Literature DB >> 25859046

Mountain gorilla genomes reveal the impact of long-term population decline and inbreeding.

Yali Xue1, Javier Prado-Martinez2, Peter H Sudmant3, Vagheesh Narasimhan1,4, Qasim Ayub1, Michal Szpak1, Peter Frandsen5, Yuan Chen1, Bryndis Yngvadottir1, David N Cooper6, Marc de Manuel2, Jessica Hernandez-Rodriguez2, Irene Lobon2, Hans R Siegismund5, Luca Pagani1,7, Michael A Quail1, Christina Hvilsom8, Antoine Mudakikwa9, Evan E Eichler3,10, Michael R Cranfield11, Tomas Marques-Bonet2,12, Chris Tyler-Smith1, Aylwyn Scally13.   

Abstract

Mountain gorillas are an endangered great ape subspecies and a prominent focus for conservation, yet we know little about their genomic diversity and evolutionary past. We sequenced whole genomes from multiple wild individuals and compared the genomes of all four Gorilla subspecies. We found that the two eastern subspecies have experienced a prolonged population decline over the past 100,000 years, resulting in very low genetic diversity and an increased overall burden of deleterious variation. A further recent decline in the mountain gorilla population has led to extensive inbreeding, such that individuals are typically homozygous at 34% of their sequence, leading to the purging of severely deleterious recessive mutations from the population. We discuss the causes of their decline and the consequences for their future survival.
Copyright © 2015, American Association for the Advancement of Science.

Entities:  

Mesh:

Year:  2015        PMID: 25859046      PMCID: PMC4668944          DOI: 10.1126/science.aaa3952

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  12 in total

1.  Inbreeding avoidance in animals.

Authors:  A Pusey; M Wolf
Journal:  Trends Ecol Evol       Date:  1996-05       Impact factor: 17.712

2.  How Ebola impacts genetics of Western lowland gorilla populations.

Authors:  Pascaline J Le Gouar; Dominique Vallet; Laetitia David; Magdalena Bermejo; Sylvain Gatti; Florence Levréro; Eric J Petit; Nelly Ménard
Journal:  PLoS One       Date:  2009-12-18       Impact factor: 3.240

3.  Mitochondrial DNA variation and biogeography of eastern gorillas.

Authors:  M I Jensen-Seaman; K K Kidd
Journal:  Mol Ecol       Date:  2001-09       Impact factor: 6.185

4.  Recent divergences and size decreases of eastern gorilla populations.

Authors:  Justin Roy; Mimi Arandjelovic; Brenda J Bradley; Katerina Guschanski; Colleen R Stephens; Dan Bucknell; Henry Cirhuza; Chifundera Kusamba; Jean Claude Kyungu; Vince Smith; Martha M Robbins; Linda Vigilant
Journal:  Biol Lett       Date:  2014-11       Impact factor: 3.703

5.  Mitochondrial DNA diversity in gorillas.

Authors:  K J Garner; O A Ryder
Journal:  Mol Phylogenet Evol       Date:  1996-08       Impact factor: 4.286

6.  Inference of human population history from individual whole-genome sequences.

Authors:  Heng Li; Richard Durbin
Journal:  Nature       Date:  2011-07-13       Impact factor: 49.962

7.  Insights into hominid evolution from the gorilla genome sequence.

Authors:  Aylwyn Scally; Julien Y Dutheil; LaDeana W Hillier; Gregory E Jordan; Ian Goodhead; Javier Herrero; Asger Hobolth; Tuuli Lappalainen; Thomas Mailund; Tomas Marques-Bonet; Shane McCarthy; Stephen H Montgomery; Petra C Schwalie; Y Amy Tang; Michelle C Ward; Yali Xue; Bryndis Yngvadottir; Can Alkan; Lars N Andersen; Qasim Ayub; Edward V Ball; Kathryn Beal; Brenda J Bradley; Yuan Chen; Chris M Clee; Stephen Fitzgerald; Tina A Graves; Yong Gu; Paul Heath; Andreas Heger; Emre Karakoc; Anja Kolb-Kokocinski; Gavin K Laird; Gerton Lunter; Stephen Meader; Matthew Mort; James C Mullikin; Kasper Munch; Timothy D O'Connor; Andrew D Phillips; Javier Prado-Martinez; Anthony S Rogers; Saba Sajjadian; Dominic Schmidt; Katy Shaw; Jared T Simpson; Peter D Stenson; Daniel J Turner; Linda Vigilant; Albert J Vilella; Weldon Whitener; Baoli Zhu; David N Cooper; Pieter de Jong; Emmanouil T Dermitzakis; Evan E Eichler; Paul Flicek; Nick Goldman; Nicholas I Mundy; Zemin Ning; Duncan T Odom; Chris P Ponting; Michael A Quail; Oliver A Ryder; Stephen M Searle; Wesley C Warren; Richard K Wilson; Mikkel H Schierup; Jane Rogers; Chris Tyler-Smith; Richard Durbin
Journal:  Nature       Date:  2012-03-07       Impact factor: 49.962

