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| Data analysis of virulence factors in uropathogemic Escherichia coli NB8 by whole genome sequencing |
| WENG Xingbei1, MI Zuhuang2, WANG Chunxin3, ZHU Jianming4. |
1.Department of Medical Laboratory, Ningbo First Hospital, Ningbo, 315010; 2.Department of Bioinformation, Wuxi Clon-Gen Techonology Institute, Wuxi, 214026; 3.Department of Medical Laboratory, Wuxi People’s Hospital Affiliated to Nanjing Medical University, Wuxi, 214023; 4.Department of Medical Laboratory, Hangzhou Yuhang Hospital of Traditional Chinese Medicine, Hangzhou, 311106
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| Cite this article: |
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WENG Xingbei,MI Zuhuang,WANG Chunxin, et al. Data analysis of virulence factors in uropathogemic Escherichia coli NB8 by whole genome sequencing[J]. JOURNAL OF WEZHOU MEDICAL UNIVERSITY, 2016, 46(11): 798-806.
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Abstract Objective: To investigate virulence factors and pathogenic mechanisms in uropathogemic Escherichia coli (UPEC) NB8. Methods: UPEC NB8 was collected from urine sample of an inpatient in Ningbo First Hospital, in April, 2012. Sequencing gyrA and parC, BLASTn algorithm were performed to identify E.coli. Then, whole genome were sequenced by Illumina HiSeq and Ion Torrent PGM, and PCR was performed to fill gaps. Data mining of virulence factors were performed, and comparative genomics of virulence factors in NB8 and 9 strains of UPEC after whole genome sequencing were performed. Results: By whole genome sequencing, a putative chromosome sequence (14 gaps inside) was 4 550 369 bp, a putative plasmid sequence (33 gaps inside) was 635 377 bp. Some classes of virulence factors were positive in NB8, including adhesion (adhesin, type P fimbriae, type I fimbriae, Escherichia coli common pilus), iron uptake(aerobactin, heme, enterobactin), protease (secreted autotransporter toxin), toxin (hemolysin), Ag43, SHI-2 pathogenicity island protein. Conclusion: Virulence factors in UPEC NB8 played an important role in adhesion, invasion, cell viability, cell toxicity, and contribute to enhance the survival and virulence of the bacteria, so lead to urinary tract infection. Whole genome sequencing technology has the advantages of high speed, high throughput, low cost and high efficiency, which is worth of promoting.
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Received: 27 January 2016
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