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ARS Home » Northeast Area » Leetown, West Virginia » Cool and Cold Water Aquaculture Research » Research » Publications at this Location » Publication #161435
Title: EXPRESSED SEQUENCE TAGS IN RAINBOW TROUT INTESTINE, LIVER, AND KIDNEY (ONCORHYNCHUS MYKISS)

Author
item STEWART, A.B. - WV UNIVERSITY
item SOONHAG, K - WV UNIVERSITY
item KILLEFER, J - WV UNIVERSITY
item Rexroad, Caird

Submitted to: Plant and Animal Genome VX Conference Abstracts
Publication Type: Abstract Only
Publication Acceptance Date: 1/10/2004
Publication Date: 1/10/2004
Citation: Stewart, A., Soonhag, K., Killefer, J., Rexroad III, C.E. 2004. Expressed sequence tags in rainbow trout intestine, liver, and kidney (oncorhynchus mykiss). Plant and Animal Genome Abstracts. Abstract P53. p.85.

Interpretive Summary:

Technical Abstract: Examining number of redundant ESTs from non-normalized libraries produces relative expression profiles, as frequency of cDNAs reflects mRNA abundance. This study reports novel genes as well as relative gene expression profiles in rainbow trout. Double-stranded plasmid DNA templates prepared from rainbow trout intestine, liver, and kidney cDNA libraries were subjected to single-pass sequencing of 5' ends of each cDNA clone. Alignments of the EST sequences were performed with Gene Tools 1.0 software (Edmonton, AB, Canada). Classification of clones was based on similarity to NCBI dbEST entries; vector-derived sequence and ambiguous sequences were not included in analyses. Significant matches had probabilities less than 0.001. ESTs were classified into functional categories by similarity of annotated sequences. Relative expression was estimated from the total number of clones sequenced. Sixty-eight clones from the intestine library were from 40 genes (seven previously reported), 35 clones were from 34 potential genes. Seven were redundant. Genes with the greatest expression were 28S ribosomal protein (16.5%) and beta actin (5.8%). The liver library yielded 63 clones from 29 genes (nine previously reported), 36 clones from 34 potential genes. Eleven were redundant. Serum albumen and apolipoprotein represented 16.1% and 7.0% of total clones, respectively. The kidney library yielded 57 clones from 37 genes (seven previously reported), 45 clones from 40 potential genes. Eight were redundant. Most abundant clones were beta actin (11.6%) and ribosomal protein (9.7%).