Development of molecular resources for an intertidal clam, Sinonovacula constricta, using 454 transcriptome sequencing.

摘要: Background The razor clam Sinonovacula constricta is a benthic intertidal bivalve species with important commercial value. Despite its economic importance, knowledge of transcriptome scarce. Next generation sequencing technologies offer rapid and efficient tools for generating large numbers sequences, which can be used to characterize the transcriptome, develop effective molecular markers identify genes associated growth, key breeding trait. Results Total RNA was isolated from mantle, gill, liver, siphon, gonad muscular foot tissues. High-throughput deep S. using 454 pyrosequencing technology yielded 859,313 high-quality reads an average read length 489 bp. Clustering assembly these produced 16,323 contigs 131,346 singletons lengths 1,376 bp 458 bp, respectively. Based on sequencing, 14,615 sequences had significant matches known encoding 147,669 predicted proteins. Subsequently, previously unknown growth-related were identified. A total 13,563 microsatellites (SSRs) 13,634 high-confidence single nucleotide polymorphism loci (SNPs) discovered, almost half validated. Conclusion De novo GS FLX platform generated number ESTs. Candidate growth factors SSRs SNPs These results will impact genetic studies constricta.