Journal Article10.1016/J.GDE.2005.09.006
The microbial pan-genome
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TL;DR: A decade after the beginning of the genomic era, the question of how genomics can describe a bacterial species has not been fully addressed and the pan-genome, which is composed of a "core genome" containing genes present in all strains, and a "dispensable genome", might be orders of magnitude larger than any single genome.
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About: This article is published in Current Opinion in Genetics & Development. The article was published on 01 Dec 2005. The article focuses on the topics: Minimal genome & Bacterial genome size.
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Citations
Genome-wide phylogenetic analysis of differences in thermotolerance among closely related Acetobacter pasteurianus strains
Minenosuke Matsutani,Hideki Hirakawa,Natsaran Saichana,Wichai Soemphol,Toshiharu Yakushi,Kazunobu Matsushita +5 more
TL;DR: Concatenated phylogenetic analysis of these closely related strains revealed that there is a phylogenetic relationship associated with this phenotype among the thermotolerant and thermosensitive strains.
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Pan-Genome Analysis Links the Hereditary Variation of Leptospirillum ferriphilum With Its Evolutionary Adaptation
TL;DR: In this article, a detailed analysis of genomic features of five recognized strains of Leptospirillum ferriphilum species is presented, and the role of spatial distance and environmental heterogeneity that potentially contribute to intra-species variation within L. ferripharm species at the genome level is investigated.
Codon Usage Heterogeneity in the Multipartite Prokaryote Genome: Selection-Based Coding Bias Associated with Gene Location, Expression Level, and Ancestry.
José Luis López,Mauricio Javier Lozano,Antonio Lagares,Antonio Lagares,María Laura Fabre,Walter Omar Draghi,M. F. Del Papa,Mariano Pistorio,Anke Becker,Daniel Wibberg,Andreas Schlüter,Alfred Pühler,Jochen Blom,Alexander Goesmann +13 more
TL;DR: A bioinformatic approach identifies core-genes sets with different ancestries, and demonstrates that selection processes that optimize codon usage are not restricted to RTRPs but extended at a genome-wide scale, indicating a previously undiscoveredCodon usage adaptation associated with the chromosomal core information that likely operates to improve bacterial fitness.
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Genomics of Erwinia amylovora and Related Erwinia Species Associated with Pome Fruit Trees
Youfu Zhao
- 01 Apr 2014
TL;DR: Recent developments in genome-enabled understanding of E. amylovora virulence are provided, including proteomics and transcriptomics, in understanding the biology, population diversity, and evolution of this important group of pathogens.
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Phages and the Evolution of Bacterial Pathogens: from Genomic Rearrangements to Lysogenic Conversion
TL;DR: The current review presents the available genomics and biological data on prophages from bacterial pathogens in an evolutionary framework to demonstrate that the chromosomes from bacteria and their viruses (bacteriophages) are coevolving.
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