Fine mapping of a swine quantitative trait locus for number of vertebrae and analysis of an orphan nuclear receptor, germ cell nuclear factor (NR6A1)

Genome Research

Volumn 17, Issue 5, 2007, Pages 586-593

  Mikawa, Satoshi ^a   Morozumi, Takeya ^b   Shimanuki, Shin Ichi ^b,c   Hayashi, Takeshi ^a   Uenishi, Hirohide ^a   Domukai, Michiko ^b   Okumura, Naohiko ^b   Awata, Takashi ^a  

^a NATIONAL INSTITUTE OF AGROBIOLOGICAL SCIENCES   (Japan)

^b STAFF Institute   (Japan)

^c Maebashi Institute of Animal Science   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CELL NUCLEUS RECEPTOR; NUCLEAR RECEPTOR ASSOCIATED PROTEIN 80; NUCLEAR RECEPTOR COREPRESSOR 1; ORPHAN NUCLEAR RECEPTOR NR6A1; UNCLASSIFIED DRUG;

AMINO ACID SUBSTITUTION; ANIMAL CELL; ARTICLE; ASIAN; BINDING AFFINITY; BREEDING; CHROMOSOME 1; CHROMOSOME 7; CONTROLLED STUDY; EMBRYO; EUROPE; GENE INTERACTION; GENE LINKAGE DISEQUILIBRIUM; GENE MAPPING; GENETIC ANALYSIS; GENETIC POLYMORPHISM; GENETIC RECOMBINATION; GENETIC VARIABILITY; GERM CELL; MICROSATELLITE MARKER; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN EXPRESSION; QUANTITATIVE TRAIT LOCUS; SOMITE; SWINE; VERTEBRATE; WILD BOAR;

AMINO ACID SEQUENCE; ANIMALS; CHO CELLS; CHROMOSOME MAPPING; CRICETINAE; CRICETULUS; DNA-BINDING PROTEINS; GENETIC MARKERS; MOLECULAR SEQUENCE DATA; QUANTITATIVE TRAIT LOCI; RECEPTORS, CYTOPLASMIC AND NUCLEAR; SPINE; SWINE;

SUIDAE; SUS SCROFA; SUS SCROFA DOMESTICA;

EID: 34248194344     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.6085507     Document Type: Article

References (37)

