Perspectives on Gene Regulatory Network Evolution

被引:51
作者
Halfon, Marc S. [1 ,2 ,3 ,4 ,5 ,6 ]
机构
[1] SUNY Buffalo, Dept Biochem, Buffalo, NY 14226 USA
[2] NY State Ctr Excellence Bioinformat & Life Sci, Buffalo, NY 14203 USA
[3] SUNY Buffalo, Dept Biol Sci, Buffalo, NY 14226 USA
[4] SUNY Buffalo, Dept Biomed Informat, Buffalo, NY 14226 USA
[5] Roswell Pk Canc Inst, Dept Mol & Cellular Biol, Buffalo, NY 14263 USA
[6] Roswell Pk Canc Inst, Program Canc Genet, Buffalo, NY 14263 USA
关键词
UNDERLYING WING POLYPHENISM; DEVELOPMENTAL SYSTEM DRIFT; OPEN CHROMATIN; DROSOPHILA; ULTRABITHORAX; UNDERLIES; MODULES; PIGMENTATION; DISCOVERY; INSIGHTS;
D O I
10.1016/j.tig.2017.04.005
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Animal development proceeds through the activity of genes and their cis-regulatory modules (CRMs) working together in sets of gene regulatory networks (GRNs). The emergence of species-specific traits and novel structures results from evolutionary changes in GRNs. Recent work in a wide variety of animal models, and particularly in insects, has started to reveal the modes and mechanisms of GRN evolution. I discuss here various aspects of GRN evolution and argue that developmental system drift (DSD), in which conserved phenotype is nevertheless a result of changed genetic interactions, should regularly be viewed from the perspective of GRN evolution. Advances in methods to discover related CRMs in diverse insect species, a critical requirement for detailed GRN characterization, are also described.
引用
收藏
页码:436 / 447
页数:12
相关论文
共 64 条
[41]   Repeated morphological evolution through cis-regulatory changes in a pleiotropic gene [J].
Prud'homme, B ;
Gompel, N ;
Rokas, A ;
Kassner, VA ;
Williams, TM ;
Yeh, SD ;
True, JR ;
Carroll, SB .
NATURE, 2006, 440 (7087) :1050-1053
[42]   Using Drosophila pigmentation traits to study the mechanisms of cis-regulatory evolution [J].
Rebeiz, Mark ;
Williams, Thomas M. .
CURRENT OPINION IN INSECT SCIENCE, 2017, 19 :1-7
[43]   Unraveling the Tangled Skein: The Evolution of Transcriptional Regulatory Networks in Development [J].
Rebeiz, Mark ;
Patel, Nipam H. ;
Hinman, Veronica F. .
ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS, VOL 16, 2015, 16 :103-131
[44]   Imogene: identification of motifs and cis-regulatory modules underlying gene co-regulation [J].
Rouault, Herve ;
Santolini, Marc ;
Schweisguth, Francois ;
Hakim, Vincent .
NUCLEIC ACIDS RESEARCH, 2014, 42 (10) :6128-6145
[45]   Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE [J].
Roy, Sushmita ;
Ernst, Jason ;
Kharchenko, Peter V. ;
Kheradpour, Pouya ;
Negre, Nicolas ;
Eaton, Matthew L. ;
Landolin, Jane M. ;
Bristow, Christopher A. ;
Ma, Lijia ;
Lin, Michael F. ;
Washietl, Stefan ;
Arshinoff, Bradley I. ;
Ay, Ferhat ;
Meyer, Patrick E. ;
Robine, Nicolas ;
Washington, Nicole L. ;
Di Stefano, Luisa ;
Berezikov, Eugene ;
Brown, Christopher D. ;
Candeias, Rogerio ;
Carlson, Joseph W. ;
Carr, Adrian ;
Jungreis, Irwin ;
Marbach, Daniel ;
Sealfon, Rachel ;
Tolstorukov, Michael Y. ;
Will, Sebastian ;
Alekseyenko, Artyom A. ;
Artieri, Carlo ;
Booth, Benjamin W. ;
Brooks, Angela N. ;
Dai, Qi ;
Davis, Carrie A. ;
Duff, Michael O. ;
Feng, Xin ;
Gorchakov, Andrey A. ;
Gu, Tingting ;
Henikoff, Jorja G. ;
Kapranov, Philipp ;
Li, Renhua ;
MacAlpine, Heather K. ;
Malone, John ;
Minoda, Aki ;
Nordman, Jared ;
Okamura, Katsutomo ;
Perry, Marc ;
Powell, Sara K. ;
Riddle, Nicole C. ;
Sakai, Akiko ;
Samsonova, Anastasia .
SCIENCE, 2010, 330 (6012) :1787-1797
[46]   The Wing-Patterning Network in the Wingless Castes of Myrmicine and Formicine Ant Species Is a Mix of Evolutionarily Labile and Non-Labile Genes [J].
Shbailat, Seba Jamal ;
Abouheif, Ehab .
JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION, 2013, 320B (02) :74-83
[47]   Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila [J].
Signor, Sarah A. ;
Liu, Yang ;
Rebeiz, Mark ;
Kopp, Artyom .
CURRENT BIOLOGY, 2016, 26 (18) :2423-2433
[48]   The cancer genome [J].
Stratton, Michael R. ;
Campbell, Peter J. ;
Futreal, P. Andrew .
NATURE, 2009, 458 (7239) :719-724
[49]   Redeployment of a conserved gene regulatory network during Aedes aegypti development [J].
Suryamohan, Kushal ;
Hanson, Casey ;
Andrews, Emily ;
Sinha, Saurabh ;
Scheel, Molly Duman ;
Halfon, Marc S. .
DEVELOPMENTAL BIOLOGY, 2016, 416 (02) :402-413
[50]   Identifying transcriptional cis-regulatory modules in animal genomes [J].
Suryamohan, Kushal ;
Halfon, Marc S. .
WILEY INTERDISCIPLINARY REVIEWS-DEVELOPMENTAL BIOLOGY, 2015, 4 (02) :59-84