days": 0, "URL": "http://creativecommons.org/licenses/by/4.0/" }, { "start": { "date-parts": [ [ 2022, 7, 12 ] ], "date-time": "2022-07-12T00:00:00Z", "timestamp": 1657584000000 }, "content-version": "am", "delay-in-days": 0, "URL": "http://creativecommons.org/licenses/by/4.0/" }, { "start": { "date-parts": [ [ 2022, 7, 12 ] ], "date-time": "2022-07-12T00:00:00Z", "timestamp": 1657584000000 }, "content-version": "tdm", "delay-in-days": 0, "URL": "http://creativecommons.org/licenses/by/4.0/" } ], "funder": [ { "DOI": "10.13039/501100000923", "name": "Australian Research Council", "doi-asserted-by": "publisher", "award": [ "DP160102460" ], "award-info": [ { "award-number": [ "DP160102460" ] } ], "id": [ { "id": "10.13039/501100000923", "id-type": "DOI", "asserted-by": "publisher" } ] }, { "DOI": "10.13039/501100000923", "name": "Australian Research Council", "doi-asserted-by": "publisher", "award": [ "DP200103398" ], "award-info": [ { "award-number": [ "DP200103398" ] } ], "id": [ { "id": "10.13039/501100000923", "id-type": "DOI", "asserted-by": "publisher" } ] }, { "DOI": "10.13039/501100001785", "name": "Flinders University", "doi-asserted-by": "publisher", "award": [ "Impact Seed Funding" ], "award-info": [ { "award-number": [ "Impact Seed Funding" ] } ], "id": [ { "id": "10.13039/501100001785", "id-type": "DOI", "asserted-by": "publisher" } ] }, { "DOI": "10.13039/501100001785", "name": "Flinders University", "doi-asserted-by": "publisher", "award": [ "Visiting International Research Fellowship" ], "award-info": [ { "award-number": [ "Visiting International Research Fellowship" ] } ], "id": [ { "id": "10.13039/501100001785", "id-type": "DOI", "asserted-by": "publisher" } ] }, { "DOI": "10.13039/501100004063", "name": "Knut och Alice Wallenbergs Stiftelse", "doi-asserted-by": "publisher", "id": [ { "id": "10.13039/501100004063", "id-type": "DOI", "asserted-by": "publisher" } ] }, { "DOI": "10.13039/501100000038", "name": "Natural Sciences and Engineering Research Council of Canada", "doi-asserted-by": "publisher", "id": [ { "id": "10.13039/501100000038", "id-type": "DOI", "asserted-by": "publisher" } ] }, { "name": "Callidus Services Ltd UK" } ], "content-domain": { "domain": [ "elifesciences.org" ], "crossmark-restriction": false }, "short-container-title": [], "accepted": { "date-parts": [ [ 2022, 6, 22 ] ] }, "abstract": "The lobe-finned fish, lungfish (Dipnoi, Sarcoptergii), have persisted for ~400 million years from the Devonian Period to present day. The evolution of their dermal skull and dentition is relatively well understood, but this is not the case for the central nervous system. While the brain has poor preservation potential and is not currently known in any fossil lungfish, substantial indirect information about it and associated structures (e.g. labyrinths) can be obtained from the cranial endocast. However, before the recent development of X-ray tomography as a palaeontological tool, these endocasts could not be studied non-destructively, and few detailed studies were undertaken. Here, we describe and illustrate the endocasts of six Palaeozoic lungfish from tomographic scans. We combine these with six previously described digital lungfish endocasts (4 fossil and 2 recent taxa) into a 12-taxon dataset for multivariate morphometric analysis using 17 variables. We find that the olfactory region is more highly plastic than the hindbrain, and undergoes significant elongation in several taxa. Further, while the semicircular canals covary as an integrated module, the utriculus and sacculus vary independently of each other. Functional interpretation suggests that olfaction has remained a dominant sense throughout lungfish evolution, and changes in the labyrinth may potentially reflect a change from nektonic to near-shore environmental niches. Phylogenetic implications show that endocranial form fails to support monophyly of the ‘chirodipterids’. Those with elongated crania similarly fail to form a distinct clade, suggesting these two paraphyletic groups have converged towards either head elongation or truncation driven by non-phylogenetic constraints.", "DOI": "10.7554/elife.73461", "type": "journal-article", "created": { "date-parts": [ [ 2022, 6, 23 ] ], "date-time": "2022-06-23T05:15:39Z", "timestamp": 1655961339000 }, "update-policy": "https://doi.org/10.7554/elife.73461", "source": "Crossref", "is-referenced-by-count": 12, "title": [ "Morphometric analysis of lungfish endocasts elucidates early dipnoan palaeoneurological evolution" ], "prefix": "10.7554", "volume": "11", "author": [ { "ORCID": "https://orcid.org/0000-0003-0380-7347", "authenticated-orcid": true, "given": "Alice M", "family": "Clement", "sequence": "first", "affiliation": [ { "id": [ { "id": "https://ror.org/01kpzv902", "id-type": "ROR", "asserted-by": "publisher" } ], "name": "College of Science and Engineering, Flinders University", "place": [ "Adelaide, Australia" ] } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "given": "Tom J", "family": "Challands", "sequence": "additional", "affiliation": [ { "id": [ { "id": "https://ror.org/01nrxwf90", "id-type": "ROR", "asserted-by": "publisher" } ], "name": "School of Geosciences, University of Edinburgh", "place": [ "Edinburgh, United Kingdom" ] } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "given": "Richard", "family": "Cloutier", "sequence": "additional", "affiliation": [ { "id": [ { "id": "https://ror.org/049jtt335", "id-type": "ROR", "asserted-by": "publisher" } ], "name": "Département de Biologie, Chimie et Géographie, Université du Québec à Rimouski", "place": [ "Rimouski, Canada" ] } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "given": "Laurent", "family": "Houle", "sequence": "additional", "affiliation": [ { "id": [ { "id": "https://ror.org/049jtt335", "id-type": "ROR", "asserted-by": "publisher" } ], "name": "Département de Biologie, Chimie et Géographie, Université du Québec à Rimouski", "place": [ "Rimouski, Canada" ] } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0001-9054-2900", "authenticated-orcid": true, "given": "Per E", "family": "Ahlberg", "sequence": "additional", "affiliation": [ { "id": [ { "id": "https://ror.org/048a87296", "id-type": "ROR", "asserted-by": "publisher" } ], "name": "Subdepartment of Evolution and Development, Department of Organismal Biology, Uppsala University", "place": [ "Uppsala, Sweden" ] } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "given": "Shaun P", "family": "Collin", "sequence": "additional", "affiliation": [ { "id": [ { "id": "https://ror.org/01rxfrp27", "id-type": "ROR", "asserted-by": "publisher" } ], "name": "School of Life Sciences, La Trobe University", "place": [ "Melbourne, Australia" ] } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0001-8012-0114", "authenticated-orcid": true, "given": "John A", "family": "Long", "sequence": "additional", "affiliation": [ { "id": [ { "id": "https://ror.org/01kpzv902", "id-type": "ROR", "asserted-by": "publisher" } ], "name": "College of Science and Engineering, Flinders University", "place": [ "Adelaide, Australia" ] } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] } ], "member": "4374", "published-online": { "date-parts": [ [ 2022, 7, 12 ] ] }, "reference": [ { "key": "bib1", "doi-asserted-by": "publisher", "first-page": "241", "DOI": "10.1111/j.1096-3642.1991.tb00905.x", "article-title": "A re-examination of sarcopterygian interrelationships, with special reference to the Porolepiformes", "volume": "103", "author": "Ahlberg", "year": "1991", "journal-title": "Zoological Journal of the Linnean Society" }, { "key": "bib2", "doi-asserted-by": "publisher", "first-page": "1", "DOI": "10.1127/pala/239/1996/1", "article-title": "A Late Devonian Dipnoan, Pillararhynchus, from Gogo, Western Australia, and its relationships", "volume": "239", "author": "Barwick", "year": "1996", "journal-title": "Palaeontographica Abteilung A" }, { "key": "bib3", "volume-title": "Paedomorphic Trait Related to Neurocranial Ossification in Two Devonian Lungfishes (Givetian Pentlandia Macroptera and Frasnian Scaumenacia Curta", "author": "Boirot", "year": "2021" }, { "key": "bib4", "doi-asserted-by": "publisher", "first-page": "2520", "DOI": "10.1016/j.cub.2021.03.086", "article-title": "Deep evolutionary diversification of semicircular canals in archosaurs", "volume": "31", "author": "Bronzati", "year": "2021", "journal-title": "Current Biology" }, { "key": "bib5", "doi-asserted-by": "publisher", "DOI": "10.1007/978-4-431-56582-6", "volume-title": "Digital Endocasts: From Skulls to Brains", "author": "Bruner", "year": "2018" }, { "key": "bib6", "doi-asserted-by": "publisher", "first-page": "286", "DOI": "10.1080/02724634.1982.10011936", "article-title": "The neurocranium of the primitive dipnoan Dipnorhynchus sussmilchi (Etheridge", "volume": "2", "author": "Campbell", "year": "1982", "journal-title": "Journal of Vertebrate Paleontology" }, { "key": "bib7", "doi-asserted-by": "publisher", "first-page": "93", "DOI": "10.1002/jmor.1051900409", "article-title": "Paleozoic lungfishes?a review", "volume": "190", "author": "Campbell", "year": "1986", "journal-title": "Journal of Morphology" }, { "key": "bib8", "doi-asserted-by": "publisher", "first-page": "103", "DOI": "10.3853/j.0067-1975.52.2000.1309", "article-title": "The braincase, mandible and dental structures of the Early Devonian lungfish Dipnorhynchus kurikae from Wee Jasper, New South Wales", "volume": "52", "author": "Campbell", "year": "2000", "journal-title": "Records of the Australian Museum" }, { "key": "bib9", "doi-asserted-by": "publisher", "first-page": "289", "DOI": "10.1002/spp2.1016", "article-title": "The cranial endocast of the Middle Devonian dipnoan Dipterus valenciennesi and a fossilized dipnoan otoconial mass", "volume": "1", "author": "Challands", "year": "2015", "journal-title": "Papers in Palaeontology" }, { "key": "bib10", "doi-asserted-by": "publisher", "first-page": "1825", "DOI": "10.1080/14772019.2019.1572234", "article-title": "A lungfish survivor of the end-Devonian extinction and an Early Carboniferous dipnoan radiation", "volume": "17", "author": "Challands", "year": "2019", "journal-title": "Journal of Systematic Palaeontology" }, { "key": "bib11", "doi-asserted-by": "publisher", "DOI": "10.1098/rsos.200933", "article-title": "Mandibular musculature constrains brain-endocast disparity between sarcopterygians", "volume": "7", "author": "Challands", "year": "2020", "journal-title": "Royal Society Open Science" }, { "key": "bib12", "volume-title": "The braincase of Youngolepis, a Lower Devonian crossopterygian from Yunnan, south-western China PhD", "author": "Chang", "year": "1982" }, { "key": "bib13", "doi-asserted-by": "publisher", "first-page": "51", "DOI": "10.1111/j.1475-4983.2011.01118.x", "article-title": "A new species of long-snouted lungfish from the Late Devonian of Australia, and its functional and biogeographical implications", "volume": "55", "author": "Clement", "year": "2012", "journal-title": "Palaeontology" }, { "key": "bib14", "doi-asserted-by": "publisher", "DOI": "10.1371/journal.pone.0113898", "article-title": "The first virtual cranial endocast of a lungfish (sarcopterygii: dipnoi", "volume": "9", "author": "Clement", "year": "2014", "journal-title": "PLOS ONE" }, { "key": "bib15", "doi-asserted-by": "publisher", "DOI": "10.1371/journal.pone.0141277", "article-title": "Brain - Endocast Relationship in the Australian Lungfish, Neoceratodus forsteri, Elucidated from Tomographic Data (Sarcopterygii: Dipnoi", "volume": "10", "author": "Clement", "year": "2015", "journal-title": "PLOS ONE" }, { "key": "bib16", "doi-asserted-by": "publisher", "DOI": "10.7717/peerj.2539", "article-title": "The cranial endocast of Dipnorhynchus sussmilchi (Sarcopterygii: Dipnoi) and the interrelationships of stem-group lungfishes", "volume": "4", "author": "Clement", "year": "2016", "journal-title": "PeerJ" }, { "key": "bib17", "doi-asserted-by": "publisher", "DOI": "10.1098/rsos.160307", "article-title": "A new method for reconstructing brain morphology: applying the brain-neurocranial spatial relationship in an extant lungfish to A fossil endocast", "volume": "3", "author": "Clement", "year": "2016", "journal-title": "Royal Society Open Science" }, { "key": "bib18", "doi-asserted-by": "publisher", "DOI": "10.7554/eLife.34349", "article-title": "Neurocranial anatomy of an enigmatic Early Devonian fish sheds light on early osteichthyan evolution", "volume": "7", "author": "Clement", "year": "2018", "journal-title": "eLife" }, { "key": "bib19", "doi-asserted-by": "publisher", "DOI": "10.3389/fevo.2021.640345", "article-title": "Brain Reconstruction Across the Fish-Tetrapod Transition; Insights From Modern Amphibians", "volume": "9", "author": "Clement", "year": "2021", "journal-title": "Frontiers in Ecology and Evolution" }, { "key": "bib20", "first-page": "61", "article-title": "Morphologie et variations du toit crânien du Dipneuste Scaumenacia curta (Whiteaves) (Sarcopterygii), du Dévonien supérieur du Québec", "volume": "19", "author": "Cloutier", "year": "1997", "journal-title": "Geodiversitas" }, { "key": "bib21", "doi-asserted-by": "publisher", "first-page": "121", "DOI": "10.1016/S1546-5098(07)26003-0", "volume-title": "Primitive Fishes, Fish Physiology", "author": "Collin", "year": "2007" }, { "key": "bib22", "doi-asserted-by": "publisher", "first-page": "801", "DOI": "10.1111/zoj.12255", "article-title": "The comparative osteology and phylogenetic relationships of African and South American lungfishes (Sarcopterygii: Dipnoi", "volume": "174", "author": "Criswell", "year": "2015", "journal-title": "Zoological Journal of the Linnean Society" }, { "key": "bib23", "doi-asserted-by": "publisher", "DOI": "10.1038/s41467-022-30091-3", "article-title": "The rapid evolution of lungfish durophagy", "volume": "13", "author": "Cui", "year": "2022", "journal-title": "Nature Communications" }, { "key": "bib24", "doi-asserted-by": "publisher", "first-page": "556", "DOI": "10.1038/s41586-019-1117-3", "article-title": "Neurocranial development of the coelacanth and the evolution of the sarcopterygian head", "volume": "569", "author": "Dutel", "year": "2019", "journal-title": "Nature" }, { "key": "bib25", "doi-asserted-by": "publisher", "first-page": "121", "DOI": "10.1002/ajmg.a.30539", "article-title": "Über Nothosaurus, Ein Steinkern der Schädelhöhle", "volume": "3", "author": "Edinger", "year": "1921", "journal-title": "Senckenbergiana" }, { "key": "bib26", "doi-asserted-by": "publisher", "first-page": "223", "DOI": "10.1017/S0080456800004737", "article-title": "VII.—The Middle Devonian Fish Fauna of Achanarras", "volume": "59", "author": "Forster-Cooper", "year": "1937", "journal-title": "Transactions of the Royal Society of Edinburgh" }, { "key": "bib27", "doi-asserted-by": "publisher", "first-page": "115", "DOI": "10.1111/j.1096-3642.2007.00320.x", "article-title": "The interrelationships of Devonian lungfishes (Sarcopterygii: Dipnoi) as inferred from neurocranial evidence and new data from the genus Soederberghia Lehman, 1959", "volume": "151", "author": "Friedman", "year": "2007", "journal-title": "Zoological Journal of the Linnean Society" }, { "key": "bib28", "doi-asserted-by": "publisher", "DOI": "10.7717/peerj.8073", "article-title": "A high latitude Devonian lungfish, from the Famennian of South Africa", "volume": "7", "author": "Gess", "year": "2019", "journal-title": "PeerJ" }, { "key": "bib29", "first-page": "1", "article-title": "Die Agnathen und Fische des rheinischen Devons", "volume": "154", "author": "Gross", "year": "1933", "journal-title": "Abhandlungen Der Preussischen Geologischen Landesanstalt" }, { "key": "bib30", "doi-asserted-by": "publisher", "DOI": "10.7717/peerj.5148", "article-title": "The cranial endocast of the Upper Devonian dipnoan “Chirodipterus” australis", "volume": "6", "author": "Henderson", "year": "2018", "journal-title": "PeerJ" }, { "key": "bib31", "doi-asserted-by": "publisher", "DOI": "10.1111/j.1096-3642.1876.tb02541.x", "article-title": "On Ceratodus forsteri, with observations on the classification of Fishes", "volume": "2", "author": "Huxley", "year": "1876", "journal-title": "Philosophical Transactions" }, { "key": "bib32", "doi-asserted-by": "publisher", "first-page": "91", "DOI": "10.1111/j.1463-6409.1974.tb00807.x", "article-title": "The Sensory Line System and Its Innervation in the Osteostraci (Agnatha, Cephalaspidomorphi", "volume": "3", "author": "Janvier", "year": "1974", "journal-title": "Zoologica Scripta" }, { "key": "bib33", "first-page": "235", "article-title": "On the structure of the snout of Crossopterygians and Lower Gnathostomes in general", "volume": "21", "author": "Jarvik", "year": "1942", "journal-title": "Zoologiska Bidrag Från Uppsala" }, { "key": "bib34", "doi-asserted-by": "publisher", "first-page": "1", "DOI": "10.5194/fr-3-99-2000", "article-title": "Middle and Upper Devonian Porolepiformes from East Greenland with Special Reference to Glyptolepis groenlandica", "volume": "187", "author": "Jarvik", "year": "1972", "journal-title": "Meddelelser Om Gronland" }, { "key": "bib35", "volume-title": "Evolution of the Brain and Intelligence", "author": "Jerison", "year": "1973" }, { "key": "bib36", "doi-asserted-by": "publisher", "first-page": "665", "DOI": "10.1671/0272-4634(2000)020[0665:CPANDL]2.0.CO;2", "article-title": "Chirodipterus potteri, a new Devonian lungfish from New South Wales, Australia: and the ontogeny of chirodipterid tooth plates", "volume": "20", "author": "Kemp", "year": "2000", "journal-title": "Journal of Vertebrate Paleontology" }, { "key": "bib37", "doi-asserted-by": "publisher", "first-page": "781", "DOI": "10.1002/ar.22892", "article-title": "Eye size and visual acuity influence vestibular anatomy in mammals", "volume": "297", "author": "Kemp", "year": "2014", "journal-title": "Anatomical Record (Hoboken, N.J" }, { "key": "bib38", "doi-asserted-by": "publisher", "first-page": "1", "DOI": "10.3389/fevo.2016.00028", "article-title": "Diversity in Fish Auditory Systems: One of the Riddles of Sensory Biology", "volume": "4", "author": "Ladich", "year": "2016", "journal-title": "Frontiers in Ecology and Evolution" }, { "key": "bib39", "doi-asserted-by": "publisher", "DOI": "10.1371/journal.pone.0017879", "article-title": "Inside out: modern imaging techniques to reveal animal anatomy", "volume": "6", "author": "Lauridsen", "year": "2011", "journal-title": "PLOS ONE" }, { "key": "bib40", "doi-asserted-by": "publisher", "first-page": "11", "DOI": "10.5962/p.263113", "article-title": "Gogodipterus paddyensis (Miles), gen nov, a new chirodipterid lungfish from the late Devonian Gogo formation, Western Australia", "volume": "9", "author": "Long", "year": "1992", "journal-title": "The Beagle" }, { "key": "bib41", "doi-asserted-by": "publisher", "first-page": "17914", "DOI": "10.1073/pnas.1206139109", "article-title": "Locomotor head movements and semicircular canal morphology in primates", "volume": "109", "author": "Malinzak", "year": "2012", "journal-title": "PNAS" }, { "key": "bib42", "doi-asserted-by": "publisher", "first-page": "151", "DOI": "10.1002/jmor.1051900411", "article-title": "Lungfish: Phylogeny and parsimony", "volume": "190", "author": "Marshall", "year": "1986", "journal-title": "Journal of Morphology" }, { "key": "bib43", "doi-asserted-by": "publisher", "first-page": "1", "DOI": "10.1111/j.1096-3642.1977.tb01031.x", "article-title": "Dipnoan (lungfish) skulls and the relationships of the group: a study based on new species from the Devonian of Australia", "volume": "61", "author": "Miles", "year": "1977", "journal-title": "Zoological Journal of the Linnean Society" }, { "key": "bib44", "doi-asserted-by": "publisher", "first-page": "654", "DOI": "10.1127/njgpm/1991/1991/654", "article-title": "An unusual large lungfish tooth plate (Dipnoi, Chirodipteridae) from the Middle Devonian of the Rhenish Massif (Bergisches Land, Germany", "volume": "1991", "author": "Mörs", "year": "1991", "journal-title": "Neues Jahrbuch Für Geologie Und Paläontologie - Monatshefte" }, { "key": "bib45", "doi-asserted-by": "publisher", "DOI": "10.1007/978-3-642-18262-4", "volume-title": "The Central Nervous System of Vertebrates", "author": "Nieuwenhuys", "year": "1998" }, { "key": "bib46", "doi-asserted-by": "publisher", "first-page": "277", "DOI": "10.1002/jmor.1051900418", "article-title": "Lungfish neural characters and their bearing on sarcopterygian phylogeny", "volume": "190", "author": "Northcutt", "year": "1986", "journal-title": "Journal of Morphology" }, { "key": "bib47", 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The study associates climatic change with shifts in evolutionary rates and body size; it is relevant background for the broad label.", "summary_zh": "结合二叠纪—三叠纪气候与爬行动物演化资料，讨论气候变化同演化速率及体型变化的联系；适合作为类群背景。", "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC9390993/", "access": "Open-access full text saved as XML; publisher PDF download unavailable", "local_file": "早期爬行动物/Literature/10.1126_sciadv.abq1898_fulltext.xml", "bibliographic_metadata": { "indexed": { "date-parts": [ [ 2026, 11, 1 ] ], "date-time": "2026-11-01T03:59:18Z", "timestamp": 1793505558799, "version": "4.5.0" }, "reference-count": 99, "publisher": "American Association for the Advancement of Science (AAAS)", "issue": "33", "content-domain": { "domain": [], "crossmark-restriction": false }, "short-container-title": [ "Sci. 