Abstract：
:Nine Shiga toxin-producing Escherichia coli O157:H7/H- (O157) strains were serially cultured three times on LB agar plates. After each sub-culture, five colonies were picked for DNA isolation and whole genome sequence (WGS) analysis. After exclusion of possible recombination-related SNPs, 11, 9, and 34 single-nucleotide polymorphisms (SNPs) were detected in genes in the backbone, O-island, and mobile elements gene categories. This suggested that those SNPs due to cultivation could influence the threshold value set for molecular epidemiological studies of O157. Significant differences were observed by the Kruskal-Wallis test (P < 0.01) when the number of the SNPs in a strain was compared to that in other strains. This indicated that a specific number of strains could be used for setting the threshold value in molecular epidemiological studies. Due to cultivation, the SNPs were also detected in genes in a few core genome or core gene sets, suggesting that those SNPs could affect studies of phylogeny as well as molecular epidemiology. To improve the accuracy of phylogenetic and molecular epidemiological studies, genes in which the SNPs have arisen due to cultivation should be excluded from WGS data.
journal_name
Curr Microbioljournal_title
Current microbiologyauthors
Yokoyama E,Hirai S,Ishige T,Murakami Sdoi
10.1007/s00284-017-1208-zsubject
Has Abstractpub_date
2017-04-01 00:00:00pages
425-430issue
4eissn
0343-8651issn
1432-0991pii
10.1007/s00284-017-1208-zjournal_volume
74pub_type
杂志文章abstract：:An alkaline phosphatase (phoA) gene from Zymomonas mobilis was isolated in Escherichia coli CC118 by use of the plasmid Bluescript KS+. The origin of the 6.4-kb DNA fragment in pZAP1 from the chromosome of Z. mobilis was confirmed by Southern blotting and hybridization studies. The Z. mobilis phoA gene was localized a...
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journal_title：Current microbiology
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