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REP code: defining bacterial identity in extragenic space
Author(s) -
Tobes Raquel,
Ramos JuanLuis
Publication year - 2005
Publication title -
environmental microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.954
H-Index - 188
eISSN - 1462-2920
pISSN - 1462-2912
DOI - 10.1111/j.1462-2920.2004.00704.x
Subject(s) - biology , pseudomonas putida , microbiology and biotechnology , genetics , salmonella enterica , sinorhizobium meliloti , genome , palindrome , salmonella , bacteria , gene , symbiosis
Summary Through the analysis of 57 bacterial genomes we have detected repetitive extragenic palindromic DNA sequences (REPs) in 11 species. For a sequence to be considered as REP, the following criteria should be met: (i) It should be extragenic, (ii) palindromic, (iii) of a length between 21 and 65 bases and (iv) should constitute more than 0.5% of the total extragenic space. Species‐specific REPs have been found in human pathogens such as Escherichia coli , Salmonella enterica , Neisseria meningitidis , Mycobacterium tuberculosis , Rickettsia conorii and Pseudomonas aeruginosa , the plant pathogen Agrobacterium tumefaciens and the soil bacteria Deinococcus radiodurans , Pseudomonas putida and Sinorhizobium meliloti .