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
Using unique ORFan genes as strain-specific identifiers for Escherichia coli
Marta Ferrandis-Vila,Svenja Mamerow,Torsten Semmler,Sumeet K. Tiwari,Boas C. L. van der Putten,Nguyen Vinh Trung,Rik Oldenkamp,Martin C. J. Bootsma,Sébastien Matamoros,Hoa T. Ngo,Julio Alvarez,Jennifer M. Ritchie,Amanda S. Fivian-Hughes,Angelika Fruth,Joy Leng,Roberto M. La Ragione,María Ugarte-Ruiz,Astrid Bethe,Stefan Schwarz,Constance Schultsz,Christian Berens,Christian Menge +21 more
TL;DR: In this paper , a method for identifying and differentiating individual strains among multiple strains of the same bacterial species was proposed, using ORFan genes to address the problem of selective and specific strain identification.
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Development of a quantitative model for comparing the genomic and epidemiological signal of foodborne pathogens : improving the application of whole-genome sequencing to infectious disease epidemiology
Benjamin M. Hetman
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TL;DR: An analytical model for quantifying the epidemiological similarity of bacterial isolates based on their sampling metadata is developed, allowing for direct comparison to their genomic similarities.
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Pangenomics in Crop Plants
Cécile Monat,Cécile Monat,Cécile Monat,François Sabot,François Sabot +4 more
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TL;DR: The pangenome as mentioned in this paper is the complete repertoire of sequences for a given population (often a species) and can be divided in compartments, the first one is the core genome which contains the sequences shared by the whole population.
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Genomic Insights Into the Interspecific Diversity and Evolution of Mobiluncus, a Pathogen Associated With Bacterial Vaginosis
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TL;DR: This study provides the first genome sequence level description of Mobiluncus, and may shed light on its virulence/pathogenicity, functional diversification, and evolutionary dynamics.
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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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