Molecular profiling of microbiota in human oral cavity, stomach and intestine

Qianqian Liu; Feizhou Zhu; Liyu Chen; Meihua Xu; Jianwei Chen; Colin K. He; Lingzhi Zou; Na Jiang; Xianghong Liu; Yang Meng; Shijing Liao; Yong Peng; Lili Wang

doi:10.7287/peerj.preprints.27030v1

Molecular profiling of microbiota in human oral cavity, stomach and intestine

Qianqian Liu¹, Feizhou Zhu ¹, Liyu Chen², Meihua Xu³, Jianwei Chen⁴, Colin K. He^5,6, Lingzhi Zou³, Na Jiang³, Xianghong Liu³, Yang Meng¹, Shijing Liao², Yong Peng⁷, Lili Wang²

1 Department of Biochemistry and Molecular Biology, School of Life Sciences, Central South University, Changsha, People’s Republic of China

2 Department of Medical Microbiology, School of Basic Medical Sciences, Central South University, Changsha, Hunan, People’s Republic of China.

3 Department of Gastroenterology, Xiangya Hospital, Central South University, Changsha, Hunan, People’s Republic of China

4 BGI-Qingdao, BGI, Qingdao, People’s Republic of China

5 Stegotech LLC, Audubon, PA, USA

6 The Third Xiangya Hospital, Central South University, Changsha, Hunan, People’s Republic of China

7 Affiliated First Hospital, Hunan Traditional Chinese Medical College, Zhuzhou, Hunan, People’s Republic of China

DOI: 10.7287/peerj.preprints.27030v1

Published: 2018-07-11
Accepted: 2018-07-11

Subject Areas: Biodiversity, Microbiology
Keywords: Oral Microbiota, Gastric Microbiota, Intestinal Microbiota, Metagenomics, 16S rRNA gene

Copyright: © 2018 Liu et al.
Licence: This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.

Cite this article: Liu Q, Zhu F, Chen L, Xu M, Chen J, He CK, Zou L, Jiang N, Liu X, Meng Y, Liao S, Peng Y, Wang L. 2018. Molecular profiling of microbiota in human oral cavity, stomach and intestine. PeerJ Preprints 6:e27030v1 https://doi.org/10.7287/peerj.preprints.27030v1

Abstract

The microbiota in the human gut is not only a complicated microecological system but also plays important roles in both health and disease. In order to understand the roles of these gut bacteria, we determined the distribution of microbiota in different regions of the gut by sequencing the 16S rRNA gene V4 region of the bacteria in the saliva, gastric juice, and stool of healthy individuals. The 16S rRNA gene V3-V5 region sequences of saliva and stool microbiota were obtained from Human Microbiome Project (HMP) and the V4 sequence was obtained from the V3-V5 sequences by a program designed by Perl language. We found that the microbiota of the gastric juice is more similar to those in the saliva rather than that in the stool. The frequency of some taxa was significantly different among the three groups with the Streptococcus, Veillonella, Oribacterium, Selenomonas, Actinomyces, and Granulicatella most abundant in the saliva; the Prevotella, Neisseria, Actinobacillus, Treponema, and Helicobacter most abundant in the gastric juice; and the Bacteroides, Parabacteroides, Faecalibacterium, Sutterella, Ruminococcus, Oscillospira and Phascolarctobacterium most abundant in the stool. In addition, results from PICRUSt analyses suggest that the functions of microbiota in the gastric juice are more similar as those in the saliva than in the stool. Moreover, we also found that the membrane transport of the microbiota in the saliva is higher than that in the stool and gastric juice. To our knowledge, this is the first comprehensive comparison of microbiota in the human oral cavity, stomach, and intestine.

Author Comment

This is a submission to PeerJ for review.

Supplemental Information

Raw data of saliva 16S rRNA gene V4 sequences

The 16S rRNA gene V3-V5 region sequences of saliva microbiota were downloaded from Human Microbiome Project (HMP) and the V4 sequences were cut from the V3-V5 sequences by a program designed by Perl language.

DOI: 10.7287/peerj.preprints.27030v1/supp-4

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Raw data of stool 16S rRNA gene V4 sequences, section 1

The 16S rRNA gene V3-V5 region sequences of stool microbiota were downloaded from Human Microbiome Project (HMP) and the V4 sequences were cut from the V3-V5 sequences by a program designed by Perl language.

DOI: 10.7287/peerj.preprints.27030v1/supp-5

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