Gigabase-Scale Transcriptome Analysis on Four Species of Pearl Oysters

• DOI: 10.1007/s10126-012-9484-x
• Publication Date: 2012-09-26T00:42:53Z
• Authors: Xian-De Huang; Mi Zhao; Wen-Guang Liu; Yun-Yan Guan; Yu Shi; Qi Wang; Shan-Zeng Wu; Mao-Xian He
• Keywords: 0301 basic medicine; DNA, Complementary; Base Sequence; Gene Expression Profiling; Molecular Sequence Data; Computational Biology; Molecular Sequence Annotation; Genomics; Sequence Analysis, DNA; High-Throughput Screening Assays; 03 medical and health sciences; Species Specificity; Animals; Intercellular Signaling Peptides and Proteins; Receptors, Growth Factor; Pinctada; 14. Life underwater

Pearl oysters have been found to secrete nacre and form pearls with good quality and significant commercial interest. However, the transcriptomic and genomic resources for pearl oysters are still limited. To improve this situation, transcriptome sequencing was conducted from four species of pearl oysters with Illumina HiSeq™ 2000. There were four gigabase-scale transcriptomes for four species of pearl oysters, ∼26.3 million reads with ∼2.37 gigabase base pairs (Gbp) in Pinctada fucata, ∼26.5 million reads with ∼2.39 Gbp in Pinctada margaritifera, ∼27.0 million reads with ∼2.43 Gbp in Pinctada maxima, and ∼25.9 million reads with ∼2.33 Gbp in Pteria penguin, respectively. After sequence assembly and blastx alignment, the numbers of annotated unigenes ≥200 bp were 33,882 in P. fucata, 30,666 in P. margaritifera, 26,420 in P. maxima, and 29,928 in P. penguin. Based on these annotated unigenes among four species of pearl oysters, CDSs were extracted and predicted and furthermore, analyses of GO and KEGG assignments were performed. In addition, 60 putative genes of growth factors and their receptors from four species of pearl oysters were predicted. This study established an excellent resource for gene discovery and expression in pearl oysters, but also offered a significant platform for functional genomics and comparative genomic studies for mollusks.