稻田土壤中病毒多样性研究
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作者单位:

1.华南农业大学农学院;2.华南农业大学食品学院,广东省食品质量安全重点实验室

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基金项目:

国家自然科学基金(32202194);广东省微生物安全与健康重点实验室开放课题(2020B121201009-PKLMSH003-2021);广州市重点研发计划项目(SL2022B03J01243)


Virus Diversity Studies in Paddy Soils
Author:
Affiliation:

1.College of Agriculture,South China Agricultural University,Guangzhou ,China;2.Key Laboratory of Food Quality and Safety of Guangdong Province, College of Food Science,South China Agricultural University,Guangzhou ,China

Fund Project:

The National Natural Science Foundation of China(32202194);Guangdong Provincial Key Laboratory of Microbial Safety and Health Open Topic(2020B121201009-PKLMSH003-2021);广州市重点研发计划项目(SL2022B03J01243)

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    摘要:

    病毒是地球上最丰富多样的微生物类群,广泛存在于各种生物体及环境中,但关于稻田土壤的病毒组研究较少。使用公共数据库中的稻田土壤宏基因组测序数据,构建由8 791个病毒操作分类单元(viral operational taxonomic units, vOTU)和168 940个蛋白序列组成的稻田土壤病毒数据库(Paddy soil virus database,PSVD),该数据库中31.41%的序列能够预测出物种分类地位信息,这些病毒序列分属于76个已知的病毒科,以有尾病毒纲(Caudoviricetes)病毒为主,宿主分布在11个细菌门中。同时还对稻田土壤病毒中所携带的辅助代谢基因(Auxiliary Metabolic Genes, AMGs)进行分析,发现了39个可能广泛存在与稻田系统的碳水化合物活性酶(carbohydrate active enzymes,CAZymes),该类基因的存在,可能对生物地球化学循环产生潜在的影响。综上,本研究创新性构建了PSVD数据库,并利用DRAM-v挖掘了稻田土壤系统中的AMGs基因,为后期稻田土壤病毒组的研究奠定了研究基础,并为稻田病毒群落的解析提供新的见解。

    Abstract:

    【Objective】Viruses are the most abundant and diverse group of microorganisms on Earth as they can be found in a wide range of organisms and environments. Despite their ubiquity, there are relatively few studies on the virome in paddy soil systems, which is an area that warrants investigation. 【Method】In this study, virus sequences were mined from rice soil macrogenome sequencing data in public databases and characterized. 【Result】A database of paddy soil viruses (PSVD) was constructed, which contained 8,791 viral operational taxonomic units (vOTUs) and 168,940 protein sequences. In PSVD, 31.41% of the sequences could predict the taxonomic status of the species. These viral sequences belonged to 76 known virus families, with the majority of viruses coming from the Caudoviricetes, and their hosts were mainly distributed across 11 bacterial phyla. Also, Auxiliary Metabolic Genes (AMGs) carried by rice field soil viruses were analyzed, and 39 carbohydrate-active enzymes (CAZymes) genes, which may have been widely distributed in rice soil systems, were identified, and the presence of these genes contributed to biogeochemical cycling. 【Conclusion】In summary, this study innovatively constructed a PSVD database and used DRAM-v to mine AMG genes in paddy soil systems, thus, laying a research foundation for later studies of paddy soil virus groups and providing new insights for the resolution of paddy virus communities.

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刘泽锟,黄士轩,杨美艳.稻田土壤中病毒多样性研究[J].土壤学报,DOI:10.11766/trxb202306130230,[待发表]
Liu Zekun, HUANG Shixuan, YANG Meiyan. Virus Diversity Studies in Paddy Soils[J]. Acta Pedologica Sinica, DOI:10.11766/trxb202306130230,[In Press]

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  • 收稿日期:2023-06-13
  • 最后修改日期:2023-11-06
  • 录用日期:2023-11-22
  • 在线发布日期: 2024-01-15
  • 出版日期: