Molecular characterization, expression pattern, polymorphism and association analysis of bovine ADAMTSL3 gene

Molecular Biology Reports

Volumn 39, Issue 2, 2012, Pages 1551-1560

  Liu, Yongfeng ^a,c   Zan, Linsen ^a   Zhao, Shuanping ^a,b   Xin, Yaping ^a   Jiao, Yang ^a   Li, Kui ^b  

^a NORTHWEST A F UNIVERSITY   (China)

^b INSTITUTE OF PLANT PROTECTION   (China)

^c SHAANXI NORMAL UNIVERSITY   (China)

Author keywords

ADAMTSL3 gene; Association analysis; Body measurement; Cattle; SNP

Indexed keywords

ADAMTSL3 GENE; ADIPOSE TISSUE; ALLELE; ANIMAL TISSUE; ANTHROPOMETRY; ARTICLE; BODY HEIGHT; BOS TAURUS; BREEDING; CHEST DEPTH; CONTROLLED STUDY; CORRELATION ANALYSIS; COW; EXON; FEMALE; GENE; GENE EXPRESSION; GENE FREQUENCY; GENETIC ANALYSIS; GENETIC MARKER; GENETIC TRAIT; GENOMIC STRUCTURAL ANALYSIS; HEART; HEART GIRTH; KIDNEY; LARGE INTESTINE; LIVER; LUNG; MALE; MUSCLE; NONHUMAN; NUCLEOTIDE SEQUENCE; PIN BONE WIDTH; SEQUENCE HOMOLOGY; SINGLE NUCLEOTIDE POLYMORPHISM; SMALL INTESTINE; SPLEEN; STOMACH; TESTIS; TRACHEA; ANIMAL; BODY SIZE; CATTLE; COMPARATIVE STUDY; DNA SEQUENCE; GENE EXPRESSION PROFILING; GENETIC ASSOCIATION; GENETICS; HUMAN; METABOLISM; MOLECULAR GENETICS; MORPHOMETRICS; PHYLOGENY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SPECIES DIFFERENCE; STATISTICAL MODEL;

ANIMALIA; BOS; BOS TAURUS; BOVINAE;

ADAMTSL3 PROTEIN, HUMAN; COMPLEMENTARY DNA; SCLEROPROTEIN;

ANIMALS; BASE SEQUENCE; BODY SIZE; BODY WEIGHTS AND MEASURES; CATTLE; DNA, COMPLEMENTARY; EXTRACELLULAR MATRIX PROTEINS; GENE EXPRESSION PROFILING; GENE FREQUENCY; GENETIC ASSOCIATION STUDIES; GENETIC MARKERS; HUMANS; LINEAR MODELS; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYMORPHISM, SINGLE NUCLEOTIDE; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY; SPECIES SPECIFICITY;

EID: 84860339722     PISSN: 03014851     EISSN: 15734978     Source Type: Journal    
DOI: 10.1007/s11033-011-0894-z     Document Type: Article

References (33)

