Fisheries and Aquatic Sciences

The Korean Society of Fisheries and Aquatic Science (한국수산과학회)
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EST-based Identification of Genes Expressed in the Brain of the Olive Flounder Paralichthys olivaceus

  • Published : 2009.12.31
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Abstract

We have constructed a cDNA library using brain samples of olive flounder Paralichthys olivaceus. Here, we described the study on gene identification by screening 356 clones from the brain cDNA library of olive flounder. Here, we screened 356 clones from the library to identify genes. Of these, 176 (49.5%) were identified as orthologs of known genes from olive flounder and other organisms. Among the 176 EST clones, 33 (18.7%) represented 11 unique genes that are identical to expressed sequence tags (ESTs) reported for olive flounder, and 120 (68.2%) represented 102 unique genes known from other organisms. The percentage of unknown genes (50.5%) is higher than in other olive flounder cDNA libraries (Lee et al., 2003, 2006, 2007), reflecting the high complexity of brain tissue. Further studies of expression characterization and developmental behavior related to these genes should provide useful insight into the physiological functions of the brain in olive flounder.

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References

  1. Adams MD, Kelley JM, Gocayne JM, Dubnick M, Polymeropoulos MH, Xiao H, Merril CR, Wu A, Olde B, Moreno RF, Kerlavage AR, McCombie WR and Venter Jc. 1991. Complementary DNA seuenceing: expressed sequence tags and human genome prject. Science 252, 1651-1656 https://doi.org/10.1126/science.2047873
  2. Aoki T, Nam BH, Hirono I and Yamamoto E. 1999. Sequences of 596 cDNA (565 ,977 bp) clones of Japanese flounder (Paralichthys olivaceus) leukocytes infected with hirame rhabdovirus. Mar Biotechnol 1, 477-88 https://doi.org/10.1007/PL00011804
  3. Chen SL, Xu MY, Hu SN and Li L. 2004. Analysis of lmmunerelevant genes expressed in red sea bream (Chrysophrys major) spleen. Aquacu1ture 240, 115-130 https://doi.org/10.1016/j.aquaculture.2004.07.008
  4. Chomczynski P and Sacchi N. 1987. Single-step method of RNA isolation by acid guanidinium thiocyanatephenol- chloroform extraction. Analyt Biochem 162, 156-159
  5. Davey GC, Caplice NC, Martin SA and Powell R. 2001. A survey of genes in Atlantic salmon (Salmo salar) as identitìed by expressed sequence tags. Gene 263, 121-130 https://doi.org/10.1016/S0378-1119(00)00587-4
  6. Douglas SE, Gallant JW, Bullerwell CE, Wolff C, Munholland J and Reith ME. 1999. Winter flounder expressed sequencε tags: establishment of an EST database and identification of novel fish genes. Mar Biotechnoll 1, 458-64 https://doi.org/10.1007/PL00011802
  7. Gawantka V, Pollet N, Delius H, Vingron M, Pfister R, Nitsch R, Blumenstock C and Niehrs C. 1998. Gene expression screening in Xenopus identifies molecular pathways, predicts gene function and provides a global view of embryonic patteming. Mech Dev 77, 95-141 https://doi.org/10.1016/S0925-4773(98)00115-4
  8. Ju Z, Karsi A, Kocabas A, Pattεrson A, Cao P, Li D, Dunham R and Liu Z. 2000. Transcriptome analysis of channel catfish (Ictalurus punctatus): genes and expression profile from the brain. Gene 261 , 373-382 https://doi.org/10.1016/S0378-1119(00)00491-1
  9. Karsi A, Li P, Dunham RA and Liu Z. 1998. Transriptional activities in the pituitaries of channel catfish before and after induced ovulation by injection of carp pituitary extract as revealed by expressεd seuence tag analysis. J Mol Endocrinol 21, 121-129 https://doi.org/10.1677/jme.0.0210121
  10. Karsi A, Cao D, Li P, Patterson A, Kocabas A, Feng J, Ju Z, Mickett KD and Liu Z. 2002. Transcriptome analysis of channel catfish (Ictalurus punctatus): initial analysis of gene expression and microsatellitecontaining cDNAs in the skin. Gene 285, 157-168 https://doi.org/10.1016/S0378-1119(02)00414-6
