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首页> 外文期刊>Gut Pathogens >Comparative genomic analysis of Shiga toxin-producing and non-Shiga toxin-producing Escherichia coli O157 isolated from outbreaks in Korea
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Comparative genomic analysis of Shiga toxin-producing and non-Shiga toxin-producing Escherichia coli O157 isolated from outbreaks in Korea

机译：从韩国暴发中分离出的产生志贺毒素和不产生志贺毒素的大肠杆菌O157的比较基因组分析

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BackgroundThe Shiga toxin-producing Escherichia coli (STEC) O157 strain NCCP15739 and non-STEC O157 strain NCCP15738 were isolated from outbreaks in Korea. We characterized NCCP15739 and NCCP15738 by genome sequencing and a comparative genomic analysis using two additional strains, E. coli K-12 substr. MG1655 and O157:H7 EDL933. ResultsUsing the Illumina HiSeq 2000 platform and the RAST server, the whole genomes of NCCP15739 and NCCP15738 were obtained and annotated. NCCP15739 and NCCP15738 clustered with different E. coli strains based on a whole-genome phylogeny and multi-locus sequence typing analysis. Functional annotation clustering indicated enrichment for virulence plasmid and hemolysis-related genes in NCCP15739 and conjugation- and flagellum-related genes in NCCP15738. Defense mechanism- and pathogenicity-related pathways were enriched in NCCP15739 and pathways related to the assimilation of energy sources were enriched in NCCP15738. We identified 66 and 18 virulence factors from the NCCP15739 and NCCP15738 genome, respectively. Five and eight antibiotic resistance genes were identified in the NCCP15739 and NCCP15738 genomes, respectively. Based on a comparative analysis of phage-associated regions, NCCP15739 and NCCP15738 had specific prophages. The prophages in NCCP15739 carried virulence factors, but those in NCCP15738 did not, and no antibiotic resistance genes were found in the phage-associated regions. ConclusionsOur whole-genome sequencing and comparative genomic analysis revealed that NCCP15739 and NCCP15738 have specific genes and pathways. NCCP15739 had more genes (410), virulence factors (48), and phage-related regions (11) than NCCP15738. However, NCCP15738 had three more antibiotic resistance genes than NCCP15739. These differences may explain differences in pathogenicity and biological characteristics.
机译：背景技术从韩国的暴发中分离出产生志贺毒素的大肠杆菌O157菌株NCCP15739和非STEC O157菌株NCCP15738。我们通过基因组测序和使用两个额外菌株E. coli K-12 substr的比较基因组分析对NCCP15739和NCCP15738进行了表征。 MG1655和O157：H7 EDL933。结果利用Illumina HiSeq 2000平台和RAST服务器，获得并注释了NCCP15739和NCCP15738的全部基因组。基于全基因组系统发育和多位点序列类型分析，NCCP15739和NCCP15738与不同的大肠杆菌菌株聚集在一起。功能注释聚类表明NCCP15739中的毒力质粒和溶血相关基因以及NCCP15738中的缀合和鞭毛相关基因富集。 NCCP15739丰富了防御机制和致病性相关的途径，NCCP15738丰富了与能量吸收相关的途径。我们分别从NCCP15739和NCCP15738基因组中鉴定出66和18个毒力因子。在NCCP15739和NCCP15738基因组中分别鉴定出五个和八个抗生素抗性基因。根据对噬菌体相关区域的比较分析，NCCP15739和NCCP15738具有特定的提议。 NCCP15739中的噬菌体带有毒力因子，但NCCP15738中的噬菌体没有毒力因子，并且在噬菌体相关区域没有发现抗生素抗性基因。结论我们的全基因组测序和比较基因组分析表明，NCCP15739和NCCP15738具有特定的基因和途径。与NCCP15738相比，NCCP15739具有更多的基因（410），毒力因子（48）和噬菌体相关区域（11）。但是，NCCP15738的抗生素抗性基因比NCCP15739多三个。这些差异可以解释致病性和生物学特性的差异。

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