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Transcriptome analysis of the central nervous system of the mollusc Lymnaea stagnalis.

Abstract：

BACKGROUND:The freshwater snail Lymnaea stagnalis (L. stagnalis) has served as a successful model for studies in the field of Neuroscience. However, a serious drawback in the molecular analysis of the nervous system of L. stagnalis has been the lack of large-scale genomic or neuronal transcriptome information, thereby limiting the use of this unique model. RESULTS:In this study, we report 7,712 distinct EST sequences (median length: 847 nucleotides) of a normalized L. stagnalis central nervous system (CNS) cDNA library, resulting in the largest collection of L. stagnalis neuronal transcriptome data currently available. Approximately 42% of the cDNAs can be translated into more than 100 consecutive amino acids, indicating the high quality of the library. The annotated sequences contribute 12% of the predicted transcriptome size of 20,000. Surprisingly, approximately 37% of the L. stagnalis sequences only have a tBLASTx hit in the EST library of another snail species Aplysia californica (A. californica) even using a low stringency e-value cutoff at 0.01. Using the same cutoff, approximately 67% of the cDNAs have a BLAST hit in the NCBI non-redundant protein and nucleotide sequence databases (nr and nt), suggesting that one third of the sequences may be unique to L. stagnalis. Finally, using the same cutoff (0.01), more than half of the cDNA sequences (54%) do not have a hit in nematode, fruitfly or human genome data, suggesting that the L. stagnalis transcriptome is significantly different from these species as well. The cDNA sequences are enriched in the following gene ontology functional categories: protein binding, hydrolase, transferase, and catalytic enzymes. CONCLUSION:This study provides novel molecular insights into the transcriptome of an important molluscan model organism. Our findings will contribute to functional analyses in neurobiology, and comparative evolutionary biology. The L. stagnalis CNS EST database is available at http://www.Lymnaea.org/.

journal_name

BMC Genomics

journal_title

BMC genomics

authors

Feng ZP,Zhang Z,van Kesteren RE,Straub VA,van Nierop P,Jin K,Nejatbakhsh N,Goldberg JI,Spencer GE,Yeoman MS,Wildering W,Coorssen JR,Croll RP,Buck LT,Syed NI,Smit AB

doi

10.1186/1471-2164-10-451

subject

Has Abstract

pub_date

2009-09-23 00:00:00

pages

451

issn

1471-2164

pii

1471-2164-10-451

journal_volume

pub_type

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Transcriptome analysis of the central nervous system of the mollusc Lymnaea stagnalis.