  11. Kim S, Karsi A, Dunham RA and Liu Z. 2000. Thε skelεtal muscle alpha-actin gene of channel catfish (Ictalurus punctatus) and its association with piscine specific SINE elements. Gene 252, 173-181 https://doi.org/10.1016/S0378-1119(00)00198-0
  12. Kimura T, Jindo T, Narita T, Naruse K, Kobayashi D, Shin- I T, Kitagawa T, Sakaguchi T, Mitani H, Shima A, Kohara Y and Takeda H. 2004. LargE-scale isolation of ESTs from medaka embryos and its application to medaka developmental genetics. Mech. Dev., 121, 915-932 https://doi.org/10.1016/j.mod.2004.03.033
  13. Kocabas MA, Li P, Cao D, Karsi A, He C and Patterson A. 2002. Expression profile of the channel catfish spleen: analysis of genes involved in immune functions. Mar Biotechnol 4, 526-536 https://doi.org/10.1007/s10126-002-0067-0
  14. Kono K, Ponpompisit A and Sakai M. 2004. The analysis of expressed genes in hεad kidney of common carp Cyprinus carpio L. stimulated with peptidoglycan. Aquaculture 235, 37-52
  15. Lee JH, Kim YO, Kim KK, Kim WJ, Park DW, Park JY and Kim KW. 2003. Expressed sequence tag analysis of olive flounder (Paralichthys olivaceus): genes and expression profiles from the liver. J Fish Sci TEch 6, 110-115
  16. Lee JH, Kim YO, Kim JH, Noh JK, Kim HC, Kim KK and Kim KW. 2006. Immune gene discoven by expressed sequence tags generated from olive flounder (Paralichthys olivaceus) kidney. Korean J Ichthyol 18, 283-292
  17. Lee JH, Kim JH, Noh JK, Kim HC, Kim YO, Kim WJ, Kim KW and Kim KK. 2007. Expressed sequence tags of exprεssion profiles of olive Flounder (Paralichthys olivaceus) testis. Korean J Ichthyol 19, 257-265
  18. Martin SA, Caplice NC, Davey GC and Powell R. 2002. EST-based identification of genes expressed in the liver of adult Atlantic salmon (Salmo salar). Biochem Biophys Res Commun 293, 578-585 https://doi.org/10.1016/S0006-291X(02)00263-2
  19. Matoba R, Kato K, Kurooka C, Maruyama C, Sakakibara Y and Matsubara K. 2000. Correlation between gene functions and developmental expression pattems in the mouse cerebellum. Eur J Neurosci 12, 1357-1371 https://doi.org/10.1046/j.1460-9568.2000.01034.x
  20. Nam BH, Yamamoto E, Hirono I and Aoki T. 2000. A survey of expressed genes in the leukocytes of Japanese flounder, Paralichthys olivaceus, infìected with hirame rhabdovirus. Dev Comp Immunol 124, 13-24 https://doi.org/10.1016/S0145-305X(99)00058-0
  21. Nam BH, Hirono I and Aoki T. 2003. Bulk isolation of lmmune response-related genes by expressed sequened tags of J apanese flounder Paralichthys olivaceus leucocytes stimulated with Con AIPMA. Fish Shellish Immunol 14, 467-476 https://doi.org/10.1006/fsim.2002.0448
  22. Parsons JD. 1995. Improved tools for DNA comparison and clustering. Comp Appl Biosci 11, 603-613
  23. Sambrook J, Frisch EF and Maniatis T. 1989. Molecular Cloning, A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NewYork
  24. Sarropoulou E, Power DM, Magoulas A, Geisler R and Kotoulas G. 2005. Comparative analysis and characerization of expressed sequence tags in gilthead sea bream (Sparus aurata) liver and embryos. Aquaulture 243, 69-81 https://doi.org/10.1016/j.aquaculture.2004.10.012
  25. Shiue YL, Wang LH, Chao TY, Lin CH and Tsai CL. 2004. EST based identification of genes expressed in the hypothalamus of adult tilapia, Oreochromis mossambicus. Biochem Biophys Res Commun 316, 523-527 https://doi.org/10.1016/j.bbrc.2004.02.079
  26. Ton C, Hwang DM, Dempsey AA, Tang HC, Y oon J, Lim M, Mably JD, Fishman MC, Liew CC. 2000. Identifiation, characterization and mapping of expressed sequence tags from an embryonic zebrafish heart cDNA library. Genome Res 10, 1915-1927 https://doi.org/10.1101/gr.10.12.1915
  27. Wen X, Fuhrman S, Michaels GS, Carr DB, Smith S, Barker JL and Somogyi R. 1998. Large-scale tem-oral gene expression mapping of central nervous system development. Proc Natl Acad Sci USA 95, 334-339 https://doi.org/10.1073/pnas.95.1.334

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