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United States Department of Agriculture

Agricultural Research Service

Research Project: UTILIZATION OF GENOMICS FOR IMPROVING PRODUCTION TRAITS IN COOL AND COLD WATER AQUACULTURE

Location: Cool and Cold Water Aquaculture Research

Title: MicroRNA transcriptome profile of rainbow trout (Oncorhynchus mykiss) egg

Authors
item Ma, Hao -
item Hostuttler, Mark
item Rexroad, Caird
item Yao, Jianbo -

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: December 1, 2010
Publication Date: January 15, 2011
Citation: Ma, H., Hostuttler, M.A., Rexroad III, C.E., Yao, J. 2011. MicroRNA transcriptome profile of rainbow trout (Oncorhynchus mykiss) egg [abstract]. Plant and Animal Genome Conference. p. 627.

Technical Abstract: MicroRNAs (miRNAs) are a class of endogenous small non-coding RNA molecules that regulate post-transcriptional expression of target genes and play important roles in animal development. The objective of this study was to identify key oocyte-expressed miRNAs important for folliculogenesis and early development. Small RNAs isolated from mature unfertilized rainbow trout eggs were subjected to deep sequencing using an Illumina Genome Analyzer. The massive sequencing produced 1,734,124 quality reads, among which, a total of 212 miRNAs were identified from 2,328 unique sequences that are homologous to miRNAs in the Zebrafish genome (accounting for 59.22% of the total miRNAs reported in Zebrafish). In addition, 57 novel putative miRNAs were predicted that were unmapped to known miRNAs but mapped to Zebrafish genome with predicted hairpin structures. As the genome of rainbow trout has not been sequenced, the remaining 94.3% (43,306) unique sequences, which were neither mapped to the pre-miRNAs registered in miRBase nor to the genome of Zebrafish, potentially contain more novel miRNAs expressed in rainbow trout eggs. These data provide a starting point for identification and characterization of novel miRNAs specifically or predominantly expressed in rainbow trout eggs. Further analysis of expression signatures of these novel oocyte-specific miRNAs and understanding their roles in controlling ovarian folliculogenesis and early embryogenesis may ultimately lead to the development of molecular markers for rainbow trout egg quality and embryonic development potential.

Last Modified: 10/23/2014
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