De novo transcriptome sequencing of a non-model polychaete species

Abstract

Transcriptome sequencing is a useful method for studying gene-sequences data, especially in non-model organisms whose genomic sequences are yet to be determined. Indeed, even without any genome reference, transcripts can be assembled de novo to produce a genome-scale transcription map. Here we describe a de novo transcriptome assembly for the polychaete worm Ophryotrocha diadema, generated from 454-sequencing (Roche GS-FLX Titanium Sequencing). We describe the sequencing, the assembly and functional annotation of EST sequences, and the level of transcriptome coverage provided by our sequence data. The sequences we assembled represent a wide depiction of expressed genes from throughout the lifespan of O. diadema. We found gene sequences to be part of a broad range of functions (i.e. biological and metabolic processes, immune system, reproductive processes, development and growth, signalling and response to stimuli) and we therefore built the first transcriptomic reference for Ophryotrocha polychaete worms. These results encourage us to focus our investigation on many aspects of O. diadema and to extend our research to co-generic species.

Keywords: De novo assembly; Ophryotrocha diadema; Pyrosequencing; Transcriptome.