Complementary insights into gut viral genomes: a comparative benchmark of short- and long-read metagenomes using diverse assemblers and binners
Our findings highlight the challenges in metagenome-driven viral discovery, underscoring tool limitations. We advocate for combined use of multiple assemblers and sequencing technologies when feasible and highlight the urgent need for specialized tools tailored to gut virome assembly. This study contributes essential insights for advancing viral genome research in the context of gut metagenomics. Video Abstract.
Authors
- Xing‐Ming Zhao (ORCID: https://orcid.org/0000-0002-4531-3970)
- Yun Li (ORCID: https://orcid.org/0000-0002-3205-8464)
- Chuqing Sun (ORCID: https://orcid.org/0000-0001-5025-2650)
- Huarui Wang (ORCID: https://orcid.org/0009-0004-1202-2335)
- Weihua Chen (ORCID: https://orcid.org/0000-0002-0548-330X)
- Jingchao Chen (ORCID: https://orcid.org/0000-0002-6978-497X)
Institutions
- Shanghai Medical College of Fudan University (CN)
- Sun Yat-sen University (CN)
- Fudan University (CN)
- Huzhou Normal University (CN)
- Shanghai Institute for Science of Science (CN)
- Huzhou Central Hospital (CN)
- Zhongshan Hospital (CN)
- The First Affiliated Hospital, Sun Yat-sen University (CN)
- Shanghai Center for Brain Science and Brain-Inspired Technology (CN)
- Huazhong University of Science and Technology (CN)
- Jining Medical University (CN)
Publication Details
- Journal
- Microbiome
- Published
- 2024-12-20
- DOI
- https://doi.org/10.1186/s40168-024-01981-z
- Citations
- 2
- Primary Topic
- Bacteriophages and microbial interactions
- Type
- article
- Field-Weighted Citation Impact
- 0.92
Funders
- National Natural Science Foundation of China
- National Key Research and Development Program of China