Analysis of intestinal microbial diversity in Leopoldamys edwardsi based on illumina sequencing technique.
10.3760/cma.j.cn112150-20210915-00892
- Author:
Duan Duan XUAN
1
;
Yuan Li LI
2
;
Guan Nan ZHANG
1
;
Lin Wei DING
1
;
Pei Pei CAO
1
;
Rui Jie JIA
1
;
Yu Ai ZHENG
1
;
Xiao Jun ZHOU
1
;
Liang Yuan PAN
1
;
Shou Kui HU
3
;
Li Na NIU
1
Author Information
1. Key Laboratory of Tropical Translational Medicine of Ministry of Education, Hainan Medical University, Hainan Medical University-The University of Hong Kong Joint Laboratory of Tropical Infectious Diseases, Hainan Medical University, Department of Pathogen Biology, Hainan Medical University, Haikou 571101, China.
2. Sanya People's Hospital, Sanya 572000, China.
3. Department of Laboratory Medicine, Peking University Shougang Hospital, Beijing 100144, China.
- Publication Type:Journal Article
- MeSH:
Adult;
Animals;
Bacteria/genetics*;
Feces/microbiology*;
Female;
Gastrointestinal Microbiome/genetics*;
High-Throughput Nucleotide Sequencing;
Humans;
Intestines;
Male;
Murinae/genetics*
- From:
Chinese Journal of Preventive Medicine
2022;56(4):512-518
- CountryChina
- Language:Chinese
-
Abstract:
To explore the composition and diversity of the intestinal microflora of Leopoldamys edwardsi in Hainan Island. In November 2019, DNA was extracted from fecal samples of 25 adult Leopoldamys edwardsi (14 males and 11 females) in Hainan Island at the Joint Laboratory of tropical infectious diseases of Hainan Medical College and Hong Kong University. Based on the IonS5TMXL sequencing platform, single-end sequencing (Single-End) was used to construct a small fragment library for single-end sequencing. Based on Reads shear filtration and OTUs clustering. The species annotation and abundance analysis of OTUs were carried out by using mothur method and SSUrRNA database, and further conducted α diversity and β diversity analysis. A total of 1481842 high quality sequences, belonging to 14 Phyla, 85 families and 186 Genera, were obtained from 25 intestinal excrement samples of Leopoldamys edwardsi. At the level of phyla classification, the main core biota of the Leopoldamys edwardsi contained Firmicutes (46.04%),Bacteroidetes (25.34%), Proteobacteria (17.09%), Tenericutes (7.38%) and Actinobacteria (1.67%), these five phyla account for 97.52% of all phyla. The ratio of Helicobacter which occupied the largest proportion at the genus level was 12.44%, followed by Lactobacillus (11.39%), Clostridium (6.19%),Mycoplasma (4.23%) and Flavonifractor (3.52%). High throughput sequencing analysis showed that the intestinal flora of Leopoldamys edwardsi in Hainan Island was complex and diverse, which had the significance of further research.
