A QTL resource and comparison tool for pigs: PigQTLDB

Mammalian Genome

Volumn 16, Issue 10, 2005, Pages 792-800

  Hu, Zhi Liang ^a   Dracheva, Svetlana ^b   Jang, Wonhee ^b   Maglott, Donna ^b   Bastiaansen, John ^c   Rothschild, Max F ^a   Reecy, James M ^a  

^a IOWA STATE UNIVERSITY   (United States)

^b NATIONAL INSTITUTES OF HEALTH   (United States)

^c Sygen International   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; AUTOMATION; COMPUTER PROGRAM; GENETIC DATABASE; GENETIC TRAIT; MAMMALIAN GENETICS; MEDLINE; MICROSATELLITE MARKER; PIG QUANTITATIVE TRAIT LOCUS DATABASE; QUANTITATIVE TRAIT LOCUS; QUANTITATIVE TRAIT LOCUS MAPPING; REFERENCE DATABASE; ANIMAL; CHROMOSOME MAP; GENE EXPRESSION PROFILING; GENETICS; GENOME; INFORMATION RETRIEVAL; PHENOTYPE; SWINE;

MAMMALIA; SUS SCROFA;

ANIMALS; CHROMOSOME MAPPING; DATABASES, GENETIC; GENE EXPRESSION PROFILING; GENOME; INFORMATION STORAGE AND RETRIEVAL; PHENOTYPE; QUANTITATIVE TRAIT LOCI; SWINE;

EID: 32944470512     PISSN: 09388990     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00335-005-0060-9     Document Type: Article

References (49)

