The Littorina sequence database (LSD)--an online resource for genomic data. 2012

Björn Canbäck, and Carl André, and Juan Galindo, and Kerstin Johannesson, and Tomas Johansson, and Marina Panova, and Anders Tunlid, and Roger Butlin
Microbial Ecology, Department of Biology, Lund University, SE-223 62 Lund, Sweden.

We present an interactive, searchable expressed sequence tag database for the periwinkle snail Littorina saxatilis, an upcoming model species in evolutionary biology. The database is the result of a hybrid assembly between Sanger and 454 sequences, 1290 and 147,491 sequences respectively. Normalized and non-normalized cDNA was obtained from different ecotypes of L. saxatilis collected in the UK and Sweden. The Littorina sequence database (LSD) contains 26,537 different contigs, of which 2453 showed similarity with annotated proteins in UniProt. Querying the LSD permits the selection of the taxonomic origin of blast hits for each contig, and the search can be restricted to particular taxonomic groups. The database allows access to UniProt annotations, blast output, protein family domains (PFAM) and Gene Ontology. The database will allow users to search for genetic markers and identifying candidate genes or genes for expression analyses. It is open for additional deposition of sequence information for L. saxatilis and other species of the genus Littorina. The LSD is available at http://mbio-serv2.mbioekol.lu.se/Littorina/.

UI MeSH Term Description Entries
D009862 Online Systems Computer-based Information systems having real-time remote access to information or processes. On-Line Systems,On Line Systems,On-Line System,Online System,System, On-Line,System, Online,Systems, On-Line,Systems, Online
D005819 Genetic Markers A phenotypically recognizable genetic trait which can be used to identify a genetic locus, a linkage group, or a recombination event. Chromosome Markers,DNA Markers,Markers, DNA,Markers, Genetic,Genetic Marker,Marker, Genetic,Chromosome Marker,DNA Marker,Marker, Chromosome,Marker, DNA,Markers, Chromosome
D000818 Animals Unicellular or multicellular, heterotrophic organisms, that have sensation and the power of voluntary movement. Under the older five kingdom paradigm, Animalia was one of the kingdoms. Under the modern three domain model, Animalia represents one of the many groups in the domain EUKARYOTA. Animal,Metazoa,Animalia
D014584 User-Computer Interface The portion of an interactive computer program that issues messages to and receives commands from a user. Interface, User Computer,Virtual Systems,User Computer Interface,Interface, User-Computer,Interfaces, User Computer,Interfaces, User-Computer,System, Virtual,Systems, Virtual,User Computer Interfaces,User-Computer Interfaces,Virtual System
D049851 Gastropoda A class in the phylum MOLLUSCA comprised of SNAILS and slugs. The former have coiled external shells and the latter usually lack shells. Slugs,Gastropods,Gastropod,Gastropodas,Slug
D020407 Internet A loose confederation of computer communication networks around the world. The networks that make up the Internet are connected through several backbone networks. The Internet grew out of the US Government ARPAnet project and was designed to facilitate information exchange. World Wide Web,Cyber Space,Cyberspace,Web, World Wide,Wide Web, World
D023281 Genomics The systematic study of the complete DNA sequences (GENOME) of organisms. Included is construction of complete genetic, physical, and transcript maps, and the analysis of this structural genomic information on a global scale such as in GENOME WIDE ASSOCIATION STUDIES. Functional Genomics,Structural Genomics,Comparative Genomics,Genomics, Comparative,Genomics, Functional,Genomics, Structural
D030541 Databases, Genetic Databases devoted to knowledge about specific genes and gene products. Genetic Databases,Genetic Sequence Databases,OMIM,Online Mendelian Inheritance In Man,Genetic Data Banks,Genetic Data Bases,Genetic Databanks,Genetic Information Databases,Bank, Genetic Data,Banks, Genetic Data,Data Bank, Genetic,Data Banks, Genetic,Data Base, Genetic,Data Bases, Genetic,Databank, Genetic,Databanks, Genetic,Database, Genetic,Database, Genetic Information,Database, Genetic Sequence,Databases, Genetic Information,Databases, Genetic Sequence,Genetic Data Bank,Genetic Data Base,Genetic Databank,Genetic Database,Genetic Information Database,Genetic Sequence Database,Information Database, Genetic,Information Databases, Genetic,Sequence Database, Genetic,Sequence Databases, Genetic

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