期刊
BIOMOLECULES
卷 11, 期 4, 页码 -出版社
MDPI
DOI: 10.3390/biom11040530
关键词
gut microbiota; fungi; virus
资金
- NIH [R01 AA24726, R01 AA020703, U01 AA026939, P30 DK120515, P50 AA011999]
- Biomedical Laboratory Research & Development Service of the VA Office of Research and Development [BX004594]
- Biocodex Microbiota Foundation
This review summarizes commonly used computational tools for gut microbiome data analysis, which have expanded our understanding of the gut microbiome in health and diseases.
The gut microbiome is a microbial ecosystem which expresses 100 times more genes than the human host and plays an essential role in human health and disease pathogenesis. Since most intestinal microbial species are difficult to culture, next generation sequencing technologies have been widely applied to study the gut microbiome, including 16S rRNA, 18S rRNA, internal transcribed spacer (ITS) sequencing, shotgun metagenomic sequencing, metatranscriptomic sequencing and viromic sequencing. Various software tools were developed to analyze different sequencing data. In this review, we summarize commonly used computational tools for gut microbiome data analysis, which extended our understanding of the gut microbiome in health and diseases.
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