1. Burke, A.C., Nelson, C.E., Morgan, B.A., and Tabin, C. 1995. Hox genes and the evolution of vertebrate axial morphology. Development 121: 333-346.
2. Chen, J.D. and Evans, R.M. 1995. A transcriptional co-repressor that interacts with nuclear hormone receptors. Nature 377: 454-457.
3. Chen, F., Cooney, A.J., Wang, Y., Law, S.W., and O'Malley, B.W. 1994. Cloning of a novel orphan receptor (GCNF) expressed during germ cell development. Mol. Endocrinol. 8: 1434-1444.
4. Chung, A.C., Katz, D., Pereira, F.A., Jackson, K.J., DeMayo, F.J., Cooney, A.J., and O'Malley, B.W. 2001. Loss of orphan receptor germ cell nuclear factor function results in ectopic development of the tail bud and a novel posterior truncation. Mol. Cell. Biol. 21: 663-677.
5. Cordes, R., Schuster-Gossler, K., Serth, K., and Gossler, A. 2004. Specification of vertebral identity is coupled to Notch signalling and the segmentation clock. Development 131: 1221-1233.
6. David, R., Joos, T.O., and Dreyer, C. 1998. Anteroposterior patterning and organogenesis of Xenopus laevis require a correct dose of germ cell nuclear factor (xGCNF). Mech. Dev. 79: 137-152.
7. Ding, J., Yang, L., Yan, Y.T., Chen, A., Desai, N., Wynshaw-Boris, A., and Shen, M.M. 1998. Cripto is required for correct orientation of the anterior-posterior axis in the mouse embryo. Nature 395: 702-707.
8. Dubrulle, J., McGrew, M.J., and Pourquie, O. 2001. FGF signalling controls somite boundary position and regulates segmentation clock control of spatiotemporal Hox gene activity. Cell 106: 219-232.
9. Fujishima-Kanaya, N., Toki, D., Suzuki, K., Sawazaki, T., Hiraiwa, H., Iida, M., Hayashi, T., Uenishi, H., Wada, Y., Ito, Y., et al. 2003. Development of 50 gene-associated microsatellite markers using BAC clones and the construction of a linkage map of swine chromosome 4. Anim. Genet. 34: 135-141.
10. Greco, T.L., Takada, S., Newhouse, M.M., McMahon, J.A., McMahon, A.P., and Camper, S.A. 1996. Analysis of the vestigial tail mutation demonstrates that Wnt-3a gene dosage regulates mouse axial development. Genes & Dev. 10: 313-324.
11. Haley, C.S., Knott, S.A., and Elsen, J.M. 1994. Mapping quantitative trait loci in crosses between outbred lines using least squares. Genetics 136: 1195-1207.
12. Hanson, R.D., Hess, J.L., Yu, B.D., Ernst, P., van Lohuizen, M., Berns, A., van der Lugt, N.M., Shashikant, C.S., Ruddle, F.H., Seto, M., et al. 1999. Mammalian Trithorax and Polycomb group homologues are antagonistic regulators of homeotic development. Proc. Natl. Acad. Sci. 96: 14372-14377.
13. Hentschke, M., Kurth, I., Borgmeyer, U., and Hubner, C.A. 2006. Germ cell nuclear factor is a repressor of CRIPTO-1 and CRIPTO-3. J. Biol. Chem. 281: 33497-33504.
14. Horlein, A.J., Naar, A.M., Heinzel, T., Torchia, J., Gloss, B., Kurokawa, R., Ryan, A., Kamei, Y., Soderstrom, M., Glass, C.K., et al. 1995. Ligand-independent repression by the thyroid hormone receptor mediated by a nuclear receptor co-repressor. Nature 377: 397-404.
15. Hoshino, M., Sone, M., Fukata, M., Kuroda, S., Kaibuchi, K., Nabeshima, Y., and Hama, C. 1999. Identification of the stef gene that encodes a novel guanine nucleotide exchange factor specific for Rac1. J. Biol. Chem. 274: 17837-17844.
16. Katz, D., Niederberger, C., Slaughter, G.R., and Cooney, A.J. 1997. Characterization of germ cell-specific expression of the orphan nuclear receptor, germ cell nuclear factor. Endocrinology 138: 4364-4372.
17. King, J.W.B. and Roberts, R.C. 1960. Carcass length in the bacon pig: Its association with vertebrae numbers and prediction from radiographs of the young pig. Anim. Prod. 2: 59-65.
18. Lan, Z.J., Chung, A.C., Xu, X., DeMayo, F.J., and Cooney, A.J. 2002. The embryonic function of germ cell nuclear factor is dependent on the DNA binding domain. J. Biol. Chem. 277: 50660-50667.
