Evidence map›Paper›PMID 29483247›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2018

A comprehensive genomic history of extinct and living elephants.

Eleftheria Palkopoulou, Mark Lipson, Swapan Mallick, Svend Nielsen, Nadin Rohland, Sina Baleka, Emil Karpinski, Atma M Ivancevic, Thu-Hien To, R Daniel Kortschak and 27 more

Abstract readHistorical Article
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 84 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
84citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

84 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
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  11. Ancient DNA fromiScience · 2025
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  18. Reconciling Species Concepts: An Ecological Perspective.American journal of biological anthropology · 2025
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24 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

37 authors.

Eleftheria PalkopoulouDepartment of Genetics, Harvard Medical School, Boston, MA 02115; elle.palkopoulou@gmail.com reich@genetics.med.harvard.edu.
Mark LipsonDepartment of Genetics, Harvard Medical School, Boston, MA 02115.
Swapan MallickDepartment of Genetics, Harvard Medical School, Boston, MA 02115.
Svend NielsenBioinformatics Research Centre, Aarhus University, DK-8000 Aarhus, Denmark.
Nadin RohlandDepartment of Genetics, Harvard Medical School, Boston, MA 02115.
Sina BalekaUnit of General Zoology-Evolutionary Adaptive Genomics, Institute of Biochemistry and Biology, Faculty of Mathematics and Life Sciences, University of Potsdam, 14476 Potsdam, Germany.
Emil KarpinskiMcMaster Ancient DNA Centre, Department of Anthropology, McMaster University, Hamilton, ON L8S 4L9, Canada.
Atma M IvancevicDepartment of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, 5005 SA, Australia.
Thu-Hien ToDepartment of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, 5005 SA, Australia.
R Daniel KortschakDepartment of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, 5005 SA, Australia.
Joy M RaisonDepartment of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, 5005 SA, Australia.
Zhipeng QuDepartment of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, 5005 SA, Australia.
Tat-Jun ChinSchool of Computer Science, The University of Adelaide, 5005 SA, Australia.
Kurt W AltCenter of Natural and Cultural Human History, Danube Private University, A-3500 Krems, Austria.
Stefan ClaessonInstitute of Maritime History, Tall Timbers, MD 20690.
Love DalénDepartment of Bioinformatics and Genetics, Swedish Museum of Natural History, SE-10405 Stockholm, Sweden.
Ross D E MacPheeDivision of Vertebrate Zoology/Mammalogy, American Museum of Natural History, New York, NY 10024.ORCID 0000-0003-0688-0232
Harald MellerState Office for Heritage Management and Archaeology, 06114 Halle (Saale), Germany.
Alfred L RocaDepartment of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801.
Oliver A RyderInstitute for Conservation Research, San Diego Zoo, Escondido, CA 92027.
David HeimanBroad Institute of MIT and Harvard, Cambridge, MA 02142.
Sarah YoungBroad Institute of MIT and Harvard, Cambridge, MA 02142.
Matthew BreenDepartment of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC 27607.
Christina WilliamsDepartment of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC 27607.
Bronwen L AkenEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, CB10 1SD Cambridge, United Kingdom.
Magali RuffierEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, CB10 1SD Cambridge, United Kingdom.
Elinor KarlssonBroad Institute of MIT and Harvard, Cambridge, MA 02142.
Jeremy JohnsonBroad Institute of MIT and Harvard, Cambridge, MA 02142.
Federica Di PalmaEarlham Institute, NR4 7UZ Norwich, United Kingdom.
Jessica AlfoldiBroad Institute of MIT and Harvard, Cambridge, MA 02142.
David L AdelsonDepartment of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, 5005 SA, Australia.ORCID 0000-0003-2404-5636
Thomas MailundBioinformatics Research Centre, Aarhus University, DK-8000 Aarhus, Denmark.
Kasper MunchBioinformatics Research Centre, Aarhus University, DK-8000 Aarhus, Denmark.
Kerstin Lindblad-TohBroad Institute of MIT and Harvard, Cambridge, MA 02142.
Michael HofreiterUnit of General Zoology-Evolutionary Adaptive Genomics, Institute of Biochemistry and Biology, Faculty of Mathematics and Life Sciences, University of Potsdam, 14476 Potsdam, Germany.
Hendrik PoinarMcMaster Ancient DNA Centre, Department of Anthropology, McMaster University, Hamilton, ON L8S 4L9, Canada.
David ReichDepartment of Genetics, Harvard Medical School, Boston, MA 02115; elle.palkopoulou@gmail.com reich@genetics.med.harvard.edu.

Funding

Large Scale Sequencing and Analysis of GenomesU54HG003067 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI GABRIEL, STACEY, LANDER, ERIC S · 2004 to 2015
$568.6M
Population mixture in evolutionary and medical geneticsR01GM100233 · NIGMS · HARVARD MEDICAL SCHOOL · PI PATTERSON, NICK J, REICH, DAVID E · 2012 to 2019
$2.7M
Howard Hughes Medical InstituteNHGRI NIH HHS U54 HG003067NIGMS NIH HHS R01 GM100233Wellcome TrustWellcome Trust WT098051Wellcome Trust WT108749/Z/15/Z
6 · The paper itself

Abstract

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.

Indexed as

AnimalsElephantsEvolution, MolecularExtinction, BiologicalFossilsGene FlowGenomeGenomicsHistory, AncientMammothsMastodonsPhylogenyadmixtureelephantid evolutionmammothpaleogenomicsspecies divergence

Identifiers

PMID29483247
PMCPMC5856550

What OpenQuestion holds

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.