globalchange  > 气候变化与战略
DOI: 10.1073/pnas.1720554115
论文题名:
A comprehensive genomic history of extinct and living elephants
作者: Palkopoulou E.; Lipson M.; Mallick S.; Nielsen S.; Rohland N.; Baleka S.; Karpinski E.; Ivancevic A.M.; To T.-H.; Daniel Kortschak R.; Raison J.M.; Qu Z.; Chin T.-J.; Alt K.W.; Claesson S.; Dalén L.; MacPhee R.D.E.; Meller H.; Roca A.L.; Ryder O.A.; Heiman D.; Young S.; Breen M.; Williams C.; Aken B.L.; Ruffier M.; Karlsson E.; Johnson J.; Palma F.D.; Alfoldi J.; Adelson D.L.; Mailund T.; Munch K.; Lindblad-Toh K.; Hofreiter M.; Poinar H.; Reich D.
刊名: Proceedings of the National Academy of Sciences of the United States of America
ISSN: 0027-8424
出版年: 2018
卷: 115, 期:11
起始页码: E2566
结束页码: E2574
语种: 英语
英文关键词: Admixture ; Elephantid evolution ; Mammoth ; Paleogenomics ; Species divergence
Scopus关键词: Article ; elephant ; evolution ; extinct species ; gene flow ; genomics ; heredity ; interbreeding ; interspecific hybridization ; Loxodonta africana ; Loxodonta cyclotis ; Mammuthus columbi ; mastodon ; nonhuman ; Palaeoloxodon antiquus ; phylogeny ; population size ; population structure ; priority journal ; species diversity ; woolly mammoth ; animal ; classification ; elephant ; fossil ; genetics ; genome ; genomics ; history ; mammoth ; molecular evolution ; species extinction ; Animals ; Elephants ; Evolution, Molecular ; Extinction, Biological ; Fossils ; Gene Flow ; Genome ; Genomics ; History, Ancient ; Mammoths ; Mastodons ; Phylogeny
英文摘要: Elephantids are the world’s most iconic megafaunal family, yet there is no comprehensive genomic assessment of their relationships. We report a total of 14 genomes, including 2 from the American mastodon, which is an extinct elephantid relative, and 12 spanning all three extant and three extinct elephantid species including an ∼120,000-y-old straight-tusked elephant, a Columbian mammoth, and woolly mammoths. Earlier genetic studies modeled elephantid evolution via simple bifurcating trees, but here we show that interspecies hybridization has been a recurrent feature of elephantid evolution. We found that the genetic makeup of the straight-tusked elephant, previously placed as a sister group to African forest elephants based on lower coverage data, in fact comprises three major components. Most of the straight-tusked elephant’s ancestry derives from a lineage related to the ancestor of African elephants while its remaining ancestry consists of a large contribution from a lineage related to forest elephants and another related to mammoths. Columbian and woolly mammoths also showed evidence of interbreeding, likely following a latitudinal cline across North America. While hybridization events have shaped elephantid history in profound ways, isolation also appears to have played an important role. Our data reveal nearly complete isolation between the ancestors of the African forest and savanna elephants for ∼500,000 y, providing compelling justification for the conservation of forest and savanna elephants as separate species. © 2018 National Academy of Sciences. All Rights Reserved.
