Open AccessSigma 28 promoter prediction in members of the Gammaproteobacteria
Author(s) -
Song Wenjie,
Maiste Paul J.,
Naiman Daniel Q.,
Ward Mandy J.
Publication year - 2007
Publication title -
fems microbiology letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.899
H-Index - 151
eISSN - 1574-6968
pISSN - 0378-1097
DOI - 10.1111/j.1574-6968.2007.00720.x
Subject(s) - gammaproteobacteria , promoter , biology , gene , genome , genetics , sigma factor , computational biology , sigma , consensus sequence , peptide sequence , gene expression , physics , 16s ribosomal rna , quantum mechanics
A two‐step approach was used to predict σ 28 promoter sequences in a number of Gammaproteobacteria . Putative promoters were initially identified upstream of motility and chemotaxis genes in test species based on their similarity to the Escherichia coli σ 28 promoter consensus. These sequences were then used to generate position specific score matrices that were used iteratively during whole‐genome analyses. The consistent identification of promoter sequences upstream of orthologous genes suggested that the predictions were biologically relevant.