ReproArrayGTS: A cDNA microarray for identification of reproduction-related genes in the giant tiger shrimp Penaeus monodon and characterization of a novel nuclear autoantigenic sperm protein (NASP) gene

Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics

Volumn 4, Issue 2, 2009, Pages 90-99

  Karoonuthaisiri, Nitsara ^a   Sittikankeaw, Kanchana ^a   Preechaphol, Rachanimuk ^b   Kalachikov, Sergey ^c   Wongsurawat, Thidathip ^a   Uawisetwathana, Umaporn ^a   Russo, James J ^c   Ju, Jingyue ^c,d   Klinbunga, Sirawut ^a,b   Kirtikara, Kanyawim ^a  

^a NATIONAL SCIENCE AND TECHNOLOGY DEVELOPMENT AGENCY   (Thailand)

^b CHULALONGKORN UNIVERSITY   (Thailand)

^c Columbia University ^*  (United States)

^d NONE   (United States)

Author keywords

cDNA microarrays; ESTs; Penaeus monodon; Real time PCR; Shrimp

Indexed keywords

AMINO ACID; COMPLEMENTARY DNA; NUCLEAR AUTOANGIOGENIC SPERM PROTEIN; PROTEIN; UNCLASSIFIED DRUG;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; DNA LIBRARY; DNA MICROARRAY; EXPRESSED SEQUENCE TAG; GENE EXPRESSION; GENE IDENTIFICATION; HIGH THROUGHPUT SCREENING; NONHUMAN; OPEN READING FRAME; OVARY; OVARY DEVELOPMENT; PRIORITY JOURNAL; REPRODUCTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SHRIMP; TESTIS; VITELLOGENESIS;

DECAPODA (CRUSTACEA); PENAEUS MONODON;

ANIMALS; FEMALE; MALE; NUCLEAR PROTEINS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; OVARY; PENAEIDAE; TESTIS;

EID: 64749084847     PISSN: 1744117X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cbd.2008.11.003     Document Type: Article

References (45)

