Duplication of phospholipase C-δ gene family in fish genomes

Genomics

Volumn 92, Issue 5, 2008, Pages 366-371

  Kim, Moo Sang ^a   Seo, Jung Soo ^b   Ahn, Sang Jung ^a   Kim, Na Young ^a   Je, Ju Eun ^a   Sung, Ji Hea ^a   Lee, Hyung Ho ^a   Chung, Joon Ki ^a  

^a Pukyong National University   (South Korea)

^b National Fisheries Research and Development Institute (NFRDI)   (South Korea)

Author keywords

Fish specific genome duplication (FSGD); Gene duplication; Genome duplication; Paralichthys olivaceus; Phosphoinositide specific phospholipase C (PLC )

Indexed keywords

COMPLEMENTARY DNA; GENE PRODUCT; ISOENZYME; PHOSPHATIDYLINOSITIDE; PHOSPHOLIPASE C DELTA1;

AMINO ACID SEQUENCE; ARTICLE; CHROMOSOME; DNA SEQUENCE; FLOUNDER; GENE AMPLIFICATION; GENE DUPLICATION; GENE IDENTIFICATION; GENE STRUCTURE; GENETIC VARIABILITY; GENOME; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; ORYZIAS; PHYLOGENY; PRIORITY JOURNAL; PROTEIN FUNCTION; RNA EXTRACTION; SEQUENCE ANALYSIS; TELEOST; ZEBRA FISH;

ANIMALS; EVOLUTION, MOLECULAR; FISHES; FLATFISHES; GENE DUPLICATION; GENOME; HUMANS; ISOENZYMES; PHOSPHOLIPASE C DELTA; PHYLOGENY; PROTEIN ISOFORMS;

ANURA; DANIO RERIO; ORYZIINAE; PARALICHTHYS OLIVACEUS; PISCES; TAKIFUGU; TELEOSTEI; TETRAODON; TETRAPODA; UROCHORDATA; VERTEBRATA;

EID: 53649092134     PISSN: 08887543     EISSN: 10898646     Source Type: Journal    
DOI: 10.1016/j.ygeno.2008.07.012     Document Type: Article

References (33)