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Eldredge S. J. Gould Punctuated equilibria: An alternative to phyletic gradualism in Models in Paleobiology T. Schopf Ed. (Freeman Cooper and Company 1972) pp. 82–115.", "DOI": "10.5531/sd.paleo.7" }, { "key": "e_1_3_2_53_2", "doi-asserted-by": "publisher", "DOI": "10.1111/j.1558-5646.1976.tb00911.x" }, { "key": "e_1_3_2_54_2", "doi-asserted-by": "publisher", "DOI": "10.1017/S0094837300003092" }, { "key": "e_1_3_2_55_2", "doi-asserted-by": "publisher", "DOI": "10.1111/bij.12649" }, { "key": "e_1_3_2_56_2", "first-page": "20212521", "article-title": "The pre-eminent role of directional selection in generating extreme morphological change in glyptodonts (Cingulata; Xenarthra)", "volume": "289", "author": "Machado F. A.", "year": "2022", "unstructured": "F. A. Machado, G. Marroig, A. Hubbe, The pre-eminent role of directional selection in generating extreme morphological change in glyptodonts (Cingulata; Xenarthra). Proc. R. Soc. Lond. Ser. B Biol. 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EcoEvoRxiv (2022); https://doi.org/10.32942/osf.io/3mkf9.", "DOI": "10.32942/OSF.IO/3MKF9" }, { "key": "e_1_3_2_60_2", "doi-asserted-by": "crossref", "unstructured": "H. D. Sues The Rise of Reptiles: 320 Million Years of Evolution (John Hopkins Univ. 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Maryanska, A microvertebrate assemblage from the Early Triassic of Poland. Acta Palaeontol. Pol. 44, 167–188 (1999).", "journal-title": "Acta Palaeontol. Pol." }, { "key": "e_1_3_2_69_2", "unstructured": "E. Mayr Change of genetic environment and evolution in Evolution as a Process J. Huxley Ed. (Allen & Unwin 1954) pp. 157–180." }, { "key": "e_1_3_2_70_2", "doi-asserted-by": "publisher", "DOI": "10.1111/cla.12163" }, { "key": "e_1_3_2_71_2", "doi-asserted-by": "publisher", "DOI": "10.7717/peerj.4553" }, { "key": "e_1_3_2_72_2", "doi-asserted-by": "publisher", "DOI": "10.1146/annurev.earth.33.092203.122707" }, { "key": "e_1_3_2_73_2", "doi-asserted-by": "publisher", "DOI": "10.1371/journal.pone.0126946" }, { "key": "e_1_3_2_74_2", "doi-asserted-by": "publisher", "DOI": "10.1093/sysbio/syq085" }, { "key": "e_1_3_2_75_2", "doi-asserted-by": "publisher", "DOI": "10.1093/sysbio/sys029" }, { "key": "e_1_3_2_76_2", "doi-asserted-by": "publisher", "DOI": "10.1080/01621459.1995.10476572" }, { "key": "e_1_3_2_77_2", "first-page": "321", "article-title": "Carboniferous stem-reptiles of the family Romeriidae", "volume": "143", "author": "Carroll R. L.", "year": "1972", "unstructured": "R. L. Carroll, D. Baird, Carboniferous stem-reptiles of the family Romeriidae. Bull. Mus. Comp. 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Electron." }, { "key": "e_1_3_2_80_2", "doi-asserted-by": "publisher", "DOI": "10.1038/s41559-017-0240-5" }, { "key": "e_1_3_2_81_2", "doi-asserted-by": "publisher", "DOI": "10.1093/molbev/msz067" }, { "key": "e_1_3_2_82_2", "doi-asserted-by": "publisher", "DOI": "10.1093/sysbio/sys058" }, { "key": "e_1_3_2_83_2", "first-page": "20190685", "article-title": "Ignoring stratigraphic age uncertainty leads to erroneous estimates of species divergence times under the fossilized birth-death process", "volume": "286", "author": "Barido-Sottani J.", "year": "2019", "unstructured": "J. Barido-Sottani, G. Aguirre-Fernández, M. J. Hopkins, T. Stadler, R. Warnock, Ignoring stratigraphic age uncertainty leads to erroneous estimates of species divergence times under the fossilized birth-death process. Proc. R. Soc. Lond. Ser. B Biol. Sci. 286, 20190685 (2019).", "journal-title": "Proc. R. Soc. Lond. Ser. B Biol. Sci." }, { "key": "e_1_3_2_84_2", "doi-asserted-by": "publisher", "DOI": "10.1093/sysbio/syv080" }, { "key": "e_1_3_2_85_2", "doi-asserted-by": "publisher", "DOI": "10.1371/journal.pcbi.1003919" }, { "key": "e_1_3_2_86_2", "unstructured": "A. Rambaut M. A. Suchard D. Xie A. J. Drummond Tracer v1.7 (2018); http://beast.bio.ed.ac.uk/Tracer." }, { "key": "e_1_3_2_87_2", "doi-asserted-by": "crossref", "unstructured": "P. D. Gingerich Rates of Evolution: A Quantitative Synthesis (Cambridge Univ. Press 2019).", "DOI": "10.1017/9781316711644" }, { "key": "e_1_3_2_88_2", "doi-asserted-by": "publisher", "DOI": "10.1146/annurev-ecolsys-011921-023644" }, { "key": "e_1_3_2_89_2", "unstructured": "M. A. Miller W. Pfeiffer T. Schwartz in Proceedings of the Gateway Computing Environments Workshop (GCE) (IEEE 2010) pp. 1–8." }, { "key": "e_1_3_2_90_2", "doi-asserted-by": "crossref", "unstructured": "Z. Yang Molecular Evolution: A Statistical Approach (Oxford Univ. Press 2014).", "DOI": "10.1093/acprof:oso/9780199602605.001.0001" }, { "key": "e_1_3_2_91_2", "doi-asserted-by": "crossref", "unstructured": "T. R. Simões M. W. Caldwell in Encyclopedia of Geology D. Alderton S. A. Elias Eds. (Academic Press ed. 2 2021) vol. 3 pp. 165–174.", "DOI": "10.1016/B978-0-12-409548-9.11844-5" }, { "key": "e_1_3_2_92_2", "doi-asserted-by": "publisher", "DOI": "10.3099/0027-4100-163.2.47" }, { "key": "e_1_3_2_93_2", "doi-asserted-by": "publisher", "DOI": "10.1038/s41586-021-03834-3" }, { "key": "e_1_3_2_94_2", "doi-asserted-by": "publisher", "DOI": "10.1098/rstb.1998.0224" }, { "key": "e_1_3_2_95_2", "doi-asserted-by": "publisher", "DOI": "10.3099/0006-9698-518.1.1" }, { "key": "e_1_3_2_96_2", "first-page": "165", "article-title": "The problematic Permian reptile Eunotosaurus", "volume": "18", "author": "Cox C. B.", "year": "1969", "unstructured": "C. B. Cox, The problematic Permian reptile Eunotosaurus. Bull. Br. Mus. Geol. 18, 165–196 (1969).", "journal-title": "Bull. Br. Mus. Geol." }, { "key": "e_1_3_2_97_2", "first-page": "55", "article-title": "A note on the postcranial skeleton of Milleretta (Amniota: Parareptilia)", "volume": "34", "author": "Gow C. E.", "year": "1997", "unstructured": "C. E. Gow, A note on the postcranial skeleton of Milleretta (Amniota: Parareptilia). Palaeontol. Afr. 34, 55–57 (1997).", "journal-title": "Palaeontol. Afr." }, { "key": "e_1_3_2_98_2", "doi-asserted-by": "publisher", "DOI": "10.1016/j.cub.2013.05.003" }, { "key": "e_1_3_2_99_2", "doi-asserted-by": "publisher", "DOI": "10.1111/jeb.12268" }, { "key": "e_1_3_2_100_2", "doi-asserted-by": "publisher", "DOI": "10.1111/j.1469-7998.1972.tb01731.x" } ], "container-title": [ "Science Advances" ], "original-title": [], "language": "en", "link": [ { "URL": "https://www.science.org/doi/pdf/10.1126/sciadv.abq1898", "content-type": "unspecified", "content-version": "vor", "intended-application": "similarity-checking" } ], "deposited": { "date-parts": [ [ 2024, 1, 9 ] ], "date-time": "2024-01-09T22:40:24Z", "timestamp": 1704840024000 }, "score": 1, "resource": { "primary": { "URL": "https://www.science.org/doi/10.1126/sciadv.abq1898" } }, "subtitle": [], "short-title": [], "issued": { "date-parts": [ [ 2022, 8, 19 ] ] }, "references-count": 99, "journal-issue": { "issue": "33", "published-print": { "date-parts": [ [ 2022, 8, 19 ] ] } }, "alternative-id": [ "10.1126/sciadv.abq1898" ], "URL": "https://doi.org/10.1126/sciadv.abq1898", "relation": {}, "ISSN": [ "2375-2548" ], "issn-type": [ { "value": "2375-2548", "type": "electronic" } ], "subject": [], "published": { "date-parts": [ [ 2022, 8, 19 ] ] }, "article-number": "eabq1898" } }, { "species": "早期爬行动物", "key": "tracks", "doi": "10.1038/s41586-025-08884-5", "title": "Earliest amniote tracks recalibrate the timeline of tetrapod evolution", "journal": "Nature", "year": 2025, "scope": "Early Carboniferous amniote origin; temporal context beyond the Permian exhibit", "selection": "Flagship journal; contextual rather than exact-specimen study", "summary_en": "Reports clawed tracks interpreted as early crown amniotes, potentially extending their record by 35–40 million years. Trackmaker identity is an inference; this does not identify the exhibit animal.", "summary_zh": "报道被解释为早期冠群羊膜动物的具爪足迹，可能将记录前推3500万至4000万年。造迹者身份属推断，不能用于鉴定展品。", "url": "https://www.nature.com/articles/s41586-025-08884-5", "access": "PDF saved", "local_file": "早期爬行动物/Literature/10.1038_s41586-025-08884-5.pdf", "pages": 12, "bibliographic_metadata": { "indexed": { "date-parts": [ [ 2026, 10, 27 ] ], "date-time": "2026-10-27T19:23:53Z", "timestamp": 1793129033081, "version": "4.5.0" }, "reference-count": 57, "publisher": "Springer Science and Business Media LLC", "issue": "8065", "license": [ { "start": { "date-parts": [ [ 2025, 5, 14 ] ], "date-time": "2025-05-14T00:00:00Z", "timestamp": 1747180800000 }, "content-version": "tdm", "delay-in-days": 0, "URL": "https://creativecommons.org/licenses/by/4.0" }, { "start": { "date-parts": [ [ 2025, 5, 14 ] ], "date-time": "2025-05-14T00:00:00Z", "timestamp": 1747180800000 }, "content-version": "vor", "delay-in-days": 0, "URL": "https://creativecommons.org/licenses/by/4.0" } ], "content-domain": { "domain": [ "link.springer.com" ], "crossmark-restriction": false }, "short-container-title": [ "Nature" ], "published-print": { "date-parts": [ [ 2025, 5, 29 ] ] }, "abstract": "Abstract\n The known fossil record of crown-group amniotes begins in the late Carboniferous with the sauropsid trackmaker Notalacerta\n 1,2 and the sauropsid body fossil Hylonomus\n 1–4. The earliest body fossils of crown-group tetrapods are mid-Carboniferous, and the oldest trackways are early Carboniferous5–7. This suggests that the tetrapod crown group originated in the earliest Carboniferous (early Tournaisian), with the amniote crown group appearing in the early part of the late Carboniferous. Here we present new trackway data from Australia that challenge this widely accepted timeline. A track-bearing slab from the Snowy Plains Formation of Victoria, Taungurung Country, securely dated to the early Tournaisian8,9, shows footprints from a crown-group amniote with clawed feet, most probably a primitive sauropsid. This pushes back the likely origin of crown-group amniotes by at least 35–40 million years. We also extend the range of Notalacerta into the early Carboniferous. The Australian tracks indicate that the amniote crown-group node cannot be much younger than the Devonian/Carboniferous boundary, and that the tetrapod crown-group node must be located deep within the Devonian; an estimate based on molecular-tree branch lengths suggests an approximate age of early Frasnian for the latter. The implications for the early evolution of tetrapods are profound; all stem-tetrapod and stem-amniote lineages must have originated during the Devonian. It seems that tetrapod evolution proceeded much faster, and the Devonian tetrapod record is much less complete, than has been thought.", "DOI": "10.1038/s41586-025-08884-5", "type": "journal-article", "created": { "date-parts": [ [ 2025, 5, 14 ] ], "date-time": "2025-05-14T15:02:48Z", "timestamp": 1747234968000 }, "page": "1193-1200", "update-policy": "https://doi.org/10.1007/springer_crossmark_policy", "source": "Crossref", "is-referenced-by-count": 15, "title": [ "Earliest amniote tracks recalibrate the timeline of tetrapod evolution" ], "prefix": "10.1038", "volume": "641", "author": [ { "ORCID": "https://orcid.org/0000-0001-8012-0114", "authenticated-orcid": false, "given": "John A.", "family": "Long", "sequence": "first", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0002-4775-5254", "authenticated-orcid": false, "given": "Grzegorz", "family": "Niedźwiedzki", "sequence": "additional", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0002-3344-9782", "authenticated-orcid": false, "given": "Jillian", "family": "Garvey", "sequence": "additional", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0003-0380-7347", "authenticated-orcid": false, "given": "Alice M.", "family": "Clement", "sequence": "additional", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0003-0464-0665", "authenticated-orcid": false, "given": "Aaron B.", "family": "Camens", "sequence": "additional", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "given": "Craig A.", "family": "Eury", "sequence": "additional", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "given": "John", "family": "Eason", "sequence": "additional", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0001-9054-2900", "authenticated-orcid": false, "given": "Per E.", "family": "Ahlberg", "sequence": "additional", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] } ], "member": "297", "published-online": { "date-parts": [ [ 2025, 5, 14 ] ] }, "reference": [ { "key": "8884_CR1", "first-page": "271", "volume": "90", "author": "L Marchetti", "year": "2020", "unstructured": "Marchetti, L. et al. Footprints of the earliest reptiles: Notalacerta missouriensis – ichnotaxonomy, potential trackmakers, biostratigraphy, palaeobiogeography and palaeoecology. Ann. Soc. Geol. Pol. 90, 271–290 (2020).", "journal-title": "Ann. Soc. Geol. Pol." }, { "key": "8884_CR2", "doi-asserted-by": "publisher", "first-page": "696511", "DOI": "10.3389/fevo.2021.696511", "volume": "9", "author": "L Marchetti", "year": "2021", "unstructured": "Marchetti, L. et al. Tracking the origin and early evolution of reptiles. Front. Ecol. Evol. 9, 696511 (2021).", "journal-title": "Front. Ecol. Evol." }, { "key": "8884_CR3", "doi-asserted-by": "publisher", "first-page": "61", "DOI": "10.1111/j.1096-3642.1964.tb00488.x", "volume": "45", "author": "RL Carroll", "year": "1964", "unstructured": "Carroll, R. L. The earliest reptiles. Zool. J. Linn. Soc. 45, 61–83 (1964).", "journal-title": "Zool. J. Linn. 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"award-info": [ { "award-number": [ "NSF IOS-1755330" ] } ], "id": [ { "id": "10.13039/100000154", "id-type": "DOI", "asserted-by": "publisher" } ] } ], "content-domain": { "domain": [ "link.springer.com" ], "crossmark-restriction": false }, "short-container-title": [ "Nat Genet" ], "published-print": { "date-parts": [ [ 2021, 9 ] ] }, "abstract": "Abstract\n \n The bowfin (\n Amia calva\n ) is a ray-finned fish that possesses a unique suite of ancestral and derived phenotypes, which are key to understanding vertebrate evolution. The phylogenetic position of bowfin as a representative of neopterygian fishes, its archetypical body plan and its unduplicated and slowly evolving genome make bowfin a central species for the genomic exploration of ray-finned fishes. Here we present a chromosome-level genome assembly for bowfin that enables gene-order analyses, settling long-debated neopterygian phylogenetic relationships. We examine chromatin accessibility and gene expression through bowfin development to investigate the evolution of immune, scale, respiratory and fin skeletal systems and identify hundreds of gene-regulatory loci conserved across vertebrates. These resources connect developmental evolution among bony fishes, further highlighting the bowfin’s importance for illuminating vertebrate biology and diversity in the genomic era.\n ", "DOI": "10.1038/s41588-021-00914-y", "type": "journal-article", "created": { "date-parts": [ [ 2021, 8, 30 ] ], "date-time": "2021-08-30T12:03:07Z", "timestamp": 1630324987000 }, "page": "1373-1384", "update-policy": "https://doi.org/10.1007/springer_crossmark_policy", "source": "Crossref", "is-referenced-by-count": 83, "title": [ "The bowfin genome illuminates the developmental evolution of ray-finned fishes" ], "prefix": "10.1038", "volume": "53", "author": [ { "given": "Andrew W.", "family": "Thompson", "sequence": "first", "affiliation": [], "role": [ { "vocabulary": "crossref", "role": "author" } ] }, { "ORCID": "https://orcid.org/0000-0002-5164-2893", "authenticated-orcid": false, "given": "M. 