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
PanGeT: Pan-genomics tool.
TL;DR: This work has developed a tool, "PanGeT - Pan-genomics Tool" to compute the 'pan-genome' based on comparisons at the genome as well as the proteome levels, implemented using LaTeX libraries for effective visualization of overall pan- Genome through graphical plots.
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Role of Next-Generation Sequencing (NGS) in Understanding the Microbial Diversity
Anamika Dubey,Muneer Ahmad Malla,Ashwani Kumar +2 more
- 01 Jan 2022
TL;DR: In this article , the authors have addressed the advancements of the next-generation sequencing technology along with different approaches to explore metagenomes of diverse nature and habitat and discussed different types of sequencing technologies, software, workflows, and applications.
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Gene Presence/Absence Variation analysis of coronavirus family displays its pan-genomic diversity.
TL;DR: Wang et al. as mentioned in this paper presented the first pan-genome analysis of 3,932 whole genomes of 101 species out of 4 genera from the coronavirus family, among which only three genes, the S gene, M gene and N gene, are highly conserved.
Evolutionary trends in the prokaryotic community and prokaryotic community-phage systems
Sergey A. Lashin,Sergey A. Lashin,Yu. G. Matushkin,Yu. G. Matushkin,V. V. Suslov,V. V. Suslov,Nikolay A. Kolchanov,Nikolay A. Kolchanov +7 more
TL;DR: The Evolutionary Constructor software has been used for computer simulation of the life and evolution of communities of unicellular haploid organisms (prokaryotic cells).
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Species Concepts and Beyond: Selected Topics Relating to the Species Problem
Frank E. Zachos
- 01 Jan 2016
TL;DR: The authors argue that all species concepts are based on biological reality and that none of them can simply be wrong, and they are real in the sense that they capture biological phenomena and that symbiosis in the biological world is truly a source of evolutionary innovation, there is no reason why it cannot also be so in the conceptual world of theories.
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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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