Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic Analysis
<i>Stutzerimonas kunmingensis</i> TFRC-KFRI-1, isolated from the gut of Manila Clam in the sediment of the West Sea of Korea, was investigated for its potential as a probiotic bacterium. This strain, belonging to the family <i>Pseudomonadaceae</i>, was previously classified a...
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2024-11-01
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| author | Myunglip Lee Sunghun Yi Jiho Choi Yukyoung Park Chaehyeon Lim Yucheol Kim |
| author_facet | Myunglip Lee Sunghun Yi Jiho Choi Yukyoung Park Chaehyeon Lim Yucheol Kim |
| author_sort | Myunglip Lee |
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| description | <i>Stutzerimonas kunmingensis</i> TFRC-KFRI-1, isolated from the gut of Manila Clam in the sediment of the West Sea of Korea, was investigated for its potential as a probiotic bacterium. This strain, belonging to the family <i>Pseudomonadaceae</i>, was previously classified as <i>Pseudomonas kunmingensis</i> but later reclassified to the genus <i>Stutzerimonas</i>, known for species with bioremediation and probiotic properties. To evaluate its genomic features and potential applications, we performed draft-genome sequencing and analysis. The genome of <i>S. kunmingensis</i> TFRC-KFRI-1 was assembled into a 4,756,396 bp sequence with a 62.8% GC content. Genomic analysis suggested potential genes for carbohydrate degradation and lactic acid production. The strain exhibited high average nucleotide identity (ANI) and 16S rRNA similarity with <i>S. kunmingensis</i> HL22-2<sup>T</sup>, further supporting its potential as a probiotic. This genome sequence provides valuable insights into the functional capabilities of <i>S. kunmingensis</i> TFRC-KFRI-1 and its potential applications in various industries, including aquaculture and food biotechnology. The genome sequence is available under GenBank accession number JBGJJB000000000.1, with related project information under BioProject PRJNA1147901 and Bio-Sample SAMN43173893. |
| format | Article |
| id | doaj-art-290ecbfb0cb346cdbaec0dbd38c7eeb6 |
| institution | Kabale University |
| issn | 2076-2607 |
| language | English |
| publishDate | 2024-11-01 |
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| spelling | doaj-art-290ecbfb0cb346cdbaec0dbd38c7eeb62025-08-20T03:49:44ZengMDPI AGMicroorganisms2076-26072024-11-011212240210.3390/microorganisms12122402Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic AnalysisMyunglip Lee0Sunghun Yi1Jiho Choi2Yukyoung Park3Chaehyeon Lim4Yucheol Kim5Korea Food Research Institute (KFRI), Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun 55365, Jeollabuk-do, Republic of KoreaKorea Food Research Institute (KFRI), Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun 55365, Jeollabuk-do, Republic of KoreaNational Institute of Fisheries Science (NIFS), 405, Gangbyeon-ro, Gunsan-si 54042, Jeonbuk-do, Republic of KoreaKorea Food Research Institute (KFRI), Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun 55365, Jeollabuk-do, Republic of KoreaGenetics and Breeding Research Center, National Institute of Fisheries Science, Geoje 53334, Republic of KoreaNational Institute of Fisheries Science (NIFS), 405, Gangbyeon-ro, Gunsan-si 54042, Jeonbuk-do, Republic of Korea<i>Stutzerimonas kunmingensis</i> TFRC-KFRI-1, isolated from the gut of Manila Clam in the sediment of the West Sea of Korea, was investigated for its potential as a probiotic bacterium. This strain, belonging to the family <i>Pseudomonadaceae</i>, was previously classified as <i>Pseudomonas kunmingensis</i> but later reclassified to the genus <i>Stutzerimonas</i>, known for species with bioremediation and probiotic properties. To evaluate its genomic features and potential applications, we performed draft-genome sequencing and analysis. The genome of <i>S. kunmingensis</i> TFRC-KFRI-1 was assembled into a 4,756,396 bp sequence with a 62.8% GC content. Genomic analysis suggested potential genes for carbohydrate degradation and lactic acid production. The strain exhibited high average nucleotide identity (ANI) and 16S rRNA similarity with <i>S. kunmingensis</i> HL22-2<sup>T</sup>, further supporting its potential as a probiotic. This genome sequence provides valuable insights into the functional capabilities of <i>S. kunmingensis</i> TFRC-KFRI-1 and its potential applications in various industries, including aquaculture and food biotechnology. The genome sequence is available under GenBank accession number JBGJJB000000000.1, with related project information under BioProject PRJNA1147901 and Bio-Sample SAMN43173893.https://www.mdpi.com/2076-2607/12/12/2402<i>Stutzerimonas kunmingensis</i>genome sequencingprobioticscarbohydrate degradationManila clam |
| spellingShingle | Myunglip Lee Sunghun Yi Jiho Choi Yukyoung Park Chaehyeon Lim Yucheol Kim Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic Analysis Microorganisms <i>Stutzerimonas kunmingensis</i> genome sequencing probiotics carbohydrate degradation Manila clam |
| title | Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic Analysis |
| title_full | Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic Analysis |
| title_fullStr | Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic Analysis |
| title_full_unstemmed | Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic Analysis |
| title_short | Genomic Insights into <em>Stutzerimonas kunmingensis</em> TFRC-KFRI-1 Isolated from Manila Clam (<em>Ruditapes philippinarum</em>): Functional and Phylogenetic Analysis |
| title_sort | genomic insights into em stutzerimonas kunmingensis em tfrc kfri 1 isolated from manila clam em ruditapes philippinarum em functional and phylogenetic analysis |
| topic | <i>Stutzerimonas kunmingensis</i> genome sequencing probiotics carbohydrate degradation Manila clam |
| url | https://www.mdpi.com/2076-2607/12/12/2402 |
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