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rpoB gene sequencing for phylogenetic analysis of avian pathogenic Escherichia coli

Title
rpoB gene sequencing for phylogenetic analysis of avian pathogenic Escherichia coli
Authors
Kwon H.-J.Seong W.-J.Kim T.-E.Won Y.-J.Kim J.-H.
Ewha Authors
원용진
SCOPUS Author ID
원용진scopus
Issue Date
2015
Journal Title
Korean Journal of Veterinary Research
ISSN
2466-1384JCR Link
Citation
vol. 55, no. 1, pp. 31 - 39
Keywords
Avian pathogenic Escherichia coliMulti-locus sequence typingPhylogenetic analysisrpoB
Publisher
Korean Society of Veterinary Science
Indexed
SCOPUS; KCI scopus
Abstract
The present study was conducted to determine the full rpoB and eight house-keeping gene sequences of 78 and 35, respectively, avian pathogenic E. coli (APEC) strains. Phylogenetic comparison with 66 E. coli and Shigella strains from GenBank and EMBL was also conducted. Based on the full rpoB sequence, 50 different rpoB sequence types (RSTs) were identified. RST 1 was assigned to a major RST that included 34.7% (50/144) of the analyzed strains. RST 2 to RST 50 were then assigned to other strains with higher nucleotide sequence similarity to RST 1 in order. RST 1, 11, and 23 were mixed with APEC along with human commensal and pathogenic strains while RST 2, 6, 9, 13-15, 22, 24, 25, 33, 34, 36, and 41 were unique to APEC strains. Only five APEC strains grouped into RST 32 and 47, which contained human pathogenic E. coli (HPEC). Thus, most of the APEC strains had genetic backgrounds different from HPEC strains. However, the minor APEC strains similar to HPEC should be considered potential zoonotic risks. The resolution power of multi-locus sequence typing (MLST) was better than RST testing. Nevertheless, phylogenetic analysis of rpoB was simpler and more economic than MLST.
DOI
10.14405/kjvr.2015.55.1.31
Appears in Collections:
자연과학대학 > 생명과학전공 > Journal papers
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