1. Alekseev O.M., Bencic D.C., Richardson R.T., Widgren E.E., and O'Rand M.G. Overexpression of the linker histone-binding protein tNASP affects progression through the cell cycle. J. Biol. Chem. 278 (2003) 8846-8852
2. Ashburner M., Ball A.C., Blake J.A., Botstein D., Butler H., Cherry M., Davis A.P., Dolinski K., Dwight S.S., Eppig J.T., Harris M.A., Hill D.P., Issel-Tarver L., Kasarskis A., Lewis S., Matese J.C., Richardson J.E., Ringwald M., Rubin G.M., and Sherlock G. Gene ontology: tool for the unification of biology. Nat. Genet. 25 (2000) 25-29
3. Bengtsson, H., 2004. Aroma-An R Object-oriented Microarray Analysis Environment, Preprints in Mathematical Sciences:18, Mathematical Statistics, Lund University.
4. Benzie J.A.H. Penaeid genetics and biotechnology. Aquaculture 164 (1998) 23-47
5. Chapman D., and Wolgemuth D. Isolation of the murine cyclin B2 cDNA and characterization of the lineage and temporal specificity of expression of the B1 and B2 cyclins during oogenesis, spermatogenesis and early embryogenesis. Development 118 (1993) 229-240
6. Clifford H.C., and Preston N.P. Genetic improvement. Operating Procedures for Shrimp Farming: Global Shrimp OP Survey Results and Recommendations, Global Aquaculture Alliance, St. Louis, USA (2006) 73-77
7. D'Andrea L.D., and Regan L. TPR proteins: the versatile helix. Trends Biochem. Sci. 28 (2003) 655-662
8. Das A.K., Cohen P.W., and Barfo D. The structure of the tetratricopeptide repeats of protein phosphatase 5: implications for TPR-mediated protein-protein interactions. EMBO J. 17 (1998) 1192-1199
9. Edgar R., Domrachev M., and Lash A.E. Gene expression omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 30 (2002) 207-210
10. Eisen M.B., Spellman P.T., Brown P.O., and Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. U.S.A. 95 (1998) 14863-14868
11. Gasch A.P., Spellman P.T., Kao C.M., Carmel-Harel O., Eisen M.B., Storz G., Botstein D., and Brown P.O. Genomic expression programs in the response of yeast cells to environmental changes. Mol. Biol. Cell. 11 (2000) 4241-4257
12. Gregorio E.N., Spellman P.T., Rubin G.M., and Lemaitre B. Genome-wide analysis of the Drosophila immune response by using oligonucleotide microarrays. Proc. Natl. Acad. Sci. U.S.A. 98 (2001) 12590-12595
13. Grote P., and Conradt B. The PLZF-like protein TRA-4 cooperates with the Gli-like transcription factor TRA-1 to promote female development in C. elegans. Dev. Cell 11 (2006) 561-573
14. Jenny M.J., Chapman R.W., Mancia A., Chen Y.A., McKillen D.J., Trent H., Lang P., Escoubas J.M., Bachere E., Boulo V., Liu Z.J., Gross P.S., Cunningham C., Cupit P.M., Tanguy A., Guo X., Moraga D., Boutet I., Huvet A., De Guise S., Almeida J.S., and Warr G.W. A cDNA microarray for Crassostrea virginica and C. gigas. Mar. Biotechnol. 9 (2007) 577-591
15. Karoonuthaisiri N., Weaver D., Huang J., Cohen S.N., and Kao C.M. Regional organization of gene expression in Streptomyces coelicolor. Gene 353 (2005) 53-66
16. Katsu Y., Yamashita M., Hirai T., Tokumoto T., Kajiura H., and Nagahama Y. Molecular cloning and immunological analysis of goldfish cyclin A during oocyte maturation. Dev. Biol. 170 (1995) 616-625
17. Khayat M., Babin P.J., Funkenstein B., Sammar M., Nagasawa H., Tietz A., and Lubzens E. Molecular characterization and high expression during oocyte development of a shrimp ovarian cortical rode protein homologous to insect intestinal peritrophins. Biol. Reprod. 64 (2001) 1090-1099
18. Kishimoto T. Cell-cycle control during meiotic maturation. Cur. Opin. Cell Biol. 15 (2003) 654-663
19. Leelatanawit R., Klinbunga S., Puanglarp N., Tassanakajon A., Jarayabhand P., Hirono I., Aoki T., and Menasveta P. Isolation and characterization of differentially expressed genes in ovaries and testes of the giant tiger shrimp (Penaeus monodon). Mar. Biotechnol. 6 (2004) S506-S510
20. Leelatanawit, R., Klinbunga, S., Aoki, T., Hirono, I., Valyasevi, R., Menasveta, P., in press. Suppression subtractive hybridization (SSH) for isolation and characterization of genes related to testicular development of the giant tiger shrimp Penaeus monodon. BMB Rep.
21. Lehnert S.A., Wilson K.J., Byrne K., and Moore S.S. Tissue-specific expressed sequence tags from the black tiger shrimp Penaeus monodon. Mar. Biotechnol. 1 (1999) 465-476
22. Lyons R.E., and Li Y. Crustacean genomics: implications for the future in aquaculture. AgBiotechNet. 4 (2002) 1-6
23. Meusy J.J., and Payen G.G. Female reproduction in Malacostracan crustaceans. Zool. Sci. 5 (1988) 217-265
