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

International Journal of Molecular Sciences

Sona Ciernikova¹  Tatiana Sedlackova²  Martin Bohac³  Juraj Benca³  Marian Karaba³  Daniel Pindak³  Dominik Hadzega⁴  Lubos Klucar⁴  Gabriel Minarik⁵  Michal Mego⁵  Petra Nemcova⁶  Katarina Kalavska⁷ 

[1] Biomedical Research Center of the Slovak Academy of Sciences, Department of Genetics, Cancer Research Institute, 845 05 Bratislava, Slovakia;Comenius University Science Park, Comenius University, 842 15 Bratislava, Slovakia;Department of Oncosurgery, National Cancer Institute, 833 10 Bratislava, Slovakia;Institute of Molecular Biology, Slovak Academy of Sciences, 845 51 Bratislava, Slovakia;Institute of Molecular Biomedicine, Faculty of Medicine, Comenius University, 813 72 Bratislava, Slovakia;Medirex Inc., 821 04 Bratislava, Slovakia;Translational Research Unit, Faculty of Medicine, Comenius University and National Cancer Institute, 833 10 Bratislava, Slovakia;

关键词: breast cancer;    metatranscriptomics;    microbiome;    microbiota;    Kraken2;    primary tumour;   

DOI  :  10.3390/ijms22169058

来源: DOAJ

【 摘 要 】

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.

【 授权许可】

Unknown