지원사업
학술연구/단체지원/교육 등 연구자 활동을 지속하도록 DBpia가 지원하고 있어요.
커뮤니티
연구자들이 자신의 연구와 전문성을 널리 알리고, 새로운 협력의 기회를 만들 수 있는 네트워킹 공간이에요.
초록· 키워드
오류제보하기
CRISPR/Cas system (Clustered regularly interspaced short palindromic repeats–CRISPR associated genes) helps the bacteria or the archaea to gain immunity against phage or plasmid invasions. Lactobacillus curvatus has been known to be phylogenetically related to Lactobacillus fuchuensis, Lactobacillus graminis, and Lactobacillus sakei. In this study, this relationship has been investigated in terms of CRISPR/Cas systems, Cas1, Cas2 amino acid sequences, protospacers, and anti-repeat sequences. A total of 54 genomes (34 whole-genome and 20 draft genome) were investigated, 25 genomes had CRISPR/Cas system, namely, 23 type II-A, 2 II-C, and 2 I-E. The pairwise identity of anti-repeat sequences was 77.4%. Phylogeny analysis and alignment of Cas1 and Cas2 amino acid sequences were carried out to evaluate the relationship among CRISPR subtypes and four species. The phylogenetic tree tended to split into branches corresponding to the CRISPR/Cas subtype II-A, II-C, and I-E. According to protospacer analysis, common invaders of strains were Pediococcus damnosus, Pediococcus claussenii, Lactobacillus brevis, Lactobacillus backii, Lactobacillus plantarum, and Lactobacillus sakei. The secondary structure of seven different repeat sequences was depicted. Recently, although detection of CRISPR/Cas systems has been highly attractive for genotyping, this intention has also been used for endogenous genome editing to improve the industrial benefits of lactic acid bacteria. This detailed study will provide a perspective on these approaches.
목차
Materials and Methods
Results and Discussion
References
참고문헌 (42)
참고문헌 신청
Alkhnbashi OS, Meier T, Mitrofanov A, Backofen R, and Voß B. 2020. CRISPR-Cas bioinformatics. Methods 172, 3–11.
Allouche AR. 2012. Gabedit - a graphical user interface for computational chemistry softwares. J. Comput. Chem. 32, 174–182.
Barrangou R and Dudley EG. 2016. CRISPR-based typing and nextgeneration tracking technologies. Annu. Rev. Food Sci. Technol. 7, 395–411.
Beck R, Weiss N, and Winter J. 1988. Lactobacillus graminis sp. nov., a new species of facultatively heterofermentative lactobacilli surviving at low pH in grass silage. Syst. Appl. Microbiol. 10, 279–283.
Biswas A, Fineran PC, Brown CM. 2014. Accurate computational prediction of the transcribed strand of CRISPR non-coding RNAs. Bioinformatics 30, 1805–1813.
Allouche AR. 2012. Gabedit - a graphical user interface for computational chemistry softwares. J. Comput. Chem. 32, 174–182.
Barrangou R and Dudley EG. 2016. CRISPR-based typing and nextgeneration tracking technologies. Annu. Rev. Food Sci. Technol. 7, 395–411.
Beck R, Weiss N, and Winter J. 1988. Lactobacillus graminis sp. nov., a new species of facultatively heterofermentative lactobacilli surviving at low pH in grass silage. Syst. Appl. Microbiol. 10, 279–283.
Biswas A, Fineran PC, Brown CM. 2014. Accurate computational prediction of the transcribed strand of CRISPR non-coding RNAs. Bioinformatics 30, 1805–1813.
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