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资源类型: 期刊论文
标识符: http://119.78.100.158/handle/2HF3EXSE/163751
Appears in Collections:气候变化与战略

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作者单位: Palkopoulou, E., Department of Genetics, Harvard Medical School, Boston, MA 02115, United States, Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States; Lipson, M., Department of Genetics, Harvard Medical School, Boston, MA 02115, United States; Mallick, S., Department of Genetics, Harvard Medical School, Boston, MA 02115, United States, Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States; Nielsen, S., Bioinformatics Research Centre, Aarhus University, Aarhus, DK-8000, Denmark; Rohland, N., Department of Genetics, Harvard Medical School, Boston, MA 02115, United States; Baleka, S., Unit of General Zoology–Evolutionary Adaptive Genomics, Institute of Biochemistry and Biology, Faculty of Mathematics and Life Sciences, University of Potsdam, Potsdam, 14476, Germany; Karpinski, E., McMaster Ancient DNA Centre, Department of Anthropology, McMaster University, Hamilton, ON L8S 4L9, Canada, Department of Biology, McMaster University, Hamilton, ON L8S 4K1, Canada, Department of Biochemistry, McMaster University, Hamilton, ON L8S 4L8, Canada, Michael G. DeGroote Institute for Infectious Disease Research, McMaster University, Hamilton, ON L8S 4L8, Canada; Ivancevic, A.M., Department of Genetics and Evolution, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; To, T.-H., Department of Genetics and Evolution, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; Daniel Kortschak, R., Department of Genetics and Evolution, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; Raison, J.M., Department of Genetics and Evolution, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; Qu, Z., Department of Genetics and Evolution, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; Chin, T.-J., School of Computer Science, University of Adelaide5005 SA, Australia; Alt, K.W., Center of Natural and Cultural Human History, Danube Private University, Krems, A-3500, Austria, Department of Biomedical Engineering, University Hospital Basel, University of Basel, Basel, CH-4123, Switzerland, Integrative Prehistory and Archaeological Science, University of Basel, Basel, CH-4055, Switzerland; Claesson, S., Institute of Maritime History, Tall Timbers, MD 20690, United States; Dalén, L., Department of Bioinformatics and Genetics, Swedish Museum of Natural History, Stockholm, SE-10405, Sweden; MacPhee, R.D.E., Division of Vertebrate Zoology/ Mammalogy, American Museum of Natural History, New York, NY 10024, United States; Meller, H., State Office for Heritage Management and Archaeology, Halle (Saale), 06114, Germany; Roca, A.L., Department of Animal Sciences, University of Illinois at Urbana–Champaign, Urbana, IL 61801, United States, Institute for Genomic Biology, University of Illinois at Urbana–Champaign, Urbana, IL 61801, United States; Ryder, O.A., Institute for Conservation Research, San Diego Zoo, Escondido, CA 92027, United States; Heiman, D., Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States; Young, S., Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States; Breen, M., Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC 27607, United States; Williams, C., Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC 27607, United States; Aken, B.L., European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom, Wellcome Sanger Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom; Ruffier, M., European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom, Wellcome Sanger Institute, Hinxton, Cambridge, CB10 1SD, United Kingdom; Karlsson, E., Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States, Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA 01655, United States; Johnson, J., Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States; Palma, F.D., Earlham Institute, Norwich, NR4 7UZ, United Kingdom; Alfoldi, J., Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States; Adelson, D.L., Department of Genetics and Evolution, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; Mailund, T., Bioinformatics Research Centre, Aarhus University, Aarhus, DK-8000, Denmark; Munch, K., Bioinformatics Research Centre, Aarhus University, Aarhus, DK-8000, Denmark; Lindblad-Toh, K., Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States, Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, 751 23, Sweden; Hofreiter, M., Unit of General Zoology–Evolutionary Adaptive Genomics, Institute of Biochemistry and Biology, Faculty of Mathematics and Life Sciences, University of Potsdam, Potsdam, 14476, Germany; Poinar, H., McMaster Ancient DNA Centre, Department of Anthropology, McMaster University, Hamilton, ON L8S 4L9, Canada, Department of Biology, McMaster University, Hamilton, ON L8S 4K1, Canada, Department of Biochemistry, McMaster University, Hamilton, ON L8S 4L8, Canada, Michael G. DeGroote Institute for Infectious Disease Research, McMaster University, Hamilton, ON L8S 4L8, Canada; Reich, D., Department of Genetics, Harvard Medical School, Boston, MA 02115, United States, Broad Institute of MIT and Harvard, Cambridge, MA 02142, United States, Howard Hughes Medical Institute, Harvard Medical School, Boston, MA 02115, United States

Recommended Citation:
Palkopoulou E.,Lipson M.,Mallick S.,et al. A comprehensive genomic history of extinct and living elephants[J]. Proceedings of the National Academy of Sciences of the United States of America,2018-01-01,115(11)
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