A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea
The Roseobacter clade is abundant and widespread in marine environments and plays an important role in oceanic biogeochemical cycling. In this present study, a lytic siphophage (labeled vB_DshS-R5C) infecting the strain type of Dinoroseobacter shibae named DFL12T, which is part of the Roseobacter cl...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2017-05-01
|
| Series: | Viruses |
| Subjects: | |
| Online Access: | http://www.mdpi.com/1999-4915/9/5/109 |
| _version_ | 1798043541200437248 |
|---|---|
| author | Yunlan Yang Lanlan Cai Ruijie Ma Yongle Xu Yigang Tong Yong Huang Nianzhi Jiao Rui Zhang |
| author_facet | Yunlan Yang Lanlan Cai Ruijie Ma Yongle Xu Yigang Tong Yong Huang Nianzhi Jiao Rui Zhang |
| author_sort | Yunlan Yang |
| collection | DOAJ |
| description | The Roseobacter clade is abundant and widespread in marine environments and plays an important role in oceanic biogeochemical cycling. In this present study, a lytic siphophage (labeled vB_DshS-R5C) infecting the strain type of Dinoroseobacter shibae named DFL12T, which is part of the Roseobacter clade, was isolated from the oligotrophic South China Sea. Phage R5C showed a narrow host range, short latent period and low burst size. The genome length of phage R5C was 77, 874 bp with a G+C content of 61.5%. Genomic comparisons detected no genome matches in the GenBank database and phylogenetic analysis based on DNA polymerase I revealed phylogenetic features that were distinct to other phages, suggesting the novelty of R5C. Several auxiliary metabolic genes (e.g., phoH gene, heat shock protein and queuosine biosynthesis genes) were identified in the R5C genome that may be beneficial to the host and/or offer a competitive advantage for the phage. Among siphophages infecting the Roseobacter clade (roseosiphophages), four gene transfer agent-like genes were commonly located with close proximity to structural genes, suggesting that their function may be related to the tail of siphoviruses. The isolation and characterization of R5C demonstrated the high genomic and physiological diversity of roseophages as well as improved our understanding of host–phage interactions and the ecology of the marine Roseobacter. |
| first_indexed | 2024-04-11T22:50:29Z |
| format | Article |
| id | doaj.art-12a9d20b44c94a23be88451e18c5580c |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-04-11T22:50:29Z |
| publishDate | 2017-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-12a9d20b44c94a23be88451e18c5580c2022-12-22T03:58:36ZengMDPI AGViruses1999-49152017-05-019510910.3390/v9050109v9050109A Novel Roseosiphophage Isolated from the Oligotrophic South China SeaYunlan Yang0Lanlan Cai1Ruijie Ma2Yongle Xu3Yigang Tong4Yong Huang5Nianzhi Jiao6Rui Zhang7State Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361102, Fujian, ChinaState Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361102, Fujian, ChinaState Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361102, Fujian, ChinaState Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361102, Fujian, ChinaBeijing Institute of Microbiology and Epidemiology, State Key Laboratory of Pathogen and Biosecurity, Beijing 100071, ChinaBeijing Institute of Microbiology and Epidemiology, State Key Laboratory of Pathogen and Biosecurity, Beijing 100071, ChinaState Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361102, Fujian, ChinaState Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361102, Fujian, ChinaThe Roseobacter clade is abundant and widespread in marine environments and plays an important role in oceanic biogeochemical cycling. In this present study, a lytic siphophage (labeled vB_DshS-R5C) infecting the strain type of Dinoroseobacter shibae named DFL12T, which is part of the Roseobacter clade, was isolated from the oligotrophic South China Sea. Phage R5C showed a narrow host range, short latent period and low burst size. The genome length of phage R5C was 77, 874 bp with a G+C content of 61.5%. Genomic comparisons detected no genome matches in the GenBank database and phylogenetic analysis based on DNA polymerase I revealed phylogenetic features that were distinct to other phages, suggesting the novelty of R5C. Several auxiliary metabolic genes (e.g., phoH gene, heat shock protein and queuosine biosynthesis genes) were identified in the R5C genome that may be beneficial to the host and/or offer a competitive advantage for the phage. Among siphophages infecting the Roseobacter clade (roseosiphophages), four gene transfer agent-like genes were commonly located with close proximity to structural genes, suggesting that their function may be related to the tail of siphoviruses. The isolation and characterization of R5C demonstrated the high genomic and physiological diversity of roseophages as well as improved our understanding of host–phage interactions and the ecology of the marine Roseobacter.http://www.mdpi.com/1999-4915/9/5/109roseophagegenomephylogenetic analysisenvironmental distribution |
| spellingShingle | Yunlan Yang Lanlan Cai Ruijie Ma Yongle Xu Yigang Tong Yong Huang Nianzhi Jiao Rui Zhang A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea Viruses roseophage genome phylogenetic analysis environmental distribution |
| title | A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea |
| title_full | A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea |
| title_fullStr | A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea |
| title_full_unstemmed | A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea |
| title_short | A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea |
| title_sort | novel roseosiphophage isolated from the oligotrophic south china sea |
| topic | roseophage genome phylogenetic analysis environmental distribution |
| url | http://www.mdpi.com/1999-4915/9/5/109 |
| work_keys_str_mv | AT yunlanyang anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT lanlancai anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT ruijiema anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT yonglexu anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT yigangtong anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT yonghuang anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT nianzhijiao anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT ruizhang anovelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT yunlanyang novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT lanlancai novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT ruijiema novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT yonglexu novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT yigangtong novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT yonghuang novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT nianzhijiao novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea AT ruizhang novelroseosiphophageisolatedfromtheoligotrophicsouthchinasea |