crc-22-0349_fig3.png (1.05 MB)

FIGURE 3 from Integrative Metatranscriptomic Analysis Reveals Disease-specific Microbiome–host Interactions in Oral Squamous Cell Carcinoma

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posted on 2023-05-08, 14:20 authored by Vinay Jain, Divyashri Baraniya, Doaa E. El-Hadedy, Tsute Chen, Michael Slifker, Fadhl Alakwaa, Kathy Q. Cai, Kumaraswamy N. Chitrala, Christopher Fundakowski, Nezar N. Al-Hebshi

Microbial loads and transcriptional profiles. DNA extracted from the same cells as for RNA was used to determine bacterial, fungal, and archaeal loads in the samples relative to human β-actin gene by qPCR (A). Nonhuman, nonribosomal RNA sequences were used as input for HUMAnN 3.0 for microbial taxonomic and functional profiling. Microbial phyla (B) and top 20 genera (C) identified in each of the study groups ranked by their average transcriptional relative abundances. D, A PCA plot based on CLR-transformed genus-level profiles (created with Phyoseq and microbiome R packages). E, Top 20 expressed enzyme classes ranked by their average transcriptional abundances (CLR-transformed counts) in each sample type.

Funding

HHS | NIH | National Institute of Dental and Craniofacial Research (NIDCR)

Dr. Cary. R. Klimen Oral Health Sciences Research Program Fund

History

ARTICLE ABSTRACT

Studies have shown that a distinct microbiome is associated with OSCC, but how the microbiome functions within the tumor interacts with the host cells remains unclear. By simultaneously characterizing the microbial and host transcriptomes in OSCC and control tissues, the study provides novel insights into microbiome-host interactions in OSCC which can be validated in future mechanistic studies.

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Keywords

Head, Neck & Oral Cancers Environmental Risk Factors Microbiome Gene Technologies High-throughput sequencing Computational Methods Sequence analysis Tumor Microenvironment Microbiome and the microenvironment

Licence

CC BY