Evidence map›Paper›PMID 31628318›Full record

ArticleNature communications2019

Puma genomes from North and South America provide insights into the genomic consequences of inbreeding.

Nedda F Saremi, Megan A Supple, Ashley Byrne, James A Cahill, Luiz Lehmann Coutinho, Love Dalén, Henrique V Figueiró, Warren E Johnson, Heather J Milne, Stephen J O'Brien and 13 more

Erratum issuedOpen access · goldAbstract read
In one paragraph

Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 56 papers.

0numbers the graph read from it
0cells of the map it votes in
56citing papers in PubMed
14.2field-weighted citation impact, top 1% of its field
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

56 citing papers in PubMed, 140 citations in OpenAlex.

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  6. Methylation-associated mutagenesis underlies variation in the mutation spectrum across eukaryotes.Proceedings of the National Academy of Sciences of the United States of America · 2026
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  9. Improved Bayesian inference of hybrids using genome sequences.bioRxiv : the preprint server for biology · 2025
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  14. Article
  15. Genetic rescue of Florida panthers reduced homozygosity but did not swamp ancestral genotypes.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  16. Article
  17. Article
  18. Natural dispersal is better than translocation for reducing risks of inbreeding depression in eastern black rhinoceros (Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  19. Article
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

23 authors at 11 institutions in 4 countries.

Nedda F Saremi *Department of Biomolecular Engineering, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.ORCID http://orcid.org/0000-0003-2023-1212
Megan A Supple *Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
Ashley ByrneDepartment of Molecular, Cell, and Developmental Biology, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
James A CahillDepartment of Ecology and Evolutionary Biology, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.ORCID http://orcid.org/0000-0002-7145-0215
Luiz Lehmann CoutinhoLaboratório de Biotecnologia Animal, Departamento de Zootecnia, ESALQ, Universidade de São Paulo, Caixa Postal 09, Piracicaba, SP, 13418-900, Brazil.
Love DalénDepartment of Bioinformatics and Genetics, Swedish Museum of Natural History, P.O. Box 50007, Stockholm, 10405, Sweden.
Henrique V FigueiróEscola de Ciências, Pontifical Catholic University of Rio Grande do Sul, Avenida Ipiranga, 6681-Partenon, Porto Alegre-RS, 90619-900, Brazil.
Warren E JohnsonSmithsonian Conservation Biology Institute, Smithsonian Institution, 600 Maryland Avenue SW, Washington, DC, 20002, USA.ORCID http://orcid.org/0000-0002-5954-186X
Heather J MilneDepartment of Ecology and Evolutionary Biology, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
Stephen J O'BrienTheodosius Dobzhansky Center for Genome Bioinformatics, Saint Petersburg State University, 41 Sredniy Prospekt, Saint Petersburg, 199004, Russia.
Brendan O'ConnellDepartment of Biomolecular Engineering, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
David P OnoratoFish and Wildlife Research Institute, Florida Fish and Wildlife Conservation Commission, 298 Sabal Palm Road, Naples, FL, 34114, USA.ORCID http://orcid.org/0000-0002-4716-6847
Seth P D RileySanta Monica Mountains National Recreation Area, 401 West Hillcrest Drive, Thousand Oaks, CA, 91360, USA.
Jeff A SikichSanta Monica Mountains National Recreation Area, 401 West Hillcrest Drive, Thousand Oaks, CA, 91360, USA.
Daniel R StahlerYellowstone Center for Resources, P.O. Box 168, Yellowstone National Park, WY, 82190, USA.
Priscilla Marqui Schmidt VillelaEcoMol Consultoria e Projetos, Avenida Limeira, 1131- Areiao, Piracicaba-SP, Brazil.
Christopher VollmersDepartment of Biomolecular Engineering, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
Robert K WayneDepartment of Ecology and Evolutionary Biology, University of California, Los Angeles, 610 Charles E. Young Drive South, Los Angeles, CA, 90095-1601, USA.
Eduardo EizirikEscola de Ciências, Pontifical Catholic University of Rio Grande do Sul, Avenida Ipiranga, 6681-Partenon, Porto Alegre-RS, 90619-900, Brazil.ORCID http://orcid.org/0000-0002-9658-0999
Russell B Corbett-DetigDepartment of Biomolecular Engineering, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
Richard E GreenDepartment of Biomolecular Engineering, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
Christopher C WilmersEnvironmental Studies Department, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA.
Beth ShapiroDepartment of Ecology and Evolutionary Biology, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA, 95064, USA. beth.shapiro@gmail.com.
University of California, Santa Cruz · USPontifícia Universidade Católica do Rio Grande do Sul · BRUniversity of California, Los Angeles · USElabora Consultoria (Brazil) · BRFlorida Fish and Wildlife Conservation Commission · USHoward Hughes Medical Institute · USSmithsonian Institution · USSt Petersburg University · RUSwedish Museum of Natural History · SEUniversidade de São Paulo · BRYellowstone Ecological Research Center · US

Funding

Origins, Functional, and Evolutionary Consequences of Genomic VariationR35GM128932 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI Russell Corbett-Detig · 2018 to 2026
$3.2M
UC Santa Cruz Training Program In Genomic SciencesT32HG008345 · NHGRI · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI BROOKS, ANGELA NORIE, GREEN, RICHARD EDWARD · 2015 to 2020
$1.4M
NHGRI NIH HHS T32 HG008345NIGMS NIH HHS R35 GM128932
6 · The paper itself

Abstract

Pumas are the most widely distributed felid in the Western Hemisphere. Increasingly, however, human persecution and habitat loss are isolating puma populations. To explore the genomic consequences of this isolation, we assemble a draft puma genome and a geographically broad panel of resequenced individuals. We estimate that the lineage leading to present-day North American pumas diverged from South American lineages 300-100 thousand years ago. We find signatures of close inbreeding in geographically isolated North American populations, but also that tracts of homozygosity are rarely shared among these populations, suggesting that assisted gene flow would restore local genetic diversity. The genome of a Florida panther descended from translocated Central American individuals has long tracts of homozygosity despite recent outbreeding. This suggests that while translocations may introduce diversity, sustaining diversity in small and isolated populations will require either repeated translocations or restoration of landscape connectivity. Our approach provides a framework for genome-wide analyses that can be applied to the management of similarly small and isolated populations.

Indexed as

AnimalsGene FlowGenetics, PopulationGenetic VariationGenome-Wide Association StudyGenomicsGeographyInbreedingNorth AmericaPhylogenyPumaSouth America

Identifiers

PMID31628318
PMCPMC6800433
OpenAlexW2980952114

What OpenQuestion holds

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Registered trials

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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.