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United States Department of Agriculture

Agricultural Research Service

Research Project: UTILIZING GENETICS AND PHYSIOLOGY FOR ENHANCING COOL AND COLD WATER AQUACULTURE PRODUCTION

Location: Cool and Cold Water Aquaculture Research

Title: Gene expression dynamics during embryonic development in rainbow trout

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

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: December 16, 2013
Publication Date: January 12, 2014
Citation: Ma, H., Hostuttler, M.A., Wie, H., Rexroad III, C.E., Yao, J. 2014. Gene expression dynamics during embryonic development in rainbow trout. Plant and Animal Genome Conference. 539.

Technical Abstract: The supply of maternal RNAs in fertilized egg and activation of embryonic genome during maternal-zygotic transition (MZT) are important for normal embryonic development. In order to identify genes and gene products that are essential in the regulation of embryonic development in rainbow trout, RNA-Seq analysis was performed on 8 RNA samples isolated from developing embryos collected at 0, 3, 7.5, 10.5 hours (E0H, E3H, E7.5H, E10.5H), and 3, 6, 16 and 24 days (E3D, E6D, E16D, E24D) post fertilization. A total of 121.07, 135.61, 139.49, 140.34, 133.67, 136.84, 141.17, and 140.03 million reads were generated from E0H, E3H, E7.5H, E10.5H, E3D, E6D, E16D and E24D embryos, respectively. About 30% of the reads were mapped to the current version of the rainbow trout genome. Our dataset identified 2,020 transcripts that are only expressed in embryos before cell division, and 34 genes that start to express in E3D, the onset of MZT in rainbow trout. In addition, a total of 50,351 novel transcripts were identified from the dataset, and 3,329 to 17,312 splice variants were observed at different stages of embryonic development. The massive sequences generated in this study provide a comprehensive resource for annotation of novel genes, and identification of genes that are important for early embryonic development in rainbow trout.

Last Modified: 12/22/2014
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