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Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer

Colorectal cancer (CRC) is a heterogeneous disease and recent advances in subtype classification have successfully stratified the disease using molecular profiling. The contribution of bacterial species to CRC development is increasingly acknowledged, and here, we sought to analyse CRC microbiomes a...

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Autores principales: Purcell, Rachel V., Visnovska, Martina, Biggs, Patrick J., Schmeier, Sebastian, Frizelle, Frank A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5599497/
https://www.ncbi.nlm.nih.gov/pubmed/28912574
http://dx.doi.org/10.1038/s41598-017-11237-6
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author Purcell, Rachel V.
Visnovska, Martina
Biggs, Patrick J.
Schmeier, Sebastian
Frizelle, Frank A.
author_facet Purcell, Rachel V.
Visnovska, Martina
Biggs, Patrick J.
Schmeier, Sebastian
Frizelle, Frank A.
author_sort Purcell, Rachel V.
collection PubMed
description Colorectal cancer (CRC) is a heterogeneous disease and recent advances in subtype classification have successfully stratified the disease using molecular profiling. The contribution of bacterial species to CRC development is increasingly acknowledged, and here, we sought to analyse CRC microbiomes and relate them to tumour consensus molecular subtypes (CMS), in order to better understand the relationship between bacterial species and the molecular mechanisms associated with CRC subtypes. We classified 34 tumours into CRC subtypes using RNA-sequencing derived gene expression and determined relative abundances of bacterial taxonomic groups using 16S rRNA amplicon metabarcoding. 16S rRNA analysis showed enrichment of Fusobacteria and Bacteroidetes, and decreased levels of Firmicutes and Proteobacteria in CMS1. A more detailed analysis of bacterial taxa using non-human RNA-sequencing reads uncovered distinct bacterial communities associated with each molecular subtype. The most highly enriched species associated with CMS1 included Fusobacterium hwasookii and Porphyromonas gingivalis. CMS2 was enriched for Selenomas and Prevotella species, while CMS3 had few significant associations. Targeted quantitative PCR validated these findings and also showed an enrichment of Fusobacterium nucleatum, Parvimonas micra and Peptostreptococcus stomatis in CMS1. In this study, we have successfully associated individual bacterial species to CRC subtypes for the first time.
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spelling pubmed-55994972017-09-15 Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer Purcell, Rachel V. Visnovska, Martina Biggs, Patrick J. Schmeier, Sebastian Frizelle, Frank A. Sci Rep Article Colorectal cancer (CRC) is a heterogeneous disease and recent advances in subtype classification have successfully stratified the disease using molecular profiling. The contribution of bacterial species to CRC development is increasingly acknowledged, and here, we sought to analyse CRC microbiomes and relate them to tumour consensus molecular subtypes (CMS), in order to better understand the relationship between bacterial species and the molecular mechanisms associated with CRC subtypes. We classified 34 tumours into CRC subtypes using RNA-sequencing derived gene expression and determined relative abundances of bacterial taxonomic groups using 16S rRNA amplicon metabarcoding. 16S rRNA analysis showed enrichment of Fusobacteria and Bacteroidetes, and decreased levels of Firmicutes and Proteobacteria in CMS1. A more detailed analysis of bacterial taxa using non-human RNA-sequencing reads uncovered distinct bacterial communities associated with each molecular subtype. The most highly enriched species associated with CMS1 included Fusobacterium hwasookii and Porphyromonas gingivalis. CMS2 was enriched for Selenomas and Prevotella species, while CMS3 had few significant associations. Targeted quantitative PCR validated these findings and also showed an enrichment of Fusobacterium nucleatum, Parvimonas micra and Peptostreptococcus stomatis in CMS1. In this study, we have successfully associated individual bacterial species to CRC subtypes for the first time. Nature Publishing Group UK 2017-09-14 /pmc/articles/PMC5599497/ /pubmed/28912574 http://dx.doi.org/10.1038/s41598-017-11237-6 Text en © The Author(s) 2017 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Purcell, Rachel V.
Visnovska, Martina
Biggs, Patrick J.
Schmeier, Sebastian
Frizelle, Frank A.
Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer
title Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer
title_full Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer
title_fullStr Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer
title_full_unstemmed Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer
title_short Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer
title_sort distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5599497/
https://www.ncbi.nlm.nih.gov/pubmed/28912574
http://dx.doi.org/10.1038/s41598-017-11237-6
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