CNPS.cycle: streamlining shotgun metagenomic data analysis for biogeochemical cycles
The "CNPS.cycle" R package offers significant environmental implications by simplifying the analysis of shotgun metagenomic data related to biogeochemical cycles. Its automated workflow identifies key genes and microbes involved in carbon, nitrogen, phosphorus, and sulfur cycling, enhancing our understanding of microbial contributions to ecosystem functions. This tool enables researchers to explore microbial-mediated nutrient cycling more efficiently, supporting informed decisions in environmental management and climate change mitigation. By providing accessible, high-quality outputs, "CNPS.cycle" facilitates data-driven insights into the interplay between microbes and global biogeochemical processes.
Authors
- Qinfen Li
- Daniele Alberoni (ORCID: https://orcid.org/0000-0002-2394-2880)
- Zelong Zhao (ORCID: https://orcid.org/0000-0002-7429-2523)
- Loredana Baffoni (ORCID: https://orcid.org/0000-0001-5313-5871)
- Qiaoyan Zhang (ORCID: https://orcid.org/0000-0002-5075-464X)
- Tianshun Liu (ORCID: https://orcid.org/0000-0003-1474-1945)
- Jing Zhang (ORCID: https://orcid.org/0000-0001-5569-7763)
- Wei Xu (ORCID: https://orcid.org/0000-0002-1960-0992)
- Tao Ye (ORCID: https://orcid.org/0000-0002-3394-2083)
- Beibei Liu (ORCID: https://orcid.org/0000-0003-3788-018X)
- Liang Peng (ORCID: https://orcid.org/0000-0002-0130-5266)
- Liang Cai Zeng (ORCID: https://orcid.org/0000-0002-8004-1659)
- Yukun Zou (ORCID: https://orcid.org/0000-0003-3622-9328)
- Shoushan Sheng
- Zhengfu Yue
Institutions
- Chinese Academy of Tropical Agricultural Sciences (CN)
- Hainan University (CN)
- Environment and Plant Protection Research Institute (CN)
- Shanghai Genon Biological Products (China) (CN)
- Institute of Plant Protection (CN)
- Yancheng Central Blood Station (CN)
- Yancheng Teachers University (CN)
- Yancheng Institute of Technology (CN)
- Hainan Medical University (CN)
- University of Bologna (IT)
Publication Details
- Journal
- mSystems
- Published
- 2025-10-22
- DOI
- https://doi.org/10.1128/msystems.01021-25
- Primary Topic
- Genomics and Phylogenetic Studies
- Type
- article
- Field-Weighted Citation Impact
- 0.00
Funders
- National Natural Science Foundation of China
- Chinese Academy of Agricultural Sciences
- Chinese Academy of Tropical Agricultural Sciences
- Università di Bologna
- Hainan Provincial Department of Science and Technology