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Clustered, regularly interspaced short palindromic repeat (CRISPR) diversity and virulence factor distribution in avian Escherichia coli.
Res Microbiol. 2017 Feb - Mar; 168(2):147-156.RM

Abstract

In order to investigate the diverse characteristics of clustered, regularly interspaced short palindromic repeat (CRISPR) arrays and the distribution of virulence factor genes in avian Escherichia coli, 80 E. coli isolates obtained from chickens with avian pathogenic E. coli (APEC) or avian fecal commensal E. coli (AFEC) were identified. Using the multiplex polymerase chain reaction (PCR), five genes were subjected to phylogenetic typing and examined for CRISPR arrays to study genetic relatedness among the strains. The strains were further analyzed for CRISPR loci and virulence factor genes to determine a possible association between their CRISPR elements and their potential virulence. The strains were divided into five phylogenetic groups: A, B1, B2, D and E. It was confirmed that two types of CRISPR arrays, CRISPR1 and CRISPR2, which contain up to 246 distinct spacers, were amplified in most of the strains. Further classification of the isolates was achieved by sorting them into nine CRISPR clusters based on their spacer profiles, which indicates a candidate typing method for E. coli. Several significant differences in invasion-associated gene distribution were found between the APEC isolates and the AFEC isolates. Our results identified the distribution of 11 virulence genes and CRISPR diversity in 80 strains. It was demonstrated that, with the exception of iucD and aslA, there was no sharp demarcation in the gene distribution between the pathogenic (APEC) and commensal (AFEC) strains, while the total number of indicated CRISPR spacers may have a positive correlation with the potential pathogenicity of the E. coli isolates.

Authors+Show Affiliations

Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China.Shanghai Key Laboratory of Veterinary Biotechnology, Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China. Electronic address: yanyaxian@sjtu.edu.cn.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

27789334

Citation

Fu, Qiang, et al. "Clustered, Regularly Interspaced Short Palindromic Repeat (CRISPR) Diversity and Virulence Factor Distribution in Avian Escherichia Coli." Research in Microbiology, vol. 168, no. 2, 2017, pp. 147-156.
Fu Q, Su Z, Cheng Y, et al. Clustered, regularly interspaced short palindromic repeat (CRISPR) diversity and virulence factor distribution in avian Escherichia coli. Res Microbiol. 2017;168(2):147-156.
Fu, Q., Su, Z., Cheng, Y., Wang, Z., Li, S., Wang, H., Sun, J., & Yan, Y. (2017). Clustered, regularly interspaced short palindromic repeat (CRISPR) diversity and virulence factor distribution in avian Escherichia coli. Research in Microbiology, 168(2), 147-156. https://doi.org/10.1016/j.resmic.2016.10.002
Fu Q, et al. Clustered, Regularly Interspaced Short Palindromic Repeat (CRISPR) Diversity and Virulence Factor Distribution in Avian Escherichia Coli. Res Microbiol. 2017 Feb - Mar;168(2):147-156. PubMed PMID: 27789334.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Clustered, regularly interspaced short palindromic repeat (CRISPR) diversity and virulence factor distribution in avian Escherichia coli. AU - Fu,Qiang, AU - Su,Zhixin, AU - Cheng,Yuqiang, AU - Wang,Zhaofei, AU - Li,Shiyu, AU - Wang,Heng'an, AU - Sun,Jianhe, AU - Yan,Yaxian, Y1 - 2016/10/24/ PY - 2016/05/11/received PY - 2016/09/13/revised PY - 2016/10/17/accepted PY - 2016/10/30/pubmed PY - 2017/3/23/medline PY - 2016/11/8/entrez KW - Avian pathogenic Escherichia coli KW - CRISPR KW - Diversity KW - Virulence gene SP - 147 EP - 156 JF - Research in microbiology JO - Res Microbiol VL - 168 IS - 2 N2 - In order to investigate the diverse characteristics of clustered, regularly interspaced short palindromic repeat (CRISPR) arrays and the distribution of virulence factor genes in avian Escherichia coli, 80 E. coli isolates obtained from chickens with avian pathogenic E. coli (APEC) or avian fecal commensal E. coli (AFEC) were identified. Using the multiplex polymerase chain reaction (PCR), five genes were subjected to phylogenetic typing and examined for CRISPR arrays to study genetic relatedness among the strains. The strains were further analyzed for CRISPR loci and virulence factor genes to determine a possible association between their CRISPR elements and their potential virulence. The strains were divided into five phylogenetic groups: A, B1, B2, D and E. It was confirmed that two types of CRISPR arrays, CRISPR1 and CRISPR2, which contain up to 246 distinct spacers, were amplified in most of the strains. Further classification of the isolates was achieved by sorting them into nine CRISPR clusters based on their spacer profiles, which indicates a candidate typing method for E. coli. Several significant differences in invasion-associated gene distribution were found between the APEC isolates and the AFEC isolates. Our results identified the distribution of 11 virulence genes and CRISPR diversity in 80 strains. It was demonstrated that, with the exception of iucD and aslA, there was no sharp demarcation in the gene distribution between the pathogenic (APEC) and commensal (AFEC) strains, while the total number of indicated CRISPR spacers may have a positive correlation with the potential pathogenicity of the E. coli isolates. SN - 1769-7123 UR - https://www.unboundmedicine.com/medline/citation/27789334/Clustered_regularly_interspaced_short_palindromic_repeat__CRISPR__diversity_and_virulence_factor_distribution_in_avian_Escherichia_coli_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S0923-2508(16)30118-8 DB - PRIME DP - Unbound Medicine ER -