DNA viral community enhances microbial carbon fixation capacity via auxiliary metabolic genes in contaminated soils

Jia-nan Lu, Yuanqing Chao (), Li Tian, Xi Zhong, Ziwu Chen, Huan He, Bi Huang, Mengyao Li, Zekai Feng, Huayuan Feng, Chang Hu, Shunkang Zhou, Liqi Zhang, Yulu Yang, Zhepu Ruan, Kengbo Ding, Ying Yang, Ke Yuan, Wenshen Liu, Hua Qi, Yue Cao, Ying-heng Fei, Ning Ling, Shizhong Wang, Ye-tao Tang, Tiangang Luan, Zhihong Xu and Rongliang Qiu ()
Additional contact information
Jia-nan Lu: Sun Yat-sen University
Yuanqing Chao: Sun Yat-sen University
Li Tian: Sun Yat-sen University
Xi Zhong: Sun Yat-sen University
Ziwu Chen: Sun Yat-sen University
Huan He: South China Agricultural University
Bi Huang: Sun Yat-sen University
Mengyao Li: Sun Yat-sen University
Zekai Feng: Sun Yat-sen University
Huayuan Feng: Sun Yat-sen University
Chang Hu: Sun Yat-sen University
Shunkang Zhou: South China Agricultural University
Liqi Zhang: Sun Yat-Sen University
Yulu Yang: Sun Yat-sen University
Zhepu Ruan: South China Agricultural University
Kengbo Ding: Sun Yat-sen University
Ying Yang: Sun Yat-Sen University
Ke Yuan: Sun Yat-Sen University
Wenshen Liu: Sun Yat-sen University
Hua Qi: South China Agricultural University
Yue Cao: Sun Yat-sen University
Ying-heng Fei: Guangzhou University
Ning Ling: Lanzhou University
Shizhong Wang: Sun Yat-sen University
Ye-tao Tang: Sun Yat-sen University
Tiangang Luan: Sun Yat-sen University
Zhihong Xu: Griffith University
Rongliang Qiu: Sun Yat-sen University

Nature Communications, 2025, vol. 16, issue 1, 1-13

Abstract: Abstract Soil is the largest organic matter repository on land and the virosphere is an essential component of soil carbon cycling. While a few carbon-related auxiliary metabolic genes (AMGs) in viruses are reported to potentially influence the hosts, the effects of virus-host interactions on soil carbon fixation, particularly in carbon-deficient contaminated soils, need further validation. Here, we explore the impact of viruses on carbon fixation in contaminated soils from 58 metal mining areas across eastern China. Eleven different functional categories of carbon fixation AMGs are identified via metagenomic analysis in 323 contaminated soil samples. Enzymatic activities of three key AMGs (i.e., rbcL, ppdK and TKT) are experimentally characterized, indicating the positive role of these genes in carbon fixation. Furthermore, transcriptomic sequencing reveals that after active virus inoculation the carbon fixation genes significantly up-regulate (~73%, p

Date: 2025
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DOI: 10.1038/s41467-025-64938-2

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