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African coelacanth genome provides insights into tetrapod evolution", "volume": "496", "author": "Amemiya", "year": "2013", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib3", "doi-asserted-by": "crossref", "first-page": "3629", "DOI": "10.1172/JCI60429", "article-title": "SLC26A9-mediated chloride secretion prevents mucus obstruction in airway inflammation", "volume": "122", "author": "Anagnostopoulou", "year": "2012", "journal-title": "J. Clin. Invest." }, { "key": "10.1016/j.cell.2021.01.046_bib4", "doi-asserted-by": "crossref", "first-page": "691", "DOI": "10.1111/pala.12167", "article-title": "Upper Ordovician chondrichthyan-like scales from North America", "volume": "58", "author": "Andreev", "year": "2015", "journal-title": "Palaeontology" }, { "key": "10.1016/j.cell.2021.01.046_bib5", "doi-asserted-by": "crossref", "first-page": "37", "DOI": "10.1093/nar/29.1.37", "article-title": "The InterPro database, an integrated documentation resource for protein families, domains and functional sites", "volume": "29", "author": "Apweiler", "year": "2001", "journal-title": "Nucleic Acids Res." }, { "key": "10.1016/j.cell.2021.01.046_bib6", "doi-asserted-by": "crossref", "first-page": "e1002866", "DOI": "10.1371/journal.pgen.1002866", "article-title": "Multiple roles and interactions of Tbx4 and Tbx5 in development of the respiratory system", "volume": "8", "author": "Arora", "year": "2012", "journal-title": "PLoS Genet." }, { "key": "10.1016/j.cell.2021.01.046_bib7", "doi-asserted-by": "crossref", "first-page": "e16415", "DOI": "10.7554/eLife.16415", "article-title": "Ancient origin of lubricated joints in bony vertebrates", "volume": "5", "author": "Askary", "year": "2016", "journal-title": "eLife" }, { "key": "10.1016/j.cell.2021.01.046_bib8", "doi-asserted-by": "crossref", "first-page": "988", "DOI": "10.1101/gr.1865504", "article-title": "GeneWise and Genomewise", "volume": "14", "author": "Birney", "year": "2004", "journal-title": "Genome Res." }, { "key": "10.1016/j.cell.2021.01.046_bib9", "doi-asserted-by": "crossref", "first-page": "427", "DOI": "10.1038/ng.3526", "article-title": "The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons", "volume": "48", "author": "Braasch", "year": "2016", "journal-title": "Nat. Genet." }, { "key": "10.1016/j.cell.2021.01.046_bib10", "doi-asserted-by": "crossref", "first-page": "298", "DOI": "10.1038/nature10144", "article-title": "Molecular mechanisms and clinical applications of angiogenesis", "volume": "473", "author": "Carmeliet", "year": "2011", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib11", "series-title": "Fins into Limbs: Evolution, Development, and Transformation", "first-page": "185", "article-title": "Evolution of the appendicular skeleton of amphibians", "author": "Carroll", "year": "2007" }, { "key": "10.1016/j.cell.2021.01.046_bib12", "doi-asserted-by": "crossref", "first-page": "e1000234", "DOI": "10.1371/journal.pcbi.1000234", "article-title": "A methodological framework for the reconstruction of contiguous regions of ancestral genomes and its application to mammalian genomes", "volume": "4", "author": "Chauve", "year": "2008", "journal-title": "PLoS Comput Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib13", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1093/gigascience/gix120", "article-title": "SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data", "volume": "7", "author": "Chen", "year": "2018", "journal-title": "Gigascience" }, { "key": "10.1016/j.cell.2021.01.046_bib14", "doi-asserted-by": "crossref", "first-page": "163", "DOI": "10.1146/annurev.earth.36.031207.124146", "article-title": "The fin to limb transition: new data, interpretations, and hypotheses from paleontology and developmental biology", "volume": "37", "author": "Clack", "year": "2009", "journal-title": "Annual Review of Earth and Planetary Sciences" }, { "key": "10.1016/j.cell.2021.01.046_bib15", "doi-asserted-by": "crossref", "first-page": "208", "DOI": "10.1038/nature20806", "article-title": "A symmoriiform chondrichthyan braincase and the origin of chimaeroid fishes", "volume": "541", "author": "Coates", "year": "2017", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib16", "doi-asserted-by": "crossref", "first-page": "424", "DOI": "10.1666/06-130.1", "article-title": "A redescription of a rare chordate, metaspriggina walcotti Simonetta and Insom, from the Burgess shale (middle Cambrian), British Columbia, Canada", "volume": "82", "author": "Morris", "year": "2008", "journal-title": "Journal of Paleontology" }, { "key": "10.1016/j.cell.2021.01.046_bib17", "series-title": "Descriptions of New Extinct Vertebrata from the Upper Tertiary and Dakota Formations.", "author": "Cope", "year": "1878" }, { "key": "10.1016/j.cell.2021.01.046_bib18", "doi-asserted-by": "crossref", "first-page": "3838", "DOI": "10.1073/pnas.1006619109", "article-title": "Full regeneration of the tribasal Polypterus fin", "volume": "109", "author": "Cuervo", "year": "2012", "journal-title": "Proc. Natl. Acad. Sci. USA" }, { "key": "10.1016/j.cell.2021.01.046_bib19", "series-title": "On the Origin of Species.", "author": "Darwin", "year": "1859" }, { "key": "10.1016/j.cell.2021.01.046_bib20", "doi-asserted-by": "crossref", "first-page": "608", "DOI": "10.1002/jmor.10264", "article-title": "Pectoral fin and girdle development in the basal actinopterygians Polyodon spathula and Acipenser transmontanus", "volume": "262", "author": "Davis", "year": "2004", "journal-title": "J. Morphol." }, { "key": "10.1016/j.cell.2021.01.046_bib21", "first-page": "553", "article-title": "The soft anatomy of Bothriolepis", "volume": "15", "author": "Denison", "year": "1941", "journal-title": "Journal of Paleontology" }, { "key": "10.1016/j.cell.2021.01.046_bib22", "doi-asserted-by": "crossref", "first-page": "841", "DOI": "10.1038/s41559-020-1166-x", "article-title": "The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization", "volume": "4", "author": "Du", "year": "2020", "journal-title": "Nat. Ecol. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib23", "doi-asserted-by": "crossref", "first-page": "92", "DOI": "10.1126/science.aal3327", "article-title": "De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds", "volume": "356", "author": "Dudchenko", "year": "2017", "journal-title": "Science" }, { "key": "10.1016/j.cell.2021.01.046_bib24", "doi-asserted-by": "crossref", "first-page": "500", "DOI": "10.1038/nature12980", "article-title": "A primitive placoderm sheds light on the origin of the jawed vertebrate face", "volume": "507", "author": "Dupret", "year": "2014", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib25", "doi-asserted-by": "crossref", "first-page": "113", "DOI": "10.1186/1471-2105-5-113", "article-title": "MUSCLE: a multiple sequence alignment method with reduced time and space complexity", "volume": "5", "author": "Edgar", "year": "2004", "journal-title": "BMC Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib26", "doi-asserted-by": "crossref", "first-page": "4687", "DOI": "10.2741/3033", "article-title": "Genome evolution and speciation genetics of clawed frogs (Xenopus and Silurana)", "volume": "13", "author": "Evans", "year": "2008", "journal-title": "Front. Biosci." }, { "key": "10.1016/j.cell.2021.01.046_bib27", "doi-asserted-by": "crossref", "first-page": "573", "DOI": "10.1146/annurev.physiol.61.1.573", "article-title": "Evolution of the vertebrate cardio-pulmonary system", "volume": "61", "author": "Farmer", "year": "1999", "journal-title": "Annu. Rev. Physiol." }, { "key": "10.1016/j.cell.2021.01.046_bib28", "doi-asserted-by": "crossref", "first-page": "W273-9", "DOI": "10.1093/nar/gkh458", "article-title": "VISTA: computational tools for comparative genomics", "volume": "32", "author": "Frazer", "year": "2004", "journal-title": "Nucleic Acids Res." }, { "key": "10.1016/j.cell.2021.01.046_bib29", "doi-asserted-by": "crossref", "first-page": "213", "DOI": "10.1111/pala.12150", "article-title": "The early evolution of ray-finned fishes", "volume": "58", "author": "Friedman", "year": "2015", "journal-title": "Palaeontology" }, { "key": "10.1016/j.cell.2021.01.046_bib30", "doi-asserted-by": "crossref", "first-page": "83", "DOI": "10.1016/j.ydbio.2011.01.018", "article-title": "The zinc finger transcription factors Osr1 and Osr2 control synovial joint formation", "volume": "352", "author": "Gao", "year": "2011", "journal-title": "Dev. Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib31", "doi-asserted-by": "crossref", "first-page": "511", "DOI": "10.1111/j.1096-3642.2005.00181.x", "article-title": "A review of the lower actinopterygian phylogeny", "volume": "144", "author": "Gardiner", "year": "2005", "journal-title": "Zoological Journal of the Linnean Society" }, { "key": "10.1016/j.cell.2021.01.046_bib32", "doi-asserted-by": "crossref", "first-page": "297", "DOI": "10.1007/s00427-017-0589-0", "article-title": "The flexible stem hypothesis: evidence from genetic data", "volume": "227", "author": "Gibert", "year": "2017", "journal-title": "Dev. Genes Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib33", "doi-asserted-by": "crossref", "first-page": "849", "DOI": "10.1111/pala.12182", "article-title": "Endoskeletal structure in Cheirolepis (Osteichthyes, Actinopterygii), An early ray-finned fish", "volume": "58", "author": "Giles", "year": "2015", "journal-title": "Palaeontology" }, { "key": "10.1016/j.cell.2021.01.046_bib34", "doi-asserted-by": "crossref", "first-page": "265", "DOI": "10.1038/nature23654", "article-title": "Early members of ‘living fossil’ lineage imply later origin of modern ray-finned fishes", "volume": "549", "author": "Giles", "year": "2017", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib35", "doi-asserted-by": "crossref", "first-page": "1045", "DOI": "10.1007/s00438-014-0889-2", "article-title": "Whole-genome duplication in teleost fishes and its evolutionary consequences", "volume": "289", "author": "Glasauer", "year": "2014", "journal-title": "Mol. Genet. Genomics" }, { "key": "10.1016/j.cell.2021.01.046_bib36", "first-page": "725", "article-title": "A codon-based model of nucleotide substitution for protein-coding DNA sequences", "volume": "11", "author": "Goldman", "year": "1994", "journal-title": "Mol. Biol. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib37", "doi-asserted-by": "crossref", "first-page": "323", "DOI": "10.1016/j.crpv.2011.03.008", "article-title": "“Lungs” in Placoderms, a persistent palaeobiological myth related to environmental preconceived interpretations", "volume": "10", "author": "Goujet", "year": "2011", "journal-title": "Comptes Rendus Palevol" }, { "key": "10.1016/j.cell.2021.01.046_bib38", "doi-asserted-by": "crossref", "first-page": "3022", "DOI": "10.1038/ncomms4022", "article-title": "Spiracular air breathing in polypterid fishes and its implications for aerial respiration in stem tetrapods", "volume": "5", "author": "Graham", "year": "2014", "journal-title": "Nat. Commun." }, { "key": "10.1016/j.cell.2021.01.046_bib39", "doi-asserted-by": "crossref", "first-page": "209", "DOI": "10.1671/0272-4634(2002)022[0209:PLAWPP]2.0.CO;2", "article-title": "Protopsephurus liui, a well-preserved primitive paddlefish (Acipenseriformes: Polyodontidae) from the Lower Cretaceous of China", "volume": "22", "author": "Grande", "year": "2002", "journal-title": "Journal of Vertebrate Paleontology" }, { "key": "10.1016/j.cell.2021.01.046_bib40", "doi-asserted-by": "crossref", "first-page": "dev176198", "DOI": "10.1242/dev.176198", "article-title": "The lncRNA Hand2os1/Uph locus orchestrates heart development through regulation of precise expression of Hand2", "volume": "146", "author": "Han", "year": "2019", "journal-title": "Development" }, { "key": "10.1016/j.cell.2021.01.046_bib41", "doi-asserted-by": "crossref", "first-page": "1761", "DOI": "10.1038/s41559-018-0673-5", "article-title": "Shark genomes provide insights into elasmobranch evolution and the origin of vertebrates", "volume": "2", "author": "Hara", "year": "2018", "journal-title": "Nat. Ecol. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib42", "first-page": "2009", "article-title": "Lmx1b-targeted cis-regulatory modules involved in limb dorsalization", "volume": "144", "author": "Haro", "year": "2017", "journal-title": "Development" }, { "key": "10.1016/j.cell.2021.01.046_bib43", "series-title": "Improved pairwise Alignment of genomic DNA. PhD thesis (Pennsylvania State University)", "author": "Harris", "year": "2007" }, { "key": "10.1016/j.cell.2021.01.046_bib44", "series-title": "Fish Physiology", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1016/bs.fp.2017.09.001", "article-title": "The O2 and CO2 Transport System in Teleosts and the Specialized Mechanisms That Enhance Hb–O2 Unloading to Tissues", "author": "Harter", "year": "2017" }, { "key": "10.1016/j.cell.2021.01.046_bib45", "first-page": "163", "article-title": "Evolutionary developmental biology of the tetrapod limb", "volume": "1994", "author": "Hinchliffe", "year": "1994", "journal-title": "Dev. Suppl." }, { "key": "10.1016/j.cell.2021.01.046_bib46", "doi-asserted-by": "crossref", "first-page": "4759", "DOI": "10.1158/1078-0432.CCR-07-0001", "article-title": "Targeting neuropilin 1 as an antitumor strategy in lung cancer", "volume": "13", "author": "Hong", "year": "2007", "journal-title": "Clin. Cancer Res." }, { "key": "10.1016/j.cell.2021.01.046_bib47", "doi-asserted-by": "crossref", "first-page": "986", "DOI": "10.1016/j.ympev.2006.06.009", "article-title": "A phylogenetic and biogeographic perspective on the evolution of poeciliid fishes", "volume": "43", "author": "Hrbek", "year": "2007", "journal-title": "Molecular Phylogenetics and Evolution" }, { "key": "10.1016/j.cell.2021.01.046_bib48", "first-page": "489", "article-title": "A new time-scale for ray-finned fish evolution", "volume": "274", "author": "Hurley", "year": "2007", "journal-title": "Proc. Biol. Sci." }, { "key": "10.1016/j.cell.2021.01.046_bib49", "doi-asserted-by": "crossref", "first-page": "900", "DOI": "10.1002/ar.a.20361", "article-title": "Conus arteriosus of the teleost heart: dismissed, but not missed", "volume": "288", "author": "Icardo", "year": "2006", "journal-title": "Anat. Rec. A Discov. Mol. Cell. Evol. Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib50", "doi-asserted-by": "crossref", "first-page": "17", "DOI": "10.1002/ar.10080", "article-title": "Structure of the conus arteriosus of the sturgeon (Acipenser naccarii) heart. I: the conus valves and the subendocardium", "volume": "267", "author": "Icardo", "year": "2002", "journal-title": "Anat. Rec." }, { "key": "10.1016/j.cell.2021.01.046_bib51", "doi-asserted-by": "crossref", "first-page": "388", "DOI": "10.1002/ar.10170", "article-title": "The structure of the conus arteriosus of the sturgeon (Acipenser naccarii) heart: II. The myocardium, the subepicardium, and the conus-aorta transition", "volume": "268", "author": "Icardo", "year": "2002", "journal-title": "Anat. Rec." }, { "key": "10.1016/j.cell.2021.01.046_bib52", "doi-asserted-by": "crossref", "first-page": "110", "DOI": "10.1016/S1055-7903(02)00331-7", "article-title": "Basal actinopterygian relationships: a mitogenomic perspective on the phylogeny of the “ancient fish”", "volume": "26", "author": "Inoue", "year": "2003", "journal-title": "Mol. Phylogenet. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib53", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.5047/absm.2012.00501.0001", "article-title": "Evolution of the cardiorespiratory system in air-breathing fishes", "volume": "5", "author": "Ishimatsu", "year": "2012", "journal-title": "Aqua-BioScience Monographs" }, { "key": "10.1016/j.cell.2021.01.046_bib54", "doi-asserted-by": "crossref", "first-page": "1239", "DOI": "10.1038/ng.3906", "article-title": "The methyltransferase SETDB1 regulates a large neuron-specific topological chromatin domain", "volume": "49", "author": "Jiang", "year": "2017", "journal-title": "Nat. Genet." }, { "key": "10.1016/j.cell.2021.01.046_bib55", "doi-asserted-by": "crossref", "first-page": "299", "DOI": "10.1038/bjc.2013.281", "article-title": "Functional and cancer genomics of ASXL family members", "volume": "109", "author": "Katoh", "year": "2013", "journal-title": "Br. J. Cancer" }, { "key": "10.1016/j.cell.2021.01.046_bib56", "doi-asserted-by": "crossref", "first-page": "3", "DOI": "10.1186/1741-7007-2-3", "article-title": "Basal jawed vertebrate phylogeny inferred from multiple nuclear DNA-coded genes", "volume": "2", "author": "Kikugawa", "year": "2004", "journal-title": "BMC Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib57", "doi-asserted-by": "crossref", "first-page": "545", "DOI": "10.1101/gr.6086307", "article-title": "Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates", "volume": "17", "author": "Kikuta", "year": "2007", "journal-title": "Genome Res." }, { "key": "10.1016/j.cell.2021.01.046_bib58", "doi-asserted-by": "crossref", "first-page": "357", "DOI": "10.1038/nmeth.3317", "article-title": "HISAT: a fast spliced aligner with low memory requirements", "volume": "12", "author": "Kim", "year": "2015", "journal-title": "Nat. Methods" }, { "key": "10.1016/j.cell.2021.01.046_bib59", "doi-asserted-by": "crossref", "first-page": "59", "DOI": "10.1186/1471-2105-5-59", "article-title": "Gene finding in novel genomes", "volume": "5", "author": "Korf", "year": "2004", "journal-title": "BMC Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib60", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1186/s40851-017-0083-6", "article-title": "Evolution of the vertebrate neurocranium: problems of the premandibular domain and the origin of the trabecula", "volume": "4", "author": "Kuratani", "year": "2018", "journal-title": "Zoological Lett." }, { "key": "10.1016/j.cell.2021.01.046_bib61", "doi-asserted-by": "crossref", "first-page": "2253", "DOI": "10.1007/s00227-010-1492-7", "article-title": "Mitochondrial genomic divergence in coelacanths (Latimeria): slow rate of evolution or recent speciation?", "volume": "157", "author": "Lalu", "year": "2010", "journal-title": "Mar. Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib62", "doi-asserted-by": "crossref", "first-page": "2178", "DOI": "10.1101/gr.1224503", "article-title": "OrthoMCL: identification of ortholog groups for eukaryotic genomes", "volume": "13", "author": "Li", "year": "2003", "journal-title": "Genome Res." }, { "key": "10.1016/j.cell.2021.01.046_bib63", "doi-asserted-by": "crossref", "first-page": "402", "DOI": "10.1006/meth.2001.1262", "article-title": "Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method", "volume": "25", "author": "Livak", "year": "2001", "journal-title": "Methods" }, { "key": "10.1016/j.cell.2021.01.046_bib64", "doi-asserted-by": "crossref", "first-page": "700", "DOI": "10.1086/425183", "article-title": "The greatest step in vertebrate history: a paleobiological review of the fish-tetrapod transition", "volume": "77", "author": "Long", "year": "2004", "journal-title": "Physiol. Biochem. Zool." }, { "key": "10.1016/j.cell.2021.01.046_bib128", "doi-asserted-by": "crossref", "first-page": "687", "DOI": "10.1002/jmor.20128", "article-title": "Homology of lungs and gas bladders: insights from arterial vasculature", "volume": "274", "author": "Longo", "year": "2013", "journal-title": "Journal of Morphology" }, { "key": "10.1016/j.cell.2021.01.046_bib65", "doi-asserted-by": "crossref", "first-page": "1604", "DOI": "10.1111/brv.12411", "article-title": "The anatomical components of the cardiac outflow tract of chondrichthyans and actinopterygians", "volume": "93", "author": "Lorenzale", "year": "2018", "journal-title": "Biol. Rev. Camb. Philos. Soc." }, { "key": "10.1016/j.cell.2021.01.046_bib66", "doi-asserted-by": "crossref", "first-page": "18", "DOI": "10.1186/2047-217X-1-18", "article-title": "SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler", "volume": "1", "author": "Luo", "year": "2012", "journal-title": "Gigascience" }, { "key": "10.1016/j.cell.2021.01.046_bib67", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1206/0003-0090(2005)288<0001:BOTUDS>2.0.CO;2", "article-title": "Braincase of the Upper Devonian shark Cladodoides wildungensis (Chondrichthyes, Elasmobranchii), with observations on the braincase in early chondrichthyans", "volume": "2005", "author": "Maisey", "year": "2005", "journal-title": "Bulletin of the American Museum of Natural History" }, { "key": "10.1016/j.cell.2021.01.046_bib68", "doi-asserted-by": "crossref", "first-page": "2878", "DOI": "10.1093/bioinformatics/bth315", "article-title": "TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders", "volume": "20", "author": "Majoros", "year": "2004", "journal-title": "Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib69", "doi-asserted-by": "crossref", "first-page": "e14698", "DOI": "10.7554/eLife.14698", "article-title": "Heart fossilization is possible and informs the evolution of cardiac outflow tract in vertebrates", "volume": "5", "author": "Maldanis", "year": "2016", "journal-title": "eLife" }, { "key": "10.1016/j.cell.2021.01.046_bib70", "doi-asserted-by": "crossref", "first-page": "1192", "DOI": "10.1093/molbev/msq003", "article-title": "Degeneration of olfactory receptor gene repertories in primates: no direct link to full trichromatic vision", "volume": "27", "author": "Matsui", "year": "2010", "journal-title": "Mol. Biol. