Dataset Information

Use of the isocitrate dehydrogenase structural gene for attachment of e14 in Escherichia coli K-12.

ABSTRACT: The e14 element appears to be integrated into the Escherichia coli K-12 isocitrate dehydrogenase structural gene (icd). In being integrated, it replaced the last 52 codons of the gene with a closely related sequence. The two versions of the icd gene produce proteins of the same length but differ by 12 base substitutions that would cause two conservative amino acid replacements.

SUBMITTER: Hill CW

PROVIDER: S-EPMC210168 | biostudies-other | 1989 Jul

REPOSITORIES: biostudies-other

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Use of the isocitrate dehydrogenase structural gene for attachment of e14 in Escherichia coli K-12.

Hill C W CW Gray J A JA Brody H H

Journal of bacteriology 19890701 7

The e14 element appears to be integrated into the Escherichia coli K-12 isocitrate dehydrogenase structural gene (icd). In being integrated, it replaced the last 52 codons of the gene with a closely related sequence. The two versions of the icd gene produce proteins of the same length but differ by 12 base substitutions that would cause two conservative amino acid replacements. ...[more]

PMID: 2661545

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Project description:Sequences of the icd gene, encoding isocitrate dehydrogenase (IDH), were obtained for 33 strains representing the major phylogenetic lineages of Escherichia coli and Salmonella enterica. Evolutionary relationships of the strains based on variation in icd are generally similar to those previously obtained for several other housekeeping and for invasion genes, but the sequences of S. enterica subspecies V strains are unusual in being almost intermediate between those of the other S. enterica subspecies and E. coli. For S. enterica, the ratio of synonymous (silent) to nonsynonymous (replacement) nucleotide substitutions between pairs of strains was larger than comparable values for 12 other housekeeping and invasion genes, reflecting unusually strong purifying selection against amino acid replacement in the IDH enzyme. All amino acids involved in the catalytic activity and conformational changes of IDH are strictly conserved within and between species. In E. coli, the level of variation at the 3' end of the gene is elevated by the presence in some strains of a 165-bp replacement sequence supplied by the integration of either lambdoid phage 21 or defective prophage element e14. The 72 members of the E. coli Reference Collection (ECOR) and five additional E. coli strains were surveyed for the presence of phage 21 (as prophage) by PCR amplification of a phage 21-specific fragment in and adjacent to the host icd, and the sequence of the phage 21 segment extending from the 3' end of icd through the integrase gene (int) was determined in nine strains of E. coli. Phage 21 was found in 39% of E. coli strains, and its distribution among the ECOR strains is nonrandom. In two ECOR strains, the phage 21 int gene is interrupted by a 1,313-bp insertion element that has 99.3% nucleotide sequence identity with IS3411 of E. coli. The phylogenetic relationships of phage 21 strains derived from sequences of two different genomic regions were strongly incongruent, providing evidence of frequent recombination.

Dataset Information

Use of the isocitrate dehydrogenase structural gene for attachment of e14 in Escherichia coli K-12.

Publications

Use of the isocitrate dehydrogenase structural gene for attachment of e14 in Escherichia coli K-12.

Similar Datasets

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