Defining the biogeographical map and potential bacterial translocation of microbiome in human ‘surface organs’

Jun-Jun She (), Wei-Xin Liu, Xiao-Ming Ding, Gang Guo, Jing Han, Fei-Yu Shi, Harry Cheuk-Hay Lau, Chen-Guang Ding, Wu-Jun Xue, Wen Shi, Gai-Xia Liu, Zhe Zhang, Chen-Hao Hu, Yinnan Chen, Chi Chun Wong and Jun Yu ()
Additional contact information
Jun-Jun She: First Affiliated Hospital of Xi’an Jiao Tong University
Wei-Xin Liu: The Chinese University of Hong Kong
Xiao-Ming Ding: The First Affiliated Hospital of Xi’an Jiao Tong University
Gang Guo: First Affiliated Hospital of Xi’an Jiao Tong University
Jing Han: First Affiliated Hospital of Xi’an Jiao Tong University
Fei-Yu Shi: First Affiliated Hospital of Xi’an Jiao Tong University
Harry Cheuk-Hay Lau: The Chinese University of Hong Kong
Chen-Guang Ding: The First Affiliated Hospital of Xi’an Jiao Tong University
Wu-Jun Xue: The First Affiliated Hospital of Xi’an Jiao Tong University
Wen Shi: First Affiliated Hospital of Xi’an Jiao Tong University
Gai-Xia Liu: First Affiliated Hospital of Xi’an Jiao Tong University
Zhe Zhang: First Affiliated Hospital of Xi’an Jiao Tong University
Chen-Hao Hu: First Affiliated Hospital of Xi’an Jiao Tong University
Yinnan Chen: First Affiliated Hospital of Xi’an Jiao Tong University
Chi Chun Wong: The Chinese University of Hong Kong
Jun Yu: First Affiliated Hospital of Xi’an Jiao Tong University

Nature Communications, 2024, vol. 15, issue 1, 1-12

Abstract: Abstract The microbiome in a specific human organ has been well-studied, but few reports have investigated the multi-organ microbiome as a whole. Here, we aim to analyse the intra-individual inter-organ and intra-organ microbiome in deceased humans. We collected 1608 samples from 53 sites of 7 surface organs (oral cavity, esophagus, stomach, small intestine, appendix, large intestine and skin; n = 33 subjects) and performed microbiome profiling, including 16S full-length sequencing. Microbial diversity varied dramatically among organs, and core microbial species co-existed in different intra-individual organs. We deciphered microbial changes across distinct intra-organ sites, and identified signature microbes, their functional traits, and interactions specific to each site. We revealed significant microbial heterogeneity between paired mucosa-lumen samples of stomach, small intestine, and large intestine. Finally, we established the landscape of inter-organ relationships of microbes along the digestive tract. Therefore, we generate a catalogue of bacterial composition, diversity, interaction, functional traits, and bacterial translocation in human at inter-organ and intra-organ levels.

Date: 2024
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DOI: 10.1038/s41467-024-44720-6

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