Subhadra Bindu, Kim Dong Ho, Kim Jaeseok, Woo Kyungho, Sohn Kyung Mok, Kim Hwa-Jung, Han Kyudong, Oh Man Hwan, Choi Chul Hee
Department of Microbiology and Medical Science, Chungnam National University School of Medicine, 266 Munwha-ro, Jung-gu, Daejeon, 35015, Republic of Korea.
Division of Infectious Diseases, Chungnam National University Hospital, Daejeon, Republic of Korea.
Genes Genomics. 2018 Jun;40(6):643-655. doi: 10.1007/s13258-018-0665-5. Epub 2018 Feb 14.
Urinary tract infections (UTIs) are among the most common infections in humans, predominantly caused by uropathogenic Escherichia coli (UPEC). The diverse genomes of UPEC strains mostly impede disease prevention and control measures. In this study, we comparatively analyzed the whole genome sequence of a highly virulent UPEC strain, namely UPEC 26-1, which was isolated from urine sample of a patient suffering from UTI in Korea. Whole genome analysis showed that the genome consists of one circular chromosome of 5,329,753 bp, comprising 5064 protein-coding genes, 122 RNA genes (94 tRNA, 22 rRNA and 6 ncRNA genes), and 100 pseudogenes, with an average G+C content of 50.56%. In addition, we identified 8 prophage regions comprising 5 intact, 2 incomplete and 1 questionable ones and 63 genomic islands, suggesting the possibility of horizontal gene transfer in this strain. Comparative genome analysis of UPEC 26-1 with the UPEC strain CFT073 revealed an average nucleotide identity of 99.7%. The genome comparison with CFT073 provides major differences in the genome of UPEC 26-1 that would explain its increased virulence and biofilm formation. Nineteen of the total GIs were unique to UPEC 26-1 compared to CFT073 and nine of them harbored unique genes that are involved in virulence, multidrug resistance, biofilm formation and bacterial pathogenesis. The data from this study will assist in future studies of UPEC strains to develop effective control measures.
尿路感染（UTIs）是人类最常见的感染之一，主要由尿路致病性大肠杆菌（UPEC）引起。UPEC菌株多样的基因组大多阻碍了疾病的预防和控制措施。在本研究中，我们对一株高毒力UPEC菌株即UPEC 26-1的全基因组序列进行了比较分析，该菌株是从韩国一名患有UTI的患者的尿液样本中分离出来的。全基因组分析表明，该基因组由一条5329753 bp的环状染色体组成，包含5064个蛋白质编码基因、122个RNA基因（94个tRNA、22个rRNA和6个ncRNA基因）以及100个假基因，平均G+C含量为50.56%。此外，我们鉴定出8个噬菌体区域，包括5个完整的、2个不完整的和1个有疑问的，以及63个基因组岛，这表明该菌株存在水平基因转移的可能性。UPEC 26-1与UPEC菌株CFT073的比较基因组分析显示平均核苷酸同一性为99.7%。与CFT073的基因组比较揭示了UPEC 26-1基因组中的主要差异，这可以解释其毒力增加和生物膜形成的原因。与CFT073相比，UPEC 26-1的19个基因组岛是独特的，其中9个含有与毒力、多药耐药性、生物膜形成和细菌发病机制相关的独特基因。本研究的数据将有助于未来对UPEC菌株的研究，以制定有效的控制措施。
