Assessment of bacterial and viral gut communities in healthy and tumoral colorectal tissue using RNA and DNA deep sequencing.

ABSTRACT:

Background

Colorectal cancer (CRC) is known to present a distinct microbiome profile compared to healthy mucosa. Non-targeted deep-sequencing strategies enable nowadays full microbiome characterization up to species level.

Aim

We aimed to analyze both bacterial and viral communities in CRC using these strategies.

Materials & methods

We analyzed bacterial and viral communities using both DNA and RNA deep-sequencing (Novaseq) in colorectal tissue specimens from 10 CRC patients and 10 matched control patients. Following taxonomy classification using Kraken 2, different metrics for alpha and beta diversities as well as relative and differential abundance were calculated to compare tumoral and healthy samples.

Results

No viral differences were identified between tis

SUBMITTER: Garcia-Serrano A 

PROVIDER: S-EPMC10557870 | biostudies-literature | 2023 Sep

REPOSITORIES: biostudies-literature