NDLI: Comparison of 61 Sequenced Escherichia coli Genomes

Content Provider	Springer Nature Link
Author	Lukjancenko, Oksana Wassenaar, Trudy M. Ussery, David W.
Copyright Year	2010
Abstract	Escherichia coli is an important component of the biosphere and is an ideal model for studies of processes involved in bacterial genome evolution. Sixty-one publically available E. coli and Shigella spp. sequenced genomes are compared, using basic methods to produce phylogenetic and proteomics trees, and to identify the pan- and core genomes of this set of sequenced strains. A hierarchical clustering of variable genes allowed clear separation of the strains into clusters, including known pathotypes; clinically relevant serotypes can also be resolved in this way. In contrast, when in silico MLST was performed, many of the various strains appear jumbled and less well resolved. The predicted pan-genome comprises 15,741 gene families, and only 993 (6%) of the families are represented in every genome, comprising the core genome. The variable or ‘accessory’ genes thus make up more than 90% of the pan-genome and about 80% of a typical genome; some of these variable genes tend to be co-localized on genomic islands. The diversity within the species E. coli, and the overlap in gene content between this and related species, suggests a continuum rather than sharp species borders in this group of Enterobacteriaceae.
Starting Page	708
Ending Page	720
Page Count	13
File Format	PDF
ISSN	00953628
Journal	Microbial Ecology
Volume Number	60
Issue Number	4
e-ISSN	1432184X
Language	English
Publisher	Springer-Verlag
Publisher Date	2010-07-11
Publisher Place	New York
Access Restriction	Subscribed
Subject Keyword	Nature Conservation Geoecology/Natural Processes Microbial Ecology Ecology Microbiology
Content Type	Text
Resource Type	Article
Subject	Soil Science Ecology Ecology, Evolution, Behavior and Systematics

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