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib71", "doi-asserted-by": "crossref", "first-page": "743", "DOI": "10.1161/CIRCRESAHA.108.172858", "article-title": "Tbx3 is required for outflow tract development", "volume": "103", "author": "Mesbah", "year": "2008", "journal-title": "Circ. Res." }, { "key": "10.1016/j.cell.2021.01.046_bib72", "doi-asserted-by": "crossref", "first-page": "i541", "DOI": "10.1093/bioinformatics/btu462", "article-title": "ASTRAL: genome-scale coalescent-based species tree estimation", "volume": "30", "author": "Mirarab", "year": "2014", "journal-title": "Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib73", "doi-asserted-by": "crossref", "first-page": "1203", "DOI": "10.1002/ar.23392", "article-title": "The pectoral fin muscles of the coelacanth Latimeria chalumnae: Functional and evolutionary implications for the fin-to-limb transition and subsequent evolution of tetrapods", "volume": "299", "author": "Miyake", "year": "2016", "journal-title": "Anat. Rec. (Hoboken)" }, { "key": "10.1016/j.cell.2021.01.046_bib74", "first-page": "532", "article-title": "Musculoskeletal anatomy of the pelvic fin of Polypterus: implications for phylogenetic distribution and homology of pre- and postaxial pelvic appendicular muscles", "volume": "230", "author": "Molnar", "year": "2017", "journal-title": "J. Anat." }, { "key": "10.1016/j.cell.2021.01.046_bib75", "doi-asserted-by": "crossref", "first-page": "8", "DOI": "10.1016/j.devcel.2009.12.010", "article-title": "Preparing for the first breath: genetic and cellular mechanisms in lung development", "volume": "18", "author": "Morrisey", "year": "2010", "journal-title": "Dev. Cell" }, { "key": "10.1016/j.cell.2021.01.046_bib76", "doi-asserted-by": "crossref", "first-page": "116", "DOI": "10.1186/1471-2148-11-116", "article-title": "Adaptive phenotypic plasticity in the Midas cichlid fish pharyngeal jaw and its relevance in adaptive radiation", "volume": "11", "author": "Muschick", "year": "2011", "journal-title": "BMC Evol. Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib77", "doi-asserted-by": "crossref", "first-page": "82", "DOI": "10.1038/35040549", "article-title": "Evolutionary origins of vertebrate appendicular muscle", "volume": "408", "author": "Neyt", "year": "2000", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib78", "doi-asserted-by": "crossref", "first-page": "34", "DOI": "10.1093/gbe/evp003", "article-title": "On the origin and evolution of vertebrate olfactory receptor genes: comparative genome analysis among 23 chordate species", "volume": "1", "author": "Niimura", "year": "2009", "journal-title": "Genome Biol. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib79", "doi-asserted-by": "crossref", "first-page": "1165", "DOI": "10.1093/genetics/144.3.1165", "article-title": "The complete mitochondrial DNA sequence of the bichir (Polypterus ornatipinnis), a basal ray-finned fish: ancient establishment of the consensus vertebrate gene order", "volume": "144", "author": "Noack", "year": "1996", "journal-title": "Genetics" }, { "key": "10.1016/j.cell.2021.01.046_bib80", "doi-asserted-by": "crossref", "first-page": "269", "DOI": "10.1080/02724634.1991.10011398", "article-title": "Morphology of the Semionotus elegans species group from the Early Jurassic part of the Newark Supergroup of Eastern North America with comments on the family Semionotidae (Neopterygii)", "volume": "11", "author": "Olsen", "year": "1991", "journal-title": "Journal of Vertebrate Paleontology" }, { "key": "10.1016/j.cell.2021.01.046_bib81", "doi-asserted-by": "crossref", "first-page": "125", "DOI": "10.1016/j.resp.2004.06.018", "article-title": "Reconstructing the evolution of the respiratory apparatus in tetrapods", "volume": "144", "author": "Perry", "year": "2004", "journal-title": "Respir. Physiol. Neurobiol." }, { "key": "10.1016/j.cell.2021.01.046_bib82", "doi-asserted-by": "crossref", "first-page": "37", "DOI": "10.1016/S1095-6433(01)00304-X", "article-title": "Which came first, the lung or the breath?", "volume": "129", "author": "Perry", "year": "2001", "journal-title": "Comp. Biochem. Physiol. A Mol. Integr. Physiol." }, { "key": "10.1016/j.cell.2021.01.046_bib83", "doi-asserted-by": "crossref", "first-page": "108", "DOI": "10.1038/nature15259", "article-title": "New genomic and fossil data illuminate the origin of enamel", "volume": "526", "author": "Qu", "year": "2015", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib84", "doi-asserted-by": "crossref", "first-page": "5771", "DOI": "10.1242/dev.126.24.5771", "article-title": "The basic-helix-loop-helix protein pod1 is critically important for kidney and lung organogenesis", "volume": "126", "author": "Quaggin", "year": "1999", "journal-title": "Development" }, { "key": "10.1016/j.cell.2021.01.046_bib85", "doi-asserted-by": "crossref", "first-page": "1958", "DOI": "10.1038/ncomms2958", "article-title": "Rates of speciation and morphological evolution are correlated across the largest vertebrate radiation", "volume": "4", "author": "Rabosky", "year": "2013", "journal-title": "Nat. Commun." }, { "key": "10.1016/j.cell.2021.01.046_bib86", "doi-asserted-by": "crossref", "first-page": "155", "DOI": "10.1038/s41592-019-0669-3", "article-title": "Fast and accurate long-read assembly with wtdbg2", "volume": "17", "author": "Ruan", "year": "2020", "journal-title": "Nat. Methods" }, { "key": "10.1016/j.cell.2021.01.046_bib87", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1186/s13059-018-1559-1", "article-title": "Chromosome evolution at the origin of the ancestral vertebrate genome", "volume": "19", "author": "Sacerdot", "year": "2018", "journal-title": "Genome Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib88", "doi-asserted-by": "crossref", "first-page": "14300", "DOI": "10.1038/ncomms14300", "article-title": "Evolution of Shh endoderm enhancers during morphological transition from ventral lungs to dorsal gas bladder", "volume": "8", "author": "Sagai", "year": "2017", "journal-title": "Nat. Commun." }, { "key": "10.1016/j.cell.2021.01.046_bib89", "doi-asserted-by": "crossref", "first-page": "950", "DOI": "10.1111/brv.12086", "article-title": "Major issues in the origins of ray-finned fish (Actinopterygii) biodiversity", "volume": "89", "author": "Sallan", "year": "2014", "journal-title": "Biol. Rev. Camb. Philos. Soc." }, { "key": "10.1016/j.cell.2021.01.046_bib90", "doi-asserted-by": "crossref", "first-page": "373", "DOI": "10.1242/jeb.46.2.373", "article-title": "The function of the conus arteriosus in the Port Jackson shark, Heterodontus portusjacksoni", "volume": "46", "author": "Satchell", "year": "1967", "journal-title": "J. Exp. Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib91", "doi-asserted-by": "crossref", "first-page": "259", "DOI": "10.1186/s13059-015-0831-x", "article-title": "HiC-Pro: an optimized and flexible pipeline for Hi-C data processing", "volume": "16", "author": "Servant", "year": "2015", "journal-title": "Genome Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib92", "doi-asserted-by": "crossref", "first-page": "42", "DOI": "10.1038/46965", "article-title": "Lower Cambrian vertebrates from south China", "volume": "402", "author": "Shu", "year": "1999", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib93", "doi-asserted-by": "crossref", "first-page": "526", "DOI": "10.1038/nature01264", "article-title": "Head and backbone of the Early Cambrian vertebrate Haikouichthys", "volume": "421", "author": "Shu", "year": "2003", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib94", "doi-asserted-by": "crossref", "first-page": "105", "DOI": "10.1007/978-1-62703-646-7_6", "article-title": "Clustal Omega, accurate alignment of very large numbers of sequences", "volume": "1079", "author": "Sievers", "year": "2014", "journal-title": "Methods Mol. Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib95", "doi-asserted-by": "crossref", "first-page": "353", "DOI": "10.1146/annurev-animal-022516-022801", "article-title": "Vomeronasal Receptors in Vertebrates and the Evolution of Pheromone Detection", "volume": "5", "author": "Silva", "year": "2017", "journal-title": "Annu. Rev. Anim. Biosci." }, { "key": "10.1016/j.cell.2021.01.046_bib96", "doi-asserted-by": "crossref", "first-page": "3210", "DOI": "10.1093/bioinformatics/btv351", "article-title": "BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs", "volume": "31", "author": "Simão", "year": "2015", "journal-title": "Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib97", "series-title": "Polyploidy and genome evolution", "volume": "Volume 665", "author": "Soltis", "year": "2012" }, { "key": "10.1016/j.cell.2021.01.046_bib98", "doi-asserted-by": "crossref", "first-page": "1312", "DOI": "10.1093/bioinformatics/btu033", "article-title": "RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies", "volume": "30", "author": "Stamatakis", "year": "2014", "journal-title": "Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib99", "doi-asserted-by": "crossref", "first-page": "637", "DOI": "10.1093/bioinformatics/btn013", "article-title": "Using native and syntenically mapped cDNA alignments to improve de novo gene finding", "volume": "24", "author": "Stanke", "year": "2008", "journal-title": "Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib100", "series-title": "The Downtonian and Devonian vertebrates of Spitsbergen: Family Cephalaspidae 1", "author": "Stensiö", "year": "1927" }, { "key": "10.1016/j.cell.2021.01.046_bib101", "doi-asserted-by": "crossref", "first-page": "W609-12", "DOI": "10.1093/nar/gkl315", "article-title": "PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments", "volume": "34", "author": "Suyama", "year": "2006", "journal-title": "Nucleic Acids Res." }, { "key": "10.1016/j.cell.2021.01.046_bib102", "doi-asserted-by": "crossref", "first-page": "pdb.emo117", "DOI": "10.1101/pdb.emo117", "article-title": "The genus Polypterus (bichirs): a fish group diverged at the stem of ray-finned fishes (Actinopterygii)", "volume": "2009", "author": "Takeuchi", "year": "2009", "journal-title": "Cold Spring Harb. Protoc." }, { "key": "10.1016/j.cell.2021.01.046_bib103", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1016/j.ydbio.2016.03.007", "article-title": "Fins into limbs: Autopod acquisition and anterior elements reduction by modifying gene networks involving 5’Hox, Gli3, and Shh", "volume": "413", "author": "Tanaka", "year": "2016", "journal-title": "Dev. Biol." }, { "key": "10.1016/j.cell.2021.01.046_bib104", "doi-asserted-by": "crossref", "first-page": "30580", "DOI": "10.1038/srep30580", "article-title": "Molecular developmental mechanism in polypterid fish provides insight into the origin of vertebrate lungs", "volume": "6", "author": "Tatsumi", "year": "2016", "journal-title": "Sci. Rep." }, { "key": "10.1016/j.cell.2021.01.046_bib105", "doi-asserted-by": "crossref", "first-page": "1105", "DOI": "10.1093/bioinformatics/btp120", "article-title": "TopHat: discovering splice junctions with RNA-Seq", "volume": "25", "author": "Trapnell", "year": "2009", "journal-title": "Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib106", "doi-asserted-by": "crossref", "first-page": "511", "DOI": "10.1038/nbt.1621", "article-title": "Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation", "volume": "28", "author": "Trapnell", "year": "2010", "journal-title": "Nat. Biotechnol." }, { "key": "10.1016/j.cell.2021.01.046_bib107", "doi-asserted-by": "crossref", "first-page": "863", "DOI": "10.1038/pr.2017.160", "article-title": "Recombinant CCN1 prevents hyperoxia-induced lung injury in neonatal rats", "volume": "82", "author": "Vaidya", "year": "2017", "journal-title": "Pediatr. Res." }, { "key": "10.1016/j.cell.2021.01.046_bib108", "doi-asserted-by": "crossref", "first-page": "737", "DOI": "10.1101/gr.214270.116", "article-title": "Fast and accurate de novo genome assembly from long uncorrected reads", "volume": "27", "author": "Vaser", "year": "2017", "journal-title": "Genome Res." }, { "key": "10.1016/j.cell.2021.01.046_bib109", "doi-asserted-by": "crossref", "first-page": "11382", "DOI": "10.1073/pnas.201415598", "article-title": "Molecular synapomorphies resolve evolutionary relationships of extant jawed vertebrates", "volume": "98", "author": "Venkatesh", "year": "2001", "journal-title": "Proc. Natl. Acad. Sci. USA" }, { "key": "10.1016/j.cell.2021.01.046_bib110", "doi-asserted-by": "crossref", "first-page": "280", "DOI": "10.1038/sj.hdy.6800635", "article-title": "Genome evolution and biodiversity in teleost fish", "volume": "94", "author": "Volff", "year": "2005", "journal-title": "Heredity" }, { "key": "10.1016/j.cell.2021.01.046_bib111", "doi-asserted-by": "crossref", "first-page": "226", "DOI": "10.1002/jez.1100", "article-title": "The tetrapod limb: a hypothesis on its origin", "volume": "291", "author": "Wagner", "year": "2001", "journal-title": "J. Exp. Zool." }, { "key": "10.1016/j.cell.2021.01.046_bib112", "doi-asserted-by": "crossref", "first-page": "e49", "DOI": "10.1093/nar/gkr1293", "article-title": "MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity", "volume": "40", "author": "Wang", "year": "2012", "journal-title": "Nucleic Acids Res." }, { "key": "10.1016/j.cell.2021.01.046_bib113", "doi-asserted-by": "crossref", "first-page": "1362", "DOI": "10.1016/j.cell.2021.01.047", "article-title": "The African lungfish genome sheds light on the vertebrate water-to-land transition", "volume": "184", "author": "Wang", "year": "2021", "journal-title": "Cell" }, { "key": "10.1016/j.cell.2021.01.046_bib114", "series-title": "Developmental plasticity and evolution.", "author": "West-Eberhard", "year": "2003" }, { "issue": "W1", "key": "10.1016/j.cell.2021.01.046_bib115", "doi-asserted-by": "crossref", "first-page": "W11", "DOI": "10.1093/nar/gky504", "article-title": "Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization", "volume": "46", "author": "Wolff", "year": "2018", "journal-title": "Nucleic Acids Res." }, { "key": "10.1016/j.cell.2021.01.046_bib116", "doi-asserted-by": "crossref", "first-page": "eabc3510", "DOI": "10.1126/sciadv.abc3510", "article-title": "Sarcopterygian fin ontogeny elucidates the origin of hands with digits", "volume": "6", "author": "Woltering", "year": "2020", "journal-title": "Sci. Adv." }, { "key": "10.1016/j.cell.2021.01.046_bib117", "doi-asserted-by": "crossref", "first-page": "e6054", "DOI": "10.7717/peerj.6054", "article-title": "Fuyuanichthys wangi gen. et sp. nov. from the Middle Triassic (Ladinian) of China highlights the early diversification of ginglymodian fishes", "volume": "6", "author": "Xu", "year": "2018", "journal-title": "PeerJ" }, { "key": "10.1016/j.cell.2021.01.046_bib118", "doi-asserted-by": "crossref", "first-page": "650", "DOI": "10.1093/bioinformatics/bti042", "article-title": "Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification", "volume": "21", "author": "Yanai", "year": "2005", "journal-title": "Bioinformatics" }, { "key": "10.1016/j.cell.2021.01.046_bib119", "doi-asserted-by": "crossref", "first-page": "1586", "DOI": "10.1093/molbev/msm088", "article-title": "PAML 4: phylogenetic analysis by maximum likelihood", "volume": "24", "author": "Yang", "year": "2007", "journal-title": "Mol. Biol. