Duplicated genes evolve slower than singletons despite the initial rate increase

BMC Evolutionary Biology
I King JordanEugene V Koonin

Abstract

Gene duplication is an important mechanism that can lead to the emergence of new functions during evolution. The impact of duplication on the mode of gene evolution has been the subject of several theoretical and empirical comparative-genomic studies. It has been shown that, shortly after the duplication, genes seem to experience a considerable relaxation of purifying selection. Here we demonstrate two opposite effects of gene duplication on evolutionary rates. Sequence comparisons between paralogs show that, in accord with previous observations, a substantial acceleration in the evolution of paralogs occurs after duplication, presumably due to relaxation of purifying selection. The effect of gene duplication on evolutionary rate was also assessed by sequence comparison between orthologs that have paralogs (duplicates) and those that do not (singletons). It is shown that, in eukaryotes, duplicates, on average, evolve significantly slower than singletons. Eukaryotic ortholog evolutionary rates for duplicates are also negatively correlated with the number of paralogs per gene and the strength of selection between paralogs. A tally of annotated gene functions shows that duplicates tend to be enriched for proteins with known functi...Continue Reading

References

Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Nov 21, 1997·Computer Applications in the Biosciences : CABIOS·Z Yang
Oct 24, 1997·Science·R L TatusovD J Lipman
Nov 10, 2000·Science·M Lynch, J S Conery
Oct 13, 2001·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·T MassinghamP Liò
Dec 18, 2001·Journal of Molecular Biology·M RemmE L Sonnhammer
Jul 5, 2002·Genome Research·Olivier LespinetL Aravind
Sep 6, 2002·Genome Research·Victoria NembawareCathal Seoighe
Jan 10, 2003·Nucleic Acids Research·Dennis A BensonDavid L Wheeler
Mar 26, 2003·Molecular Biology and Evolution·Cathal SeoigheDenis C Shields
Apr 8, 2003·Molecular Biology and Evolution·Jing YangWen-Hsiung Li
Apr 10, 2003·Trends in Genetics : TIG·Wei-Ping YuByrappa Venkatesh
Jul 2, 2003·Molecular Biology and Evolution·Mario A Fares, Kenneth H Wolfe
Jul 11, 2003·Nature·Balázs PappLaurence D Hurst
Sep 4, 2003·Genome Research·Gavin C Conant, Andreas Wagner
Sep 13, 2003·BMC Bioinformatics·Roman L TatusovDarren A Natale
Nov 6, 2003·International Journal of Biological Macromolecules·F N Braun, D A Liberles
Mar 17, 2004·PLoS Biology·Jerel C Davis, Dmitri A Petrov
Aug 27, 2004·Molecular Biology and Evolution·Yun-Huei TzengWen-Hsiung Li
Nov 8, 2011·Genome Biology and Evolution·Corey M HudsonGavin C Conant

❮ Previous
Next ❯

Citations

Jun 16, 2010·Nature Reviews. Genetics·Eugene V Koonin, Yuri I Wolf
Jan 25, 2008·Proceedings of the National Academy of Sciences of the United States of America·Ran KafriYitzhak Pilpel
Nov 8, 2011·Genome Biology and Evolution·Corey M HudsonGavin C Conant
Aug 27, 2013·Genome Biology and Evolution·Owen G OsborneDmitry A Filatov
Oct 14, 2009·Molecular Biology and Evolution·Domènec Farré, M Mar Albà
Mar 3, 2010·Molecular Biology and Evolution·Feng-Chi ChenTrees-Juen Chuang
Nov 16, 2010·Molecular Biology and Evolution·Shauna A MurrayBrett A Neilan
Mar 11, 2011·Molecular Biology and Evolution·Liang Yang, Brandon S Gaut
Apr 30, 2013·Molecular Biology and Evolution·Cinta PeguerolesM Mar Albà
Apr 3, 2010·Nucleic Acids Research·Thomas RollandGuy-Franck Richard
Jan 9, 2013·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Hideki SezutsuRené Feyereisen
Jun 20, 2008·Genome Research·Romain A StuderMarc Robinson-Rechavi
Oct 6, 2010·Genome Research·Anchal VishnoiJoshua B Plotkin
Oct 21, 2006·Genome Research·Boris E Shakhnovich, Eugene V Koonin
Apr 24, 2007·Plant Physiology·Xue-Cheng ZhangGary Stacey
Jun 9, 2006·Microbiology and Molecular Biology Reviews : MMBR·Mark K Ashby, Jean Houmard
Mar 28, 2007·Annual Review of Genomics and Human Genetics·Bernard Conrad, Stylianos E Antonarakis
May 1, 2010·BMC Evolutionary Biology·Barbara HutterMartina Paulsen
May 4, 2010·BMC Evolutionary Biology·Andrew S WarrenLiqing Zhang
May 27, 2011·BMC Evolutionary Biology·Chrysanthi AinaliJohn M Hancock
Jan 27, 2012·BMC Evolutionary Biology·Soumita Podder, Tapash Chandra Ghosh
Jan 20, 2006·BMC Evolutionary Biology·Etienne G J DanchinPierre Pontarotti
Oct 4, 2008·BMC Evolutionary Biology·Claudia MünchWerner Schempp
Feb 12, 2008·BMC Evolutionary Biology·Frédéric J J ChainBen J Evans
Apr 20, 2006·BMC Genomics·Ekaterina O ErmakovaMikhail S Gelfand
Jul 5, 2013·BMC Plant Biology·Inês S PiresMichael D Purugganan
Sep 10, 2010·Biology Direct·Alexander Y PanchinIrena I Artamonova
Oct 3, 2006·PLoS Computational Biology·Leo Goodstadt, Chris P Ponting
Jun 13, 2009·PLoS Computational Biology·Yu XiaMark B Gerstein

❮ Previous
Next ❯

Software Mentioned

ClustalW
BLASTP
SEALS
Perl scripts
PAML

Related Concepts

Related Feeds

Archaeogenetics

Recent advances in genomic sequencing has led to the discovery of new strains of Archaea and shed light on their evolutionary history. Discover the latest research on Archaeogenetics here.

Candidiasis

Candidiasis is a common fungal infection caused by Candida and it can affect many parts for the body including mucosal membranes as well as the gastrointestinal, urinary, and respiratory tracts. Here is the latest research.

CRISPR Ribonucleases Deactivation

CRISPR-Cas system enables the editing of genes to create or correct mutations. This feed focuses on mechanisms that underlie deactivation of CRISPR ribonucleases. Here is the latest research.

Candidiasis (ASM)

Candidiasis is a common fungal infection caused by Candida and it can affect many parts for the body including mucosal membranes as well as the gastrointestinal, urinary, and respiratory tracts. Here is the latest research.

Candida albicans

Candida albicans is an opportunistic, fungal pathogen of humans that frequently causes superficial infections of oral and vaginal mucosal surfaces of debilitated and susceptible individuals. Discover the latest research on Candida albicans here.