1. Hurskainen TL, Hirohata S, Seldin MF, Apte SS (1999) AD-AMTS5, ADAM-TS6, and ADAM-TS7, novel members of a new family of zinc metalloproteases. General features and genomic distribution of the ADAM-TSfamily. J Biolo Chem 274:25555-25563
2. Kuno K, Kanada N, Nakashima E, Fujiki F, Ichimura F, Matsu-shima K (1997) Molecular cloning of a gene encoding a new type of metalloproteinase- disintegrin family protein with thrombo-spondin motifs as an inflammation associated gene. Journal Biolo Chem 272:556-562 (Pubitemid 27021194)
3. Apte SS (2004) A disintegrin-like and metalloprotease (reproly-sin type) with thrombospondin type 1 motifs: the ADAMTS family. International J Biochem Cell Biology 36:981-985 (Pubitemid 38501549)
4. Porter S, Clark IM, Kevorkian L, Edwards DR (2005) The AD-AMTS metalloproteinases. Biochem J 386:15-27
5. Huxley-Jones J, Apte SS, Robertson DL, Boot-Handford RP (2005) The characterisation of six ADAMTS proteases in the basal chordate Ciona intestinalis provides new insights into the vertebrate ADAMTS family. Int. J. Biochem. J Cell Biol 37:1838-1845 (Pubitemid 40961668)
6. Hall NG, Klenotic P, Anand-Apte B, Apte SS (2003) ADAM-TSL-3/punctin-2, a novel glycoprotein in extracellular matrix related to the ADAMTS family of metalloproteases. Matrix Biol 22:501-510 (Pubitemid 37518309)
7. Hirohata S, Wang LW, Miyagi M, Yan L, Seldin MF, Keene DR, Crabb JW, Apte SS (2002) Punctin, a novel ADAMTS-like molecule (ADAMTSL-1) in extracellular matrix. J Biolo Chem 277:12182-12189 (Pubitemid 34952784)
8. Nagase T, Ishikawa K, Miyajima N, Tanaka A, Kotani H, Nomura N, Ohara O (1998) Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. DNA Res 5:31-39 (Pubitemid 128670198)
9. Koo BH, Hurskainen T, Mielke K, Aung PP, Casey G, Autio-Harmainen H, Apte SS (2007) ADAMTSL3/punctin-2, a gene frequently mutated in colorectal tumors, is widely expressed in normal and malignant epithelial cells, vascular endothelial cells and other cell types, and its mRNA is reduced in colon cancer. Int J Cancer 121:1710-1716 (Pubitemid 47417287)
10. Gudbjartsson DF, Walters GB, Thorleifsson G, Stefansson H, Halldorsson BV, Zusmanovich P, Sulem P, Thorlacius S, Gylfason A, Steinberg S, Helgadottir A, Ingason A, Steinthors-dottir V, Olafsdottir EJ, Olafsdottir GH, Jonsson T, Borch-Johnsen K, Hansen T, Andersen G, Jorgensen T, Pedersen O, Aben KK, Witjes JA, Swinkels DW, den Heijer M, Franke B, Verbeek AL, Becker DM, Yanek LR, Becker LC, Tryggvadottir L, Rafnar T, Gulcher J, Kiemeney LA, Kong A, Thorsteinsdottir U, Stefansson K (2008) Many sequence variants affecting diversity of adult human height. Nat Genet 40:609-615 (Pubitemid 351601211)
11. He H, Liu X, Gu Y, Liu Y (2010) A novel 18-bp deletion mutation of the AMPD1 gene affects carcass traits in Qinchuan cattle. Mol Biol Rep 37(8):3945-3949
12. Iglesias PP, Caffaro ME, Amadio AF, Arias Mañotti A, Poli MA (2010) CAPN1 markers in three Argentinean cattle breeds: report of a new InDel polymorphism within intron 17. Mol Biol Rep 38(3):1645-1649
13. Juszczuk-Kubiak E, Flisikowski K, Wiciska K (2009) A new SNP in the 3'UTR region of the bovine calpain small subunit (CAP-NS1) gene. Mol Biol Rep 37(1):473-476
14. Gilbert RP, Bailey DRC, Shannon NH (1993) Linear body measurements of cattle before and after 20 years of selection for post weaning gain when fed two different diets. J Anim Sci 71:1712-1720
15. Mullenbach R, Lagoda PJ, Welter C (1989) An efficient saltchloroform extraction of DNA from blood and tissues. Trends Genet 5:391 (Pubitemid 20011529)
16. Wang H, Zhu ZM, Wang HL, Yang SL, Li K (2007) Molecular cloning, mapping, and expression analysis of the EIF4A2 gene in pig. Biochem Genetics 45:51-62 (Pubitemid 46292124)
17. Huang HG, Zhao WM, Tang ZL, Yang SL, Wu ZF, Zhao SH, Cui WT, Mu YL, Chu MX, Li K (2009) Characterization of porcine MMP-2 and its association with immune traits. Gene 435:63-71
18. Bundock PC, Cross K, Shapter FM, Henry RJ (2006) Robust allele-specific polymerase chain reaction markers developed for single nucleotide polymorphisms in expressed barley sequences. Theor Appl Genet 112:358-365 (Pubitemid 41813203)