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib120", "doi-asserted-by": "crossref", "first-page": "212", "DOI": "10.1093/molbev/msj024", "article-title": "Bayesian estimation of species divergence times under a molecular clock using multiple fossil calibrations with soft bounds", "volume": "23", "author": "Yang", "year": "2006", "journal-title": "Mol. Biol. Evol." }, { "key": "10.1016/j.cell.2021.01.046_bib121", "first-page": "10", "article-title": "A new Early Devonian placoderm from New South Wales, Australia, with a discussion of placoderm phylogeny", "volume": "A167", "author": "Young", "year": "1980", "journal-title": "Palaeontographica Abteilung A" }, { "key": "10.1016/j.cell.2021.01.046_bib122", "doi-asserted-by": "crossref", "first-page": "141", "DOI": "10.1186/s12864-018-4516-1", "article-title": "Comparative genome analysis of 52 fish species suggests differential associations of repetitive elements with their living aquatic environments", "volume": "19", "author": "Yuan", "year": "2018", "journal-title": "BMC Genomics" }, { "key": "10.1016/j.cell.2021.01.046_bib123", "doi-asserted-by": "crossref", "first-page": "217", "DOI": "10.1016/j.acthis.2008.11.013", "article-title": "Innervation of lung and heart in the ray-finned fish, bichirs", "volume": "111", "author": "Zaccone", "year": "2009", "journal-title": "Acta Histochem." }, { "key": "10.1016/j.cell.2021.01.046_bib124", "doi-asserted-by": "crossref", "first-page": "124", "DOI": "10.1038/nn800", "article-title": "The olfactory receptor gene superfamily of the mouse", "volume": "5", "author": "Zhang", "year": "2002", "journal-title": "Nat. Neurosci." }, { "key": "10.1016/j.cell.2021.01.046_bib125", "first-page": "372", "article-title": "Stem sarcopterygians have primitive polybasal fin articulation", "volume": "5", "author": "Zhu", "year": "2009", "journal-title": "Palaeontology" }, { "key": "10.1016/j.cell.2021.01.046_bib126", "doi-asserted-by": "crossref", "first-page": "469", "DOI": "10.1038/nature07855", "article-title": "The oldest articulated osteichthyan reveals mosaic gnathostome characters", "volume": "458", "author": "Zhu", "year": "2009", "journal-title": "Nature" }, { "key": "10.1016/j.cell.2021.01.046_bib127", "doi-asserted-by": "crossref", "first-page": "188", "DOI": "10.1038/nature12617", "article-title": "A Silurian placoderm with osteichthyan-like marginal jaw bones", "volume": "502", "author": "Zhu", "year": "2013", "journal-title": "Nature" } ], "container-title": [ "Cell" ], "original-title": [], "language": "en", "link": [ { "URL": "https://api.elsevier.com/content/article/PII:S0092867421000891?httpAccept=text/xml", "content-type": "text/xml", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "https://api.elsevier.com/content/article/PII:S0092867421000891?httpAccept=text/plain", "content-type": "text/plain", "content-version": "vor", "intended-application": "text-mining" } ], "deposited": { "date-parts": [ [ 2026, 5, 13 ] ], "date-time": "2026-05-13T09:35:25Z", "timestamp": 1778664925000 }, "score": 1, "resource": { "primary": { "URL": "https://linkinghub.elsevier.com/retrieve/pii/S0092867421000891" } }, "subtitle": [], "short-title": [], "issued": { "date-parts": [ [ 2021, 3 ] ] }, "references-count": 128, "journal-issue": { "issue": "5", "published-print": { "date-parts": [ [ 2021, 3 ] ] } }, "alternative-id": [ "S0092867421000891" ], "URL": "https://doi.org/10.1016/j.cell.2021.01.046", "relation": {}, "ISSN": [ "0092-8674" ], "issn-type": [ { "value": "0092-8674", "type": "print" } ], "subject": [], "published": { "date-parts": [ [ 2021, 3 ] ] }, "assertion": [ { "value": "Elsevier", "name": "publisher", "label": "This article is maintained by" }, { "value": "Tracing the genetic footprints of vertebrate landing in non-teleost ray-finned fishes", "name": "articletitle", "label": "Article Title" }, { "value": "Cell", "name": "journaltitle", "label": "Journal Title" }, { "value": "https://doi.org/10.1016/j.cell.2021.01.046", "name": "articlelink", "label": "CrossRef DOI link to publisher maintained version" }, { "value": "https://doi.org/10.1016/j.cell.2021.01.047", "name": "associatedlink", "label": "CrossRef DOI link to the associated document" }, { "value": "article", "name": "content_type", "label": "Content Type" }, { "value": "© 2021 Elsevier Inc.", "name": "copyright", "label": "Copyright" } ] } }, { "species": "中华狼鳍鱼", "key": "lycoptera_direct", "doi": "", "title": "辽宁西部晚中生代鱼群——辽宁西部晚中生代地层和鱼群研究之三", "journal": "Vertebrata PalAsiatica", "year": 1995, "scope": "Direct L. sinensis description and plate II, figure 2", "selection": "Direct specialist source; Jin Fan, Zhang Jiangyong, Zhou Zhonghe; 33(3):169–193", "summary_en": "Includes identified L. sinensis material from western Liaoning and a species illustration. This is more directly relevant to identification than a general Jehol review.", "summary_zh": "记述辽西中华狼鳍鱼材料，并有图版II第2图；相较热河生物群综述，该文更直接用于物种鉴别。", "url": "https://ivpp.cas.cn/cbw/gjzdwxb/xbwzxz/200812/W020090813370184658123.pdf", "access": "PDF saved", "local_file": "中华狼鳍鱼/Literature/1995_Late_Mesozoic_fish_fauna.pdf", "pages": 27 }, { "species": "中华狼鳍鱼", "key": "lycoptera", "doi": "10.1111/pala.12160", "title": "Biostratinomic analysis of Lycoptera beds from the Early Cretaceous Yixian Formation, western Liaoning, China", "journal": "Palaeontology", "year": 2015, "scope": "Genus-level taphonomy; not specific to L. sinensis", "selection": "Leading specialist journal", "summary_en": "Analyzes Lycoptera fossil beds and preservation processes. Use it for depositional and mortality context, not as species-level evidence for the exhibit.", "summary_zh": "研究义县组狼鳍鱼化石层的埋藏过程，适合说明沉积与死亡背景，不能充当展品种级鉴定依据。", "url": "https://onlinelibrary.wiley.com/doi/10.1111/pala.12160", "access": "Verified citation and summary; full PDF not obtained", "local_file": null, "bibliographic_metadata": { "indexed": { "date-parts": [ [ 2026, 5, 7 ] ], "date-time": "2026-05-07T03:26:53Z", "timestamp": 1778124413243, "version": "3.51.4" }, "reference-count": 83, "publisher": "Wiley", "issue": "3", "license": [ { "start": { "date-parts": [ [ 2015, 3, 9 ] ], "date-time": "2015-03-09T00:00:00Z", "timestamp": 1425859200000 }, "content-version": "vor", "delay-in-days": 0, "URL": "http://onlinelibrary.wiley.com/termsAndConditions#vor" } ], "funder": [ { "DOI": "10.13039/501100001809", "name": "National Natural Science Foundation of China", "doi-asserted-by": "crossref", "award": [ "41472009" ], "award-info": [ { "award-number": [ "41472009" ] } ], "id": [ { "id": "10.13039/501100001809", "id-type": "DOI", "asserted-by": "crossref" } ] }, { "DOI": "10.13039/501100012166", "name": "National Basic Research Program of China", "doi-asserted-by": "crossref", "award": [ "2012CB821906" ], "award-info": [ { "award-number": [ "2012CB821906" ] } ], "id": [ { "id": "10.13039/501100012166", "id-type": "DOI", "asserted-by": "crossref" } ] }, { "DOI": "10.13039/501100004608", "name": "Natural Science Foundation of Jiangsu Province", "doi-asserted-by": "crossref", "award": [ "BK20141056" ], "award-info": [ { "award-number": [ "BK20141056" ] } ], "id": [ { "id": "10.13039/501100004608", "id-type": "DOI", "asserted-by": "crossref" } ] }, { "name": "Open-Lab Grants of the State Key Laboratory of Palaeobiology and Stratigraphy, CAS" } ], "content-domain": { "domain": [ "onlinelibrary.wiley.com" ], "crossmark-restriction": true }, "short-container-title": [ "Palaeontology" ], "published-print": { "date-parts": [ [ 2015, 5 ] ] }, "abstract": "AbstractLittle is known about the palaeoenvironments of theEarlyCretaceous lakes of westernLiaoning. Uncertainties exist especially about the water depth, water temperatures and annual temperature fluctuations. Here, we analyse the preservation of the most abundant fish of the lakes, the teleostLycoptera, articulated skeletons of which occur in large concentrations suggestive of mass mortality. Taphonomic features such as degree of disarticulation, orientation patterns and displacement of skeletal elements reveal distinct preservational patterns. They suggest that the water temperature was low during winter and exhibited pronounced seasonal fluctuations. The depth of the lakes was not deep. Possible causes of the fish mortality are discussed, of which anoxia is favoured. 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L.", "year": "1985" }, { "key": "e_1_2_7_14_1", "doi-asserted-by": "publisher", "DOI": "10.1016/S0016-6995(84)80183-7" }, { "key": "e_1_2_7_15_1", "doi-asserted-by": "publisher", "DOI": "10.1016/0031-0182(88)90072-7" }, { "key": "e_1_2_7_16_1", "doi-asserted-by": "publisher", "DOI": "10.1029/92JB00648" }, { "key": "e_1_2_7_17_1", "doi-asserted-by": "publisher", "DOI": "10.1666/06015.1" }, { "key": "e_1_2_7_18_1", "doi-asserted-by": "publisher", "DOI": "10.1016/0031-0182(94)00127-T" }, { "key": "e_1_2_7_19_1", "doi-asserted-by": "publisher", "DOI": "10.1016/0031-0182(88)90064-8" }, { "key": "e_1_2_7_20_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.palaeo.2007.06.012" }, { "key": "e_1_2_7_21_1", "doi-asserted-by": "publisher", "DOI": "10.1111/j.1502-3931.1990.tb01778.x" }, { "key": "e_1_2_7_22_1", "first-page": "183", "article-title": "Cretaceous Mollusca from north China", "volume": "5", "author": "Grabau A. W.", "year": "1923", "journal-title": "Bulletin of the Geological Survey of China" }, { "key": "e_1_2_7_23_1", "first-page": "774", "volume-title": "Stratigraphy of China. Part 2 Mesozoic", "author": "Grabau A. W.", "year": "1928" }, { "key": "e_1_2_7_24_1", "first-page": "84", "volume-title": "Jurassic and Cretaceous of China", "author": "Gu Z.‐W.", "year": "1962" }, { "key": "e_1_2_7_25_1", "first-page": "117", "article-title": "A study on the relationship between volcanic activities and mass mortalities of the Jehol vertebrate fauna from Sihetun, western Liaoning, China", "volume": "18", "author": "Guo Z.‐F.", "year": "2002", "journal-title": "Acta Petrologica Sinica" }, { "key": "e_1_2_7_26_1", "doi-asserted-by": "publisher", "DOI": "10.1007/BF02883252" }, { "issue": "1", "key": "e_1_2_7_27_1", "article-title": "PAST: paleontological statistics software package for education and data analysis", "volume": "4", "author": "Hammer Ø", "year": "2001", "journal-title": "Palaeontologia Electronica" }, { "key": "e_1_2_7_28_1", "first-page": "174", "article-title": "Research on the sedimentary environment of ornithiferous beds of Yixian Formation in Beipiao, Liaoning", "volume": "3", "author": "He Z.‐J.", "year": "1997", "journal-title": "Liaoning Geology" }, { "key": "e_1_2_7_29_1", "first-page": "647", "article-title": "Ob osobennostakh zahoronenya ryb w maikopskikh glinastykh slancakh sewernoy Osietii", "volume": "6", "author": "Hecker R. F.", "year": "1946", "journal-title": "Izvestiya Akademii Nauk SSSR, Otdelenya Biologitshnykh Nauk" }, { "key": "e_1_2_7_30_1", "doi-asserted-by": "publisher", "DOI": "10.1007/s12549-012-0092-6" }, { "key": "e_1_2_7_31_1", "doi-asserted-by": "publisher", "DOI": "10.1144/jgs2012-102" }, { "key": "e_1_2_7_32_1", "first-page": "367", "article-title": "Ichthyofauna from the Jasło shales at Sobniów", "volume": "5", "author": "Jerzmańska A.", "year": "1960", "journal-title": "Acta Palaeontologica Polonica" }, { "key": "e_1_2_7_33_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.sedgeo.2012.02.007" }, { "key": "e_1_2_7_34_1", "first-page": "102", "article-title": "New advances in the late Mesozoic stratigraphic research of western Liaoning, China", "volume": "34", "author": "Jin F.", "year": "1996", "journal-title": "Vertebrata PalAsiatica" }, { "key": "e_1_2_7_35_1", "first-page": "169", "article-title": "Late Mesozoic fish fauna from Western Liaoning, China", "volume": "33", "author": "Jin F.", "year": "1995", "journal-title": "Vertebrata PalAsiatica" }, { "key": "e_1_2_7_36_1", "doi-asserted-by": "publisher", "DOI": "10.1007/s11434-008-0209-5" }, { "key": "e_1_2_7_37_1", "doi-asserted-by": "publisher", "DOI": "10.1029/1999PA900040" }, { "key": "e_1_2_7_38_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.cretres.2006.07.009" }, { "key": "e_1_2_7_39_1", "first-page": "44", "article-title": "Palynological assemblage from the Zhuangchengzi Beds of Yixian Formation in Jinjiagou, Yixian", "volume": "49", "author": "Li W.‐B.", "year": "2010", "journal-title": "Acta Palaeontologica Sinica" }, { "key": "e_1_2_7_40_1", "first-page": "68", "article-title": "Sporomorph assemblage from the basal Yixian Formation in western Liaoning and its geological age", "volume": "11", "author": "Li W.‐B.", "year": "1999", "journal-title": "Palaeoworld" }, { "key": "e_1_2_7_41_1", "first-page": "1", "article-title": "Lycopterid fishes from North China", "volume": "6", "author": "Liu X.‐T.", "year": "1963", "journal-title": "Memoir of Institute of Vertebrate Palaeontology and Palaeoanthropology" }, { "key": "e_1_2_7_42_1", "first-page": "836", "article-title": "Aquatic community succession and environmental changes of Late Mesozoic in northern China", "volume": "34", "author": "Liu P.‐J.", "year": "2009", "journal-title": "Acta Zootaxonomica Sinica" }, { "key": "e_1_2_7_43_1", "first-page": "8", "article-title": "Review of Lycoptera davidi", "volume": "25", "author": "Ma F.‐Z.", "year": "1987", "journal-title": "Vertebrata PalAsiatica" }, { "key": "e_1_2_7_44_1", "first-page": "694", "article-title": "Jura‐Cretaceous ichthyofaunas from Sankeyushu section of Tonghua, Jilin", "volume": "27", "author": "Ma F.‐Z.", "year": "1988", "journal-title": "Acta Palaeontologica Sinica" }, { "key": "e_1_2_7_45_1", "volume-title": "Santana fossils: an illustrated atlas", "author": "Maisey J. G.", "year": "1991" }, { "key": "e_1_2_7_46_1", "first-page": "1011", "article-title": "Fish oblique to bedding", "volume": "40", "author": "Martill D. M.", "year": "1997", "journal-title": "Palaeontology" }, { "key": "e_1_2_7_47_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.cretres.2008.01.012" }, { "key": "e_1_2_7_48_1", "first-page": "257", "article-title": "Taphonomy of Eocene fish from Fossil Basin, Wyoming: Fieldiana", "volume": "33", "author": "McGrew P. O.", "year": "1975", "journal-title": "Geology" }, { "key": "e_1_2_7_49_1", "first-page": "1", "article-title": "The geological history of Fossil Butte National Monument and Fossil Basin", "volume": "3", "author": "McGrew P. O.", "year": "1975", "journal-title": "National Park Service Occasional Paper" }, { "key": "e_1_2_7_50_1", "doi-asserted-by": "publisher", "DOI": "10.1111/j.1502-3931.2011.00284.x" }, { "key": "e_1_2_7_51_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.cretres.2011.10.007" }, { "key": "e_1_2_7_52_1", "doi-asserted-by": "publisher", "DOI": "10.2110/palo.2013.119" }, { "key": "e_1_2_7_53_1", "first-page": "33", "article-title": "Fossil Lake, Wyoming, and its magnificent inhabitants", "volume": "6", "author": "Perkins P. L.", "year": "1970", "journal-title": "Discovery" }, { "key": "e_1_2_7_54_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.cretres.2005.02.007" }, { "key": "e_1_2_7_55_1", "doi-asserted-by": "publisher", "DOI": "10.1139/e93-176" }, { "key": "e_1_2_7_56_1", "first-page": "23", "volume-title": "Mesozoic leptolepid fishes from Jehol and Chientao, Manchuria ‐Report of the first scientific expedition to Manchoukuo, section 2, part 3", "author": "Saito K.", "year": "1936" }, { "key": "e_1_2_7_57_1", "first-page": "452", "article-title": "Sur un Prolebias (Prolebias Davidi) des terrains tertiaires du nord de la Chine", "volume": "8", "author": "Sauvage H. E.", "year": "1880", "journal-title": "Bulletin de la Société Géologique de France, Série 3" }, { "key": "e_1_2_7_58_1", "first-page": "568", "volume-title": "Ecology and palaeoecology of marine environments", "author": "Schäfer W.", "year": "1972" }, { "key": "e_1_2_7_59_1", "doi-asserted-by": "publisher", "DOI": "10.1098/rstb.1985.0134" }, { "key": "e_1_2_7_60_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.cretres.2006.12.002" }, { "key": "e_1_2_7_61_1", "first-page": "189", "article-title": "Correlation amongst the Longzhaogou, Jixi and Jehol groups in northeastern China: a review", "volume": "37", "author": "Sha J. G.", "year": "2007", "journal-title": "Beringeria" }, { "key": "e_1_2_7_62_1", "first-page": "551", "volume-title": "Communities of the past", "author": "Smiley C. J.", "year": "1981" }, { "key": "e_1_2_7_63_1", "series-title": "Anthropological Papers of the America Museum of Natural History", "first-page": "171", "volume-title": "The archeology of Hidden Cave", "author": "Smith G. R.", "year": "1985" }, { "key": "e_1_2_7_64_1", "first-page": "85", "volume-title": "Late Cenozoic history of the Pacific Northwest", "author": "Smith G. R.", "year": "1985" }, { "key": "e_1_2_7_65_1", "first-page": "54", "article-title": "On teleostean fossils from Nieerku Formation of Eastern Liaoning and the generic status of Lycoptera longicephalus", "volume": "30", "author": "Su D.‐Z.", "year": "1992", "journal-title": "Vertebrata PalAsiatica" }, { "key": "e_1_2_7_66_1", "first-page": "207", "article-title": "A monograph on the lycopterid fishes from the Mesozoic of eastern Asia", "volume": "6", "author": "Takai F.", "year": "1943", "journal-title": "Journal of the Faculty of Sciences, Imperial University of Tokyo, Section 2. Geology, Mineralogy, Geography, Seismology" }, { "key": "e_1_2_7_67_1", "first-page": "3", "article-title": "Comparative ecology of living and fossil conchostracans in a seven county area of Kansas and Oklahoma", "volume": "36", "author": "Tasch P.", "year": "1961", "journal-title": "Bulletin of the University of Wichita (University Studies 47)" }, { "key": "e_1_2_7_68_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.epsl.2005.11.047" }, { "key": "e_1_2_7_69_1", "doi-asserted-by": "publisher", "DOI": "10.1098/rstb.1995.0125" }, { "key": "e_1_2_7_70_1", "first-page": "350", "article-title": "Origin, evolution and mechanism of the Jehol fauna", "volume": "64", "author": "Wang S.‐E.", "year": "1990", "journal-title": "Acta Geologica Sinica" }, { "key": "e_1_2_7_71_1", "first-page": "289", "article-title": "Palaeoecology and palaeoenvironment of the Jehol Biota – a palaeoecological and palaeoenvironmental reconstruction of conchostracan paleocommunities in the northern Hebei‐western Liaoning area", "volume": "73", "author": "Wang S.‐E.", "year": "1999", "journal-title": "Acta Geologica Sinica" }, { "key": "e_1_2_7_72_1", "first-page": "458", "article-title": "Record of the Sihetun vertebrate mass mortality events in western Liaoning, China: caused by volcanic eruptions", "volume": "45", "author": "Wang X.‐L.", "year": "1999", "journal-title": "Geological Review" }, { "key": "e_1_2_7_73_1", "doi-asserted-by": "crossref", "first-page": "259", "DOI": "10.1127/njgpa/158/1979/259", "article-title": "A reappraisal of the palaeoecology of conchostracans (Crustacean: Branchiopoda)", "volume": "158", "author": "Webb J. A.", "year": "1979", "journal-title": "Neues Jahrbuch für Geologie und Paläontologie Abhandlungen" }, { "key": "e_1_2_7_74_1", "first-page": "40", "article-title": "Über das Vorkommen isolierter Köpfe bei fossilen Clupeiden", "volume": "11", "author": "Weiler W.", "year": "1929", "journal-title": "Senckenbergiana" }, { "key": "e_1_2_7_75_1", "doi-asserted-by": "publisher", "DOI": "10.1139/e77-089" }, { "key": "e_1_2_7_76_1", "doi-asserted-by": "publisher", "DOI": "10.1017/S0094837300016511" }, { "key": "e_1_2_7_77_1", "doi-asserted-by": "crossref", "first-page": "636", "DOI": "10.5962/bhl.title.162341", "volume-title": "Catalogue of the fossil fishes in British Museum (Natural History)", "author": "Woodward A. S.", "year": "1901" }, { "key": "e_1_2_7_78_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.palaeo.2013.05.017" }, { "key": "e_1_2_7_79_1", "first-page": "7", "article-title": "A preliminary study of the Jehol Flora from Western Liaoning", "volume": "11", "author": "Wu S.‐Q.", "year": "1999", "journal-title": "Palaeoworld" }, { "key": "e_1_2_7_80_1", "first-page": "257", "article-title": "A new species of Lycoptera from Liaoning, China", "volume": "40", "author": "Zhang J.‐Y.", "year": "2002", "journal-title": "Vertebrata PalAsiatica" }, { "key": "e_1_2_7_81_1", "first-page": "41", "article-title": "A review of Mesozoic osteoglossomorph fish Lycoptera longicephalus", "volume": "32", "author": "Zhang J.‐Y.", "year": "1994", "journal-title": "Vertebrata PalAsiatica" }, { "key": "e_1_2_7_82_1", "doi-asserted-by": "publisher", "DOI": "10.2110/palo.2006.p06-085r" }, { "key": "e_1_2_7_83_1", "doi-asserted-by": "publisher", "DOI": "10.1016/j.cretres.2012.02.010" }, { "key": "e_1_2_7_84_1", "first-page": "419", "volume-title": "Morphology, phylogeny and paleobiogeography of fossil fishes", "author": "Zhou Z.