19. Lan, Z.J., Gu, P., Xu, X., and Cooney, A.J. 2003. Expression of the orphan nuclear receptor, germ cell nuclear factor, in mouse gonads and preimplantation embryos. Biol. Reprod. 68: 282-289.
20. Luo, X., Ikeda, Y., and Parker, K.L. 1994. A cell-specific nuclear receptor is essential for adrenal and gonadal development and sexual differentiation. Cell 77: 481-490.
21. McPherron, A.C., Lawler, A.M., and Lee, S.-J. 1999. Regulation of anterior/posterior patterning of the axial skeleton by growth/differentiation factor 11. Nat. Genet. 22: 260-264.
22. Mikawa, S., Shimanuki, S., Morozumi, T., Domukai, M., Shinkai, H., Uchida, Y., Mikawa, A., Miyake, M., Miyake, Y., Hayashi, T. et al. 2004. Comparative analysis and development of microsatellite markers on swine (Sus scrofa) chromosome 1qter. Anim. Genet. 35: 445-450.
23. Mikawa, S., Hayashi, T., Nii, M., Shimanuki, S., Morozumi, T., and Awata, T. 2005. Two quantitative trait loci on Sus scrofa chromosomes 1 and 7 affecting the number of vertebrae. J. Anim. Sci. 83: 2247-2254.
24. Narita, Y. and Kuratani, S. 2005. Evolution of the vertebral formulae in mammals: A perspective on developmental constraints. J. Exp. Zool. 304: 91-106.
25. Nichols, J., Zevnik, B., Anastassiadis, K., Niwa, H., Klewe-Nebenius, D., Chambers, I., Scholer, H., and Smith, A. 1998. Formation of pluripotent stem cells in the mammalian embryo depends on the POU transcription factor Oct4. Cell 95: 379-391.
26. Niwa, H., Miyazaki, J., and Smith, A.G. 2000. Quantitative expression of Oct-3/4 defines differentiation, dedifferentiation or self-renewal of ES cells. Nat. Genet. 24: 372-376.
27. Pilbeam, D. 2004. The anthropoid postcranial axial skeleton: Comments on development, variation, and evolution. J. Exp. Zool. 302: 241-267.
28. Sato, N., Kondo, M., and Arai, K. 2006. The orphan nuclear receptor GCNF recruits DNA methyltransferase for Oct-3/4 silencing. Biochem. Biophys. Res. Commun. 344: 845-851.
29. Shen, W.H., Moore, C.C.D., Ikeda, Y., Parker, K.L., and Ingraham, H.A. 1994. Nuclear receptor steroidogenic factor 1 regulates the Mullerian inhibiting substance gene: A link to the sex determination cascade. Cell 77: 651-661.
30. Suzuki, K., Asakawa, S., Iida, M., Shimanuki, S., Fujishima, N., Hiraiwa, H., Murakami, Y., Shimizu, N., and Yasue, H. 2000. Construction and evaluation of a porcine bacterial artificial chromosome library. Anim. Genet. 31: 8-12.
31. Visscher, P.M., Thompson, R., and Haley, C.S. 1996. Confidence intervals in QTL mapping by bootstrapping. Genetics 143: 1013-1020.
32. Wada, Y., Akita, T., Awata, T., Furukawa, T., Sugai, N., Inage, Y., Ishii, K., Ito, Y., Kobayashi, E., Kusumoto, H., et al. 2000. Quantitative trait loci (QTL) analysis in a Meishan x Göttingen cross population. Anim. Genet. 31: 376-384.
33. Yan, Z. and Jetten, A.M. 2000. Characterization of the repressor function of the nuclear orphan receptor retinoid receptor-related testis-associated receptor/germ cell nuclear factor. J. Biol. Chem. 275: 35077-35085.
34. Yan, Z., Kim, Y.S., and Jetten, A.M. 2002. RAP80, a novel nuclear protein that interacts with the retinoid-related testis-associated receptor. J. Biol. Chem. 277: 32379-32388.
35. Yang, G., Zhang, Y.L., Buchold, G.M., Jetten, A.M., and O'Brien, D.A. 2003. Analysis of germ cell nuclear factor transcripts and protein expression during spermatogenesis. Biol. Reprod. 68: 1620-1630.
36. Yu, B.D., Hess, J.L., Horning, S.E., Brown, G.A., and Korsmeyer, S.J. 1995. Altered Hox expression and segmental identity in Mll-mutant mice. Nature 378: 505-508.
37. Zhang, Y.L., Akmal, K.M., Tsuruta, J.K., Shang, Q., Hirose, T., Jetten, A.M., Kim, K.H., and O'Brien, D.A. 1998. Expression of germ cell nuclear factor (GCNF/RTR) during spermatogenesis. Mol. Reprod. Dev. 50: 93-102.