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A Whole Mount In Situ Hybridization Method for the Gastropod Mollusc Lymnaea stagnalis

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The Littorina sequence database (LSD)--an online resource for genomic data.

Björn Canbäck¹, Carl André, Juan Galindo

¹Microbial Ecology, Department of Biology, Lund University, SE-223 62 Lund, Sweden.

Molecular Ecology Resources

|June 29, 2011

Summary

We developed the Littorina Sequence Database (LSD), a searchable resource for the periwinkle snail Littorina saxatilis. This database aids evolutionary biology research by providing access to expressed sequence tags and genomic information.

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Area of Science:

Marine biology
Evolutionary biology
Bioinformatics

Background:

Littorina saxatilis is an emerging model organism in evolutionary biology.
A comprehensive genetic resource is needed to support research on this species.

Purpose of the Study:

To create an interactive and searchable expressed sequence tag database for Littorina saxatilis.
To facilitate the identification of genetic markers and candidate genes for expression analysis.

Main Methods:

Hybrid assembly of Sanger and 454 sequencing data.
Development of a searchable database (Littorina Sequence Database - LSD).
Integration of data from UniProt, PFAM, and Gene Ontology.

Main Results:

The LSD contains 26,537 unique contigs, with 2453 showing similarity to annotated proteins.
The database allows flexible querying, including taxonomic origin of blast hits.
Provides access to annotations, blast output, PFAM domains, and Gene Ontology terms.

Conclusions:

The Littorina Sequence Database is a valuable resource for researchers studying Littorina saxatilis.
The database supports genetic marker discovery and gene expression studies.
The LSD is open for further data deposition, promoting collaborative research.