Cloning and characterization of FAM13A1 - A gene near a milk protein QTL on BTA6: Evidence for population-wide linkage disequilibrium in Israeli Holsteins

Genomics

Volumn 84, Issue 2, 2004, Pages 374-383

  Cohen, Miri ^a   Reichenstein, Moshe ^a   Everts Van Der Wind, Annelie ^b   Heon Lee, Jun ^b   Shani, Moshe ^a   Lewin, Harris A ^b   Weller, Joel I ^a   Ron, Micha ^a   Seroussi, Eyal ^a  

^a VOLCANI CENTER   (Israel)

^b UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

antisense; Cloning; FAM13A1OS; FAM13B1; Fibronectins; KIAA0914; KIAA1796; molecular; PKD2; PKD2L2; PRECM1; RNA

Indexed keywords

AMINO ACID; INTEGRIN RECEPTOR; MILK PROTEIN;

ARTICLE; CATTLE; EXTRACELLULAR MATRIX; GENE CLUSTER; GENE CONTROL; GENE FUNCTION; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENE SEQUENCE; GENETIC CODE; GENETIC POLYMORPHISM; GENETIC TRAIT; GENETIC TRANSCRIPTION; HUMAN; ISRAEL; KIDNEY FUNCTION; MALE; MAMMARY GLAND; MOLECULAR CLONING; MOUSE; MULTIGENE FAMILY; NONHUMAN; NUCLEAR LOCALIZATION SIGNAL; NUCLEOTIDE SEQUENCE; ORTHOLOGY; OSSIFICATION; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; QUANTITATIVE GENETICS;

AMINO ACID SEQUENCE; ANIMALS; CATTLE; CLONING, MOLECULAR; EXONS; GENE FREQUENCY; GENOMICS; GTPASE-ACTIVATING PROTEINS; HAPLOTYPES; HUMANS; ISRAEL; LINKAGE DISEQUILIBRIUM; MAMMARY GLANDS, ANIMAL; MICE; MILK PROTEINS; MOLECULAR SEQUENCE DATA; PHYSICAL CHROMOSOME MAPPING; POLYMORPHISM, SINGLE NUCLEOTIDE; PROTEIN STRUCTURE, TERTIARY; QUANTITATIVE TRAIT LOCI; RNA, MESSENGER;

BOVINAE;

EID: 3042652974     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ygeno.2004.03.005     Document Type: Article

References (38)

