Format

Send to

Choose Destination
Microbiome. 2018 Dec 17;6(1):227. doi: 10.1186/s40168-018-0611-4.

Signatures within the esophageal microbiome are associated with host genetics, age, and disease.

Author information

1
Systems Biology Initiative, School of Biotechnology and Biomolecular Sciences, UNSW Sydney, Sydney, NSW, 2052, Australia.
2
Gastrointestinal and Liver Unit, The Prince of Wales Hospital, Randwick, NSW, 2031, Australia.
3
School of Biotechnology and Biomolecular Sciences, UNSW Sydney, Sydney, NSW, 2052, Australia.
4
Ramaciotti Centre for Gene Function Analysis, UNSW Sydney, Sydney, NSW, 2052, Australia.
5
School of Medical Sciences, UNSW Sydney, Kensington, Sydney, NSW, 2052, Australia. n.kaakoush@unsw.edu.au.

Abstract

BACKGROUND:

The esophageal microbiome has been proposed to be involved in a range of diseases including the esophageal adenocarcinoma cascade; however, little is currently known about its function and relationship to the host. Here, the esophageal microbiomes of 106 prospectively recruited patients were assessed using 16S rRNA and 18S rRNA amplicon sequencing as well as shotgun sequencing, and associations with age, gender, proton pump inhibitor use, host genetics, and disease were tested.

RESULTS:

The esophageal microbiome was found to cluster into functionally distinct community types (esotypes) defined by the relative abundances of Streptococcus and Prevotella. While age was found to be a significant factor driving microbiome composition, bacterial signatures and functions such as enrichment with Gram-negative oral-associated bacteria and microbial lactic acid production were associated with the early stages of the esophageal adenocarcinoma cascade. Non-bacterial microbes such as archaea, Candida spp., and bacteriophages were also identified in low abundance in the esophageal microbiome. Specific host SNPs in NOTCH2, STEAP2-AS1, and NREP were associated with the composition of the esophageal microbiome in our cohort.

CONCLUSIONS:

This study provides the most comprehensive assessment of the esophageal microbiome to date and identifies novel signatures and host markers that can be investigated further in the context of esophageal adenocarcinoma development.

KEYWORDS:

Community types; Esophagus; Metagenomics; Microbiota; Single nucleotide polymorphisms

PMID:
30558669
PMCID:
PMC6297961
DOI:
10.1186/s40168-018-0611-4
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for BioMed Central Icon for PubMed Central
Loading ...
Support Center