In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> Genomes
Due to their potential application as an alternative to antibiotics, bacteriocins, which are ribosomally synthesized antimicrobial peptides produced by bacteria, have received much attention in recent years. To identify bacteriocins within marine bacteria, most of the studies employed a culture-base...
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MDPI AG
2024-02-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/25/5/2566 |
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| author | Rabeb Teber Shuichi Asakawa |
| author_facet | Rabeb Teber Shuichi Asakawa |
| author_sort | Rabeb Teber |
| collection | DOAJ |
| description | Due to their potential application as an alternative to antibiotics, bacteriocins, which are ribosomally synthesized antimicrobial peptides produced by bacteria, have received much attention in recent years. To identify bacteriocins within marine bacteria, most of the studies employed a culture-based method, which is more time-consuming than the in silico approach. For that, the aim of this study was to identify potential bacteriocin gene clusters and their potential producers in 51 marine <i>Bacillota</i> (formerly <i>Firmicutes</i>) genomes, using BAGEL4, a bacteriocin genome mining tool. As a result, we found out that a majority of selected <i>Bacillota</i> (60.78%) are potential bacteriocin producers, and we identified 77 bacteriocin gene clusters, most of which belong to class I bacteriocins known as RiPPs (ribosomally synthesized and post-translationally modified peptides). The identified putative bacteriocin gene clusters are an attractive target for further in vitro research, such as the production of bacteriocins using a heterologous expression system. |
| first_indexed | 2024-04-25T00:29:31Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-04-25T00:29:31Z |
| publishDate | 2024-02-01 |
| publisher | MDPI AG |
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| series | International Journal of Molecular Sciences |
| spelling | doaj.art-e616cc0e127d47459285dbb2a21201752024-03-12T16:45:27ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672024-02-01255256610.3390/ijms25052566In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> GenomesRabeb Teber0Shuichi Asakawa1Laboratory of Aquatic Molecular Biology and Biotechnology, Department of Aquatic Bioscience, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo, Tokyo 113-8657, JapanLaboratory of Aquatic Molecular Biology and Biotechnology, Department of Aquatic Bioscience, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo, Tokyo 113-8657, JapanDue to their potential application as an alternative to antibiotics, bacteriocins, which are ribosomally synthesized antimicrobial peptides produced by bacteria, have received much attention in recent years. To identify bacteriocins within marine bacteria, most of the studies employed a culture-based method, which is more time-consuming than the in silico approach. For that, the aim of this study was to identify potential bacteriocin gene clusters and their potential producers in 51 marine <i>Bacillota</i> (formerly <i>Firmicutes</i>) genomes, using BAGEL4, a bacteriocin genome mining tool. As a result, we found out that a majority of selected <i>Bacillota</i> (60.78%) are potential bacteriocin producers, and we identified 77 bacteriocin gene clusters, most of which belong to class I bacteriocins known as RiPPs (ribosomally synthesized and post-translationally modified peptides). The identified putative bacteriocin gene clusters are an attractive target for further in vitro research, such as the production of bacteriocins using a heterologous expression system.https://www.mdpi.com/1422-0067/25/5/2566bacteriocinin silicoBAGEL4marine <i>Bacillota</i> (<i>Firmicutes</i>) |
| spellingShingle | Rabeb Teber Shuichi Asakawa In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> Genomes International Journal of Molecular Sciences bacteriocin in silico BAGEL4 marine <i>Bacillota</i> (<i>Firmicutes</i>) |
| title | In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> Genomes |
| title_full | In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> Genomes |
| title_fullStr | In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> Genomes |
| title_full_unstemmed | In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> Genomes |
| title_short | In Silico Screening of Bacteriocin Gene Clusters within a Set of Marine <i>Bacillota</i> Genomes |
| title_sort | in silico screening of bacteriocin gene clusters within a set of marine i bacillota i genomes |
| topic | bacteriocin in silico BAGEL4 marine <i>Bacillota</i> (<i>Firmicutes</i>) |
| url | https://www.mdpi.com/1422-0067/25/5/2566 |
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