Evaluation of rRNA depletion methods for capturing the RNA virome from environmental surfaces.

ABSTRACT:

Objective

Metatranscriptomic analysis of RNA viromes on built-environment surfaces is hampered by low RNA yields and high abundance of rRNA. Therefore, we evaluated the quality of libraries, efficiency of rRNA depletion, and viral detection sensitivity using a mock community and a melamine-coated table surface RNA with levels below those required (< 5 ng) with a library preparation kit (NEBNext Ultra II Directional RNA Library Prep Kit).

Results

Good-quality RNA libraries were obtained from 0.1 ng of mock community and table surface RNA by changing the adapter concentration and number of PCR cycles. Differences in the target species of the rRNA depletion method affected the community composition and sensitivity of virus detection. The percentage of viral occupancy in two rep

SUBMITTER: Shiwa Y 

PROVIDER: S-EPMC10326927 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature