Genome Sequences of Escherichia coli B strains REL606 and BL21(DE3)

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Escherichia coli K-12 and B have been the subjects of classical experiments from which much of our understanding of molecular genetics has emerged. We present here complete genome sequences of two E. coli B strains, REL606, used in a long-term evolution experiment, and BL21(DE3), widely used to express recombinant proteins. The two genomes differ in length by 72,304 bp and have 426 single base pair differences, a seemingly large difference for laboratory strains having a common ancestor within the last 67 years. Transpositions by IS1 and IS150 have occurred in both lineages. Integration of the DE3 prophage in BL21(DE3) apparently displaced a defective prophage in the lambda attachment site of B. As might have been anticipated from the many genetic and biochemical experiments comparing B and K-12 over the years, the B genomes are similar in size and organization to the genome of E. coli K-12 MG1655 and have similar to 99% sequence identity over similar to 92% of their genomes. E. coli B and K-12 differ considerably in distribution of IS elements and in location and composition of larger mobile elements. An unexpected difference is the absence of a large cluster of flagella genes in B, due to a 41 kbp IS1-mediated deletion. Gene clusters that specify the LPS core, 0 antigen, and restriction enzymes differ substantially, presumably because of horizontal transfer. Comparative analysis of 32 independently isolated E. coli and Shigella genomes, both commensals and pathogenic strains, identifies a minimal set of genes in common plus many strain-specific genes that constitute a large E. coli pan-genome. (C) 2009 Elsevier Ltd. All rights reserved.
Publisher
ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD
Issue Date
2009-12
Language
English
Article Type
Article
Keywords

TERM EXPERIMENTAL EVOLUTION; O-ANTIGEN VARIATION; DEOXYRIBONUCLEIC ACID; BACTERIAL GENOMES; RNA-POLYMERASE; CLONED GENES; DNA; RESTRICTION; EXPRESSION; ANNOTATION

Citation

JOURNAL OF MOLECULAR BIOLOGY, v.394, no.4, pp.644 - 652

ISSN
0022-2836
DOI
10.1016/j.jmb.2009.09.052
URI
http://hdl.handle.net/10203/97332
Appears in Collection
BS-Journal Papers(저널논문)
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