The Zebrafish transcriptome during early development. KI-BN-JKE-DRERIO-RNASEQ

Zebrafish has emerged as a model organism to investigate vertebrate development, and human genetic diseases. However, currently zebrafish annotation is still ongoing and clearly not sufficed, therefore, providing opportunity for novel transcript finding. With the introduction of massive parallel sequencing, whole transcriptome investigations became possible through assembling entire transcriptome from overlapped sequencing reads. In the study, we were aiming to discover novel transcribed regions (NTRs) using data from RNA sequencing. We have developed an in-house bioinformatics pipeline for NTR discovery. Using the pipeline we detected 165 putative NTRs which could involve in early zebrafish development and not annotated anywhere. Six randomly selected NTRs were successfully validated experimentally using RT-PCR. These NTRs provided new candidates for zebrafish transcriptome studies and zebrafish genome annotation.