19. Imyanitov EN, Buslov KG, Suspitsin EN, Kuligina ES, Belogub-ova EV, Grigoriev MY, Togo AV, Hanson KP (2002) Improved reliability of allele-specific PCR. Biotechniques 33:484-490 (Pubitemid 35277548)
20. Nasis O, Thompson S, Hong T, Sherwood M, Radcliffe S, Jackson L, Otevrel T (2004) Improvement in sensitivity of allele-specific PCR facilitates reliable noninvasive prenatal detection of cystic fibrosis. Clin Chem 50:694-701 (Pubitemid 38429332)
21. Nei M, Roychoudhury AK (1974) Sampling variance of hetero-zygosity and genetic distance. Genetics 76:379-390
22. Nei M, Li WH (1979) Mathematic model for studying genetic variation in terms of restriction endonucleaes. PNAS 76:5269-5273 (Pubitemid 10236121)
23. Liu YF, Zan LS, Li K, Zhao SP, Xin YP, Lin Q, Tian WQ, Wang ZW (2010) A novel polymorphism of GDF5 gene and its association with body measurement traits in Bos taurus and Bos indicus breeds. Mol Biol Rep 37:429-434
24. Liu Y, Zan L, Zhao S, Xin Y, Li L, Cui W, Tang Z, Li K (2010) Molecular characterization, polymorphism of bovine ZBTB38 gene and association with body measurement traits in native Chinese cattle breeds. Mol Biol Rep 37(8):4041-4049
25. Shi YY, He L (2005) SHEsis, a powerful software platform for analyses of linkage disequilibrium, haplotype construction, and genetic association at polymorphism loci. Cell Res 15:97-98 (Pubitemid 41653949)
26. Ardlie KG, Kruglyak L, Seielstad M (2002) Patterns of linkage disequilibrium in the human genome. Nature Reviews Genetics 3:299-309 (Pubitemid 34279798)
27. Mateescu RG, Zhang Z, Tsai K, Phavaphutanon J, Burton-wurster NI, Quaas R, Murphy K, Acland GM, Todhunter RJ (2005) Analysis of allele fidelity, polymorphic information content, and density of microsatellites in a genome-wide screening for hip dysplasia in a crossbreed pedigree. J Heredity 96:847-853 (Pubitemid 41752448)
28. Ren G, Chen H, Zhang LZ, Lan XY, Wei TB, Li MJ, Jing YJ, Lei CZ, Wang JQ (2010) A coding SNP of LHX4 gene is associated with body weight and body length in bovine. Mol Biol Rep 37(1):417-422
29. Zhang B, Chen H, Guo Y, Zhang L, Zhao M, Lan X, Zhang C, Pan C, Hu S, Wang J, Lei C (2009) Associations of polymorphism within the GHSR gene with growth traits in Nanyang cattle. Mol Biol Rep 36(8):2259-2263
30. Lettre G, Jackson AU, Gieger C, Schumacher FR, Berndt SI, Sanna S, Eyheramendy S, Voight BF, Butler JL, Guiducci C, Illig T, Hackett R, Heid IM, Jacobs KB, Lyssenko V, Uda M, Boehnke M, Chanock SJ, Groop LC, Hu FB, Isomaa B, Kraft P, Peltonen L, Salomaa V, Schlessinger D, Hunter DJ, Hayes RB, Abecasis GR, Wichmann HE, Mohlke KL, Hirschhorn JN (2008) Identification of ten loci associated with height highlights new biological pathways in human growth. Nat Genet 40:584-591 (Pubitemid 351601214)
31. Weedon MN, Lango H, Lindgren CM, Wallace C, Evans DM, Mangino M, Freathy RM, Perry JRB, Stevens S, Hall AS, Samani NJ, Shields B, Prokopenko I, Farrall M, Dominiczak A, Johnson T, Bergmann S, Beckmann JS, Vollenweider P, Waterworth DMV, Mooser CNA, Palmer AD, Morris WH, Ouwehand MC, Munroe PB, Hattersley AT, McCarthy MI, Frayling TM (2008) Genome-wide association analysis identifies 20 loci that influence adult height. Nat Genet 40:575-583 (Pubitemid 351601210)
32. Sovio U, Bennett AJ, Millwood IY, Molitor J, O'Reilly PF, Timpson NJ, Kaakinen M, Laitinen J, Haukka J, Pillas D, Tzoulaki I, Molitor J, Hoggart C, Coin LJ, Whittaker J, Pouta A, Hartikainen AL, Freimer NB, Widen E, Peltonen L, Elliott P, McCarthy MI, Jarvelin MR (2009) Genetic determinants of height growth assessed longitudinally from infancy to adulthood in the northern finland birth cohort 1966. PLoS Gene 5:e1000409
33. Soranzo N, Rivadeneira F, Chinappen-Horsley U, Malkina I, Richards JB, Hammond N, Stolk L, Nica A, Inouye M, Hofman A, Stephens J, Wheeler E, Arp P, Gwilliam R, Jhamai PM, Potter S, Chaney A, Ghori MJ, Ravindrarajah R, Ermakov S, Estrada K, Pols HA, Williams FM, McArdle WL, van Meurs JB, Loos RJ, Dermitzakis ET, Ahmadi KR, Hart DJ, Ouwehand WH, Wareham NJ, Barroso I, Sandhu MS, Strachan DP, Livshits G, Spector TD, Uitterlinden AG, Deloukas P (2009) Meta-analysis of genome-wide scans for human adult stature identifies novel loci and associations with measures of skeletal frame size. PLoS Gene 5:e1000445