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Development of a 37 k high-density oligonucleotide microarray: a new tool for functional genome research in rainbow trout

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Abstract:

A rainbow trout high-density oligonucleotide microarray was constructed using all tentative consensus (TC) sequences that are publicly available from all international rainbow trout Oncorhynchus mykiss genomic research projects through the Rainbow Trout Gene Index database. The new array contains 60-mer oligonucleotide probes representing 37 394 unique TC sequences and 1417 control spots. The array (4 × 44 format) was manufactured according to the design by Agilent Technologies using the inkjet-based SurePrint technology (design number 016320). The performance of the new microarray platform was evaluated by analysing gene expression associated with rainbow trout, vitellogenesis-induced muscle atrophy. This microarray will open new avenues of research that will aid in the development of novel strategies for genetic improvement for economically important traits benefiting the salmonid aquaculture industries.

Keywords: microarray; muscle atrophy; rainbow trout

Document Type: Regular Paper

DOI: http://dx.doi.org/10.1111/j.1095-8649.2008.01860.x

Affiliations: 1: Laboratory of Animal Biotechnology and Genomics, Division of Animal and Nutritional Sciences, West Virginia University, Morgantown, WV 26505, U.S.A. 2: U.S. Department of Agriculture, Agricultural Research Service, National Center for Cool and Cold Water Aquaculture, Kearneysville, WV 25430, U.S.A.

Publication date: June 1, 2008

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