1. Venkatesh B. Evolution and diversity of fish genomes. Curr. Opin. Genet. Dev. 13 (2003) 588-592
2. Postlethwait J., Amores A., Cresko W., Singer A., and Yan Y.-L. Subfunction partitioning, the teleost radiation and the annotation of the human genome. Trends Genet. 20 (2004) 481-490
3. Meyer A., and Schartl M. Gene and genome duplications in vertebrates: the one-to-four (-to-eight in fish) rule and the evolution of novel gene functions. Curr. Opin. Cell Biol. 11 (1999) 699-704
4. Van de Peer Y., Taylor J.S., Joseph J., and Meyer A. Wanda: a database of duplicated fish genes. Nucleic. Acids Res. 30 (2002) 109-112
5. Vandepoele K., De Vos W., Taylor J.S., Meyer A., and Van de Peer Y. Major events in the genome evolution of vertebrates: paranome age and size differ considerably between ray-finned fishes and land vertebrates. Proc. Natl. Acad. Sci. U. S. A. 101 (2004) 1638-1643
6. Amores A., Force A., Yan Y.-L., Amemiya C., Fritz A., Ho R.K., Joly L., Langeland J., Prince V., Wang Y.-L., Westerfield M., Ekker M., and Postlethwait J. Genome duplications in vertebrate evolution: Evidence from zebrafish Hox clusters. Science 282 (1998) 1711-1714
7. Prince V. The Hox paradox: More complex(es) than imagined. Dev. Biol. 249 (2002) 1-15
8. Crow K.D., Stadler P.F., Lynch V.J., Amemiya C., and Wagner G.P. The "Fish-Specific" Hox cluster duplication is coincident with the origin of teleosts. Mol. Biol. Evol. 23 (2006) 121-136
9. Volff J.-N., and Schartl M. Evolution of signal transduction by gene and genome duplication in fish. J. Struct. Funct. Genomics 3 (2003) 139-150
10. Irwin D.M. A second insulin gene in fish genomes. Gen. Comp. Endocrinol. 135 (2004) 150-158
11. Finn R.N., and Kristoffersen B.A. Vertebrate vitellogenin gene duplication in relation to the "3R Hypothesis": Correlation to the pelagic egg and the oceanic radiation of teleosts. PLoS One 2 (2007) e169
12. Jailon O., Aury J.M., Brunet F., Petit J.L., Stange-Thomann N., Mauceli E., et al. Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype. Nature 431 (2004) 946-957
13. Fitch W.S. Distinguishing homologous from analogous proteins. Syst. Zool. 19 (1970) 99-113
14. Koonin E.V. Orthologs, paralogs, and evolutionary genomics. Annu. Rev. Genet. 39 (2005) 309-338
15. Rebecchi M.J., and Pentyala S.N. Structure, function, and control of phosphoinositide-specific phospholipase C. Physiol. Rev. 80 (2000) 1291-1335
16. Lee S.B., and Ree S.G. Molecular cloning, splice variants, expression, and purification of phospholipase phospholipase C-δ4. J. Biol. Chem. 271 (1996) 25-31
17. Lee W.K., Kim J.K., Seo M.S., Cha J.H., Lee K.J., Rha H.K., Min D.S., Jo Y.H., and Lee K.H. Molecular cloning and expression analysis of a mouse phospholipase C-delta1. Biochem. Biophys. Res. Commun. 261 (1999) 393-399
18. Williams R.L. Mammalian phosphoinositide-specific phospholipase C. Biochim. Biophys. Acta 1441 (1999) 255-267
19. Lopez I., Mak E.C., Ding J., Hamm H.E., and Lomasney J.W. A novel bifunctional phospholipase C that is regulated by Gα12 and stimulates the Ras/mitogen-activated protein kinase pathway. J. Biol. Chem. 276 (2001) 2758-2765
20. Rhee S.G. Regulation of phosphoinositide-specific phospholipase C. Annu. Rev. Biochem. 70 (2001) 281-312
21. Song C., Hu C.-D., Masago M., Kariya K.-I., Yamawaki-Kataoka Y., Shibatohge M., Wu D., Satoh T., and Kataoka T. Regulation of a novel human phospholipase C, PLCε, through membrane targeting by Ras. J. Biol. Chem. 276 (2001) 2752-2757
22. 2+ oscillations in eggs and embryo development. Development 129 (2002) 3533-3544
23. Irino Y., Cho H., Nakamura Y., Nakahara M., Furutani M., Suh P.-G., Takenawa T., and Fukami K. Phospholipase C δ-type consists of three isozymes: bovine PLCδ2 is a homologue of human/mouse PLCδ4. Biochem. Biophys. Res. Commun. 320 (2004) 537-543
24. Hwang J.-I., Oh Y.-S., Shin K.-J., Kim H., Ryu S.H., and Suh P.-G. Molecular cloning and characterization of a novel phospholipase C, PLC-η. Biochem. J. 389 (2005) 181-186
25. Nakahara M., Shimozawa M., Nakamura Y., Irino Y., Morita M., Kudo Y., and Fukami K. A novel phospholipase C, PLCη2, is a neuron-specific isozyme. J. Biol. Chem. 280 (2005) 29128-29134
26. Katan M. Families of phosphoinositide-specific phospholipase C: structure and function. Biochim. Biophys. Acta 1436 (1998) 5-17
27. Kim M.-S., Seo J.S., Choi G.E., Lim S.U., Chung J.K., and Lee H.H. Molecular cloning and expression analysis of phospholipase Cδ from mud loach, Misgurnus mizolepis. Comp. Biochem. Physiol. B. Biochem. Mol. Biol. 139 (2004) 681-693
28. Furuya T., Kashuba C., Docampo R., and Moreno S.N. A novel phosphatidylinositol-phospholipase C of Trypanosoma cruzi that is lipid modified and activated during trypomastigote to amastigote differentiation. J. Biol. Chem. 275 (2000) 6428-6438
29. Meyer A., and Van de Peer Y. From 2R to 3R: evidence for a fish-specific genome duplication (FSGD). BioEssays 27 (2005) 937-945
30. Flick J.S., and Thorner J. Genetic and biochemical characterization of a phosphatidylinositol-specific phospholipase C in Saccharomyces cerevisiae. Mol. Cell Biol. 13 (1993) 5861-5876
31. Hall T.A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41 (1999) 95-98
32. Thompson J.D., Higgins D.G., and Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22 (1994) 4673-4680
33. Tamura K., Dudley J., Nei M., and Kumar S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24 (2007) 1596-1599