‐H.", "year": "2010" } ], "container-title": [ "Palaeontology" ], "original-title": [], "language": "en", "link": [ { "URL": "https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2Fpala.12160", "content-type": "unspecified", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/pala.12160", "content-type": "application/pdf", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "https://onlinelibrary.wiley.com/doi/full-xml/10.1111/pala.12160", "content-type": "application/xml", "content-version": "vor", "intended-application": "text-mining" }, { "URL": "https://onlinelibrary.wiley.com/doi/pdf/10.1111/pala.12160", "content-type": "unspecified", "content-version": "vor", "intended-application": "similarity-checking" } ], "deposited": { "date-parts": [ [ 2025, 5, 20 ] ], "date-time": "2025-05-20T20:18:01Z", "timestamp": 1747772281000 }, "score": 1, "resource": { "primary": { "URL": "https://onlinelibrary.wiley.com/doi/10.1111/pala.12160" } }, "subtitle": [], "editor": [ { "given": "John", "family": "Jagt", "sequence": "additional", "affiliation": [], "role": [ { "role": "editor", "vocabulary": "crossref" } ] } ], "short-title": [], "issued": { "date-parts": [ [ 2015, 3, 9 ] ] }, "references-count": 83, "journal-issue": { "issue": "3", "published-print": { "date-parts": [ [ 2015, 5 ] ] } }, "alternative-id": [ "10.1111/pala.12160" ], "URL": "https://doi.org/10.1111/pala.12160", "archive": [ "Portico" ], "relation": {}, "ISSN": [ "0031-0239", "1475-4983" ], "issn-type": [ { "value": "0031-0239", "type": "print" }, { "value": "1475-4983", "type": "electronic" } ], "subject": [], "published": { "date-parts": [ [ 2015, 3, 9 ] ] }, "assertion": [ { "value": "2014-11-25", "order": 0, "name": "received", "label": "Received", "group": { "name": "publication_history", "label": "Publication History" } }, { "value": "2015-02-13", "order": 1, "name": "accepted", "label": "Accepted", "group": { "name": "publication_history", "label": "Publication History" } }, { "value": "2015-03-09", "order": 2, "name": "published", "label": "Published", "group": { "name": "publication_history", "label": "Publication History" } } ] } }, { "species": "中华狼鳍鱼", "key": "jehol", "doi": "10.1093/nsr/nwu055", "title": "The Jehol Biota, an Early Cretaceous terrestrial Lagerstätte: new discoveries and implications", "journal": "National Science Review", "year": 2014, "scope": "Jehol ecosystem context; not an exact-species paper", "selection": "Major multidisciplinary review", "summary_en": "Reviews Jehol diversity, preservation and evolutionary significance. Lycoptera is part of the biota’s traditional definition; this review supplies ecosystem context rather than a revision of L. sinensis.", "summary_zh": "综述热河生物群多样性、保存及演化意义；狼鳍鱼属于其传统定义的一部分，本文提供生态系统背景，不是中华狼鳍鱼分类修订。", "url": "https://academic.oup.com/nsr/article/1/4/543/1508504", "access": "Verified citation and summary; full PDF not obtained", "local_file": null, "bibliographic_metadata": { "indexed": { "date-parts": [ [ 2026, 9, 22 ] ], "date-time": "2026-09-22T07:28:33Z", "timestamp": 1790062113242, "version": "4.0.1" }, "reference-count": 164, "publisher": "Oxford University Press (OUP)", "issue": "4", "license": [ { "start": { "date-parts": [ [ 2016, 10, 5 ] ], "date-time": "2016-10-05T00:00:00Z", "timestamp": 1475625600000 }, "content-version": "vor", "delay-in-days": 674, "URL": "http://creativecommons.org/licenses/by/4.0/" } ], "content-domain": { "domain": [], "crossmark-restriction": false }, "short-container-title": [], "published-print": { "date-parts": [ [ 2014, 12, 1 ] ] }, "abstract": "AbstractThe study of the Early Cretaceous terrestrial Jehol Biota, which provides a rare window for reconstruction of a Lower Cretaceous terrestrial ecosystem, is reviewed with a focus on some of the latest progress. A newly proposed definition of the biota based on paleoecology and taphonomy is accepted. Although the Jehol fossils are mainly preserved in two types of sedimentary rocks, there are various types of preservation with a complex mechanism that remains to be understood. New discoveries of significant taxa from the Jehol Biota, with an updated introduction of its diversity, confirm that the Jehol Biota represents one of the most diversified biotas of the Mesozoic. The evolutionary significance of major biological groups (e.g. dinosaurs, birds, mammals, pterosaurs, insects, and plants) is discussed mainly in the light of recent discoveries, and some of the most remarkable aspects of the biota are highlighted. The global and local geological, paleogeographic, and paleoenvironmental background of the Jehol Biota have contributed to the unique composition, evolution, and preservation of the biota, demonstrating widespread faunal exchanges between Asia and other continents caused by the presence of the Eurasia–North American continental mass and its link to South America, and confirming northeastern China as the origin and diversification center for a variety of Cretaceous biological groups. Although some progress has been made on the reconstruction of the paleotemperature at the time of the Jehol Biota, much more work is needed to confirm a possible link between the remarkable diversity of the biota and the cold intervals during the Early Cretaceous. Finally, future directions for the study of the Jehol Biota are proposed that highlight the great potential of more comprehensive and multidisciplinary studies to further our understanding of the biological and geological implications of the Jehol Lagerstätte.", "DOI": "10.1093/nsr/nwu055", "type": "journal-article", "created": { "date-parts": [ [ 2014, 9, 6 ] ], "date-time": "2014-09-06T04:14:29Z", "timestamp": 1409976869000 }, "page": "543-559", "source": "Crossref", "is-referenced-by-count": 156, "title": [ "The Jehol Biota, an Early Cretaceous terrestrial Lagerstätte: new discoveries and implications" ], "prefix": "10.1093", "volume": "1", "author": [ { "given": "Zhonghe", "family": "Zhou", "sequence": "first", "affiliation": [ { "name": "Key Laboratory of Vertebrate Evolution and Human Origins, Institute of Vertebrate Paleontology and Paleoanthropology, Chinese Academy of Sciences, Beijing 100044, China" } ], "role": [ { "vocabulary": "crossref", "role": "author" } ] } ], "member": "286", "published-online": { "date-parts": [ [ 2014, 12, 25 ] ] }, "reference": [ { "key": "2020011010262738200_bib1", "doi-asserted-by": "crossref", "first-page": "807", "DOI": "10.1038/nature01420", "article-title": "An exceptionally preserved Lower Cretaceous ecosystem", "volume": "421", "author": "Zhou", "year": "2003", "journal-title": "Nature" }, { "key": "2020011010262738200_bib2", "doi-asserted-by": "crossref", "first-page": "209", "DOI": "10.1016/S0016-7878(08)80302-1", "article-title": "The remarkable fossils from the Early Cretaceous Jehol Biota of China and how they have changed our knowledge", "volume": "119", "author": "Benton", "year": "2008", "journal-title": "Proc Geol Assoc" }, { "key": "2020011010262738200_bib3", "doi-asserted-by": "crossref", "first-page": "1894", "DOI": "10.1007/s11430-010-4094-9", "article-title": "Vertebrate diversity of the Jehol Biota as compared with other lagerstätten", "volume": "53", "author": "Zhou", "year": "2010", "journal-title": "Sci China Earth Sci" }, { "key": "2020011010262738200_bib4", "doi-asserted-by": "crossref", "DOI": "10.2307/jj.12638994.9", "article-title": "Jehol Biota: an exceptional window to the Early Cretaceous terrestrial ecosystem", "volume-title": "Extraordinary Fossil Occurrences of Continental Animals and Plants", "author": "Zhou" }, { "key": "2020011010262738200_bib5", "doi-asserted-by": "crossref", "first-page": "1075", "DOI": "10.1038/nature08740", "article-title": "Fossilised melanosomes and the colour of Cretaceous dinosaurs and birds", "volume": "463", "author": "Zhang", "year": "2010", "journal-title": "Nature" }, { "key": "2020011010262738200_bib6", "doi-asserted-by": "crossref", "first-page": "1215", "DOI": "10.1126/science.1213780", "article-title": "Reconstruction of Microraptor and the evolution of iridescent plumage", "volume": "335", "author": "Li", "year": "2012", "journal-title": "Science" }, { "key": "2020011010262738200_bib7", "doi-asserted-by": "crossref", "first-page": "350", "DOI": "10.1038/nature12973", "article-title": "Melanosome evolution indicates a key physiological shift within feathered dinosaurs", "volume": "507", "author": "Li", "year": "2014", "journal-title": "Nature" }, { "key": "2020011010262738200_bib8", "doi-asserted-by": "crossref", "first-page": "405", "DOI": "10.1038/nature00930", "article-title": "A long-tailed, seed-eating bird from the Early Cretaceous of China", "volume": "418", "author": "Zhou", "year": "2002", "journal-title": "Nature" }, { "key": "2020011010262738200_bib9", "doi-asserted-by": "crossref", "first-page": "444", "DOI": "10.1007/s00114-006-0125-y", "article-title": "Food remains in Confuciusornis sanctus suggest a fish diet", "volume": "93", "author": "Dalsätt", "year": "2006", "journal-title": "Naturwissenschaften" }, { "key": "2020011010262738200_bib10", "doi-asserted-by": "crossref", "first-page": "219", "DOI": "10.1098/rspb.2009.0885", "article-title": "A new Lower Cretaceous bird from China and tooth reduction in early avian evolution", "volume": "277", "author": "Zhou", "year": "2010", "journal-title": "Proc R Soc B" }, { "key": "2020011010262738200_bib11", "doi-asserted-by": "crossref", "first-page": "25", "DOI": "10.1080/14772019.2010.504080", "article-title": "Distribution of the predentary bone in Mesozoic ornithurine birds", "volume": "9", "author": "Zhou", "year": "2011", "journal-title": "J Syst Palaeontol" }, { "key": "2020011010262738200_bib12", "doi-asserted-by": "crossref", "first-page": "19662", "DOI": "10.1073/pnas.1117727108", "article-title": "Additional specimen of Microraptor provides unique evidence of dinosaurs preying on birds", "volume": "108", "author": "O'Connor", "year": "2011", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib13", "first-page": "608", "article-title": "A new piscivorous ornithuromorph from the Jehol Biota", "volume": "5", "author": "Zhou", "year": "2013", "journal-title": "Hist Biol" }, { "key": "2020011010262738200_bib14", "doi-asserted-by": "crossref", "first-page": "2441", "DOI": "10.1111/evo.12119", "article-title": "Piscivory in the feathered dinosaur Microraptor", "volume": "67", "author": "Xing", "year": "2013", "journal-title": "Evolution" }, { "key": "2020011010262738200_bib15", "doi-asserted-by": "crossref", "first-page": "15904", "DOI": "10.1073/pnas.1112694108", "article-title": "Fossil evidence of avian crops from the Early Cretaceous of China", "volume": "108", "author": "Zheng", "year": "2011", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib16", "doi-asserted-by": "crossref", "first-page": "e95036", "DOI": "10.1371/journal.pone.0095036", "article-title": "New specimens of Yanornis indicate a piscivorous diet and modern alimentary canal", "volume": "9", "author": "Zheng", "year": "2014", "journal-title": "PLoS ONE" }, { "key": "2020011010262738200_bib17", "doi-asserted-by": "crossref", "first-page": "621", "DOI": "10.1038/429621a", "article-title": "Pterosaur embryo from the Early Cretaceous of China", "volume": "429", "author": "Wang", "year": "2004", "journal-title": "Nature" }, { "key": "2020011010262738200_bib18", "doi-asserted-by": "crossref", "first-page": "653", "DOI": "10.1126/science.1100000", "article-title": "A precocial avian embryo from the Lower Cretaceous of China", "volume": "306", "author": "Zhou", "year": "2004", "journal-title": "Science" }, { "key": "2020011010262738200_bib19", "doi-asserted-by": "crossref", "first-page": "281", "DOI": "10.1360/982004-647", "article-title": "Cannibalism in a semi-aquatic reptile from the Early Cretaceous of China", "volume": "50", "author": "Wang", "year": "2005", "journal-title": "Chin Sci Bull" }, { "key": "2020011010262738200_bib20", "first-page": "111", "article-title": "Embryo of Early Cretaceous choristodere (Reptilia) form the Jehol Biota in western Liaoning, China", "volume": "22", "author": "Ji", "year": "2006", "journal-title": "J Paleontol Soc Korea" }, { "key": "2020011010262738200_bib21", "doi-asserted-by": "crossref", "first-page": "739", "DOI": "10.1007/s00114-011-0820-1", "article-title": "A gravid lizard from the Cretaceous of China and the early history of squamate viviparity", "volume": "98", "author": "Wang", "year": "2011", "journal-title": "Naturvissenchaften" }, { "key": "2020011010262738200_bib22", "doi-asserted-by": "crossref", "first-page": "507", "DOI": "10.1038/nature11985", "article-title": "Preservation of ovarian follicles reveals early evolution of avian reproductive behaviour", "volume": "495", "author": "Zheng", "year": "2013", "journal-title": "Nature" }, { "key": "2020011010262738200_bib23", "doi-asserted-by": "crossref", "first-page": "17", "DOI": "10.3897/zookeys.129.1282", "article-title": "A well-preserved aneuretopsychid from the Jehol Biota of China (Insecta, Mecoptera, Aneuretopsychidae)", "volume": "129", "author": "Ren", "year": "2011", "journal-title": "ZooKeys" }, { "key": "2020011010262738200_bib24", "doi-asserted-by": "crossref", "first-page": "201", "DOI": "10.1038/nature10839", "article-title": "Diverse transitional giant fleas from the Mesozoic era of China", "volume": "483", "author": "Huang", "year": "2012", "journal-title": "Nature" }, { "key": "2020011010262738200_bib25", "doi-asserted-by": "crossref", "first-page": "1682", "DOI": "10.1007/s11434-013-5769-3", "article-title": "Mesozoic giant fleas from northeastern China (Siphonaptera): taxonomy and implications for palaeodiversity", "volume": "58", "author": "Huang", "year": "2013", "journal-title": "Chin Sci Bull" }, { "key": "2020011010262738200_bib26", "doi-asserted-by": "crossref", "first-page": "732", "DOI": "10.1016/j.cub.2012.03.012", "article-title": "Mid-Mesozoic flea-like ectoparasites of feathered or haired vertebrates", "volume": "22", "author": "Gao", "year": "2012", "journal-title": "Curr Biol" }, { "key": "2020011010262738200_bib27", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1016/j.cub.2013.05.040", "article-title": "New transitional fleas from China highlighting diversity of Early Cretaceous ectoparasitic insects", "volume": "23", "author": "Gao", "year": "2013", "journal-title": "Curr Biol" }, { "key": "2020011010262738200_bib28", "doi-asserted-by": "crossref", "first-page": "1786", "DOI": "10.1016/j.cub.2014.06.045", "article-title": "Blood-feeding true bugs in the Early Cretaceous", "volume": "24", "author": "Yao", "year": "2014", "journal-title": "Curr Biol" }, { "key": "2020011010262738200_bib29", "doi-asserted-by": "crossref", "first-page": "103", "DOI": "10.1016/j.epsl.2005.02.019", "article-title": "Nature and significance of the Early Cretaceous giant igneous event in eastern China", "volume": "233", "author": "Wu", "year": "2005", "journal-title": "Earth Planet Sci Lett" }, { "key": "2020011010262738200_bib30", "first-page": "1145", "article-title": "Lithospheric thinning and destruction of the North China Craton", "volume": "24", "author": "Wu", "year": "2008", "journal-title": "Acta Petrol Sin" }, { "key": "2020011010262738200_bib31", "doi-asserted-by": "crossref", "first-page": "434", "DOI": "10.1016/j.palaeo.2007.06.012", "article-title": "High resolution palaeoecological and taphonomic analysis of Early Cretaceous lake biota, western Liaoning (NE-China)", "volume": "253", "author": "Fürsich", "year": "2007", "journal-title": "Palaeogeogr Palaeoclimatol Palaeoecol" }, { "key": "2020011010262738200_bib32", "doi-asserted-by": "crossref", "first-page": "119", "DOI": "10.1016/j.palaeo.2008.02.008", "article-title": "Late Mesozoic transgressions of eastern Heilongjiang and their significance in tectonics, and coal and oil accumulation in northeastern China", "volume": "263", "author": "Sha", "year": "2008", "journal-title": "Palaeogeogr Palaeoclimatol Palaeoecol" }, { "key": "2020011010262738200_bib33", "doi-asserted-by": "crossref", "first-page": "277", "DOI": "10.1098/rspb.2009.0936", "article-title": "Historical distribution patterns of trigonioidids (non-marine Cretaceous bivalves) in Asia and their palaeogeographic significance", "volume": "277", "author": "Sha", "year": "2010", "journal-title": "Proc R Soc B" }, { "key": "2020011010262738200_bib34", "first-page": "357", "article-title": "Non-marine and marine stratigraphic correlation of Early Cretaceous deposits in NE China, SE Korea and SW Japan, non-marine Molluscan biochronology, and palaeogeographic implications", "volume": "36", "author": "Sha", "year": "2012", "journal-title": "J Strat" }, { "key": "2020011010262738200_bib35", "doi-asserted-by": "crossref", "first-page": "5179", "DOI": "10.1073/pnas.1011369108", "article-title": "Oxygen isotopes of East Asian dinosaurs reveal exceptionally cold Early Cretaceous climates", "volume": "108", "author": "Amiot", "year": "2011", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib36", "doi-asserted-by": "crossref", "first-page": "255", "DOI": "10.1016/j.palaeo.2011.01.016", "article-title": "Early Cretaceous volcanism and its impact on fossil preservation in Western Liaoning, NE China", "volume": "302", "author": "Jiang", "year": "2011", "journal-title": "Palaeogeogr Palaeoclimatol Palaeoecol" }, { "key": "2020011010262738200_bib37", "doi-asserted-by": "crossref", "first-page": "31", "DOI": "10.1016/j.sedgeo.2012.02.007", "article-title": "Depositional evolution of the Early Cretaceous Sihetun Lake and implications for regional climatic and volcanic history in western Liaoning, NE China", "volume": "257–60", "author": "Jiang", "year": "2012", "journal-title": "Sediment Geol" }, { "key": "2020011010262738200_bib38", "doi-asserted-by": "crossref", "first-page": "3151", "DOI": "10.1038/ncomms4151", "article-title": "New evidence suggests pyroclastic flows are responsible for the remarkable preservation of the Jehol biota", "volume": "5", "author": "Jiang", "year": "2014", "journal-title": "Nat Commun" }, { "key": "2020011010262738200_bib39", "doi-asserted-by": "crossref", "first-page": "299", "DOI": "10.1111/j.1502-3931.2011.00284.x", "article-title": "Dynamics of the lacustrine fauna from the Early Cretaceous Yixian Formation, China: implications of volcanic and climatic factors", "volume": "45", "author": "Pan", "year": "2012", "journal-title": "Lethaia" }, { "key": "2020011010262738200_bib40", "doi-asserted-by": "crossref", "first-page": "30", "DOI": "10.1016/j.cretres.2013.03.007", "article-title": "The Jehol Biota: definition and distribution of exceptionally preserved relicts of a continental Early Cretaceous ecosystem", "volume": "40", "author": "Pan", "year": "2013", "journal-title": "Cretac Res" }, { "key": "2020011010262738200_bib41", "doi-asserted-by": "crossref", "first-page": "96", "DOI": "10.1016/j.cretres.2012.02.010", "article-title": "Sedimentary laminations in the lacustrine Jianshangou Bed of the Yixian Formation at Sihetun, western Liaoning, China", "volume": "36", "author": "Zhang", "year": "2012", "journal-title": "Cretac Res" }, { "key": "2020011010262738200_bib42", "doi-asserted-by": "crossref", "first-page": "351", "DOI": "10.1007/s00531-012-0799-7", "article-title": "Seasonal to sub-seasonal palaeoenvironmental changes in Lake Sihetun (Lower Cretaceous Yixian Formation, NE China)", "volume": "102", "author": "Hethke", "year": "2013", "journal-title": "Int