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Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq

Recent research studies are showing breast tissues as a place where various species of microorganisms can thrive and cannot be considered sterile, as previously thought. We analysed the microbial composition of primary tumour tissue and normal breast tissue and found differences between them and bet...

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Autores principales: Hadzega, Dominik, Minarik, Gabriel, Karaba, Marian, Kalavska, Katarina, Benca, Juraj, Ciernikova, Sona, Sedlackova, Tatiana, Nemcova, Petra, Bohac, Martin, Pindak, Daniel, Klucar, Lubos, Mego, Michal
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8396677/
https://www.ncbi.nlm.nih.gov/pubmed/34445764
http://dx.doi.org/10.3390/ijms22169058
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author Hadzega, Dominik
Minarik, Gabriel
Karaba, Marian
Kalavska, Katarina
Benca, Juraj
Ciernikova, Sona
Sedlackova, Tatiana
Nemcova, Petra
Bohac, Martin
Pindak, Daniel
Klucar, Lubos
Mego, Michal
author_facet Hadzega, Dominik
Minarik, Gabriel
Karaba, Marian
Kalavska, Katarina
Benca, Juraj
Ciernikova, Sona
Sedlackova, Tatiana
Nemcova, Petra
Bohac, Martin
Pindak, Daniel
Klucar, Lubos
Mego, Michal
author_sort Hadzega, Dominik
collection PubMed
description Recent research studies are showing breast tissues as a place where various species of microorganisms can thrive and cannot be considered sterile, as previously thought. We analysed the microbial composition of primary tumour tissue and normal breast tissue and found differences between them and between multiple breast cancer phenotypes. We sequenced the transcriptome of breast tumours and normal tissues (from cancer-free women) of 23 individuals from Slovakia and used bioinformatics tools to uncover differences in the microbial composition of tissues. To analyse our RNA-seq data (rRNA depleted), we used and tested Kraken2 and Metaphlan3 tools. Kraken2 has shown higher reliability for our data. Additionally, we analysed 91 samples obtained from SRA database, originated in China and submitted by Sichuan University. In breast tissue, the most enriched group were Proteobacteria, then Firmicutes and Actinobacteria for both datasets, in Slovak samples also Bacteroides, while in Chinese samples Cyanobacteria were more frequent. We have observed changes in the microbiome between cancerous and healthy tissues and also different phenotypes of diseases, based on the presence of circulating tumour cells and few other markers.
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spelling pubmed-83966772021-08-28 Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq Hadzega, Dominik Minarik, Gabriel Karaba, Marian Kalavska, Katarina Benca, Juraj Ciernikova, Sona Sedlackova, Tatiana Nemcova, Petra Bohac, Martin Pindak, Daniel Klucar, Lubos Mego, Michal Int J Mol Sci Article Recent research studies are showing breast tissues as a place where various species of microorganisms can thrive and cannot be considered sterile, as previously thought. We analysed the microbial composition of primary tumour tissue and normal breast tissue and found differences between them and between multiple breast cancer phenotypes. We sequenced the transcriptome of breast tumours and normal tissues (from cancer-free women) of 23 individuals from Slovakia and used bioinformatics tools to uncover differences in the microbial composition of tissues. To analyse our RNA-seq data (rRNA depleted), we used and tested Kraken2 and Metaphlan3 tools. Kraken2 has shown higher reliability for our data. Additionally, we analysed 91 samples obtained from SRA database, originated in China and submitted by Sichuan University. In breast tissue, the most enriched group were Proteobacteria, then Firmicutes and Actinobacteria for both datasets, in Slovak samples also Bacteroides, while in Chinese samples Cyanobacteria were more frequent. We have observed changes in the microbiome between cancerous and healthy tissues and also different phenotypes of diseases, based on the presence of circulating tumour cells and few other markers. MDPI 2021-08-22 /pmc/articles/PMC8396677/ /pubmed/34445764 http://dx.doi.org/10.3390/ijms22169058 Text en © 2021 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Hadzega, Dominik
Minarik, Gabriel
Karaba, Marian
Kalavska, Katarina
Benca, Juraj
Ciernikova, Sona
Sedlackova, Tatiana
Nemcova, Petra
Bohac, Martin
Pindak, Daniel
Klucar, Lubos
Mego, Michal
Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq
title Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq
title_full Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq
title_fullStr Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq
title_full_unstemmed Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq
title_short Uncovering Microbial Composition in Human Breast Cancer Primary Tumour Tissue Using Transcriptomic RNA-seq
title_sort uncovering microbial composition in human breast cancer primary tumour tissue using transcriptomic rna-seq
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8396677/
https://www.ncbi.nlm.nih.gov/pubmed/34445764
http://dx.doi.org/10.3390/ijms22169058
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