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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...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2021
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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. |
format | Online Article Text |
id | pubmed-8396677 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
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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