Biogeographic patterns and drivers of soil viromes

Bin Ma; Yiling Wang; Kankan Zhao; Erinne Stirling; Xiaofei Lv; Yijun Yu; Lingfei Hu; Chao Tang; Chuyi Wu; Baiyu Dong; Ran Xue; Randy A Dahlgren; Xiangfeng Tan; Hengyi Dai; Yong-Guan Zhu; Haiyan Chu; Jianming Xu

doi:10.1038/s41559-024-02347-2

Biogeographic patterns and drivers of soil viromes

Nat Ecol Evol. 2024 Apr;8(4):717-728. doi: 10.1038/s41559-024-02347-2. Epub 2024 Feb 21.

Authors

Bin Ma^#^{1

2

3}, Yiling Wang^#^{1

2}, Kankan Zhao^{1

2}, Erinne Stirling^{4

5}, Xiaofei Lv⁶, Yijun Yu⁷, Lingfei Hu^{1

2}, Chao Tang⁸, Chuyi Wu⁹, Baiyu Dong⁸, Ran Xue^{1

2

3}, Randy A Dahlgren¹⁰, Xiangfeng Tan¹¹, Hengyi Dai^{1

2}, Yong-Guan Zhu¹², Haiyan Chu¹³, Jianming Xu^{14

15}

Affiliations

¹ Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China.
² Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, China.
³ ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, China.
⁴ Agriculture and Food, CSIRO, Adelaide, South Australia, Australia.
⁵ Acid Sulfate Soils Centre, School of Biological Sciences, The University of Adelaide, Adelaide, South Australia, Australia.
⁶ Department of Environmental Engineering, China Jiliang University, Hangzhou, China.
⁷ Arable Soil Quality and Fertilizer Administration Bureau of Zhejiang Province, Hangzhou, China.
⁸ Institute of Applied Remote Sensing and Information Technology, Zhejiang University, Hangzhou, China.
⁹ School of Earth Sciences, Zhejiang University, Hangzhou, China.
¹⁰ Department of Land, Air and Water Resources, University of California, Davis, CA, USA.
¹¹ Institute of Digital Agriculture, Zhejiang Academy of Agricultural Sciences, Hangzhou, China.
¹² Research Center for Eco-environmental Sciences, Chinese Academy of Sciences, Beijing, China.
¹³ State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China.
¹⁴ Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China. jmxu@zju.edu.cn.
¹⁵ Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, China. jmxu@zju.edu.cn.

^# Contributed equally.

PMID: 38383853
DOI: 10.1038/s41559-024-02347-2

Abstract

Viruses are crucial in shaping soil microbial functions and ecosystems. However, studies on soil viromes have been limited in both spatial scale and biome coverage. Here we present a comprehensive synthesis of soil virome biogeographic patterns using the Global Soil Virome dataset (GSV) wherein we analysed 1,824 soil metagenomes worldwide, uncovering 80,750 partial genomes of DNA viruses, 96.7% of which are taxonomically unassigned. The biogeography of soil viral diversity and community structure varies across different biomes. Interestingly, the diversity of viruses does not align with microbial diversity and contrasts with it by showing low diversity in forest and shrubland soils. Soil texture and moisture conditions are further corroborated as key factors affecting diversity by our predicted soil viral diversity atlas, revealing higher diversity in humid and subhumid regions. In addition, the binomial degree distribution pattern suggests a random co-occurrence pattern of soil viruses. These findings are essential for elucidating soil viral ecology and for the comprehensive incorporation of viruses into soil ecosystem models.

MeSH terms

Ecology
Ecosystem
Soil Microbiology
Soil* / chemistry
Virome
Viruses* / genetics

Substances

Soil

Abstract

MeSH terms

Substances

Grants and funding