Literature DB >> 29120735

The rewiring of transcription circuits in evolution.

Alexander D Johnson1.   

Abstract

The binding of transcription regulators to cis-regulatory sequences is a key step through which all cells regulate expression of their genes. Due to gains and losses of cis-regulatory sequences and changes in the transcription regulators themselves, the binding connections between regulators and their target genes rapidly change over evolutionary time and constitute a major source of biological novelty. This review covers recent work, carried out in a wide range of species, that addresses the overall extent of these evolutionary changes, their consequences, and some of the molecular mechanisms that lie behind them.
Copyright © 2017 Elsevier Ltd. All rights reserved.

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Year:  2017        PMID: 29120735      PMCID: PMC6901287          DOI: 10.1016/j.gde.2017.09.004

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


  66 in total

Review 1.  The evolutionary significance of cis-regulatory mutations.

Authors:  Gregory A Wray
Journal:  Nat Rev Genet       Date:  2007-03       Impact factor: 53.242

2.  Cis-Regulatory Evolution of Forkhead Box O1 (FOXO1), a Terminal Selector Gene for Decidual Stromal Cell Identity.

Authors:  Yeonwoo Park; Mauris C Nnamani; Jamie Maziarz; Günter P Wagner
Journal:  Mol Biol Evol       Date:  2016-09-15       Impact factor: 16.240

3.  Evolution of eukaryotic transcription circuits.

Authors:  Brian B Tuch; Hao Li; Alexander D Johnson
Journal:  Science       Date:  2008-03-28       Impact factor: 47.728

Review 4.  The molecular origins of evolutionary innovations.

Authors:  Andreas Wagner
Journal:  Trends Genet       Date:  2011-08-27       Impact factor: 11.639

5.  Regulatory evolution of Tbx5 and the origin of paired appendages.

Authors:  Noritaka Adachi; Molly Robinson; Aden Goolsbee; Neil H Shubin
Journal:  Proc Natl Acad Sci U S A       Date:  2016-08-08       Impact factor: 11.205

Review 6.  The Soft Touch: Low-Affinity Transcription Factor Binding Sites in Development and Evolution.

Authors:  Justin Crocker; Ella Preger-Ben Noon; David L Stern
Journal:  Curr Top Dev Biol       Date:  2016-01-07       Impact factor: 4.897

7.  Rewiring of the Ppr1 Zinc Cluster Transcription Factor from Purine Catabolism to Pyrimidine Biogenesis in the Saccharomycetaceae.

Authors:  Walters Aji Tebung; Baharul I Choudhury; Faiza Tebbji; Joachim Morschhäuser; Malcolm Whiteway
Journal:  Curr Biol       Date:  2016-06-16       Impact factor: 10.834

Review 8.  Waiting in the wings: what can we learn about gene co-option from the diversification of butterfly wing patterns?

Authors:  Chris D Jiggins; Richard W R Wallbank; Joseph J Hanly
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2017-02-05       Impact factor: 6.237

9.  Examining the evolution of the regulatory circuit controlling secondary metabolism and development in the fungal genus Aspergillus.

Authors:  Abigail L Lind; Jennifer H Wisecaver; Timothy D Smith; Xuehuan Feng; Ana M Calvo; Antonis Rokas
Journal:  PLoS Genet       Date:  2015-03-18       Impact factor: 5.917

10.  Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals.

Authors:  Emily S Wong; David Thybert; Bianca M Schmitt; Klara Stefflova; Duncan T Odom; Paul Flicek
Journal:  Genome Res       Date:  2014-11-13       Impact factor: 9.043

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  9 in total

1.  Comparative Transcriptomics Highlights New Features of the Iron Starvation Response in the Human Pathogen Candida glabrata.

Authors:  Médine Benchouaia; Hugues Ripoche; Mariam Sissoko; Antonin Thiébaut; Jawad Merhej; Thierry Delaveau; Laure Fasseu; Sabrina Benaissa; Geneviève Lorieux; Laurent Jourdren; Stéphane Le Crom; Gaëlle Lelandais; Eduardo Corel; Frédéric Devaux
Journal:  Front Microbiol       Date:  2018-11-16       Impact factor: 5.640

2.  Genetic architecture and sex-specific selection govern modular, male-biased evolution of doublesex.

Authors:  Saurav Baral; Gandhimathi Arumugam; Riddhi Deshmukh; Krushnamegh Kunte
Journal:  Sci Adv       Date:  2019-05-08       Impact factor: 14.136

3.  Recurrent Loss of abaA, a Master Regulator of Asexual Development in Filamentous Fungi, Correlates with Changes in Genomic and Morphological Traits.

Authors:  Matthew E Mead; Alexander T Borowsky; Bastian Joehnk; Jacob L Steenwyk; Xing-Xing Shen; Anita Sil; Antonis Rokas
Journal:  Genome Biol Evol       Date:  2020-07-01       Impact factor: 3.416

4.  A Fungal Transcription Regulator of Vacuolar Function Modulates Candida albicans Interactions with Host Epithelial Cells.

Authors:  Philipp Reuter-Weissenberger; Juliane Meir; J Christian Pérez
Journal:  mBio       Date:  2021-11-16       Impact factor: 7.867

5.  Q&A: How do gene regulatory networks control environmental responses in plants?

Authors:  Ying Sun; José R Dinneny
Journal:  BMC Biol       Date:  2018-04-11       Impact factor: 7.431

6.  Synthetic circuits reveal how mechanisms of gene regulatory networks constrain evolution.

Authors:  Yolanda Schaerli; Alba Jiménez; José M Duarte; Ljiljana Mihajlovic; Julien Renggli; Mark Isalan; James Sharpe; Andreas Wagner
Journal:  Mol Syst Biol       Date:  2018-09-10       Impact factor: 11.429

7.  Phylogeny-wide conservation and change in developmental expression, cell-type specificity and functional domains of the transcriptional regulators of social amoebas.

Authors:  Gillian Forbes; Zhi-Hui Chen; Koryu Kin; Hajara M Lawal; Christina Schilde; Yoko Yamada; Pauline Schaap
Journal:  BMC Genomics       Date:  2019-11-21       Impact factor: 3.969

8.  A functionally divergent intrinsically disordered region underlying the conservation of stochastic signaling.

Authors:  Ian S Hsu; Bob Strome; Emma Lash; Nicole Robbins; Leah E Cowen; Alan M Moses
Journal:  PLoS Genet       Date:  2021-09-10       Impact factor: 5.917

9.  System drift and speciation.

Authors:  Joshua S Schiffman; Peter L Ralph
Journal:  Evolution       Date:  2021-10-07       Impact factor: 4.171

  9 in total

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