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Survey of Expressed Sequence Tags from Tissue-Specific cDNA Libraries in Hemibarbus mylodon, an Endangered Fish Species  

Bang, In-Chul (Department of Marine Biotechnology, Soonchunhyang University)
Lim, Yoon-Hee (Department of Marine Biotechnology, Soonchunhyang University)
Cho, Young-Sun (Department of Aquaculture, Pukyong National University)
Lee, Sang-Yoon (Department of Aquaculture, Pukyong National University)
Nam, Yoon-Kwon (Department of Aquaculture, Pukyong National University)
Publication Information
Journal of Aquaculture / v.20, no.4, 2007 , pp. 248-254 More about this Journal
Abstract
Representative cDNA libraries were constructed from various tissue sources of Hemibarbus mylodon, an endangered freshwater fish species in Korea, for the mining of expressed sequence tags (ESTs). Randomized and non-normalized EST analysis was performed with 7 unidirectional cDNA libraries generated from brain, intestine, kidney, liver, muscle, ovary or testis. Of 3,383 ESTs in total, the number of singleton was 2,029, and 333 contigs containing 1,354 ESTs were assembled (percent of unigene = 70.0%). Abundantly expressed gene transcripts and broad clustering of putative gene function were tissue-specific in general, and the redundancy was also variable among those libraries. Over half of H. mylodon ESTs were matched with orthologues from other teleosts among which zebrafish gene sequences were the most frequent in those matches. This initial setting of EST libraries achieved in the present study would be a fundamental basis for the banking of gene resources from this endangered fish species.
Keywords
Hemibarbus mylodon; EST analysis; tissue-specific cDNA libraries;
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1 Kim, K. Y., S. Y. Lee, Y. S. Cho, I. C. Bang, D. S. Kim and Y. K. Nam, 2007. Characterization and phylogeny of two betacytoskeletal actins from Hemibarbus mylodon (Cyprinidae, Cypriniformes), a threatened fish species in Korea. DNA Seq. DOI: 10.1080/10425170701445691
2 Liu, X., H. Wang, and Z. Gong, 2006. Tandem-repeated zebrafish zp3 genes possess oocyte-specific promoters and are insensitive to estrogen induction. Biol. Reprod., 74, 1016-1025   DOI   ScienceOn
3 Serapion. J., H. Kucuktas, J. Feng and Z. Liu, 2004. Bioinformatic mining of type I microsatellites from expressed sequence tags of channel catfish (Ictalurus punctatus). Mar. Biotechnol., 6, 364-377   DOI
4 Zheng, S. and Z. Gong, 2002. Expressed sequence tag analysis of expression profiles of zebrafish testis and ovary. Gene, 294, 45-53   DOI
5 Cho, Y.S., S. Y. Lee, I. C. Bang, D. S. Kim and Y. K. Nam, 2006. Transcriptional response of major antioxidant enzyme genes to heat stress in mud loach (Misgurnus mizolepis). J. Aquacult., 19, 157-165   과학기술학회마을
6 Marra, M. A., L. Hiller and R. H. Waterston, 1998. Expressed sequence tags-ESTablishing bridges between genomes. Trends Genet., 14, 4-7   DOI   ScienceOn
7 Jang, M.-H., M. C. Lucas and G.-J. Joo, 2003. The fish fauna of mountain streams in South Korean national parks and its significance to conservation of regional freshwater fish biodiversity. Biol. Conserv., 114, 115-126   DOI   ScienceOn
8 Gong, Z., T. Yan, J. Liao, S. E. Lee, J. He and C. L. Hew, 1997. Rapid identification and isolation of zebrafish cDNA clones. Gene, 201, 87-98   DOI   ScienceOn
9 Lee, Y. H., J. K. Noh, K. Y. Kim, Y. S. Cho, Y. K. Nam and D. S. Kim, 2007. Characterization of mud loach (Misgurnus mizolepis) Apolipoprotein A-I: cDNA cloning, molecular phylogeny and expression analysis. J. Aquacult., 20, 65-72   과학기술학회마을
10 Moutou, K. A., S. Socorro, D. M. Power, Z. Mamuris and A. V. Canario, 2001. Molecular cloning and sequence of gilthead sea bream (Sparus aurata) alpha-skeletal actin: tissue and developmental expression. Comp. Biochem. Physiol., 130B, 13-21
11 Kono, T, M. Sakai and S. E. LaPatra, 2000. Expressed sequence tag analysis of kidney and gill tissues from rainbow trout Oncorhynchus mykiss infected with infectious hematopoietic necrosis virus. Mar. Biotechnol., 2, 493-498
12 Venkatesh, B., B. H. Tay, G. Elgar and S. Brenner, 1996. Isolation, characterization and evolution of nine pufferfish (Fugu rubripes) actin genes. J. Mol. Biol., 259, 655-665   DOI   ScienceOn
13 Adams, M. D., J. M. Kelley, J. D. Gocayne, M. Dubnick, M. H. Polymeropoulos, H. Xiao, C. R. Merril, A. Wu, B. Olde, R. F. Moreno, A. R. Kerlavage, W. R. McCombie and J. C. Venter, 1991. Complementary DNA sequencing: expressed sequence tags and human genome project. Science, 252, 1651-1656   DOI
14 Douglas, S.E., L.C. Knichkle, J. Kimball and M. Reith, 2007. Comprehensive EST analysis of Atlantic halibut (Hippglossus hippoglossus), a commercially relevant aquaculture species. BMC Genomics, 8, 144   DOI
15 Douglas, S.E., J. W. Gallant, C. E. Bullerwel, C, Wolff, J. Munholland and M. E. Reith, 1999. Winter flounder expressed sequence tags: establishment of an EST database and identification of novel fish genes. Mar. Biotechnol., 1, 458-464   DOI
16 Wang, H. and Z. Gong, 1999. Characterization of two zebrafish cDNA eclones encoding egg envelop proteins ZP2 and ZP3. Biochim. Biophys. Acta., 1446. 156-160   DOI   ScienceOn
17 Venkatesh, B. and S. Brenner, 1998. Genomic structure and sequence of the pufferfish (Fugu rubripes) gene encoding an actin-related protein. Gene, 211, 169-175   DOI   ScienceOn
18 Suarez-Castillo, E. C., W. E. Medina-Ortiz, J. L. Roig-Lopez and J. E. Garcia-Arraras, 2004. Ependymin, a gene involved in regeneration and neroplasticity in vertebrates, is overexpressed uring regeneration in the echinoderm, Holothuria glaberrima. Gene, 334, 1333-1343
19 Jenny, M. J., A. H. Ringwood, E. R. Lacy, A. J. Lewitus, J. W. Kempton, P. S. Gross, G. W. Warr and R. W. Chapman, 2002. Potential indicators of stress response identified by expressed sequence tag analysis of hemocytes and embryos from the American oyster, Crassostrea virginica. Mar. Biotechnol., 4, 81-93   DOI
20 Byeon, H.-K., J.-S. Choi, S. R. Jeon, J.-K. Choi and B.-Y. Song, 1996. Fish fauna in the streams of Mt. Chiak. Korean J. Environ. Biol., 14, 47-54
21 Suarez-Castillo, E. C. and J. E. Garcia-Arraras, 2007. Molecular evolution of the ependymin protein family: a necessary update. BMC Evol. Biol., 7, 23
22 Savan, R. and M. Sakai, 2002. Analysis of expressed sequence tags EST obtained from common carp, Cyprinus carpio L., head kidney cells after stimulation by two mitogens, lipopolysaccharide and concanavalin-A. Comp. Biochem. Physiol., 131, 71-82