Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymes
Members of the phylum Bacteroidetes play a key role in the marine carbon cycle through their degradation of polysaccharides via carbohydrate-active enzymes (CAZymes) and polysaccharide utilization loci (PULs). The discovery of novel CAZymes and PULs is important for our understanding of the marine c...
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| Format: | Article |
| Language: | English |
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Elsevier
2024-12-01
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| Series: | Computational and Structural Biotechnology Journal |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2001037023005007 |
| _version_ | 1797372925336092672 |
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| author | Beihan Chen Guohua Liu Quanrui Chen Huanyu Wang Le Liu Kai Tang |
| author_facet | Beihan Chen Guohua Liu Quanrui Chen Huanyu Wang Le Liu Kai Tang |
| author_sort | Beihan Chen |
| collection | DOAJ |
| description | Members of the phylum Bacteroidetes play a key role in the marine carbon cycle through their degradation of polysaccharides via carbohydrate-active enzymes (CAZymes) and polysaccharide utilization loci (PULs). The discovery of novel CAZymes and PULs is important for our understanding of the marine carbon cycle. In this study, we isolated and identified a potential new genus of the family Catalimonadaceae, in the phylum Bacteroidetes, from the southwest Indian Ocean. Strain TK19036, the type strain of the new genus, is predicted to encode CAZymes that are relatively abundant in marine Bacteroidetes genomes. Tunicatimonas pelagia NBRC 107804T, Porifericola rhodea NBRC 107748T and Catalinimonas niigatensis NBRC 109829T, which exhibit 16 S rRNA similarities exceeding 90% with strain TK19036, and belong to the same family, were selected as reference strains. These organisms possess a highly diverse repertoire of CAZymes and PULs, which may enable them to degrade a wide range of polysaccharides, especially pectin and alginate. In addition, some secretory CAZymes in strain TK19036 and its relatives were predicted to be transported by type IX secretion system (T9SS). Further, to the best of our knowledge, we propose the first reported “hybrid” PUL targeting alginates in T. pelagia NBRC 107804T. Our findings provide new insights into the polysaccharide degradation capacity of marine Bacteroidetes, and suggest that T9SS may play a more important role in this process than previously believed. |
| first_indexed | 2024-03-08T18:42:49Z |
| format | Article |
| id | doaj.art-57be2992229e40faab58e623f69e3313 |
| institution | Directory Open Access Journal |
| issn | 2001-0370 |
| language | English |
| last_indexed | 2024-03-08T18:42:49Z |
| publishDate | 2024-12-01 |
| publisher | Elsevier |
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| series | Computational and Structural Biotechnology Journal |
| spelling | doaj.art-57be2992229e40faab58e623f69e33132023-12-29T04:45:04ZengElsevierComputational and Structural Biotechnology Journal2001-03702024-12-0123406416Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymesBeihan Chen0Guohua Liu1Quanrui Chen2Huanyu Wang3Le Liu4Kai Tang5State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Science, Fujian Key Laboratory of Marine Carbon Sequestration, Xiamen University, Xiamen, China; School of Oceanography, Shanghai Jiao Tong University, Shanghai, ChinaState Key Laboratory of Marine Environmental Science, College of Ocean and Earth Science, Fujian Key Laboratory of Marine Carbon Sequestration, Xiamen University, Xiamen, ChinaState Key Laboratory of Marine Environmental Science, College of Ocean and Earth Science, Fujian Key Laboratory of Marine Carbon Sequestration, Xiamen University, Xiamen, ChinaState Key Laboratory of Marine Environmental Science, College of Ocean and Earth Science, Fujian Key Laboratory of Marine Carbon Sequestration, Xiamen University, Xiamen, ChinaState Key Laboratory of Marine Environmental Science, College of Ocean and Earth Science, Fujian Key Laboratory of Marine Carbon Sequestration, Xiamen University, Xiamen, ChinaState Key Laboratory of Marine Environmental Science, College of Ocean and Earth Science, Fujian Key Laboratory of Marine Carbon Sequestration, Xiamen University, Xiamen, China; Corresponding author.Members of the phylum Bacteroidetes play a key role in the marine carbon cycle through their degradation of polysaccharides via carbohydrate-active enzymes (CAZymes) and polysaccharide utilization loci (PULs). The discovery of novel CAZymes and PULs is important for our understanding of the marine carbon cycle. In this study, we isolated and identified a potential new genus of the family Catalimonadaceae, in the phylum Bacteroidetes, from the southwest Indian Ocean. Strain TK19036, the type strain of the new genus, is predicted to encode CAZymes that are relatively abundant in marine Bacteroidetes genomes. Tunicatimonas pelagia NBRC 107804T, Porifericola rhodea NBRC 107748T and Catalinimonas niigatensis NBRC 109829T, which exhibit 16 S rRNA similarities exceeding 90% with strain TK19036, and belong to the same family, were selected as reference strains. These organisms possess a highly diverse repertoire of CAZymes and PULs, which may enable them to degrade a wide range of polysaccharides, especially pectin and alginate. In addition, some secretory CAZymes in strain TK19036 and its relatives were predicted to be transported by type IX secretion system (T9SS). Further, to the best of our knowledge, we propose the first reported “hybrid” PUL targeting alginates in T. pelagia NBRC 107804T. Our findings provide new insights into the polysaccharide degradation capacity of marine Bacteroidetes, and suggest that T9SS may play a more important role in this process than previously believed.http://www.sciencedirect.com/science/article/pii/S2001037023005007BacteroidetesPolysaccharide metabolismCarbohydrate-active enzymesType IX secretion systemComparative genomic analysis |
| spellingShingle | Beihan Chen Guohua Liu Quanrui Chen Huanyu Wang Le Liu Kai Tang Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymes Computational and Structural Biotechnology Journal Bacteroidetes Polysaccharide metabolism Carbohydrate-active enzymes Type IX secretion system Comparative genomic analysis |
| title | Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymes |
| title_full | Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymes |
| title_fullStr | Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymes |
| title_full_unstemmed | Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymes |
| title_short | Discovery of a novel marine Bacteroidetes with a rich repertoire of carbohydrate-active enzymes |
| title_sort | discovery of a novel marine bacteroidetes with a rich repertoire of carbohydrate active enzymes |
| topic | Bacteroidetes Polysaccharide metabolism Carbohydrate-active enzymes Type IX secretion system Comparative genomic analysis |
| url | http://www.sciencedirect.com/science/article/pii/S2001037023005007 |
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