Scaling laws in bacterial genomes: a side-effect of selection of mutational robustness?

Bio Systems
G BeslonC Knibbe

Abstract

In the past few years, numerous research projects have focused on identifying and understanding scaling properties in the gene content of prokaryote genomes and the intricacy of their regulation networks. Yet, and despite the increasing amount of data available, the origins of these scalings remain an open question. The RAevol model, a digital genetics model, provides us with an insight into the mechanisms involved in an evolutionary process. The results we present here show that (i) our model reproduces qualitatively these scaling laws and that (ii) these laws are not due to differences in lifestyles but to differences in the spontaneous rates of mutations and rearrangements. We argue that this is due to an indirect selective pressure for robustness that constrains the genome size.

References

Aug 15, 1991·Proceedings of the National Academy of Sciences of the United States of America·J W Drake
Apr 30, 1998·Genetics·J W DrakeJ F Crow
Nov 21, 2000·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·P D SniegowskiA Shaver
Nov 20, 2001·Artificial Life·P DittrichW Banzhaf
Mar 5, 2002·Proceedings of the National Academy of Sciences of the United States of America·Geoffrey B WestJames H Brown
Nov 15, 2002·Nature·Eugene V KooninGeorgy P Karev
Apr 12, 2003·Bio Systems·John W Pepper
May 31, 2003·Nature Reviews. Genetics·Santiago F Elena, Richard E Lenski
Jun 26, 2003·Trends in Microbiology·Ildefonso CasesChristos A Ouzounis
Sep 6, 2003·Trends in Genetics : TIG·Erik van Nimwegen
Feb 20, 2004·Proceedings of the National Academy of Sciences of the United States of America·Konstantinos T Konstantinidis, James M Tiedje
Jan 19, 2006·Nature Reviews. Genetics·Christoph Adami
Apr 12, 2006·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·D V FosterJ E S Socolar
Sep 21, 2006·BMC Genomics·Shalev ItzkovitzUri Alon
Oct 17, 2006·Applied and Environmental Microbiology·Nancie ReymondHubert Charles
Oct 24, 2006·Journal of Theoretical Biology·Carole KnibbeGuillaume Beslon
Jan 24, 2007·PLoS Biology·Richard E LenskiCharles Ofria
Aug 19, 2007·Trends in Genetics : TIG·Otto X Cordero, P Hogeweg
Aug 22, 2007·Molecular Biology and Evolution·Carole KnibbeGuillaume Beslon
Nov 13, 2007·Research in Microbiology·Sarath Chandra Janga, J Collado-Vides
Dec 17, 2008·FEMS Microbiology Reviews·Enrique BallezaJulio Collado-Vides
Dec 17, 2008·Biology Direct·Nacho Molina, Erik van Nimwegen
May 22, 2009·Trends in Genetics : TIG·Nacho Molina, Erik van Nimwegen
Jun 2, 2009·Proceedings of the National Academy of Sciences of the United States of America·Sergei MaslovKim Sneppen

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Citations

Feb 26, 2014·BMC Bioinformatics·Bérénice BatutCarole Knibbe
Oct 26, 2012·Integrative Biology : Quantitative Biosciences From Nano to Macro·Vadim Mozhayskiy, Ilias Tagkopoulos
Mar 11, 2011·PLoS Genetics·Sergey KryazhimskiyJoshua B Plotkin
Dec 24, 2011·PLoS Computational Biology·Alexander E LobkovskyEugene V Koonin
May 17, 2011·PLoS Computational Biology·Andrea SottorivaSimon Tavaré
Oct 15, 2011·PLoS Computational Biology·Kirsten H Ten Tusscher, Paulien Hogeweg
Jul 28, 2010·PLoS Pathogens·Adam S Lauring, Raul Andino
Mar 31, 2017·PLoS Computational Biology·Charles RocabertGuillaume Beslon
Mar 28, 2012·Nature Reviews. Microbiology·Thomas HindréDominique Schneider
May 31, 2013·Nature·Kevin J Gaston
Mar 12, 2020·Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution·Enrico BorrielloManfred D Laubichler

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