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
Recovering microbial genomes from metagenomes in hypersaline environments: The Good, the Bad and the Ugly
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Microbial Comparative Genomics: An Overview of Tools and Insights Into The Genus Corynebacterium
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TL;DR: An overview of microbial comparative genomics pre-requisites is presented: sequencing technologies, alignment tools, annotation pipelines, databases and resources, visualization and comparative genomic tools, and strategies, and recent findings in genus Corynebacterium.
Genetic exchange of fimbrial alleles exemplifies the adaptive virulence strategy of Porphyromonas gingivalis.
Jennifer E. Kerr,Jared R. Abramian,Doan Hieu V Dao,Todd Rigney,Jamie Fritz,Tan Pham,Kavitha Parthasarathy,Bing-Yan Wang,Wenjian Zhang,Gena D. Tribble +9 more
TL;DR: This is the first study to quantitatively assess the adaptive effect of exchanging genes within the pan genome cloud, and presents a potential mechanism by which opportunistic pathogens may acquire the traits necessary to modify host-microbial interactions.
Whole genome sequencing analysis and biofilm formation in Salmonella Enteritidis PT4 578
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TL;DR: Whole genome sequencing analysis and biofilm formation in Salmonella Enteritidis PT4 578 reveals the genetic basis and environmental factors influencing biofilm formation.
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Environmental Genome Shotgun Sequencing of the Sargasso Sea
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Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: Implications for the microbial “pan-genome”
Hervé Tettelin,Vega Masignani,Michael J. Cieslewicz,Claudio Donati,Duccio Medini,Naomi L. Ward,Samuel V. Angiuoli,Jonathan Crabtree,Amanda L. Jones,A. Scott Durkin,Robert T. DeBoy,Tanja M. Davidsen,Marirosa Mora,Maria Scarselli,Immaculada Margarit Y Ros,Jeremy Peterson,Christopher R. Hauser,Jaideep P. Sundaram,William C. Nelson,Ramana Madupu,Lauren M. Brinkac,Robert J. Dodson,M. J. Rosovitz,Steven A. Sullivan,Sean C. Daugherty,Daniel H. Haft,Jeremy D. Selengut,Michelle L. Gwinn,Liwei Zhou,Nikhat Zafar,Hoda Khouri,Diana Radune,George Dimitrov,Kisha Watkins,Kevin J. B. O'Connor,Shannon Smith,Teresa Utterback,Owen White,Craig E. Rubens,Guido Grandi,Lawrence C. Madoff,Dennis L. Kasper,John L. Telford,Michael R. Wessels,Rino Rappuoli,Claire M. Fraser +45 more
TL;DR: The genomic sequence of six strains representing the five major disease-causing serotypes of Streptococcus agalactiae, the main cause of neonatal infection in humans, was generated and Mathematical extrapolation of the data suggests that the gene reservoir available for inclusion in the S. agalactic pan-genome is vast and that unique genes will continue to be identified even after sequencing hundreds of genomes.
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Mobile elements: drivers of genome evolution.
TL;DR: Mobile elements within genomes have driven genome evolution in diverse ways and are becoming useful tools for learning more about genome evolution and gene function.
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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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