High resolution transcriptome maps for wild-type and nonsense-mediated decay-defective Caenorhabditis elegans.

ABSTRACT:

Background

While many genome sequences are complete, transcriptomes are less well characterized. We used both genome-scale tiling arrays and massively parallel sequencing to map the Caenorhabditis elegans transcriptome across development. We utilized this framework to identify transcriptome changes in animals lacking the nonsense-mediated decay (NMD) pathway.

Results

We find that while the majority of detectable transcripts map to known gene structures, >5% of transcribed regions fall outside current gene annotations. We show that >40% of these are novel exons. Using both technologies to assess isoform complexity, we estimate that >17% of genes change isoform across development. Next we examined how the transcriptome is perturbed in animals lacking NMD. NMD prevents expressi

SUBMITTER: Ramani AK 

PROVIDER: S-EPMC2768976 | biostudies-literature | 2009

REPOSITORIES: biostudies-literature