24. Pacharawongsakda E., Yokwai S., Karoonuthaisiri N., Wichadakul D., and Ingsriswang S. ESTplus: an integrative system for comprehensive and customized EST analysis and proteomic data matching. Proceedings of the 2nd International Conference on Bioinformatics and Biomedical Engineering (iCBBE2008), May 16-18, Shanghai, China (2008) 29-32
25. Pongsomboon S., Tang S., Boonda S., Aoki T., Hirono I., Yasuike M., and Tassanakajon A. Differentially expressed genes in Penaeus monodon hemocytes following infection with yellow head virus. BMB Rep. 41 (2008) 670-677
26. Preechaphol R., Leelatanawit R., Sittikankeaw K., Klinbunga S., Khamnamtong B., Puanglarp N., and Menasveta P. Expressed sequence tag analysis for identification and characterization of sex-related genes in the giant tiger shrimp Penaeus monodon. J. Biochem. Mol. Biol. 40 (2007) 501-510
27. Qiu G.F., and Yamano K. Three forms of cyclin B transcripts in the ovary of the kuruma prawn Marsupenaeus japonicus: their molecular characterizations and expression profiles during oogenesis. Comp. Biochem. Physiol. B 141 (2005) 186-195
28. Qiu G.F., Yamano K., and Unuma T. Cathepsin C transcripts are differentially expressed in the final stages of oocyte maturation in kuruma prawn Marsupenaeus japonicus. Comp. Biochem. Physiol. B 140 (2005) 171-181
29. Quackenbush L.S. Yolk synthesis in the marine shrimp, Penaeus vannamei. Comp. Biochem. Physiol. A 103 (1992) 711-714
30. Richardson R.T., Batova I.N., Zheng L.-X., Whitfield M., Marzluff W.F., and O'Rand M.G. Characterization of the histone H1 binding protein, NASP, as a cell cycle regulated, somatic protein. J. Biol. Chem. 275 (2000) 30378-30386
31. Richardson R.T., Alekseev O.M., Grossman G., Widgren E.E., Thresher R., Wagner E.J., Sullivan K.D., Marzluff W.F., and O'Rand M.G. Nuclear autoantigenic sperm protein (NASP), a linker histone chaperone that is required for cell proliferation. J. Biol. Chem. 281 (2006) 21526-21534
32. Richmond C.S., Glasner J.D., Mau R., Jin H., and Blattner F.R. Genome-wide expression profiling in Escherichia coli K-12. Nucleic Acids Res. 27 (1999) 3821-3835
33. Rosenberry B. World Shrimp Farming 2000 (2000), Shrimp News International, San Diego, CA
34. Sambrook J., and Russell D.W. Molecular Cloning: A Laboratory Manual. 3rd ed. (2001), Cold Spring Harbor Laboratory Press, New York, NY
35. Sittikankeaw, K., 2006. Isolation and characterization of gene involving ovarian development of the black tiger shrimp Penaeus monodon. M.Sc. Thesis, Chulongkorn University, Bangkok, Thailand.
36. Supungul P., Klinbunga S., Pichyangkura R., Jitrapakdee S., Hirono I., Aoki T., and Tassanakajon A. Identification of immune-related genes in hemocytes of black tiger shrimp (Penaeus monodon). Mar. Biotechnol. 4 (2002) 487-494
37. Supungul P., Klinbunga S., Pichyangkura R., Hirono I., Aoki T., and Tassanakajon A. Antimicrobial peptides discovered in the black tiger shrimp Penaeus monodon using the EST approach. Dis. Aquat. Org. 61 (2004) 123-135
38. Tai H.H., Ensor C.M., Tong M., Zhou H., and Yan F. Prostaglandin catabolizing enzymes. Prostaglandins Other Lipid Mediat. 68-69 (2002) 483-493
39. Tassanakajon A., Klinbunga S., Paunglarp N., Rimphanitchayakit V., Udomkit A., Jitrapakdee S., Sritunyalucksana K., Phongdara A., Pongsomboon S., Supungul P., Tang S., Kuphanumart K., Pichyangkura R., and Lursinsap C. Penaeus monodon gene discovery project: the generation of an EST collection and establishment of a database. Gene 384 (2006) 104-112
40. von Schalburg K.R., Rise M.L., Cooper G.A., Brown G.D., Gibbs A.R., Nelson C.C., Davidson W.S., and Koop B.F. Fish and chips: various methodologies demonstrate utility of a 16,006-gene salmonid microarray. BMC Genomics 6 (2005) 126
41. von Schalburg K.R., Cooper G.A., Yazawa R., Davidson W.S., and Koop B.F. Microarray analysis reveals differences in expression of cell surface and extracellular matrix components during development of the trout ovary and testes. Comp. Biochem. Physiol. D 3 (2008) 78-90
42. Wongprasert K., Asuvapongpatana S., Poltana P., Tiensuwan M., and Withyachumnarnkul B. Serotonin stimulates ovarian maturation and spawning in the black tiger shrimp Penaeus monodon. Aquaculture 261 (2006) 1447-1454
43. Yamano K., Qiu G., and Unuma T. Molecular cloning and ovarian expression profiles of thrombospondin, a major component of cortical rods in mature oocytes of penaeid shrimp, Marsupenaeus japonicus. Biol. Reprod. 70 (2004) 1670-1678
44. Yang Y.H., Dudoit S., Luu P., Lin D.M., Peng V., Ngai J., and Speed T.P. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res. 30 (2002) e15
45. Yano I. Final oocyte maturation, spawning and mating in penaeid shrimp. J. Exp. Mar. Biol. Ecol. 193 (1995) 113-118