J Earth Sci" }, { "key": "2020011010262738200_bib43", "first-page": "1", "article-title": "Timing of the earliest known feathered dinosaurs and transitional pterosaurs older than the Jehol Biota", "volume": "323–5", "author": "Liu", "year": "2012", "journal-title": "Palaeogeogr Palaeoclimatol Palaeoecol" }, { "key": "2020011010262738200_bib44", "first-page": "1", "article-title": "SIMS U-Pb zircon age of Jurassic sediments in Linglongta, Jianchang, western Liaoning: constraint on the age of oldest feathered dinosaurs", "volume": "58", "author": "Wang", "year": "2013", "journal-title": "Chin Sci Bull" }, { "key": "2020011010262738200_bib45", "doi-asserted-by": "crossref", "first-page": "243", "DOI": "10.1080/02724634.2013.787316", "article-title": "The vertebrates of the Jurassic Daohugou Biota of northeastern China", "volume": "32", "author": "Sullivan", "year": "2014", "journal-title": "J Vertebr Paleontol" }, { "key": "2020011010262738200_bib46", "article-title": "The Yanliao Biota: a trove of exceptionally preserved Middle-Late Jurassic terrestrial life forms", "volume-title": "Extraordinary Fossil Occurrences of Continental Animals and Plants", "author": "Xu" }, { "key": "2020011010262738200_bib47", "first-page": "1", "volume-title": "Stratigraphy of China. Part 2 Mesozoic", "author": "Grabau", "year": "1928" }, { "key": "2020011010262738200_bib48", "first-page": "1", "volume-title": "Jurassic and Cretaceous of China", "author": "Gu", "year": "1962" }, { "key": "2020011010262738200_bib49", "first-page": "659", "article-title": "Distribution and migration of the Jehol fauna with reference to non-marine Jurassic-Cretaceous boundary in China", "volume": "27", "author": "Chen", "year": "1988", "journal-title": "Acta Palaeontol Sin" }, { "key": "2020011010262738200_bib50", "doi-asserted-by": "crossref", "first-page": "147", "DOI": "10.1038/34356", "article-title": "An exceptionally well-preserved theropod dinosaur from the Yixian Formation of China", "volume": "391", "author": "Chen", "year": "1998", "journal-title": "Nature" }, { "key": "2020011010262738200_bib51", "first-page": "1", "volume-title": "Early Angiosperms and their Associated Plants from Western Liaoning, China", "author": "Sun", "year": "2001" }, { "key": "2020011010262738200_bib52", "first-page": "1", "volume-title": "The Jehol Biota: The Emergence of Feathered Dinosaurs, Beaked Birds and Flowering Plants", "author": "Chang", "year": "2003" }, { "key": "2020011010262738200_bib53", "doi-asserted-by": "crossref", "first-page": "377", "DOI": "10.1002/gj.1045", "article-title": "Evolutionary radiation of the Jehol Biota: chronological and ecological perspectives", "volume": "41", "author": "Zhou", "year": "2006", "journal-title": "Geol J" }, { "key": "2020011010262738200_bib54", "doi-asserted-by": "crossref", "first-page": "625", "DOI": "10.1007/s11430-008-0050-3", "article-title": "A primitive confuciusornithid bird from China and its implications for early avian flight", "volume": "51", "author": "Zhang", "year": "2008", "journal-title": "Sci China Earth Sci" }, { "key": "2020011010262738200_bib55", "doi-asserted-by": "crossref", "first-page": "58", "DOI": "10.1038/21872", "article-title": "Cretaceous age for the feathered dinosaurs of Liaoning, China", "volume": "400", "author": "Swisher", "year": "1999", "journal-title": "Nature" }, { "key": "2020011010262738200_bib56", "doi-asserted-by": "crossref", "first-page": "135", "DOI": "10.1360/02tb9031", "article-title": "Further support for a Cretaceous age for the feathered-dinosaur beds of Liaoning, China: new 40Ar/39Ar dating of the Yixian and Tuchengzi Formations", "volume": "47", "author": "Swisher", "year": "2002", "journal-title": "Chin Sci Bull" }, { "key": "2020011010262738200_bib57", "doi-asserted-by": "crossref", "first-page": "L12605", "DOI": "10.1029/2004GL019790", "article-title": "Timing of the Jiufotang Formation (Jehol Group) in Liaoning, northeastern China and its implications", "volume": "31", "author": "He", "year": "2004", "journal-title": "Geophys Res Lett" }, { "key": "2020011010262738200_bib58", "doi-asserted-by": "crossref", "first-page": "Q04001", "DOI": "10.1029/2005GC001083", "article-title": "The 40Ar/39Ar dating of the early Jehol Biota from Fengning, Hebei Province, northern China", "volume": "7", "author": "He", "year": "2006", "journal-title": "Geochem Geophys Geosyst" }, { "key": "2020011010262738200_bib59", "doi-asserted-by": "crossref", "first-page": "171", "DOI": "10.1016/j.cretres.2006.06.003", "article-title": "Palaeomagnetic and 40Ar/39Ar dating constraints on the age of the Jehol Biota and the duration of deposition of the Sihetun fossil bearing lake sediments, northeastern China", "volume": "8", "author": "Zhu", "year": "2007", "journal-title": "Cretac Res" }, { "key": "2020011010262738200_bib60", "doi-asserted-by": "crossref", "first-page": "94", "DOI": "10.1016/j.palaeo.2009.06.021", "article-title": "High-precision 40Ar/39Ar age for the Jehol Biota", "volume": "280", "author": "Chang", "year": "2009", "journal-title": "Palaeogeogr Palaeoclimatol Palaeoecol" }, { "key": "2020011010262738200_bib61", "doi-asserted-by": "crossref", "first-page": "417", "DOI": "10.1671/0272-4634(2000)020[0417:EFMOAS]2.0.CO;2", "article-title": "Exceptional fossil material of a semi-aquatic reptile from China: the resolution of an enigma", "volume": "20", "author": "Gao", "year": "2000", "journal-title": "J Vertebr Paleontol" }, { "key": "2020011010262738200_bib62", "first-page": "603", "article-title": "Discovery of the psittacosaurid skin impressions and its significance", "volume": "44", "author": "Ji", "year": "2004", "journal-title": "Geol Rev" }, { "key": "2020011010262738200_bib63", "doi-asserted-by": "crossref", "first-page": "5507", "DOI": "10.1073/pnas.0609552104", "article-title": "A gliding lizard from the Early Cretaceous of China", "volume": "104", "author": "Li", "year": "2007", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib64", "doi-asserted-by": "crossref", "first-page": "81", "DOI": "10.1080/14772010903537773", "article-title": "A new lizard (Reptilia: Squamata) with exquisite preservation of soft tissue from the Lower Cretaceous of Inner Mongolia, China", "volume": "8", "author": "Evans", "year": "2010", "journal-title": "J Syst Palaeontol" }, { "key": "2020011010262738200_bib65", "doi-asserted-by": "crossref", "first-page": "27", "DOI": "10.2517/1342-8144-17.1.27", "article-title": "A new juvenile specimen of Sapeornis (Pygostylia: Aves) from the Lower Cretaceous of Northeast China and allometric scaling of this basal bird", "volume": "17", "author": "Pu", "year": "2013", "journal-title": "Paleontol Res" }, { "key": "2020011010262738200_bib66", "doi-asserted-by": "crossref", "first-page": "972", "DOI": "10.1038/nature04730", "article-title": "A lamprey from the Cretaceous Jehol biota of China", "volume": "441", "author": "Chang", "year": "2006", "journal-title": "Nature" }, { "key": "2020011010262738200_bib67", "doi-asserted-by": "crossref", "first-page": "265", "DOI": "10.1016/j.palwor.2007.07.001", "article-title": "Basal titanosauriform (Dinosauria, Sauropoda) teeth from the Lower Cretaceous Yixian Formation of Liaoning Province, China", "volume": "16", "author": "Barrett", "year": "2007", "journal-title": "Palaeoworld" }, { "key": "2020011010262738200_bib68", "doi-asserted-by": "crossref", "first-page": "419", "DOI": "10.1002/gj.1044", "article-title": "Non-avian dinosaur fossils from the Lower Cretaceous Jehol Group of western Liaoning, China", "volume": "41", "author": "Xu", "year": "2006", "journal-title": "Geol J" }, { "key": "2020011010262738200_bib69", "doi-asserted-by": "crossref", "first-page": "838", "DOI": "10.1038/nature02898", "article-title": "A new troodontid dinosaur from China with avian-like sleeping posture", "volume": "431", "author": "Xu", "year": "2004", "journal-title": "Nature" }, { "key": "2020011010262738200_bib70", "doi-asserted-by": "crossref", "first-page": "109", "DOI": "10.1007/BF03043910", "article-title": "An aggregation of lizard skeletons from the Lower Cretaceous of China", "volume": "87", "author": "Evans", "year": "2007", "journal-title": "Senckenberg Lethaea" }, { "key": "2020011010262738200_bib71", "doi-asserted-by": "crossref", "first-page": "1023", "DOI": "10.1111/j.1475-4983.2007.00709.x", "article-title": "Social behaviour and mass mortality in the basal ceratopsian dinosaur Psittacosaurus (Early Cretaceous, People's Republic of China)", "volume": "50", "author": "Zhao", "year": "2007", "journal-title": "Palaeontology" }, { "key": "2020011010262738200_bib72", "doi-asserted-by": "crossref", "first-page": "149", "DOI": "10.1038/nature03102", "article-title": "Large Mesozoic mammals fed on young dinosaurs", "volume": "433", "author": "Hu", "year": "2005", "journal-title": "Nature" }, { "key": "2020011010262738200_bib73", "doi-asserted-by": "crossref", "first-page": "147", "DOI": "10.1038/34356", "article-title": "An exceptionally well-preserved theropod dinosaur from the Yixian Formation of China", "volume": "391", "author": "Chen", "year": "1998", "journal-title": "Nature" }, { "key": "2020011010262738200_bib74", "first-page": "8", "article-title": "A new giant compsognathid dinosaur with long filamentous integuments from Lower Cretaceous of northeastern China", "volume": "81", "author": "Ji", "year": "2007", "journal-title": "Acta Geol Sin" }, { "key": "2020011010262738200_bib75", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1206/0003-0082(2003)420<0001:AEODAI>2.0.CO;2", "article-title": "An early ostrich dinosaur and implications for ornithomimosaur phylogeny", "volume": "3420", "author": "Ji", "year": "2003", "journal-title": "Am Mus Novit" }, { "key": "2020011010262738200_bib76", "doi-asserted-by": "crossref", "first-page": "571", "DOI": "10.1007/s00114-004-0567-z", "article-title": "Gastroliths in Yanornis—an indication of the earliest radical diet switching and gizzard plasticity in the lineage leading to living birds?", "volume": "91", "author": "Zhou", "year": "2004", "journal-title": "Naturwissenschaften" }, { "key": "2020011010262738200_bib77", "doi-asserted-by": "crossref", "first-page": "363", "DOI": "10.1111/j.1463-6409.2006.00234.x", "article-title": "A beaked basal ornithurine bird (Aves, Ornithurae) from the Lower Cretaceous of China", "volume": "35", "author": "Zhou", "year": "2006", "journal-title": "Zool Scr" }, { "key": "2020011010262738200_bib78", "doi-asserted-by": "crossref", "first-page": "141", "DOI": "10.1080/02724634.2012.714431", "article-title": "Anatomy of the basal ornithuromorph bird Archaeorhynchus spathula from the Early Cretaceous of Liaoning, China", "volume": "33", "author": "Zhou", "year": "2013", "journal-title": "J Vertebr Paleontol" }, { "key": "2020011010262738200_bib79", "first-page": "206", "article-title": "Pyrite framboids associated with the Mesozoic Jehol Biota in northeastern China: implications for microenvironment during early fossilization", "volume": "13", "author": "Leng", "year": "2003", "journal-title": "Prog Nat Sci" }, { "key": "2020011010262738200_bib80", "doi-asserted-by": "crossref", "first-page": "707", "DOI": "10.2110/palo.2012.p12-029r", "article-title": "Widespread pyritization of insects in the Early Cretaceous Jehol Biota", "volume": "27", "author": "Wang", "year": "2012", "journal-title": "Palaios" }, { "key": "2020011010262738200_bib81", "article-title": "A model for the soft tissue fossilisation of the Early Cretaceous Jehol lagerstätte based on the study of the taphonomy of ‘Ephemeropsis trisetalis’", "volume-title": "Palaios", "author": "Pan" }, { "key": "2020011010262738200_bib82", "doi-asserted-by": "crossref", "first-page": "1261", "DOI": "10.1007/BF02883252", "article-title": "Effect of Mesozoic volcanic eruptions in the western Liaoning Province, China on paleoclimate and paleoenvironment", "volume": "46", "author": "Guo", "year": "2003", "journal-title": "Sci China Earth Sci" }, { "key": "2020011010262738200_bib83", "doi-asserted-by": "crossref", "first-page": "201", "DOI": "10.1666/06015.1", "article-title": "The opisthotonic posture of vertebrate skeletons: postmortem contraction or death throes?", "volume": "33", "author": "Faux", "year": "2007", "journal-title": "Paleobiology" }, { "key": "2020011010262738200_bib84", "first-page": "643", "article-title": "Phylogeny and early radiation of Mesozoic lissamphibians from East Asia", "volume-title": "Originations, Radiations and Biodiversity Changes-Evidence from the Chinese Fossil Record", "author": "Wang", "year": "2006" }, { "key": "2020011010262738200_bib85", "first-page": "60", "article-title": "Advances in the study of fossil amphibians and squamates from China: the past fifteen years", "volume": "44", "author": "Wang", "year": "2006", "journal-title": "Vertebr Palasiat" }, { "key": "2020011010262738200_bib86", "doi-asserted-by": "crossref", "first-page": "e69723", "DOI": "10.1371/journal.pone.0069723", "article-title": "Revision of anurans from the Lower Cretaceous Jehol Group of western Liaoning, China", "volume": "8", "author": "Dong", "year": "2013", "journal-title": "PloS ONE" }, { "key": "2020011010262738200_bib87", "doi-asserted-by": "crossref", "first-page": "574", "DOI": "10.1038/35069051", "article-title": "Late Jurassic salamanders from northern China", "volume": "410", "author": "Gao", "year": "2001", "journal-title": "Nature" }, { "key": "2020011010262738200_bib88", "doi-asserted-by": "crossref", "first-page": "551", "DOI": "10.1016/j.cretres.2008.10.004", "article-title": "A new Early Cretaceous salamander (Regalerpeton weichangensis gen. et sp. nov.) from the Huajiying Formation of northeastern China", "volume": "30", "author": "Zhang", "year": "2009", "journal-title": "Cretac Res" }, { "key": "2020011010262738200_bib89", "first-page": "120", "article-title": "A nearly complete skeleton of Ikechosaurus pijiagouensis sp. Nov. (Reptilia: Choristodera) from the Jiufotang Formation (Lower Cretaceous) of Liaoning, China", "volume": "42", "author": "Liu", "year": "2004", "journal-title": "Vertebr Palasiat" }, { "key": "2020011010262738200_bib90", "first-page": "427", "article-title": "A new choristodere (Reptilia: Diapsida) from the Lower Cretaceous of western Liaoning Province, China, and phylogenetic relationships of Monjurosuchidae", "volume": "145", "author": "Gao", "year": "2005", "journal-title": "Zool J" }, { "key": "2020011010262738200_bib91", "doi-asserted-by": "crossref", "first-page": "45", "DOI": "10.11646/zootaxa.2676.1.3", "article-title": "A new eucryptodiran turtle from the Early Cretaceous Jiufotang Formation of western Liaoning, China", "volume": "2676", "author": "Zhou", "year": "2010", "journal-title": "Zootaxa" }, { "key": "2020011010262738200_bib92", "doi-asserted-by": "crossref", "first-page": "57", "DOI": "10.11646/zootaxa.2534.1.4", "article-title": "A second specimen of Manchurochelys manchoukuoensis Ento and Shikama, 1942 (Testudines: Eucryptodira) from the Early Cretaceous Yixian Formation of western Liaoning, China", "volume": "2534", "author": "Zhou", "year": "2010", "journal-title": "Zootaxa" }, { "key": "2020011010262738200_bib93", "first-page": "725", "article-title": "The Early Cretaceous lizard Dalinghosaurus from China", "volume": "50", "author": "Evans", "year": "2005", "journal-title": "Acta Palaeontol Pol" }, { "key": "2020011010262738200_bib94", "doi-asserted-by": "crossref", "first-page": "319", "DOI": "10.1017/S1477201905001641", "article-title": "The Early Cretaceous lizard genus Yabeinosaurus from China: resolving an enigma", "volume": "3", "author": "Evans", "year": "2005", "journal-title": "J Syst Palaeontol" }, { "key": "2020011010262738200_bib95", "doi-asserted-by": "crossref", "first-page": "1983", "DOI": "10.1073/pnas.0707728105", "article-title": "Discovery of a rare arboreal forest-dwelling flying reptile (Pterosauria, Pterodactyloidea) from China", "volume": "105", "author": "Wang", "year": "2008", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib96", "doi-asserted-by": "crossref", "first-page": "249", "DOI": "10.1007/s00114-012-0889-1", "article-title": "New toothed flying reptile from Asia: close similarities between early Cretaceous pterosaur faunas from China and Brazil", "volume": "99", "author": "Wang", "year": "2012", "journal-title": "Naturwissenschaften" }, { "key": "2020011010262738200_bib97", "doi-asserted-by": "crossref", "first-page": "333", "DOI": "10.1038/nature07856", "article-title": "2009. An Early Cretaceous heterodontosaurid dinosaur with filamentous integumentary structures", "volume": "458", "author": "Zheng", "year": "2009", "journal-title": "Nature" }, { "key": "2020011010262738200_bib98", "first-page": "1369", "article-title": "First large tyrannosauroid theropod from the Early Cretaceous Jehol Biota in northeastern China", "volume": "28", "author": "Ji", "year": "2009", "journal-title": "Geol Bull China" }, { "key": "2020011010262738200_bib99", "doi-asserted-by": "crossref", "first-page": "92", "DOI": "10.1038/nature10906", "article-title": "A gigantic feathered dinosaur from the Lower Cretaceous of China", "volume": "484", "author": "Xu", "year": "2012", "journal-title": "Nature" }, { "key": "2020011010262738200_bib100", "doi-asserted-by": "crossref", "first-page": "335", "DOI": "10.1038/nature01342", "article-title": "Four-winged dinosaurs from China", "volume": "421", "author": "Xu", "year": "2003", "journal-title": "Nature" }, { "key": "2020011010262738200_bib101", "doi-asserted-by": "crossref", "first-page": "188", "DOI": "10.1080/02724634.2009.10010371", "article-title": "Phylogenetic support for a specialized clade of Cretaceous enantiornithine birds with information from a new species", "volume": "29", "author": "O'Connor", "year": "2009", "journal-title": "J Vertebr Paleontol" }, { "key": "2020011010262738200_bib102", "first-page": "31", "article-title": "A new diverse enantiornithine family (Bohaiornithidae fam. nov.) from the Lower Cretaceous of China with information from two new species", "volume": "52", "author": "Wang", "year": "2014", "journal-title": "Vertebr Palasiat" }, { "key": "2020011010262738200_bib103", "article-title": "New information on the evolution of rachis dominated tail feathers from a new basal enantiornithine (Aves: Ornithothoraces)", "volume-title": "Biol J Linn Soc", "author": "Wang" }, { "key": "2020011010262738200_bib104", "doi-asserted-by": "crossref", "first-page": "288", "DOI": "10.1038/nature05627", "article-title": "A new eutriconodont mammal and evolutionary development in early mammals", "volume": "446", "author": "Luo", "year": "2007", "journal-title": "Nature" }, { "key": "2020011010262738200_bib105", "doi-asserted-by": "crossref", "first-page": "181", "DOI": "10.1038/nature09921", "article-title": "Transitional mammalian middle ear from a new Cretaceous Jehol