Exploring Gut Microbiota in Patients with Colorectal Disease Based on 16S rRNA Gene Amplicon and Shallow Metagenomic Sequencing

作者：Yuanfeng Liu, Xiang Li, Yudie Yang, Ye Liu, Shijun Wang, Boyang Ji, Yongjun Wei · 发表于：Frontiers in Molecular Biosciences · 年份：2021 · DOI：10.3389/fmolb.2021.703638 · 被引用次数：48 · 研究领域：Gut microbiota and health、Colorectal Cancer Screening and Detection、Mycobacterium research and diagnosis

The gastrointestinal tract, the largest human microbial reservoir, is highly dynamic. The gut microbes play essential roles in causing colorectal diseases. In the present study, we explored potential keystone taxa during the development of colorectal diseases in central China. Fecal samples of some patients were collected and were allocated to the adenoma (Group A), colorectal cancer (Group C), and hemorrhoid (Group H) groups. The 16S rRNA amplicon and shallow metagenomic sequencing (SMS) strategies were used to recover the gut microbiota. Microbial diversities obtained from 16S rRNA amplicon and SMS data were similar. Group C had the highest diversity, although no significant difference in diversity was observed among the groups. The most dominant phyla in the gut microbiota of patients with colorectal diseases were Bacteroidetes, Firmicutes, and Proteobacteria, accounting for >95% of microbes in the samples. The most abundant genera in the samples were Bacteroides , Prevotella , and Escherichia/Shigella , and further species-level and network analyses identified certain potential keystone taxa in each group. Some of the dominant species, such as Prevotella copri , Bacteroides dorei , and Bacteroides vulgatus , could be responsible for causing colorectal diseases. The SMS data recovered diverse antibiotic resistance genes of tetracycline, macrolide, and beta-lactam, which could be a result of antibiotic overuse. This study explored the gut microbiota of patients with ...