Stanford Genome Evolution Center
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Stanford Genome Evolution Center |
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Research Goals:
Why use fish as model systems?
Summer Laboratory Course on Biology and Genomics of Sticklebacks and Zebrafish
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Stickleback EST sequences:To facilitate the isolation of stickleback homologs of genes of interest, we have generated new cDNA libraries from developing stickleback larvae and adult brains, gills, skin, eyes, and mixed organs. We are sequencing 5 prime and 3 prime ends from large numbers of individual clones to identify genes expressed at particular stages and in a broad range of tissues (Kingsley et al. 2004 Behaviour 141:1331-1334). The information from expressed genes will be a key source of experimental evidence for gene predictions during the assembly and annotation of the stickleback genome.To date the Stanford CEGS has deposited over 250,000 stickleback expressed sequence tag (ESTs) in the GENBANK public sequence database. To search for a stickleback homolog of a gene of interest: 1) Go the NCBI blast page: http://www.ncbi.nlm.nih.gov/blast/ 2) Choose either a "nucleotide-nucleotide (blastn)" search or a "protein query vs. translated database (tblastn)" search. 3) Paste in your search sequence of interest (nucleotide for blastn, protein for tblastn) 4) Set the "choose database" option to "est" 5) Under options, set the "limit by entrez query" choice to "gasterosteus aculeatus [ORGN]" 5) Click "blast"button and look for stickleback clones with significant homology to your search sequence. |
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