eutriconodont", "volume": "472", "author": "Meng", "year": "2011", "journal-title": "Nature" }, { "key": "2020011010262738200_bib106", "doi-asserted-by": "crossref", "first-page": "1908", "DOI": "10.1007/s11430-010-4098-5", "article-title": "Evolution of insect diversity in the Jehol Biota", "volume": "53", "author": "Zhang", "year": "2010", "journal-title": "Sci China Earth Sci" }, { "key": "2020011010262738200_bib107", "first-page": "7", "article-title": "A preliminary study of the Jehol flora from western Liaoning", "volume": "11", "author": "Wu", "year": "1999", "journal-title": "Palaeoworld" }, { "key": "2020011010262738200_bib108", "doi-asserted-by": "crossref", "first-page": "899", "DOI": "10.1126/science.1069439", "article-title": "Archaefructaceae, a new basal angiosperm family", "volume": "296", "author": "Sun", "year": "2002", "journal-title": "Science" }, { "key": "2020011010262738200_bib109", "doi-asserted-by": "crossref", "first-page": "369", "DOI": "10.1016/S1360-1385(03)00161-4", "article-title": "Archaefructus—angiosperm precursor or specialized early angiosperm?", "volume": "8", "author": "Friis", "year": "2003", "journal-title": "Trends Plant Sci" }, { "key": "2020011010262738200_bib110", "doi-asserted-by": "crossref", "first-page": "77", "DOI": "10.1007/s00606-003-0028-8", "article-title": "Sinocarpus decussatus gen. et sp. nov., a new angiosperm with basally syncarpous fruits from the Yixian Formation of Northeast China", "volume": "241", "author": "Leng", "year": "2003", "journal-title": "Plant Syst Evol" }, { "key": "2020011010262738200_bib111", "doi-asserted-by": "crossref", "first-page": "173", "DOI": "10.1007/s00606-006-0461-6", "article-title": "Angiosperm leaves associated with Sinocarpus infructescences from the Yixian Formation (mid-Early Cretaceous) of NE China", "volume": "262", "author": "Leng", "year": "2006", "journal-title": "Plant Syst Evol" }, { "key": "2020011010262738200_bib112", "doi-asserted-by": "crossref", "first-page": "192", "DOI": "10.1086/663276", "article-title": "Baikalophyllum lobatum and Rehezamites anisolobus: two seed plants with ‘cycadophyte’ foliage from the Early Cretaceous of eastern Asia reviewed", "volume": "173", "author": "Pott", "year": "2012", "journal-title": "Int J Plant Sci" }, { "key": "2020011010262738200_bib113", "first-page": "183", "article-title": "A new Early Cretaceous relative of Gnetales: Siphonospermum simplex gen. et sp. nov. from the Yixian Formation of Northeast China", "volume": "10", "author": "Rydin", "year": "2010", "journal-title": "Evol Biol" }, { "key": "2020011010262738200_bib114", "doi-asserted-by": "crossref", "first-page": "72", "DOI": "10.1186/1471-2148-13-72", "article-title": "Chengia laxispicata gen. et sp. nov., a new ephedroid plant from the Early Cretaceous Yixian Formation of western Liaoning, Northeast China: evolutionary, taxonomic, and biogeographic implications", "volume": "13", "author": "Yang", "year": "2013", "journal-title": "BMC Evol Biol" }, { "key": "2020011010262738200_bib115", "doi-asserted-by": "crossref", "first-page": "e53652", "DOI": "10.1371/journal.pone.0053652", "article-title": "The earliest fleshy cone of Ephedra from the Early Cretaceous Yixian Formation of Northeast China", "volume": "8", "author": "Yang", "year": "2013", "journal-title": "PLoS ONE" }, { "key": "2020011010262738200_bib116", "doi-asserted-by": "crossref", "first-page": "640", "DOI": "10.1038/nature08322", "article-title": "A pre-Archaeopteryx troodontid from China with long feathers on the metatarsus", "volume": "461", "author": "Hu", "year": "2009", "journal-title": "Nature" }, { "key": "2020011010262738200_bib117", "doi-asserted-by": "crossref", "first-page": "465", "DOI": "10.1038/nature10288", "article-title": "An Archaeopteryx-like theropod from China and the origin of Avialae", "volume": "475", "author": "Xu", "year": "2011", "journal-title": "Nature" }, { "key": "2020011010262738200_bib118", "doi-asserted-by": "crossref", "first-page": "1309", "DOI": "10.1126/science.1228753", "article-title": "Hind wings in basal birds and the evolution of leg feathers", "volume": "339", "author": "Zheng", "year": "2013", "journal-title": "Science" }, { "key": "2020011010262738200_bib119", "doi-asserted-by": "crossref", "first-page": "1338", "DOI": "10.1038/nature08965", "article-title": "Exceptional dinosaur fossils show ontogenetic development of early feathers", "volume": "464", "author": "Xu", "year": "2010", "journal-title": "Nature" }, { "key": "2020011010262738200_bib120", "doi-asserted-by": "crossref", "first-page": "832", "DOI": "10.1073/pnas.0810055106", "article-title": "A new feather type in a non-avian theropod and the early evolution of feathers", "volume": "106", "author": "Xu", "year": "2009", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib121", "doi-asserted-by": "crossref", "first-page": "766", "DOI": "10.1073/pnas.0912360107", "article-title": "The bird-like raptor Sinornithosaurus was venomous", "volume": "107", "author": "Gong", "year": "2009", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib122", "doi-asserted-by": "crossref", "first-page": "291", "DOI": "10.1038/nature00966", "article-title": "An unusual oviraptorosaurian dinosaur from China", "volume": "419", "author": "Xu", "year": "2002", "journal-title": "Nature" }, { "key": "2020011010262738200_bib123", "doi-asserted-by": "crossref", "first-page": "1955", "DOI": "10.1126/science.290.5498.1955", "article-title": "A primitive enantiornithine bird and the origin of feathers", "volume": "290", "author": "Zhang", "year": "2000", "journal-title": "Science" }, { "key": "2020011010262738200_bib124", "doi-asserted-by": "crossref", "first-page": "565", "DOI": "10.1111/j.1469-7580.2008.00880.x", "article-title": "Insight into diversity, body size, and morphological evolution from the largest Early Cretaceous enantiornithine bird", "volume": "212", "author": "Zhou", "year": "2008", "journal-title": "J Anat" }, { "key": "2020011010262738200_bib125", "first-page": "77", "article-title": "A subadult specimen of Pengornis and character evolution in Enantiornithes", "volume": "52", "author": "Hu", "year": "2014", "journal-title": "Vertebr Palasiat" }, { "key": "2020011010262738200_bib126", "doi-asserted-by": "crossref", "first-page": "18998", "DOI": "10.1073/pnas.0507106102", "article-title": "Discovery of a new ornithurine bird and its implication for Early Cretaceous avian radiation", "volume": "102", "author": "Zhou", "year": "2005", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib127", "doi-asserted-by": "crossref", "first-page": "17404", "DOI": "10.1073/pnas.1316979110", "article-title": "Unique caudal plumage of Jeholornis and complex tail evolution in early birds", "volume": "110", "author": "O'Connor", "year": "2013", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib128", "doi-asserted-by": "crossref", "first-page": "1116", "DOI": "10.1038/ncomms2104", "article-title": "Insight into the early evolution of the avian sternum from juvenile enantiornithines", "volume": "3", "author": "Zheng", "year": "2012", "journal-title": "Nat Commun" }, { "key": "2020011010262738200_bib129", "doi-asserted-by": "crossref", "first-page": "278", "DOI": "10.1126/science.1178501", "article-title": "Evolutionary development of the middle ear in Mesozoic therian mammals", "volume": "326", "author": "Ji", "year": "2009", "journal-title": "Science" }, { "key": "2020011010262738200_bib130", "doi-asserted-by": "crossref", "first-page": "572", "DOI": "10.1038/432572a", "article-title": "Pterosaur egg with a leathery shell", "volume": "432", "author": "Ji", "year": "2004", "journal-title": "Nature" }, { "key": "2020011010262738200_bib131", "doi-asserted-by": "crossref", "first-page": "1323", "DOI": "10.1016/j.cub.2014.04.054", "article-title": "Sexually dimorphic tridimensionally preserved pterosaurs and their eggs from China", "volume": "24", "author": "Wang", "year": "2014", "journal-title": "Curr Biol" }, { "key": "2020011010262738200_bib132", "doi-asserted-by": "crossref", "first-page": "875", "DOI": "10.1038/nature03982", "article-title": "Pterosaur diversity in Cretaceous terrestrial ecosystems in China", "volume": "437", "author": "Wang", "year": "2005", "journal-title": "Nature" }, { "key": "2020011010262738200_bib133", "doi-asserted-by": "crossref", "first-page": "405", "DOI": "10.1002/gj.1046", "article-title": "Pterosaur assemblages of the Jehol Biota and their implication for the Early Cretaceous pterosaur radiation", "volume": "41", "author": "Wang", "year": "2006", "journal-title": "Geol J" }, { "key": "2020011010262738200_bib134", "doi-asserted-by": "crossref", "first-page": "1243", "DOI": "10.1590/S0001-37652011000400011", "article-title": "A new ctenochasmatid pterosaur from the Lower Cretaceous, western Liaoning, China", "volume": "83", "author": "Jiang", "year": "2011", "journal-title": "An Acad Bras Cienc" }, { "key": "2020011010262738200_bib135", "doi-asserted-by": "crossref", "first-page": "355", "DOI": "10.1007/s12549-012-0110-8", "article-title": "A new species of Sinemys (Testudines: Cryptodira: Sinemydidae) from the Early Cretaceous of Inner Mongolia, China", "volume": "93", "author": "Tong", "year": "2013", "journal-title": "Palaeobiol Palaeoenv" }, { "key": "2020011010262738200_bib136", "doi-asserted-by": "crossref", "first-page": "85", "DOI": "10.1126/science.280.5360.85", "article-title": "Flower-associated Brachycera flies as fossil evidence for Jurassic angiosperm origins", "volume": "280", "author": "Ren", "year": "1998", "journal-title": "Science" }, { "key": "2020011010262738200_bib137", "first-page": "496", "article-title": "The diversity and host associations of Mesozoic giant fleas", "volume-title": "Natl Sci Rev", "author": "Huang", "year": "2014" }, { "key": "2020011010262738200_bib138", "doi-asserted-by": "crossref", "first-page": "625", "DOI": "10.1038/nature09811", "article-title": "A eudicot from the Early Cretaceous of China", "volume": "471", "author": "Sun", "year": "2011", "journal-title": "Nature" }, { "key": "2020011010262738200_bib139", "doi-asserted-by": "crossref", "first-page": "663", "DOI": "10.1029/1999PA900040", "article-title": "Onset of the mid-Cretaceous greenhouse in the Barremian-Aptian: igneous events and the biological, sedimentary, and geochemical responses", "volume": "14", "author": "Larson", "year": "1999", "journal-title": "Paleoceanography" }, { "key": "2020011010262738200_bib140", "doi-asserted-by": "crossref", "first-page": "123", "DOI": "10.1016/S0012-821X(03)00629-0", "article-title": "Impact origin for the greater Ontong Java Plateau?", "volume": "218", "author": "Ingle", "year": "2004", "journal-title": "Earth Planet Sci Lett" }, { "key": "2020011010262738200_bib141", "doi-asserted-by": "crossref", "first-page": "687", "DOI": "10.1130/G25624A.1", "article-title": "Mid-Cretaceous seafloor spreading pulse: fact or fiction?", "volume": "37", "author": "Seton", "year": "2009", "journal-title": "Geology" }, { "key": "2020011010262738200_bib142", "doi-asserted-by": "crossref", "first-page": "142", "DOI": "10.18814/epiiugs/2012/v35i1/013", "article-title": "Early-mid Cretaceous tectonic evolution of eastern Gondwana: from silicic LIP magmatism to continental rupture", "volume": "35", "author": "Bryan", "year": "2012", "journal-title": "Episodes" }, { "key": "2020011010262738200_bib143", "doi-asserted-by": "crossref", "first-page": "221", "DOI": "10.1016/j.palaeo.2013.05.017", "article-title": "Astrochronology for the Early Cretaceous Jehol Biota in northeastern China", "volume": "385", "author": "Wu", "year": "2013", "journal-title": "Palaeogeogr Palaeoclimatol Palaeoecol" }, { "key": "2020011010262738200_bib144", "first-page": "101", "article-title": "A choristoderan reptile from the Lower Cretaceous of Japan", "volume": "60", "author": "Evans", "year": "1999", "journal-title": "Spec Papers Palaeontol" }, { "key": "2020011010262738200_bib145", "first-page": "60", "article-title": "New data on the Jurassic freshwater fish fauna of northern Eurasia", "volume-title": "Proceedings of the International Meeting on Mesozoic Fishes, Systematics, Paleoenvironments and Biodiversity", "author": "Sychevskaya", "year": "2001" }, { "key": "2020011010262738200_bib146", "doi-asserted-by": "crossref", "first-page": "359", "DOI": "10.1017/S1477201906001933", "article-title": "A ceratopsian dinosaur Psittacosaurus sibiricus from the Early Cretaceous of West Siberia, Russia and its phylogenetic relationships", "volume": "4", "author": "Averianov", "year": "2006", "journal-title": "J Syst Paleontol" }, { "key": "2020011010262738200_bib147", "first-page": "57", "article-title": "Early Cretaceous birds and pterosaurs from the Sinuijui Series, and geographic extension of the Jehol Biota into the Korean Peninsula", "volume": "25", "author": "Gao", "year": "2009", "journal-title": "J Paleontol Soc Korea" }, { "key": "2020011010262738200_bib148", "doi-asserted-by": "crossref", "first-page": "13953", "DOI": "10.1029/92JB00648", "article-title": "Paleomagnetic constraints on the geodynamic history of the major blocks of China from the Permian to the Present", "volume": "97", "author": "Enkin", "year": "1992", "journal-title": "J Geophys Res" }, { "key": "2020011010262738200_bib149", "doi-asserted-by": "crossref", "first-page": "1197", "DOI": "10.1111/1475-4983.00282", "article-title": "Sauropod dinosaurs from the Lower Cretaceous of Eastern Asia: taxonomic and biogeographical implications", "volume": "45", "author": "Barrett", "year": "2002", "journal-title": "Palaeontology" }, { "key": "2020011010262738200_bib150", "doi-asserted-by": "crossref", "first-page": "24", "DOI": "10.1038/21790", "article-title": "A refugium for relicts", "volume": "400", "author": "Luo", "year": "1999", "journal-title": "Nature" }, { "key": "2020011010262738200_bib151", "first-page": "47", "article-title": "Paleogeography of the Berriasian-Barremian ages of the Early Cretaceous", "volume": "6", "author": "Zharkov", "year": "1998", "journal-title": "Stratigr Geol Correl" }, { "key": "2020011010262738200_bib152", "doi-asserted-by": "crossref", "first-page": "1", "DOI": "10.1130/0-8137-2332-9.1", "article-title": "Alternative global Cretaceous paleogeography", "volume-title": "Evolution of the Cretaceous Ocean-Climate System", "author": "Hay", "year": "1999" }, { "key": "2020011010262738200_bib153", "doi-asserted-by": "crossref", "first-page": "613", "DOI": "10.1098/rspb.2001.1921", "article-title": "An analysis of dinosaurian biogeography: evidence for the existence of vicariance and dispersal patterns caused by geological events", "volume": "269", "author": "Upchurch", "year": "2002", "journal-title": "Proc R Soc B" }, { "key": "2020011010262738200_bib154", "doi-asserted-by": "crossref", "first-page": "953", "DOI": "10.1038/35010199", "article-title": "A refugium for relicts?", "volume": "404", "author": "Manabe", "year": "2000", "journal-title": "Nature" }, { "key": "2020011010262738200_bib155", "doi-asserted-by": "crossref", "first-page": "392", "DOI": "10.1016/j.epsl.2009.08.023", "article-title": "Impact of Early Aptian carbon cycle perturbations on evolution of a marine shelf system in the Basque-Cantabrian Basin (Aralar, N Spain)", "volume": "287", "author": "Millán", "year": "2009", "journal-title": "Earth Planet Sci Lett" }, { "key": "2020011010262738200_bib156", "doi-asserted-by": "crossref", "first-page": "136", "DOI": "10.1016/j.earscirev.2013.11.001", "article-title": "Paleo-CO2 variation trends and the Cretaceous greenhouse climate", "volume": "129", "author": "Wang", "year": "2013", "journal-title": "Earth Sci Rev" }, { "key": "2020011010262738200_bib157", "doi-asserted-by": "crossref", "first-page": "69", "DOI": "10.1016/S0012-821X(04)00031-7", "article-title": "Altered carbon cycling and coupled changes in Early Cretaceous weathering patterns: evidence from integrated carbon isotope and sandstone records of the western Tethys", "volume": "220", "author": "Wortman", "year": "2004", "journal-title": "Earth Planet Sci Lett" }, { "key": "2020011010262738200_bib158", "doi-asserted-by": "crossref", "first-page": "352", "DOI": "10.1016/j.palaeo.2014.01.027", "article-title": "Fluctuation of organic carbon isotopes of the Lower Cretaceous in coastal southeastern China: terrestrial response to the Oceanic Anoxic Events (OAE1b)", "volume": "399", "author": "Hu", "year": "2014", "journal-title": "Palaeogeogr Palaeoclimatol Palaeoecol" }, { "key": "2020011010262738200_bib159", "doi-asserted-by": "crossref", "first-page": "576", "DOI": "10.1073/pnas.0902323106", "article-title": "Atmospheric CO2 concentrations during ancient greenhouse climates were similar to those predicted for A.D. 2100", "volume": "107", "author": "Breecker", "year": "2010", "journal-title": "Proc Natl Acad Sci USA" }, { "key": "2020011010262738200_bib160", "doi-asserted-by": "crossref", "first-page": "23", "DOI": "10.1016/j.epsl.2012.01.014", "article-title": "Evaluation of atmospheric carbon dioxide concentrations during the Cretaceous", "volume": "327–8", "author": "Hong", "year": "2012", "journal-title": "Earth Planet Sci Lett" }, { "key": "2020011010262738200_bib161", "doi-asserted-by": "crossref", "first-page": "1323", "DOI": "10.5194/cp-8-1323-2012", "article-title": "Drastic shrinking of the Hadley circulation during 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Rev." }, { "key": "BFncomms2781_CR7", "doi-asserted-by": "publisher", "first-page": "307", "DOI": "10.1017/S0305000900008813", "volume": "23", "author": "F Franco", "year": "1996", "unstructured": "Franco, F. & Butterworth, G. Pointing and social awareness: declaring and requesting in the second year. J. Child Lang. 23, 307–336 (1996) .", "journal-title": "J. Child Lang." }, { "key": "BFncomms2781_CR8", "doi-asserted-by": "publisher", "first-page": "813", "DOI": "10.1037/0012-1649.34.5.813", "volume": "34", "author": "DA Leavens", "year": "1998", "unstructured": "Leavens, D. A. & Hopkins, W. D. Intentional communication by chimpanzees: a cross-sectional study of the use of referential gestures. Dev. Psychol. 34, 813–822 (1998) .", "journal-title": "Dev. Psychol." }, { "key": "BFncomms2781_CR9", "doi-asserted-by": "publisher", "first-page": "291", "DOI": "10.1111/j.1467-8624.2005.00845.x", "volume": "76", "author": "DA Leavens", "year": "2005", "unstructured": "Leavens, D. 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To promote future conservation, molecular breeding, and comparative studies, we generated an improved high-quality chromosomal-level genome assembly of leopard coral grouper using Nanopore long-reads, Illumina short reads, and the Hi-C sequencing data. The draft genome is 849.74 Mb with 45 contigs and N50 of 35.59 Mb. Finally, a total of 846.49 Mb corresponding to 99.6% of the contig sequences was anchored to 24 pseudo-chromosomes using Hi-C technology. A final set of 25,965 genes is annotated after manual curation of the predicted gene models, and BUSCO analysis yielded a completeness score of 99.5%. 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