Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, China
Viruses are the most abundant biological entities in the oceans, and encompass a significant reservoir of genetic diversity. However, little is known about their biodiversity in estuary environments, which represent a highly dynamic and potentially more diverse habitat. Here, we report a metagenomic...
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| Format: | Article |
| Language: | English |
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MDPI AG
2016-02-01
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| Series: | Viruses |
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| Online Access: | http://www.mdpi.com/1999-4915/8/2/35 |
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| author | Lanlan Cai Rui Zhang Ying He Xiaoyuan Feng Nianzhi Jiao |
| author_facet | Lanlan Cai Rui Zhang Ying He Xiaoyuan Feng Nianzhi Jiao |
| author_sort | Lanlan Cai |
| collection | DOAJ |
| description | Viruses are the most abundant biological entities in the oceans, and encompass a significant reservoir of genetic diversity. However, little is known about their biodiversity in estuary environments, which represent a highly dynamic and potentially more diverse habitat. Here, we report a metagenomic analysis of the dsDNA viral community from the Jiulong River Estuary (JRE), China, and provide a comparative analysis with other closely related environments. The results showed that the majority of JRE virome did not show any significant similarity to the database. For the major viral group (Caudovirales) detected in the sample, Podoviridae (44.88%) were the most abundant family, followed by Siphoviridae (32.98%) and Myoviridae (17.32%). The two most abundant viruses identified in the virome were phages HTVC010P and HMO-2011, which infect bacteria belonging to marine SAR11 and SAR116 clades, respectively. Two contigs larger than 20 kb, which show similar overall genome architectures to Celeribacter phage P12053L and Thalosomonas phage BA3, respectively, were generated during assembly. Comparative analysis showed that the JRE virome was more similar to marine viromes than to freshwater viromes, and shared a relative coarse-grain genetic overlap (averaging 14.14% ± 1.68%) with other coastal viromes. Our study indicated that the diversity and community structure of the virioplankton found in JRE were mainly affected by marine waters, with less influence from freshwater discharge. |
| first_indexed | 2024-04-13T19:32:07Z |
| format | Article |
| id | doaj.art-2e7f2219fc4d431c92440187d113fa18 |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-04-13T19:32:07Z |
| publishDate | 2016-02-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-2e7f2219fc4d431c92440187d113fa182022-12-22T02:33:09ZengMDPI AGViruses1999-49152016-02-01823510.3390/v8020035v8020035Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, ChinaLanlan Cai0Rui Zhang1Ying He2Xiaoyuan Feng3Nianzhi Jiao4State Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361005, ChinaState Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361005, ChinaState Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, ChinaState Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, ChinaState Key Laboratory of Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University (Xiang’an), Xiamen 361005, ChinaViruses are the most abundant biological entities in the oceans, and encompass a significant reservoir of genetic diversity. However, little is known about their biodiversity in estuary environments, which represent a highly dynamic and potentially more diverse habitat. Here, we report a metagenomic analysis of the dsDNA viral community from the Jiulong River Estuary (JRE), China, and provide a comparative analysis with other closely related environments. The results showed that the majority of JRE virome did not show any significant similarity to the database. For the major viral group (Caudovirales) detected in the sample, Podoviridae (44.88%) were the most abundant family, followed by Siphoviridae (32.98%) and Myoviridae (17.32%). The two most abundant viruses identified in the virome were phages HTVC010P and HMO-2011, which infect bacteria belonging to marine SAR11 and SAR116 clades, respectively. Two contigs larger than 20 kb, which show similar overall genome architectures to Celeribacter phage P12053L and Thalosomonas phage BA3, respectively, were generated during assembly. Comparative analysis showed that the JRE virome was more similar to marine viromes than to freshwater viromes, and shared a relative coarse-grain genetic overlap (averaging 14.14% ± 1.68%) with other coastal viromes. Our study indicated that the diversity and community structure of the virioplankton found in JRE were mainly affected by marine waters, with less influence from freshwater discharge.http://www.mdpi.com/1999-4915/8/2/35virusestuaryviromenext-generation sequencing |
| spellingShingle | Lanlan Cai Rui Zhang Ying He Xiaoyuan Feng Nianzhi Jiao Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, China Viruses virus estuary virome next-generation sequencing |
| title | Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, China |
| title_full | Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, China |
| title_fullStr | Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, China |
| title_full_unstemmed | Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, China |
| title_short | Metagenomic Analysis of Virioplankton of the Subtropical Jiulong River Estuary, China |
| title_sort | metagenomic analysis of virioplankton of the subtropical jiulong river estuary china |
| topic | virus estuary virome next-generation sequencing |
| url | http://www.mdpi.com/1999-4915/8/2/35 |
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