8.  Great ape genetic diversity and population history.

Authors:  Javier Prado-Martinez; Peter H Sudmant; Jeffrey M Kidd; Heng Li; Joanna L Kelley; Belen Lorente-Galdos; Krishna R Veeramah; August E Woerner; Timothy D O'Connor; Gabriel Santpere; Alexander Cagan; Christoph Theunert; Ferran Casals; Hafid Laayouni; Kasper Munch; Asger Hobolth; Anders E Halager; Maika Malig; Jessica Hernandez-Rodriguez; Irene Hernando-Herraez; Kay Prüfer; Marc Pybus; Laurel Johnstone; Michael Lachmann; Can Alkan; Dorina Twigg; Natalia Petit; Carl Baker; Fereydoun Hormozdiari; Marcos Fernandez-Callejo; Marc Dabad; Michael L Wilson; Laurie Stevison; Cristina Camprubí; Tiago Carvalho; Aurora Ruiz-Herrera; Laura Vives; Marta Mele; Teresa Abello; Ivanela Kondova; Ronald E Bontrop; Anne Pusey; Felix Lankester; John A Kiyang; Richard A Bergl; Elizabeth Lonsdorf; Simon Myers; Mario Ventura; Pascal Gagneux; David Comas; Hans Siegismund; Julie Blanc; Lidia Agueda-Calpena; Marta Gut; Lucinda Fulton; Sarah A Tishkoff; James C Mullikin; Richard K Wilson; Ivo G Gut; Mary Katherine Gonder; Oliver A Ryder; Beatrice H Hahn; Arcadi Navarro; Joshua M Akey; Jaume Bertranpetit; David Reich; Thomas Mailund; Mikkel H Schierup; Christina Hvilsom; Aida M Andrés; Jeffrey D Wall; Carlos D Bustamante; Michael F Hammer; Evan E Eichler; Tomas Marques-Bonet
Journal:  Nature       Date:  2013-07-03       Impact factor: 49.962

9.  The complete genome sequence of a Neanderthal from the Altai Mountains.

Authors:  Kay Prüfer; Fernando Racimo; Nick Patterson; Flora Jay; Sriram Sankararaman; Susanna Sawyer; Anja Heinze; Gabriel Renaud; Peter H Sudmant; Cesare de Filippo; Heng Li; Swapan Mallick; Michael Dannemann; Qiaomei Fu; Martin Kircher; Martin Kuhlwilm; Michael Lachmann; Matthias Meyer; Matthias Ongyerth; Michael Siebauer; Christoph Theunert; Arti Tandon; Priya Moorjani; Joseph Pickrell; James C Mullikin; Samuel H Vohr; Richard E Green; Ines Hellmann; Philip L F Johnson; Hélène Blanche; Howard Cann; Jacob O Kitzman; Jay Shendure; Evan E Eichler; Ed S Lein; Trygve E Bakken; Liubov V Golovanova; Vladimir B Doronichev; Michael V Shunkov; Anatoli P Derevianko; Bence Viola; Montgomery Slatkin; David Reich; Janet Kelso; Svante Pääbo
Journal:  Nature       Date:  2013-12-18       Impact factor: 49.962

10.  Personalized copy number and segmental duplication maps using next-generation sequencing.

Authors:  Can Alkan; Jeffrey M Kidd; Tomas Marques-Bonet; Gozde Aksay; Francesca Antonacci; Fereydoun Hormozdiari; Jacob O Kitzman; Carl Baker; Maika Malig; Onur Mutlu; S Cenk Sahinalp; Richard A Gibbs; Evan E Eichler
Journal:  Nat Genet       Date:  2009-08-30       Impact factor: 38.330

View more
  99 in total

Review 1.  The Y chromosomes of the great apes.

