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Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group

Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) is an adaptive immune system that resists foreign genes through nuclease targeting in bacteria and archaea. In this study, we analyzed 68 strains of Lactobacillus casei group from the NCBI GenBank database, and bioinformatic tools we...

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Autores principales: Yang, Lan, Li, Weixun, Ujiroghene, Obaroakpo Joy, Yang, Yang, Lu, Jing, Zhang, Shuwen, Pang, Xiaoyang, Lv, Jiaping
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7156538/
https://www.ncbi.nlm.nih.gov/pubmed/32322250
http://dx.doi.org/10.3389/fmicb.2020.00624
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author Yang, Lan
Li, Weixun
Ujiroghene, Obaroakpo Joy
Yang, Yang
Lu, Jing
Zhang, Shuwen
Pang, Xiaoyang
Lv, Jiaping
author_facet Yang, Lan
Li, Weixun
Ujiroghene, Obaroakpo Joy
Yang, Yang
Lu, Jing
Zhang, Shuwen
Pang, Xiaoyang
Lv, Jiaping
author_sort Yang, Lan
collection PubMed
description Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) is an adaptive immune system that resists foreign genes through nuclease targeting in bacteria and archaea. In this study, we analyzed 68 strains of Lactobacillus casei group from the NCBI GenBank database, and bioinformatic tools were used to investigate the occurrence and diversity of CRISPR system. The results showed that a total of 30 CRISPR loci were identified from 27 strains. Apart from three strains which contained double loci with distinguishable distributed sites, most strains contained only one CRISPR locus. The analysis of direct repeat (DR) sequences showed that all DR could form stable RNA secondary structures. The CRISPR spacers showed diversity, and their origin and evolution were revealed through the investigation of their spacer sequences. In addition, a large number of CRISPR spacers showed perfect homologies to phage and plasmid sequences. Collectively, our results would contribute to researches of resistance in L. casei group, and also provide a new vision on the diversity and evolution of CRISPR/Cas system.
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spelling pubmed-71565382020-04-22 Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group Yang, Lan Li, Weixun Ujiroghene, Obaroakpo Joy Yang, Yang Lu, Jing Zhang, Shuwen Pang, Xiaoyang Lv, Jiaping Front Microbiol Microbiology Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) is an adaptive immune system that resists foreign genes through nuclease targeting in bacteria and archaea. In this study, we analyzed 68 strains of Lactobacillus casei group from the NCBI GenBank database, and bioinformatic tools were used to investigate the occurrence and diversity of CRISPR system. The results showed that a total of 30 CRISPR loci were identified from 27 strains. Apart from three strains which contained double loci with distinguishable distributed sites, most strains contained only one CRISPR locus. The analysis of direct repeat (DR) sequences showed that all DR could form stable RNA secondary structures. The CRISPR spacers showed diversity, and their origin and evolution were revealed through the investigation of their spacer sequences. In addition, a large number of CRISPR spacers showed perfect homologies to phage and plasmid sequences. Collectively, our results would contribute to researches of resistance in L. casei group, and also provide a new vision on the diversity and evolution of CRISPR/Cas system. Frontiers Media S.A. 2020-04-08 /pmc/articles/PMC7156538/ /pubmed/32322250 http://dx.doi.org/10.3389/fmicb.2020.00624 Text en Copyright © 2020 Yang, Li, Ujiroghene, Yang, Lu, Zhang, Pang and Lv. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Yang, Lan
Li, Weixun
Ujiroghene, Obaroakpo Joy
Yang, Yang
Lu, Jing
Zhang, Shuwen
Pang, Xiaoyang
Lv, Jiaping
Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group
title Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group
title_full Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group
title_fullStr Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group
title_full_unstemmed Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group
title_short Occurrence and Diversity of CRISPR Loci in Lactobacillus casei Group
title_sort occurrence and diversity of crispr loci in lactobacillus casei group
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7156538/
https://www.ncbi.nlm.nih.gov/pubmed/32322250
http://dx.doi.org/10.3389/fmicb.2020.00624
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