Rainbow Trout Physical and Genetic Maps Integrated

A first generation integrated map of the rainbow trout genome is available at http://www.genome.clemson.edu/activities/projects/rainbowTrout and Published in BMC genomics.

 The Collaborative study led by Dr. Yniv Palti, a research geneticist at the USDA ARS in Kearneysville , extend their earlier work of BAC-based physical map and genetic Maps of  INRA  and NCCCWA for  the most-widely cultivated cold freshwater fish.

Using the microsatellites isolated from BAC end sequences and PCR super pools for library screening and identification of BACs that harbor previously mapped markers the integrated map is composed of 238 BAC contigs anchored to chromosomes of the genetic map. It covers more than 10% of the genome across segments from all 29 chromosomes.

This Map will surely add to the growing rainbow trout genomics resources which include various genetic maps, physical maps, EST database and a transcriptome.

cBARBEL: Catfish Breader And Researcher Bioinformatics Entry Location

cBARBEL is an online open-access database for genome biology of Ictalurus spp.. It is a comprehensive, integrative platform for all aspects of catfish genetics, genomics and related data resources. cBARBEL provides BLAST-based, fuzzy and specific search functions, visualization of catfish linkage, physical and integrated maps, a catfish EST contig viewer with SNP information overlay, and GBrowse-based organization of catfish genomic data based on sequence similarity with zebrafish chromosomes. 

cBARBEL provides links to simple daily-use informatics tools that database users may need while accessing cBARBEL, including the external NCBI BLAST server, SMART domain search, ClustalW-based multiple sequence alignments and basic nucleotide to amino acid translation. These tools are provided in-frame so that the user does not need to leave the cBARBEL site for small-scale sequence analysis. Publications relevant to catfish genomics and genetics are also linked. Additionally, the recently created Teleost Alternative Splicing Database (TASD) with alternative splicing data for catfish ESTs is linked to cBARBEL.