Literature DB >> 29659993

Neutral Theory and Phenotypic Evolution.

Jianzhi Zhang1.   

Abstract

Although the neutral theory of molecular evolution was proposed to explain DNA and protein sequence evolution, in principle it could also explain phenotypic evolution. Nevertheless, overall, phenotypes should be less likely than genotypes to evolve neutrally. I propose that, when phenotypic traits are stratified according to a hierarchy of biological organization, the fraction of evolutionary changes in phenotype that are adaptive rises with the phenotypic level considered. Consistently, molecular traits are frequently found to evolve neutrally whereas a large, random set of organismal traits were recently reported to vary largely adaptively. Many more studies of unbiased samples of phenotypic traits are needed to test the general validity of this hypothesis.

Mesh:

Year:  2018        PMID: 29659993      PMCID: PMC5967557          DOI: 10.1093/molbev/msy065

Source DB:  PubMed          Journal:  Mol Biol Evol        ISSN: 0737-4038            Impact factor:   16.240


  32 in total

1.  High-dimensional and large-scale phenotyping of yeast mutants.

Authors:  Yoshikazu Ohya; Jun Sese; Masashi Yukawa; Fumi Sano; Yoichiro Nakatani; Taro L Saito; Ayaka Saka; Tomoyuki Fukuda; Satoru Ishihara; Satomi Oka; Genjiro Suzuki; Machika Watanabe; Aiko Hirata; Miwaka Ohtani; Hiroshi Sawai; Nicolas Fraysse; Jean-Paul Latgé; Jean M François; Markus Aebi; Seiji Tanaka; Sachiko Muramatsu; Hiroyuki Araki; Kintake Sonoike; Satoru Nogami; Shinichi Morishita
Journal:  Proc Natl Acad Sci U S A       Date:  2005-12-19       Impact factor: 11.205

2.  Human coding RNA editing is generally nonadaptive.

Authors:  Guixia Xu; Jianzhi Zhang
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-24       Impact factor: 11.205

3.  RATE TESTS FOR SELECTION ON QUANTITATIVE CHARACTERS DURING MACROEVOLUTION AND MICROEVOLUTION.

Authors:  Michael Turelli; John H Gillespie; Russell Lande
Journal:  Evolution       Date:  1988-09       Impact factor: 3.694

4.  A-to-I RNA editing is developmentally regulated and generally adaptive for sexual reproduction in Neurospora crassa.

Authors:  Huiquan Liu; Yang Li; Daipeng Chen; Zhaomei Qi; Qinhu Wang; Jianhua Wang; Cong Jiang; Jin-Rong Xu
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-28       Impact factor: 11.205

5.  The spandrels of San Marco and the Panglossian paradigm: a critique of the adaptationist programme.

Authors:  S J Gould; R C Lewontin
Journal:  Proc R Soc Lond B Biol Sci       Date:  1979-09-21

6.  Pseudogenes as a paradigm of neutral evolution.

Authors:  W H Li; T Gojobori; M Nei
Journal:  Nature       Date:  1981-07-16       Impact factor: 49.962

Review 7.  The genomic rate of adaptive evolution.

Authors:  Adam Eyre-Walker
Journal:  Trends Ecol Evol       Date:  2006-07-03       Impact factor: 17.712

8.  Epistasis Analysis Goes Genome-Wide.

Authors:  Jianzhi Zhang
Journal:  PLoS Genet       Date:  2017-02-16       Impact factor: 5.917

9.  Intra and Interspecific Variations of Gene Expression Levels in Yeast Are Largely Neutral: (Nei Lecture, SMBE 2016, Gold Coast).

Authors:  Jian-Rong Yang; Calum J Maclean; Chungoo Park; Huabin Zhao; Jianzhi Zhang
Journal:  Mol Biol Evol       Date:  2017-09-01       Impact factor: 16.240

10.  The fitness cost of mis-splicing is the main determinant of alternative splicing patterns.

Authors:  Baptiste Saudemont; Alexandra Popa; Joanna L Parmley; Vincent Rocher; Corinne Blugeon; Anamaria Necsulea; Eric Meyer; Laurent Duret
Journal:  Genome Biol       Date:  2017-10-30       Impact factor: 13.583

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  12 in total

1.  Genetic Gene Expression Changes during Environmental Adaptations Tend to Reverse Plastic Changes Even after the Correction for Statistical Nonindependence.

Authors:  Wei-Chin Ho; Jianzhi Zhang
Journal:  Mol Biol Evol       Date:  2019-03-01       Impact factor: 16.240

2.  Isolating and quantifying the role of developmental noise in generating phenotypic variation.

Authors:  Maria Kiskowski; Tilmann Glimm; Nickolas Moreno; Tony Gamble; Ylenia Chiari
Journal:  PLoS Comput Biol       Date:  2019-04-22       Impact factor: 4.475

3.  Pan-tissue analysis of allelic alternative polyadenylation suggests widespread functional regulation.

Authors:  Yisheng Li; Bernhard Schaefke; Xudong Zou; Min Zhang; Florian Heyd; Wei Sun; Bin Zhang; Guipeng Li; Weizheng Liang; Yuhao He; Juexiao Zhou; Yunfei Li; Liang Fang; Yuhui Hu; Wei Chen
Journal:  Mol Syst Biol       Date:  2020-04       Impact factor: 11.429

4.  The preponderance of nonsynonymous A-to-I RNA editing in coleoids is nonadaptive.

Authors:  Daohan Jiang; Jianzhi Zhang
Journal:  Nat Commun       Date:  2019-11-27       Impact factor: 14.919

Review 5.  Constructive Neutral Evolution 20 Years Later.

Authors:  Jeremy G Wideman; Kerry Geiler-Samerotte; Sergio A Muñoz-Gómez; Gaurav Bilolikar
Journal:  J Mol Evol       Date:  2021-02-19       Impact factor: 2.395

6.  Mammalian splicing divergence is shaped by drift, buffering in trans, and a scaling law.

Authors:  Xudong Zou; Bernhard Schaefke; Yisheng Li; Fujian Jia; Wei Sun; Guipeng Li; Weizheng Liang; Tristan Reif; Florian Heyd; Qingsong Gao; Shuye Tian; Yanping Li; Yisen Tang; Liang Fang; Yuhui Hu; Wei Chen
Journal:  Life Sci Alliance       Date:  2021-12-30

Review 7.  Non-Darwinian Molecular Biology.

Authors:  Alexander F Palazzo; Nevraj S Kejiou
Journal:  Front Genet       Date:  2022-02-16       Impact factor: 4.599

8.  Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes.

Authors:  Yayu Wang; Bei Jiang; Yue Wu; Xionglei He; Li Liu
Journal:  Genome Biol Evol       Date:  2022-05-03       Impact factor: 4.065

9.  Coexistence of two sympatric cryptic bat species in French Guiana: insights from genetic, acoustic and ecological data.

Authors:  Ondine Filippi-Codaccioni; Marie-Pauline Beugin; Damien M de Vienne; Elodie Portanier; David Fouchet; Cecile Kaerle; Lina Muselet; Guillaume Queney; Eric J Petit; Corinne Regis; Jean-Baptiste Pons; Dominique Pontier
Journal:  BMC Evol Biol       Date:  2018-11-20       Impact factor: 3.260

10.  Independent accretion of TIM22 complex subunits in the animal and fungal lineages.

Authors:  Shannon N Snyder; Samantha J Montoya; Sergio A Muñoz-Gómez; Jeremy G Wideman
Journal:  F1000Res       Date:  2020-08-28
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