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Investigation of CRISPR-Cas Systems Diversity in Clostridium botulinum via Genome Mining Approach
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Naiymeh Sheikholeslami   , Hamid Mirzaei * , Jalil Khandaghi , Yousef Nami , Afshin Javadi |
| Department of Food Hygiene, Faculty of Veterinary Medicine, Tabriz Medical Sciences, Islamic Azad University, Tabriz, Iran. & Department of food Biotechnology, Biotechnology Research Center, Tabriz Branch, Islamic Azad University, Tabriz, Iran. |
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Abstract: (670 Views) |
Clustered regularly interspaced short palindromic repeats and its associated protein or CRISPR-Cas systems are valuable genetic targets for bacterial phylogeny analysis in epidemiological studies. In this study, the genomic data of 800 sequences of Clostridium botulinum strains from the National Center for Biotechnology Information (NCBI) database was collected and the occurrence and variety of the complete CRISPR-Cas systems and its spacer and repeat sequences evaluated in the genomes recorded for these bacteria with the in-silico method. Also, the secondary structures of repeat sequences were predicted based on the minimum free energy (MFE) algorithm. According to the results, from the 526 genomes with complete CRISPR-Cas array, 306 strains (58%) had Cas genes. Subtypes I-B, I-D, II-C, III-D, and III-B were identified in these arrays. The findings also revealed that Cas 6 is the main protein produced by expression module genes in the studied CRISPR-Cas systems, and diverse Cas proteins are produced by the adaptation and interference modules in these arrays. The average length of spacer and repeat sequences in CRISPR arrays was 30-35 and 30-36 bp, respectively. Moreover, the prediction of secondary structures of repeat sequences showed that subtype II-C, with longer stems than other subtypes, tends to form more stable RNA secondary structures. |
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| Keywords: Clostridium botulinum, CRISPR-Cas, Genome Mining, Repeat Sequence, Spacer Sequence. |
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Full-Text [PDF 2448 kb]
(196 Downloads)
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Type of Study: Research |
Subject:
Special
Received: 2024/05/11 | Accepted: 2024/02/29 | Published: 2024/02/29
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