Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses
Introduction: Viruses are abundant and ecologically significant in marine ecosystems. However, the virome of deep-sea sediments is not extensively investigated. Objectives: To explore the distribution pattern of deep-sea viruses on a global scale, the viromes of DNA viruses isolated from 138 sedimen...
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| Format: | Article |
| Language: | English |
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Elsevier
2024-03-01
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| Series: | Journal of Advanced Research |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2090123223001157 |
| _version_ | 1797289751135387648 |
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| author | Tianliang He Min Jin Pei Cui Xumei Sun Xuebao He Yaqin Huang Xi Xiao Tingting Zhang Xiaobo Zhang |
| author_facet | Tianliang He Min Jin Pei Cui Xumei Sun Xuebao He Yaqin Huang Xi Xiao Tingting Zhang Xiaobo Zhang |
| author_sort | Tianliang He |
| collection | DOAJ |
| description | Introduction: Viruses are abundant and ecologically significant in marine ecosystems. However, the virome of deep-sea sediments is not extensively investigated. Objectives: To explore the distribution pattern of deep-sea viruses on a global scale, the viromes of DNA viruses isolated from 138 sediments of 5 deep-sea ecosystems were characterized. Methods: The viral particles were purified from each sediment sample. Then the viral DNAs were extracted and subjected to viral metagenomic analysis. Results: Here, we constructed a global deep-sea environmental virome dataset by analyzing the viral DNA of 138 sediment samples. A total of 347,737 viral operational taxonomic units (vOTUs) were identified, of which 84.94% were hitherto unknown, indicating that deep sea was a reservoir of novel DNA viruses. Furthermore, circular viral genome analysis revealed 98,581 complete genomes. The classified vOTUs included eukaryotic (44.55%) and prokaryotic (25.75%) viruses, and were taxonomically assigned to 63 viral families. The composition and abundance of the deep-sea sediment viromes were dependent on the deep-sea ecosystem as opposed to geographical region. Further analysis revealed that the viral community differentiation in different deep-sea ecosystems was driven by the virus-mediated energy metabolism. Conclusion: Our findings showed that deep-sea ecosystems are a reservoir of novel DNA viruses and the viral community is shaped by the environmental characteristics of deep-sea ecosystems, thus presenting critical information for determining the ecological significance of viruses in global deep-sea ecosystems. |
| first_indexed | 2024-03-07T19:09:29Z |
| format | Article |
| id | doaj.art-8e3bb1951f0c443cb576fef2c50b5795 |
| institution | Directory Open Access Journal |
| issn | 2090-1232 |
| language | English |
| last_indexed | 2024-03-07T19:09:29Z |
| publishDate | 2024-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Journal of Advanced Research |
| spelling | doaj.art-8e3bb1951f0c443cb576fef2c50b57952024-03-01T05:05:52ZengElsevierJournal of Advanced Research2090-12322024-03-0157107117Environmental viromes reveal the global distribution signatures of deep-sea DNA virusesTianliang He0Min Jin1Pei Cui2Xumei Sun3Xuebao He4Yaqin Huang5Xi Xiao6Tingting Zhang7Xiaobo Zhang8College of Life Sciences, Laboratory for Marine Biology and Biotechnology of Pilot National Laboratory for Marine Science and Technology (Qingdao) and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhejiang University, Hangzhou 310058, China; Key Laboratory of Marine Biotechnology of Fujian Province, Institute of Oceanology, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaThird Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, ChinaCollege of Life Sciences, Laboratory for Marine Biology and Biotechnology of Pilot National Laboratory for Marine Science and Technology (Qingdao) and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhejiang University, Hangzhou 310058, ChinaCollege of Life Sciences, Laboratory for Marine Biology and Biotechnology of Pilot National Laboratory for Marine Science and Technology (Qingdao) and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhejiang University, Hangzhou 310058, ChinaThird Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, ChinaThird Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, ChinaGuangzhou Marine Geological Survey, China Geological Survey, Guangzhou 510760, ChinaGuangzhou Marine Geological Survey, China Geological Survey, Guangzhou 510760, ChinaCollege of Life Sciences, Laboratory for Marine Biology and Biotechnology of Pilot National Laboratory for Marine Science and Technology (Qingdao) and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhejiang University, Hangzhou 310058, China; Corresponding author.Introduction: Viruses are abundant and ecologically significant in marine ecosystems. However, the virome of deep-sea sediments is not extensively investigated. Objectives: To explore the distribution pattern of deep-sea viruses on a global scale, the viromes of DNA viruses isolated from 138 sediments of 5 deep-sea ecosystems were characterized. Methods: The viral particles were purified from each sediment sample. Then the viral DNAs were extracted and subjected to viral metagenomic analysis. Results: Here, we constructed a global deep-sea environmental virome dataset by analyzing the viral DNA of 138 sediment samples. A total of 347,737 viral operational taxonomic units (vOTUs) were identified, of which 84.94% were hitherto unknown, indicating that deep sea was a reservoir of novel DNA viruses. Furthermore, circular viral genome analysis revealed 98,581 complete genomes. The classified vOTUs included eukaryotic (44.55%) and prokaryotic (25.75%) viruses, and were taxonomically assigned to 63 viral families. The composition and abundance of the deep-sea sediment viromes were dependent on the deep-sea ecosystem as opposed to geographical region. Further analysis revealed that the viral community differentiation in different deep-sea ecosystems was driven by the virus-mediated energy metabolism. Conclusion: Our findings showed that deep-sea ecosystems are a reservoir of novel DNA viruses and the viral community is shaped by the environmental characteristics of deep-sea ecosystems, thus presenting critical information for determining the ecological significance of viruses in global deep-sea ecosystems.http://www.sciencedirect.com/science/article/pii/S2090123223001157Deep-sea sedimentViral communityEcosystemVirus-encoded gene |
| spellingShingle | Tianliang He Min Jin Pei Cui Xumei Sun Xuebao He Yaqin Huang Xi Xiao Tingting Zhang Xiaobo Zhang Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses Journal of Advanced Research Deep-sea sediment Viral community Ecosystem Virus-encoded gene |
| title | Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses |
| title_full | Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses |
| title_fullStr | Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses |
| title_full_unstemmed | Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses |
| title_short | Environmental viromes reveal the global distribution signatures of deep-sea DNA viruses |
| title_sort | environmental viromes reveal the global distribution signatures of deep sea dna viruses |
| topic | Deep-sea sediment Viral community Ecosystem Virus-encoded gene |
| url | http://www.sciencedirect.com/science/article/pii/S2090123223001157 |
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