食品与发酵工业2025，Vol.51Issue(15)：24-31,中插3,9.DOI:10.13995/j.cnki.11-1802/ts.040995
格氏乳杆菌CRISPR/Cas系统生物信息学分析
Bioinformatic analysis of CRISPR/Cas system in Lactobacillus gasseri
摘要
Abstract
In recent years,the clustered regularly interspaced short palindromic repeats(CRISPR)/associated protein(CRISPR/Cas)system has become a powerful tool for gene editing.The aim of the study was to analyze the structure and function of the CRISPR/Cas system in Lactobacillus gasseri.A total of 142 L.gasseri genomes from the GenBank database were analyzed,and CRISPR loci were identified through CRISPRViz software.Using CRISPROne to predict Cas protein types and tracrRNA locations,while RNAfold to model the secondary structure of CRISPR repeats.Using CRISPRTarget to predict spacer homologues and the protospacer adjacent motif(PAM).The results showed that 31 strains contained CRISPR system with 54 CRISPR loci.The CRISPR repeats ranged from 28 to 38 nucleotides,while spacers ranged from 26 to 38 nucleotides.A total of 29 strains were found to carry cas genes,predominantly of subtype Ⅱ-A(26 strains,89.66％),and subtype Ⅰ-E genes were detected in 9 strains(31％).Six strains carried cas genes from both subtypes.Additionally,24 subtype Ⅱ-A strains contained two tracrRNA genes,located upstream of the cas9 gene and in the non-coding region be-tween the cas1 and cas9 genes,respectively.Analysis identified 456 unique CRISPR spacers,with 109 targeting phages and 93 targeting plasmids.The predicted PAM sequence for L.gasseri Cas9 was 5′-AAAA-3′.The findings serve as a reference for developing CRISPR/Cas9-based gene editing tools for L.gasseri.关键词
格氏乳杆菌/CRISPR/Cas/重复序列/间隔序列/tracrRNA/前间隔序列邻近基序Key words
Lactobacillus gasseri/CRISPR/Cas/repeats/spacer/tracrRNA/protospacer adjacent motif(PAM)引用本文复制引用
廖彩羽,汤科,程道梅,赵长菘,高睿,王铎蓉,肖宇涵,韩云蕾..格氏乳杆菌CRISPR/Cas系统生物信息学分析[J].食品与发酵工业,2025,51(15):24-31,中插3,9.基金项目
四川省自然科学基金项目(2022NSFSC1679) （2022NSFSC1679）
成都医学院研究生科研创新基金项目(YCX2024-01-71) （YCX2024-01-71）