1. Georges M., et al. Mapping quantitative trait loci controlling milk production in dairy cattle by exploiting progeny testing. Genetics. 139:1995;907-920
2. Spelman R.J., Coppieters W., Karim L., Van Arendonk J.A.M., Bovenhuis H. Quantitative trait loci analysis for five milk production traits on chromosome six in the Dutch Holstein-Friesian population. Genetics. 144:1996;1799-1808
3. Zhang Q., et al. Mapping quantitative trait loci for milk production and health of dairy cattle in a large outbred pedigree. Genetics. 149:1998;1959-1973
4. Kuhn C., Freyer G., Weikard R., Goldammer T., Schwerin M. Detection of QTL for milk production traits in cattle by application of a specifically developed marker map of BTA6. Anim. Genet. 30:1999;333-340
5. Velmala R.J., Vilkki H.J., Elo K.T., de Koning D.J., Maki-Tanila A.V. A search for quantitative trait loci for milk production traits on chromosome 6 in Finnish Ayrshire cattle. Anim. Genet. 30:1999;136-143
6. Wiener P., Maclean I., Williams J.L., Woolliams J.A. Testing for the presence of previously identified QTL for milk production traits in new populations. Anim. Genet. 31:2000;385-395
7. Mosig M.O., et al. A whole genome scan for quantitative trait loci affecting milk protein percentage in Israeli-Holstein cattle, by means of selective milk DNA pooling in a daughter design, using an adjusted false discovery rate criterion: detection of QTL for milk production on chromosomes 1 and 6 of Holstein cattle. Genetics. 157:2001;1683-1698
8. Nadesalingam J., Plante Y., Gibson J.P. Detection of QTL for milk production on chromosomes 1 and 6 of Holstein cattle. Mamm. Genome. 12:2001;27-31
9. Ron M., et al. Multiple quantitative trait locus analysis of bovine chromosome 6 in the Israeli Holstein population by a daughter design. Genetics. 159:2001;727-735
10. Rowe P.S., et al. MEPE, a new gene expressed in bone marrow and tumors causing osteomalacia. Genomics. 67:2000;54-68
11. Girard J.P., Springer T.A. Cloning from purified high endothelial venule cells of hevin, a close relative of the antiadhesive extracellular matrix protein SPARC. Immunity. 2:1995;113-123
12. Stuart R.O., Barros E.J., Ribeiro E., Nigam S.K. Epithelial tubulogenesis through branching morphogenesis: relevance to collecting system development. J. Am. Soc. Nephrol. 6:1995;1151-1159
13. Talhouk R.S., Bissell M.J., Werb Z. Coordinated expression of extracellular matrix-degrading proteinases and their inhibitors regulates mammary epithelial function during involution. J. Cell Biol. 118:1992;1271-1282
14. Hoyer J.R., Asplin J.R., Otvos L. Phosphorylated osteopontin peptides suppress crystallization by inhibiting the growth of calcium oxalate crystals. Kidney Int. 60:2001;77-82
15. Nemir M., et al. Targeted inhibition of osteopontin expression in the mammary gland causes abnormal morphogenesis and lactation deficiency. J. Biol. Chem. 275:2000;969-976
16. Martin T.J., Gillespie M.T. Receptor activator of nuclear factor kappa B ligand (RANKL): another link between breast and bone. Trends Endocrinol. Metab. 12:2001;2-4
17. Band M.R., et al. An ordered comparative map of the cattle and human genomes. Genome Res. 10:2000;1359-1368
18. Miyoshi K., et al. Mammary epithelial cells are not able to undergo pregnancy-dependent differentiation in the absence of the helix-loop-helix inhibitor Id2. Mol. Endocrinol. 16:2002;2892-2901
19. Ridley A.J. Rho family proteins: coordinating cell responses. Trends Cell Biol. 11:2001;471-477
20. Lai F., et al. cDNA cloning and genomic structure of three genes localized to human chromosome band 5q31 encoding potential nuclear proteins. Genomics. 70:2000;123-130
21. Weikard R., et al. Targeted construction of a high-resolution, integrated, comprehensive, and comparative map for a region specific to bovine chromosome 6 based on radiation hybrid mapping. Genomics. 79:2002;768-776
22. Roy P.J., Stuart J.M., Lund J., Kim S.K. Chromosomal clustering of muscle-expressed genes in Caenorhabditis elegans. Nature. 418:2002;975-979
23. Yelin R., et al. Widespread occurrence of antisense transcription in the human genome. Nat. Biotechnol. 21:2003;379-386
24. Sechler J.L., et al. A novel fibronectin binding site required for fibronectin fibril growth during matrix assembly. J. Cell Biol. 154:2001;1081-1088
25. Looft C., et al. A mammary gland EST showing linkage disequilibrium to a milk production QTL on bovine chromosome 14. Mamm. Genome. 12:2001;646-650
26. Blott S., et al. Molecular dissection of a quantitative trait locus: a phenylalanine-to-tyrosine substitution in the transmembrane domain of the bovine growth hormone receptor is associated with a major effect on milk yield and composition. Genetics. 163:2003;253-266
27. Weller J.I., Weller H., Kliger D., Ron M. Estimation of quantitative trait locus allele frequency via a modified granddaughter design. Genetics. 162:2002;841-849
28. Staden R., Beal K.F., Bonfield J.K. The Staden package, 1998. Methods Mol. Biol. 132:2000;115-130
29. Venter J.C., et al. The sequence of the human genome. Science. 291:2001;1304-1351
30. Thompson J.D., Higgins D.G., Gibson T.J. Improved sensitivity of profile searches through the use of sequence weights and gap excision. Comput. Appl. Biosci. 10:1994;19-29
31. Lupas A., Van Dyke M., Stock J. Predicting coiled coils from protein sequences. Science. 252:1991;1162-1164
32. Wolf E., Kim P.S., Berger B. MultiCoil: A program for predicting two - and three-stranded coiled coils. Protein Sci. 6:1997;1179-1189
33. Nakai K., Horton P. PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem. Sci. 24:1999;34-36
34. Womack J.E., et al. A whole-genome radiation hybrid panel for bovine gene mapping. Mamm. Genome. 8:1997;854-856
35. Band M., Larson J.H., Womack J.E., Lewin H.A. A radiation hybrid map of BTA23: identification of a chromosomal rearrangement leading to separation of the cattle MHC class II subregions. Genomics. 53:1998;269-275
36. Renou J.P., et al. Identification of genes differentially expressed in mouse mammary epithelium transformed by an activated beta-catenin. Oncogene. 22:2003;4594-4610
37. Jain A.N., et al. Fully automatic quantification of microarray image data. Genome Res. 12:2002;325-332
38. Da Y., Grossman M. Multitrait animal model with genetic groups. J. Dairy Sci. 74:1991;3183-3195