Characterization of CRISPR-Cas systems in Bifidobacterium breve

被引：2
作者：
Han, Xiao [1 ,2 ]
Zhou, Xingya [1 ,2 ]
Pei, Zhangming [1 ,2 ]
Stanton, Catherine [3 ,4 ,5 ]
Ross, R. Paul [3 ,4 ]
Zhao, Jianxin [1 ,2 ,6 ]
Zhang, Hao [1 ,2 ,6 ,7 ,8 ]
Yang, Bo [1 ,2 ,3 ]
Chen, Wei [1 ,2 ,6 ]
机构：
[1] Jiangnan Univ, State Key Lab Food Sci & Technol, Wuxi, Jiangsu, Peoples R China
[2] Jiangnan Univ, Sch Food Sci & Technol, Wuxi, Jiangsu, Peoples R China
[3] Jiangnan Univ, Int Joint Res Lab Pharmabiot & Antibiot Resistanc, Wuxi, Jiangsu, Peoples R China
[4] Univ Coll Cork, APC Microbiome Ireland, Cork, Ireland
[5] Teagasc Food Res Ctr, Moorepk, Cork, Ireland
[6] Jiangnan Univ, Natl Engn Res Ctr Funct Food, Wuxi, Jiangsu, Peoples R China
[7] Wuxi Translat Med Res Ctr, Wuxi, Jiangsu, Peoples R China
[8] Jiangsu Translat Med Res Inst, Wuxi Branch, Wuxi, Jiangsu, Peoples R China
来源：
MICROBIAL GENOMICS | 2022年 / 8卷 / 04期
基金：
中国国家自然科学基金;
关键词：
Bifidobacterium breve; CRISPR-Cas system; genotyping; prophage; SPACER ACQUISITION; DOUBLE-BLIND; SUPPLEMENTATION; CLASSIFICATION; CHILDREN; BACTERIA; INFANTS; VERSION; GENOME; GUT;
D O I：
10.1099/mgen.0.000812
中图分类号：
Q3 [遗传学];
学科分类号：
071007 ; 090102 ;
摘要：
The clustered regularly interspaced short palindromic repeat (CRISPR)-CRISPR-associated protein (Cas) system is an important adaptive immune system for bacteria to resist foreign DNA infection, which has been widely used in genotyping and gene editing. To provide a theoretical basis for the application of the CRISPR-Cas system in Bifidobacterium breve, the occurrence and diversity of CRISPR-Cas systems were analysed in 150 B. breve strains. Specifically, 47% (71/150) of B. breve genomes possessed the CRISPR-Cas system, and type I-C CRISPR-Cas system was the most widely distributed among those strains. The spacer sequences present in B. breve can be used as a genotyping marker. Additionally, the phage assembly-related proteins were important targets of the type I-C CRISPR-Cas system in B. breve, and the protospacer adjacent motif sequences were further characterized in B. breve type I-C system as 5'-TTC-3'. All these results might provide a molecular basis for the development of endogenous genome editing tools in B. breve.
引用
收藏
页数：12
相关论文
共 70 条
[11]   Therapeutic Microbiology: The Role of Bifidobacterium breve as Food Supplement for the Prevention/Treatment of Paediatric Diseases [J].
Cionci, Nicole Bozzi ;
Baffoni, Loredana ;
Gaggia, Francesca ;
Di Gioia, Diana .
NUTRIENTS, 2018, 10 (11)
[12]   CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins [J].
Couvin, David ;
Bernheim, Aude ;
Toffano-Nioche, Claire ;
Touchon, Marie ;
Michalik, Juraj ;
Neron, Bertrand ;
Rocha, Eduardo P. C. ;
Vergnaud, Gilles ;
Gautheret, Daniel ;
Pourcel, Christine .
NUCLEIC ACIDS RESEARCH, 2018, 46 (W1) :W246-W251
[13]   Characterizing the activity of abundant, diverse and active CRISPR-Cas systems in lactobacilli [J].
Crawley, Alexandra B. ;
Henriksen, Emily D. ;
Stout, Emily ;
Brandt, Katelyn ;
Barrangou, Rodolphe .
SCIENTIFIC REPORTS, 2018, 8
[14]   CRISPRdisco: An Automated Pipeline for the Discovery and Analysis of CRISPR-Cas Systems [J].
Crawley, Alexandra R. ;
Henriksan, Jams R. ;
Barranaou, Rodolphe .
CRISPR JOURNAL, 2018, 1 (02) :171-181
[15]   WebLogo: A sequence logo generator [J].
Crooks, GE ;
Hon, G ;
Chandonia, JM ;
Brenner, SE .
GENOME RESEARCH, 2004, 14 (06) :1188-1190
[16]   CRISPR-Cas9-mediated genome editing in vancomycin-resistant Enterococcus faecium [J].
de Maat, Vincent ;
Stege, Paul B. ;
Dedden, Mark ;
Hamer, Maud ;
van Pijkeren, Jan-Peter ;
Willems, Rob J. L. ;
van Schaik, Willem .
FEMS MICROBIOLOGY LETTERS, 2019, 366 (22)
[17]   Effects of Bifidobacterial Supplementation to Pregnant Women and Infants in the Prevention of Allergy Development in Infants and on Fecal Microbiota [J].
Enomoto, Tadao ;
Sowa, Masanori ;
Nishimori, Keiji ;
Shimazu, Shinichiro ;
Yoshida, Akira ;
Yamada, Kazuko ;
Furukawa, Fukumi ;
Nakagawa, Takemasa ;
Yanagisawa, Naotake ;
Iwabuchi, Noriyuki ;
Odamaki, Toshitaka ;
Abe, Fumiaki ;
Nakayama, Jiro ;
Xiao, Jin-zhong .
ALLERGOLOGY INTERNATIONAL, 2014, 63 (04) :575-585
[18]   Pruning and Tending Immune Memories: Spacer Dynamics in the CRISPR Array [J].
Garrett, Sandra C. .
FRONTIERS IN MICROBIOLOGY, 2021, 12
[19]  
Giacalone Joseph C, 2018, Curr Protoc Stem Cell Biol, V44, DOI 10.1002/cpsc.46
[20]   Harnessing CRISPR-Cas systems for precision engineering of designer probiotic lactobacilli [J].
Goh, Yong Jun ;
Barrangou, Rodolphe .
CURRENT OPINION IN BIOTECHNOLOGY, 2019, 56 :163-171
1234567