Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing Bacterium
In this study, we reported the complete genome sequence of <i>Shewanella oncorhynchi</i> for the first time. <i>S. oncorhynchi</i> Z-P2 is a bacterium that produces the siderophore putrebactin. Its genome consists of a circular chromosome of 5,034,612 bp with a G + C content...
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MDPI AG
2023-12-01
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| Series: | Microorganisms |
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| Online Access: | https://www.mdpi.com/2076-2607/11/12/2961 |
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| author | Ying Zhang Mengjie Pan Qiaoyun Wang Lan Wang Li Liao |
| author_facet | Ying Zhang Mengjie Pan Qiaoyun Wang Lan Wang Li Liao |
| author_sort | Ying Zhang |
| collection | DOAJ |
| description | In this study, we reported the complete genome sequence of <i>Shewanella oncorhynchi</i> for the first time. <i>S. oncorhynchi</i> Z-P2 is a bacterium that produces the siderophore putrebactin. Its genome consists of a circular chromosome of 5,034,612 bp with a G + C content of 45.4%. A total of 4544 protein-coding genes, 109 tRNAs and 31 rRNAs were annotated by the RAST. Five non-ribosomal peptide synthetase (NRPS) and polyketide synthetase (PKS) gene clusters were identified by the antiSMASH analysis. The pan-genome analysis of Z-P2 and 10 <i>Shewanella putrefaciens</i> revealed 9228 pan-gene clusters and 2681 core gene clusters, with Z-P2 having 618 unique gene clusters. Additionally, the gene cluster involved in putrebactin biosynthesis in Z-P2 was annotated, and the mechanism of putrebactin biosynthesis was analyzed. The putrebactin produced by Z-P2 was detected using UPLC-MS analysis, with an [M + H]<sup>+</sup> molecular ion at <i>m</i>/<i>z</i> 373.21. These findings provide valuable support for further research on the genetic engineering of putrebactin biosynthetic genes of Z-P2 and their potential applications. |
| first_indexed | 2024-03-08T20:30:49Z |
| format | Article |
| id | doaj.art-57aed08c78904fb18ab0550478f6b34d |
| institution | Directory Open Access Journal |
| issn | 2076-2607 |
| language | English |
| last_indexed | 2024-03-08T20:30:49Z |
| publishDate | 2023-12-01 |
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| record_format | Article |
| series | Microorganisms |
| spelling | doaj.art-57aed08c78904fb18ab0550478f6b34d2023-12-22T14:26:13ZengMDPI AGMicroorganisms2076-26072023-12-011112296110.3390/microorganisms11122961Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing BacteriumYing Zhang0Mengjie Pan1Qiaoyun Wang2Lan Wang3Li Liao4Key Laboratory of Cold Chain Logistics Technology for Agro-Product, Ministry of Agriculture and Rural Affairs/Institute of Agro-Product Processing and Nuclear Agricultural Technology, Hubei Academy of Agricultural Sciences, Wuhan 430064, ChinaCollege of Food Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, ChinaCollege of Food Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, ChinaKey Laboratory of Cold Chain Logistics Technology for Agro-Product, Ministry of Agriculture and Rural Affairs/Institute of Agro-Product Processing and Nuclear Agricultural Technology, Hubei Academy of Agricultural Sciences, Wuhan 430064, ChinaKey Laboratory of Cold Chain Logistics Technology for Agro-Product, Ministry of Agriculture and Rural Affairs/Institute of Agro-Product Processing and Nuclear Agricultural Technology, Hubei Academy of Agricultural Sciences, Wuhan 430064, ChinaIn this study, we reported the complete genome sequence of <i>Shewanella oncorhynchi</i> for the first time. <i>S. oncorhynchi</i> Z-P2 is a bacterium that produces the siderophore putrebactin. Its genome consists of a circular chromosome of 5,034,612 bp with a G + C content of 45.4%. A total of 4544 protein-coding genes, 109 tRNAs and 31 rRNAs were annotated by the RAST. Five non-ribosomal peptide synthetase (NRPS) and polyketide synthetase (PKS) gene clusters were identified by the antiSMASH analysis. The pan-genome analysis of Z-P2 and 10 <i>Shewanella putrefaciens</i> revealed 9228 pan-gene clusters and 2681 core gene clusters, with Z-P2 having 618 unique gene clusters. Additionally, the gene cluster involved in putrebactin biosynthesis in Z-P2 was annotated, and the mechanism of putrebactin biosynthesis was analyzed. The putrebactin produced by Z-P2 was detected using UPLC-MS analysis, with an [M + H]<sup>+</sup> molecular ion at <i>m</i>/<i>z</i> 373.21. These findings provide valuable support for further research on the genetic engineering of putrebactin biosynthetic genes of Z-P2 and their potential applications.https://www.mdpi.com/2076-2607/11/12/2961complete genomepan-genome analysis<i>Shewanella oncorhynchi</i>siderophoreputrebactin |
| spellingShingle | Ying Zhang Mengjie Pan Qiaoyun Wang Lan Wang Li Liao Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing Bacterium Microorganisms complete genome pan-genome analysis <i>Shewanella oncorhynchi</i> siderophore putrebactin |
| title | Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing Bacterium |
| title_full | Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing Bacterium |
| title_fullStr | Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing Bacterium |
| title_full_unstemmed | Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing Bacterium |
| title_short | Complete Genome Sequence and Pan-Genome Analysis of <i>Shewanella oncorhynchi</i> Z-P2, a Siderophore Putrebactin-Producing Bacterium |
| title_sort | complete genome sequence and pan genome analysis of i shewanella oncorhynchi i z p2 a siderophore putrebactin producing bacterium |
| topic | complete genome pan-genome analysis <i>Shewanella oncorhynchi</i> siderophore putrebactin |
| url | https://www.mdpi.com/2076-2607/11/12/2961 |
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