RNaseH-based ribodepletion of total planarian RNA improves detection of longer and non-polyadenylated transcripts.

ABSTRACT: The overwhelming majority of RNA species isolated from cells or tissues using organic extraction are ribosomal RNAs (rRNA), whereas a relatively small percentage are messenger RNAs (mRNA). For studies that seek to detect mRNA transcripts and measure changes in their expression, this lopsided ratio of desired transcripts to undesired transcripts creates a significant challenge to obtaining sensitive and reproducible results. One method for improving mRNA detection is to selectively amplify polyadenylated (polyA) mRNA molecules when generating RNA-seq libraries, a strategy that is generally very successful in many species. However, this strategy is less effective when starting with total RNA from some species e.g., the planarian species Schmidtea mediterranea (S.med), as it generates

SUBMITTER: Barai P 

PROVIDER: S-EPMC11275719 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature