Microbiomes and Resistomes in Biopsy Tissue and Intestinal Lavage Fluid of Colorectal Cancer.

Autor:	Yuan Y; Department of Cell Biology and Genetics, Shantou University Medical College, Shantou, China., Chen Y; The Second Affiliated Hospital of Shantou University Medical College, Shantou, China., Yao F; Guangdong Provincial Key Laboratory of Infectious Diseases and Molecular Immunopathology, Shantou, China.; Department of Pharmacology, Shantou University Medical College, Shantou, China., Zeng M; Department of Cell Biology and Genetics, Shantou University Medical College, Shantou, China., Xie Q; Department of Cell Biology and Genetics, Shantou University Medical College, Shantou, China., Shafiq M; Department of Cell Biology and Genetics, Shantou University Medical College, Shantou, China., Noman SM; Department of Cell Biology and Genetics, Shantou University Medical College, Shantou, China., Jiao X; Department of Cell Biology and Genetics, Shantou University Medical College, Shantou, China.
Jazyk:	angličtina
Zdroj:	Frontiers in cell and developmental biology [Front Cell Dev Biol] 2021 Sep 17; Vol. 9, pp. 736994. Date of Electronic Publication: 2021 Sep 17 (Print Publication: 2021).
DOI:	10.3389/fcell.2021.736994
Abstrakt:	Aim: The gut microbiome plays a crucial role in colorectal cancer (CRC) tumorigenesis, but compositions of microorganisms have been inconsistent in previous studies due to the different types of specimens. We investigated the microbiomes and resistomes of CRC patients with colonic biopsy tissue and intestinal lavage fluid (IVF). Methods: Paired samples (biopsy tissue and IVF) were collected from 20 patients with CRC, and their gut microbiomes and resistomes were measured by shotgun metagenomics. Clinical and laboratory data were recorded. Bioinformatics (KneadData, Kraken2, and FMAP) and statistical analysis were done using the R (v4.0.2) software. Results: Bacterial diversity in IVF was higher than in tissue samples, and bacterial operational taxonomic units (OTUs) were 2,757 in IVF vs. 197 in tissue. β-diversity showed distinct clusters in paired samples. The predominant bacteria in IVF were phylum Proteobacteria, while the predominant bacteria of tissue were phylum Actinobacteria. Twenty-seven representative bacteria were selected to form six bacterial clusters, which showed only Firmicutes Cluster 1, and the Bacteroidetes Cluster 1 were significantly more abundant in the IVF group than those in the tissue group ( p < 0.05). The Firmicutes Cluster 2, Bacteroidetes Cluster 2, Pathogen Cluster, and Prevotella Cluster were not significantly different between IVF and tissue ( p > 0.05). Correlation analysis revealed that some bacteria could have effects on metabolic and inflammatory parameters of CRC patients. A total of 1,295 antibiotic resistance genes (ARGs) were detected in the gut microbiomes, which conferred multidrug resistance, as well as resistance to tetracycline, aminoglycoside, and more. Co-occurrence patterns revealed by the network showed mainly ARG-carrying bacteria to be similar between IVF and tissue, but leading bacteria located in the hub differed between IVF and tissue. Conclusion: Heterogeneity of microbiota is particularly evident when studied with IVF and tissue samples, but bacterial clusters that have close relationships with CRC carcinogenesis are not significantly different, using IVF as an alternative to tissue for gut microbiome, and resistome assessment may be a feasible method. Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. (Copyright © 2021 Yuan, Chen, Yao, Zeng, Xie, Shafiq, Noman and Jiao.)
Databáze:	MEDLINE
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