Charactercs of clustered regularly interspaced short palindromic repeats in Shigella and their correlation analysis / 吉林大学学报(医学版)

ABSTRACT

Oetive To analyze the characteristics of clustered regularly interspaced short palindromic repeats (CRISPR) in Shigella from the database and clinic, and to explore the characteristics of CRISPR-Q1 and the correlations among CRISPRs. Methods: According to the genome database of Shigella, the primer sequences and PCR amplication were used to obtain the CRISPR sequences of Shigella, and the multiple sequence alignment was used to analyze the CRISPR distribution, the number and features of spacer; BLAST was used to analyze the repeats and spacers in CRISPR-Q1; the distribution characteristics of the repeats and spacers in Shigella and the location and features of CRISPR-Q1 in the strain were detected; the relationships between the spacer number of CRISPR-Q1 and CRISPR1/CRISPR2 in the database and laboratory were analyzed. Results: Among 107 Shigella strains in the database, 106 Shigella strains contained CRISPR1 or CRISPR2, 8 Shigella strains contained severial spacers; 106 Shigella strains contained CRISPR-Q1, and 13 Shigella strains contained severial spacers. A total of 6 among 12 Shigella strains in the laboratory contained CRISPR1 or CRISPR2, all of the 12 strains contained CRISPR-Ql. A portion of the CRISP R-Ql spacer (about 35 bp) widely distributed in the genome of the same strain of chromosome, as was the repeat sequence; CRISPR-Q1 contained the repetitive extragenic palindromic elements (REP). The spacer number of CRISPR-Q1 was related to the CRISPR1 or CRISPR2 of Shigella in the database (χ2 = 61. 60, P<0. 01) and in the laboratory (P=0. 015). Conclusion: CRISPR-Q1 widely distributes in Shigella and the REP elements can be found in CRISPR-Q1. There are correlations between CRISPR1 or CRISPR2 and CRISPR-Q1 in Shigella.