Literature DB >> 29680748

The Evolution of Gene Expression in cis and trans.

Sarah A Signor1, Sergey V Nuzhdin2.   

Abstract

There is abundant variation in gene expression between individuals, populations, and species. The evolution of gene regulation and expression within and between species is thought to frequently contribute to adaptation. Yet considerable evidence suggests that the primary evolutionary force acting on variation in gene expression is stabilizing selection. We review here the results of recent studies characterizing the evolution of gene expression occurring in cis (via linked polymorphisms) or in trans (through diffusible products of other genes) and their contribution to adaptation and response to the environment. We review the evidence for buffering of variation in gene expression at the level of both transcription and translation, and the possible mechanisms for this buffering. Lastly, we summarize unresolved questions about the evolution of gene regulation.
Copyright © 2018 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  buffering; cis; regulatory evolution; stabilizing selection; trans

Mesh:

Year:  2018        PMID: 29680748      PMCID: PMC6094946          DOI: 10.1016/j.tig.2018.03.007

Source DB:  PubMed          Journal:  Trends Genet        ISSN: 0168-9525            Impact factor:   11.639


  102 in total

1.  Emerging principles of regulatory evolution.

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2.  High-resolution mapping of cis-regulatory variation in budding yeast.

Authors:  Ryosuke Kita; Sandeep Venkataram; Yiqi Zhou; Hunter B Fraser
Journal:  Proc Natl Acad Sci U S A       Date:  2017-11-28       Impact factor: 11.205

Review 3.  The role of regulatory variation in complex traits and disease.

Authors:  Frank W Albert; Leonid Kruglyak
Journal:  Nat Rev Genet       Date:  2015-02-24       Impact factor: 53.242

4.  Interchromosomal communication coordinates intrinsically stochastic expression between alleles.

Authors:  Robert J Johnston; Claude Desplan
Journal:  Science       Date:  2014-02-07       Impact factor: 47.728

5.  Compensatory cis-trans evolution and the dysregulation of gene expression in interspecific hybrids of Drosophila.

Authors:  Christian R Landry; Patricia J Wittkopp; Clifford H Taubes; Jose M Ranz; Andrew G Clark; Daniel L Hartl
Journal:  Genetics       Date:  2005-09-02       Impact factor: 4.562

6.  Negative feedback confers mutational robustness in yeast transcription factor regulation.

Authors:  Charles M Denby; Joo Hyun Im; Richard C Yu; C Gustavo Pesce; Rachel B Brem
Journal:  Proc Natl Acad Sci U S A       Date:  2012-02-21       Impact factor: 11.205

7.  Sex-specific and lineage-specific alternative splicing in primates.

Authors:  Ran Blekhman; John C Marioni; Paul Zumbo; Matthew Stephens; Yoav Gilad
Journal:  Genome Res       Date:  2009-12-15       Impact factor: 9.043

Review 8.  Tempo and mode in evolution of transcriptional regulation.

Authors:  Kacy L Gordon; Ilya Ruvinsky
Journal:  PLoS Genet       Date:  2012-01-19       Impact factor: 5.917

9.  Ribosome profiling reveals post-transcriptional buffering of divergent gene expression in yeast.

Authors:  C Joel McManus; Gemma E May; Pieter Spealman; Alan Shteyman
Journal:  Genome Res       Date:  2013-12-06       Impact factor: 9.043

10.  Why epistasis is important for tackling complex human disease genetics.

Authors:  Trudy Fc Mackay; Jason H Moore
Journal:  Genome Med       Date:  2014-06-09       Impact factor: 11.117

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  58 in total

Review 1.  Molecular and evolutionary processes generating variation in gene expression.

Authors:  Mark S Hill; Pétra Vande Zande; Patricia J Wittkopp
Journal:  Nat Rev Genet       Date:  2020-12-02       Impact factor: 53.242

2.  Contribution of unfixed transposable element insertions to human regulatory variation.

Authors:  Clément Goubert; Nicolas Arce Zevallos; Cédric Feschotte
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2020-02-10       Impact factor: 6.237

3.  Nutrition-responsive gene expression and the developmental evolution of insect polyphenism.

Authors:  Sofia Casasa; Eduardo E Zattara; Armin P Moczek
Journal:  Nat Ecol Evol       Date:  2020-05-18       Impact factor: 15.460

4.  Evolution of DNA Methylation in Papio Baboons.

Authors:  Tauras P Vilgalys; Jeffrey Rogers; Clifford J Jolly; Sayan Mukherjee; Jenny Tung
Journal:  Mol Biol Evol       Date:  2019-03-01       Impact factor: 16.240

5.  Genetic basis for divergence in developmental gene expression in two closely related sea urchins.

Authors:  Lingyu Wang; Jennifer W Israel; Allison Edgar; Rudolf A Raff; Elizabeth C Raff; Maria Byrne; Gregory A Wray
Journal:  Nat Ecol Evol       Date:  2020-04-13       Impact factor: 15.460

6.  Cis-regulatory variation in plant genomes and the impact of natural selection.

Authors:  Juliette de Meaux
Journal:  Am J Bot       Date:  2018-10-25       Impact factor: 3.844

7.  Systematic identification of cis-regulatory variants that cause gene expression differences in a yeast cross.

Authors:  Kaushik Renganaath; Rocky Cheung; Laura Day; Sriram Kosuri; Leonid Kruglyak; Frank W Albert
Journal:  Elife       Date:  2020-11-12       Impact factor: 8.140

8.  Effects of a male meiotic driver on male and female transcriptomes in the house mouse.

Authors:  Anna Lindholm; Andreas Sutter; Sven Künzel; Diethard Tautz; Hubert Rehrauer
Journal:  Proc Biol Sci       Date:  2019-11-13       Impact factor: 5.349

9.  The Transcriptional Landscape of Polyploid Wheats and Their Diploid Ancestors during Embryogenesis and Grain Development.

Authors:  Daoquan Xiang; Teagen D Quilichini; Ziying Liu; Peng Gao; Youlian Pan; Qiang Li; Kirby T Nilsen; Prakash Venglat; Eddi Esteban; Asher Pasha; Yejun Wang; Rui Wen; Zhongjuan Zhang; Zhaodong Hao; Edwin Wang; Yangdou Wei; Richard Cuthbert; Leon V Kochian; Andrew Sharpe; Nicholas Provart; Dolf Weijers; C Stewart Gillmor; Curtis Pozniak; Raju Datla
Journal:  Plant Cell       Date:  2019-10-18       Impact factor: 11.277

10.  Natural Genetic Variation Reveals Key Features of Epigenetic and Transcriptional Memory in Virus-Specific CD8 T Cells.

Authors:  Joris van der Veeken; Yi Zhong; Roshan Sharma; Linas Mazutis; Phuong Dao; Dana Pe'er; Christina S Leslie; Alexander Y Rudensky
Journal:  Immunity       Date:  2019-04-23       Impact factor: 31.745

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