Authors:  Pille Hallast; Mark A Jobling
Journal:  Hum Genet       Date:  2017-03-06       Impact factor: 4.132

2.  Inferring Individual Inbreeding and Demographic History from Segments of Identity by Descent in Ficedula Flycatcher Genome Sequences.

Authors:  Marty Kardos; Anna Qvarnström; Hans Ellegren
Journal:  Genetics       Date:  2017-01-18       Impact factor: 4.562

3.  Purging of Strongly Deleterious Mutations Explains Long-Term Persistence and Absence of Inbreeding Depression in Island Foxes.

Authors:  Jacqueline A Robinson; Caitlin Brown; Bernard Y Kim; Kirk E Lohmueller; Robert K Wayne
Journal:  Curr Biol       Date:  2018-10-25       Impact factor: 10.834

Review 4.  The impact of recent population history on the deleterious mutation load in humans and close evolutionary relatives.

Authors:  Yuval B Simons; Guy Sella
Journal:  Curr Opin Genet Dev       Date:  2016-10-13       Impact factor: 5.578

5.  ENGAGING NATIVE AMERICANS IN GENOMICS RESEARCH.

Authors:  Ripan S Malhi; Alyssa Bader
Journal:  Am Anthropol       Date:  2015-12-04

6.  Inferring the Demographic History of Inbred Species from Genome-Wide SNP Frequency Data.

Authors:  Paul D Blischak; Michael S Barker; Ryan N Gutenkunst
Journal:  Mol Biol Evol       Date:  2020-07-01       Impact factor: 16.240

7.  Compensatory epistasis explored by molecular dynamics simulations.

Authors:  Sérgio F Sousa; Luísa Azevedo; Catarina Serrano; Carla S S Teixeira; David N Cooper; João Carneiro; Mónica Lopes-Marques; Peter D Stenson; António Amorim; Maria J Prata
Journal:  Hum Genet       Date:  2021-06-26       Impact factor: 4.132

8.  Survival and divergence in a small group: The extraordinary genomic history of the endangered Apennine brown bear stragglers.

Authors:  Andrea Benazzo; Emiliano Trucchi; James A Cahill; Pierpaolo Maisano Delser; Stefano Mona; Matteo Fumagalli; Lynsey Bunnefeld; Luca Cornetti; Silvia Ghirotto; Matteo Girardi; Lino Ometto; Alex Panziera; Omar Rota-Stabelli; Enrico Zanetti; Alexandros Karamanlidis; Claudio Groff; Ladislav Paule; Leonardo Gentile; Carles Vilà; Saverio Vicario; Luigi Boitani; Ludovic Orlando; Silvia Fuselli; Cristiano Vernesi; Beth Shapiro; Paolo Ciucci; Giorgio Bertorelle
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-24       Impact factor: 11.205

9.  Morphology and genome of a snailfish from the Mariana Trench provide insights into deep-sea adaptation.

Authors:  Kun Wang; Yanjun Shen; Yongzhi Yang; Xiaoni Gan; Guichun Liu; Kuang Hu; Yongxin Li; Zhaoming Gao; Li Zhu; Guoyong Yan; Lisheng He; Xiujuan Shan; Liandong Yang; Suxiang Lu; Honghui Zeng; Xiangyu Pan; Chang Liu; Yuan Yuan; Chenguang Feng; Wenjie Xu; Chenglong Zhu; Wuhan Xiao; Yang Dong; Wen Wang; Qiang Qiu; Shunping He
Journal:  Nat Ecol Evol       Date:  2019-04-15       Impact factor: 15.460

Review 10.  Runs of homozygosity: windows into population history and trait architecture.

Authors:  Francisco C Ceballos; Peter K Joshi; David W Clark; Michèle Ramsay; James F Wilson
Journal:  Nat Rev Genet       Date:  2018-01-15       Impact factor: 53.242

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.