致病性大肠杆菌特定碱基序列的基因组分析鉴定

Soobok Joe, Hojung Nam
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引用次数: 1

摘要

大肠杆菌序列131型(ST131)是引起耐药感染的病原体之一。比较基因组分析允许解释病原体的毒力因素。因此,在本研究中,我们分析了致病性大肠杆菌ST131和非致病性大肠杆菌K-12之间的基因组差异。在本研究中,我们鉴定了96株大肠杆菌ST131与大肠杆菌K-12在基因元件及其非编码调控元件上的基因组差异。利用下一代全基因组测序数据,我们研究了蛋白质编码区及其调控区的遗传变异。序列reads比对后,在调控序列和蛋白编码序列中发现了大量的单核苷酸变异(snv)。在调控区域,我们发现了强保守区域,在这种情况下,核糖体结合位点。在基因区域,我们发现了保守的启动和停止密码子,每个密码子的具体位置普遍不同。除了这些保守性良好的区域外,其他变异随机分布在调控区域。甚至在启动子中具有众所周知的保守序列(如-10和-35)的区域也有类似水平的变异。在这项研究中,我们发现致病性大肠杆菌ST 131菌株和非致病性大肠杆菌K-12之间存在基因组差异。此外,还测定了蛋白编码区和调控区序列变异的数量。然而,我们发现变异对蛋白质编码区域的影响不如对调控区域的影响显著。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Identification of a Specific Base Sequence of Pathogenic E. Coli through a Genomic Analysis
E. coli sequence type 131 (ST131) is one of pathogens that causes resistant infections. Comparative genome analyses allow interpretations of the virulence factors of pathogens. Thus, in this study, we analysis the genomic differences between the pathogenic E. coli ST131 and the non-pathogenic E. coli K-12. In this study, we identify the genomic differences between 96 E. coli ST131 strains and the E. coli K-12 in gene elements and their non-coding regulation elements. Using next-generation whole-genome sequencing data, we investigated genetic variations of protein-coding regions and their regulation regions. After the alignment of the sequence reads, large numbers of single nucleotide variants (SNVs) were observed in the regulation and protein-coding sequences. In the regulation regions, we found strong conserved regions, in this case, ribosome binding sites. In the gene regions, we found conserved start and stop codons with the specific position varying commonly in each codon. Except for these well-conserved regions, other variations were randomly distributed in regulation regions. Even a region having well-known conserved sequences such as -10 and -35 in the promoter had a similar level of variation. In this study, we found genomic variations between the pathogenic E. coli ST 131 strain and the non-pathogenic E. coli K-12. In addition, the numbers of sequence variations were determined in both the protein-coding regions and the regulation regions. However, we found that the effects of variations on the protein-coding regions are less significant than those on the regulation regions.
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