Literature DB >> 32569794

Broadening primate genomics: new insights into the ecology and evolution of primate gene regulation.

Jordan A Anderson1, Tauras P Vilgalys2, Jenny Tung3.   

Abstract

Comparative analyses have played a key role in understanding how gene regulatory evolution contributes to primate phenotypic diversity. Recently, these studies have expanded to include a wider range of species, within-population as well as interspecific analyses, and research on wild as well as captive individuals. This expansion provides context for understanding genetic and environmental effects on gene regulation in humans, including the importance of the pathogen and social environments. Although taxonomic representation remains biased, inclusion of more species has also begun to reveal the evolutionary processes that explain whether and when gene regulation is conserved. Together, this work highlights how studies in other primates contribute to understanding evolution in our own lineage, and we conclude by identifying promising avenues for future work.
Copyright © 2020 Elsevier Ltd. All rights reserved.

Entities:  

Year:  2020        PMID: 32569794      PMCID: PMC7483836          DOI: 10.1016/j.gde.2020.05.009

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN: 0959-437X            Impact factor:   5.578


  62 in total

1.  Genome-wide quantification of the effects of DNA methylation on human gene regulation.

Authors:  Amanda J Lea; Christopher M Vockley; Rachel A Johnston; Christina A Del Carpio; Luis B Barreiro; Timothy E Reddy; Jenny Tung
Journal:  Elife       Date:  2018-12-21       Impact factor: 8.140

2.  Comparative RNA sequencing reveals substantial genetic variation in endangered primates.

Authors:  George H Perry; Páll Melsted; John C Marioni; Ying Wang; Russell Bainer; Joseph K Pickrell; Katelyn Michelini; Sarah Zehr; Anne D Yoder; Matthew Stephens; Jonathan K Pritchard; Yoav Gilad
Journal:  Genome Res       Date:  2011-12-29       Impact factor: 9.043

3.  Social regulation of the lymph node transcriptome in rhesus macaques (Macaca mulatta).

Authors:  K Chun; J P Capitanio; D M Lamkin; E K Sloan; J M G Arevalo; S W Cole
Journal:  Psychoneuroendocrinology       Date:  2016-11-14       Impact factor: 4.905

4.  Human genomics. The human transcriptome across tissues and individuals.

Authors:  Marta Melé; Pedro G Ferreira; Ferran Reverter; David S DeLuca; Jean Monlong; Michael Sammeth; Taylor R Young; Jakob M Goldmann; Dmitri D Pervouchine; Timothy J Sullivan; Rory Johnson; Ayellet V Segrè; Sarah Djebali; Anastasia Niarchou; Fred A Wright; Tuuli Lappalainen; Miquel Calvo; Gad Getz; Emmanouil T Dermitzakis; Kristin G Ardlie; Roderic Guigó
Journal:  Science       Date:  2015-05-08       Impact factor: 47.728

5.  Enhancer evolution across 20 mammalian species.

Authors:  Diego Villar; Camille Berthelot; Sarah Aldridge; Tim F Rayner; Margus Lukk; Miguel Pignatelli; Thomas J Park; Robert Deaville; Jonathan T Erichsen; Anna J Jasinska; James M A Turner; Mads F Bertelsen; Elizabeth P Murchison; Paul Flicek; Duncan T Odom
Journal:  Cell       Date:  2015-01-29       Impact factor: 41.582

6.  The population genomics of rhesus macaques (Macaca mulatta) based on whole-genome sequences.

Authors:  Cheng Xue; Muthuswamy Raveendran; R Alan Harris; Gloria L Fawcett; Xiaoming Liu; Simon White; Mahmoud Dahdouli; David Rio Deiros; Jennifer E Below; William Salerno; Laura Cox; Guoping Fan; Betsy Ferguson; Julie Horvath; Zach Johnson; Sree Kanthaswamy; H Michael Kubisch; Dahai Liu; Michael Platt; David G Smith; Binghua Sun; Eric J Vallender; Feng Wang; Roger W Wiseman; Rui Chen; Donna M Muzny; Richard A Gibbs; Fuli Yu; Jeffrey Rogers
Journal:  Genome Res       Date:  2016-10-17       Impact factor: 9.043

7.  Ultrarare variants drive substantial cis heritability of human gene expression.

Authors:  Ryan D Hernandez; Lawrence H Uricchio; Kevin Hartman; Chun Ye; Andrew Dahl; Noah Zaitlen
Journal:  Nat Genet       Date:  2019-09-02       Impact factor: 38.330

8.  Dominance rank-associated gene expression is widespread, sex-specific, and a precursor to high social status in wild male baboons.

Authors:  Amanda J Lea; Mercy Y Akinyi; Ruth Nyakundi; Peter Mareri; Fred Nyundo; Thomas Kariuki; Susan C Alberts; Elizabeth A Archie; Jenny Tung
Journal:  Proc Natl Acad Sci U S A       Date:  2018-12-11       Impact factor: 11.205

9.  Viruses are a dominant driver of protein adaptation in mammals.

Authors:  David Enard; Le Cai; Carina Gwennap; Dmitri A Petrov
Journal:  Elife       Date:  2016-05-17       Impact factor: 8.140

10.  IMAGE: high-powered detection of genetic effects on DNA methylation using integrated methylation QTL mapping and allele-specific analysis.

Authors:  Yue Fan; Tauras P Vilgalys; Shiquan Sun; Qinke Peng; Jenny Tung; Xiang Zhou
Journal:  Genome Biol       Date:  2019-10-24       Impact factor: 13.583

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  1 in total

1.  Positive Selection in Gene Regulatory Factors Suggests Adaptive Pleiotropic Changes During Human Evolution.

Authors:  Vladimir M Jovanovic; Melanie Sarfert; Carlos S Reyna-Blanco; Henrike Indrischek; Dulce I Valdivia; Ekaterina Shelest; Katja Nowick
Journal:  Front Genet       Date:  2021-05-17       Impact factor: 4.599

  1 in total

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