Literature DB >> 27834945

Assessment of the bimodality in the distribution of bacterial genome sizes.

Hyun S Gweon1, Mark J Bailey1, Daniel S Read1.   

Abstract

Bacterial genome sizes have previously been shown to exhibit a bimodal distribution. This phenomenon has prompted discussion regarding the evolutionary forces driving genome size in bacteria and its ecological significance. We investigated the level of inherent redundancy in the public database and the effect it has on the shape of the apparent bimodal distribution. Our study reveals that there is a significant bias in the genome sequencing efforts towards a certain group of species, and that correcting the bias using species nomenclature and clustering of the 16S rRNA gene, results in a unimodal rather than the previously published bimodal distribution. The true genome size distribution and its wider ecological implications will soon emerge as we are currently witnessing rapid growth in the number of sequenced genomes from diverse environmental niches across a range of habitats at an unprecedented rate.

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Year:  2016        PMID: 27834945      PMCID: PMC5322294          DOI: 10.1038/ismej.2016.142

Source DB:  PubMed          Journal:  ISME J        ISSN: 1751-7362            Impact factor:   10.302


  16 in total

1.  Trends between gene content and genome size in prokaryotic species with larger genomes.

Authors:  Konstantinos T Konstantinidis; James M Tiedje
Journal:  Proc Natl Acad Sci U S A       Date:  2004-02-18       Impact factor: 11.205

2.  Complete genome sequence of the myxobacterium Sorangium cellulosum.

Authors:  Susanne Schneiker; Olena Perlova; Olaf Kaiser; Klaus Gerth; Aysel Alici; Matthias O Altmeyer; Daniela Bartels; Thomas Bekel; Stefan Beyer; Edna Bode; Helge B Bode; Christoph J Bolten; Jomuna V Choudhuri; Sabrina Doss; Yasser A Elnakady; Bettina Frank; Lars Gaigalat; Alexander Goesmann; Carolin Groeger; Frank Gross; Lars Jelsbak; Lotte Jelsbak; Jörn Kalinowski; Carsten Kegler; Tina Knauber; Sebastian Konietzny; Maren Kopp; Lutz Krause; Daniel Krug; Bukhard Linke; Taifo Mahmud; Rosa Martinez-Arias; Alice C McHardy; Michelle Merai; Folker Meyer; Sascha Mormann; Jose Muñoz-Dorado; Juana Perez; Silke Pradella; Shwan Rachid; Günter Raddatz; Frank Rosenau; Christian Rückert; Florenz Sasse; Maren Scharfe; Stephan C Schuster; Garret Suen; Anke Treuner-Lange; Gregory J Velicer; Frank-Jörg Vorhölter; Kira J Weissman; Roy D Welch; Silke C Wenzel; David E Whitworth; Susanne Wilhelm; Christoph Wittmann; Helmut Blöcker; Alfred Pühler; Rolf Müller
Journal:  Nat Biotechnol       Date:  2007-10-28       Impact factor: 54.908

3.  Notes on the characterization of prokaryote strains for taxonomic purposes.

Authors:  B J Tindall; R Rosselló-Móra; H-J Busse; W Ludwig; P Kämpfer
Journal:  Int J Syst Evol Microbiol       Date:  2009-08-21       Impact factor: 2.747

4.  Phylogenetic characterisation of picoplanktonic populations with high and low nucleic acid content in the North Atlantic Ocean.

Authors:  Martha Schattenhofer; Jörg Wulf; Ivalyo Kostadinov; Frank Oliver Glöckner; Mikhail V Zubkov; Bernhard M Fuchs
Journal:  Syst Appl Microbiol       Date:  2011-05-19       Impact factor: 4.022

Review 5.  Implications of streamlining theory for microbial ecology.

Authors:  Stephen J Giovannoni; J Cameron Thrash; Ben Temperton
Journal:  ISME J       Date:  2014-04-17       Impact factor: 10.302

6.  Energetics and genetics across the prokaryote-eukaryote divide.

Authors:  Nick Lane
Journal:  Biol Direct       Date:  2011-06-30       Impact factor: 4.540

Review 7.  Tracing the evolution of gene loss in obligate bacterial symbionts.

Authors:  Nancy A Moran
Journal:  Curr Opin Microbiol       Date:  2003-10       Impact factor: 7.934

8.  A Model of Genome Size Evolution for Prokaryotes in Stable and Fluctuating Environments.

Authors:  Piotr Bentkowski; Cock Van Oosterhout; Thomas Mock
Journal:  Genome Biol Evol       Date:  2015-08-04       Impact factor: 3.416

9.  Evolutionary tradeoffs in cellular composition across diverse bacteria.

Authors:  Christopher P Kempes; Lawrence Wang; Jan P Amend; John Doyle; Tori Hoehler
Journal:  ISME J       Date:  2016-04-05       Impact factor: 10.302

Review 10.  Toward minimal bacterial cells: evolution vs. design.

Authors:  Andrés Moya; Rosario Gil; Amparo Latorre; Juli Peretó; Maria Pilar Garcillán-Barcia; Fernando de la Cruz
Journal:  FEMS Microbiol Rev       Date:  2008-12-03       Impact factor: 16.408

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  4 in total

1.  Estimation of universal and taxon-specific parameters of prokaryotic genome evolution.

Authors:  Itamar Sela; Yuri I Wolf; Eugene V Koonin
Journal:  PLoS One       Date:  2018-04-13       Impact factor: 3.240

2.  Genome Sequencing of Mesonia algae K4-1 Reveals Its Adaptation to the Arctic Ocean.

Authors:  Ran Huan; JiaFeng Huang; Dan Liu; Meng Wang; CongLing Liu; YunQian Zhang; CuiPing Yi; Dong Xiao; HaiLun He
Journal:  Front Microbiol       Date:  2019-12-04       Impact factor: 5.640

3.  Pangenome of Acinetobacter baumannii uncovers two groups of genomes, one of them with genes involved in CRISPR/Cas defence systems associated with the absence of plasmids and exclusive genes for biofilm formation.

Authors:  Eugenio L Mangas; Alejandro Rubio; Rocío Álvarez-Marín; Gema Labrador-Herrera; Jerónimo Pachón; María Eugenia Pachón-Ibáñez; Federico Divina; Antonio J Pérez-Pulido
Journal:  Microb Genom       Date:  2019-11

Review 4.  A Genomic Perspective Across Earth's Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy.

Authors:  Alejandro Rodríguez-Gijón; Julia K Nuy; Maliheh Mehrshad; Moritz Buck; Frederik Schulz; Tanja Woyke; Sarahi L Garcia
Journal:  Front Microbiol       Date:  2022-01-05       Impact factor: 5.640

  4 in total

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