1. Bertram HC, Petersen JS, Andersen HJ (2000) Relationship between RN- genotype and drip loss in meat from Dansh pigs. Meat Science 56, 49-55
2. Bidanel JP, Rothschild MF (2002) Current status of quantitative trait loci mapping in pigs. Pig News Inf 23(2), N39-N54
3. Bidanel JP, Milan D, Iannuccelli N, Amigues Y, Boscher MY, et al. (2001) Detection of quantitative trait loci for growth and fatness in pigs. Genet Sel Evol 33(3), 289-309
4. Casas-Carrillo E, Prill-Adams A, Price SG, Clutter AC, Kirkpatrick BW (1997) Mapping genomic regions associated with growth rate in pigs. J Anim Sci 75(8), 2047-2053
5. Ciobanu D, Bastiaansen J, Malek M, Helm J, Woollard J, et al. (2001) Evidence for new alleles in the protein kinase adenosine monophosphate- activatedgamma(3)-subunit gene associated with low glycogen content in pig skeletalmuscle and improved meat quality. Genetics 159(3), 1151-1162
6. de Koning DJ, Janss LL, Rattink AP, van Oers PA, de Vries BJ, et al. (1999) Detection of quantitative trait loci for backfat thickness and intramuscular fatcontent in pigs (Sus scrofa). Genetics 152(4), 1679-1690
7. de Koning DJ, Rattink AP, Harlizius B, van Arendonk JA, Brascamp EW, et al. (2000) Genome-wide scan for body composition in pigs reveals important role of imprinting. Proc Natl Acad Sci USA 97(14), 7947-7950
8. de Koning DJ, Harlizius B, Rattink AP, Groenen MA, Brascamp EW, et al. (2001a) Detection and characterization of quantitative trait loci for meat qualitytraits in pigs. J Anim Sci 79(11), 2812-2819
9. de Koning DJ, Rattink AP, Harlizius B, Groenen MA, Brascamp EW, et al. (2001b) Detection and characterization of quantitative trait loci for growth and reproduction traits in pigs. Livestock Prod Sci 72(3), 185-198
10. Fischer GS, Ibrahim M, Brockmann GA, Pahnke J, Bartocci E, et al. (2003) Expression view: visualization of quantitative trait loci and gene-expression data in Ensembl. Genome Biol 4(11), Article R77 (http://genomebiology.com/2003/ 4/11/R77)
11. Gerbens F, Verburg FJ, Van Moerkerk HT, Engel B, Buist W, et al. (2001) Associations of heart and adipocyte fatty acid-binding protein gene expression with intramuscular fat content in pigs. J Anim Sci 79(2), 347-354
12. Grindflek E, Szyda J, Liu Z, Lien S (2001) Detection of quantitative trait loci for meat quality in a commercial slaughter pig cross. Mamm Genome 12(4), 299-304
13. Harlizius B, Rattink AP, de Koning DJ, Faivre M, Joosten RG, et al. (2000) The X chromosome harbors quantitative trait loci for backfat thickness and intramuscular fat content in pigs. Mamm Genome 11(9), 800-802
14. Hirooka H, de Koning DJ, Harlizius B, van Arendonk JA, Rattink AP, et al. (2001) A whole-genome scan for quantitative trait loci affecting teat number in pigs. J Anim Sci 79(9), 2320-2326
15. Hu J, Mungall C, Law A, Papworth R, Nelson JP, et al. (2001) The ARKdb: genome databases for farmed and other animals. Nucleic Acids Res 29(1), 106-110
16. Jeon JT, Carlborg O, Tornsten A, Giuffra E, Amarger V, et al. (1999) A paternally expressed QTL affecting skeletal and cardiac muscle mass in pigs maps to the IGF2 locus. Nat Genet 21(2), 157-158
17. Knott SA, Marklund L, Haley CS, Andersson K, Davies W, et al. (1998) Multiple marker mapping of quantitative trait loci in a cross between outbred wild boar and large white pigs. Genetics 149(2), 1069-1080
18. Knott SA, Nystrom PE, Andersson-Eklund L, Stern S, Marklund L, et al. (2002) Approaches to interval mapping of QTL in a multigeneration pedigree: the example of porcine chromosome 4. Anim Genet 33(1), 26-32
19. Lincoln S (2000) GD.pm interface. The latest versions of GD.pm are available at http://stein.cshl.org/WWW/software/GD
20. Malek M, Dekkers JC, Lee HK, Baas TJ, Rothschild MF (2001a) A molecular genome scan analysis to identify chromosomal regions influencingeconomic traits in the pig. I. Growth and body composition. Mamm Genome 12(8), 630-636
21. Malek M, Dekkers JC, Lee HK, Baas TJ, Prusa K, et al. (2001b) A molecular genome scan analysis to identify chromosomal regions influencing economic traits in the pig. II. Meat and muscle composition. Mamm Genome 12(8), 637-645
22. Marklund L, Nystrom PE, Stern S, Andersson-Eklund L, Andersson L (1999) Confirmed quantitative trait loci for fatness and growth on pig chromosome 4. Heredity 82 (Pt 2), 134-141
23. Milan D, Bidanel JP, Iannuccelli N, Riquet J, Amigues Y, et al. (2002) Detection of quantitative trait loci for carcass composition traits in pigs. Genet Sel Evol 34(6), 705-728
24. Nezer C, Moreau L, Brouwers B, Coppieters W, Detilleux J, et al. ( 1999) An imprinted QTL with major effect on muscle mass and fat deposition maps to the IGF2 locus in pigs. Nat Genet 21(2), 155-156
25. Nezer C, Moreau L, Wagenaar D, Georges M (2002) Results of a whole genome scan targeting QTL for growth and carcass traits in a Pietran x Large White intercross. Genet Sel Evol 34(3), 371-387
26. Ovilo C, Clop A, Noguera JL, Oliver MA, Barragan C, et al. (2002a) Quantitative trait locus mapping for meat quality traits in an Iberian x Landrace F2 pig population. J Anim Sci 80(11), 2801-2808
27. Ovilo C, Oliver A, Noguera JL, Clop A, Barragan C, et al. (2002b) Test for positional candidate genes for body composition on pig chromosome 6. Genet Sel Evol 34(4), 465-479
28. Paszek AA, Wilkie PJ, Flickinger GH, Rohrer GA, Alexander LJ, et al. (1999) Interval mapping of growth in divergent swine cross. Mamm Genome 10, 117-122
29. Perez-Enciso M, Clop A, Noguera JL, Ovilo C, Coll A, et al. (2000) A QTL on pig chromosome 4 affects fatty acid metabolism: evidence from an Iberian by Landrace intercross. J Anim Sci 78(10), 2525-2531
30. Quintanilla R, Milan D, Bidanel JP (2002) A further look at quantitative trait loci affecting growth and fatness in across between Meishan and Large White pig populations. Genet Sel Evol 34(2), 193-210
31. Rathje TA, Rohrer GA, Johnson RK (1997) Evidence for quantitative trait loci affecting ovulation rate in pigs. J Anim Sci 75(6), 1486-1494
32. Rattink AP, de Koning DJ, Faivre M, Harlizius B, van Arendonk JA, et al. (2000) Fine mapping and imprinting analysis for fatness trait QTLs in pigs. Mamm Genome 11(8), 656-661
33. Rohrer GA (2000) Identification of quantitative trait loci affecting birth characters and accumulation of backfat and weight in a Meishan-White Composite resource population. J Anim Sci 78, 2547-2553
34. Rohrer GA, Keele JW (1998) Identification of quantitative trait loci affecting carcass composition in swine: I. Fat deposition traits. J Anim Sci 76(9), 2247-2254
35. Rohrer GA, Alexander LJ, Hu Z-L, Smith TPL, Keele JW, et al. (1996) A comprehensive map of the porcine genome. Genome Res 6, 371-391
36. Rohrer GA, Ford JJ, Wise TH, Vallet JL, Christenson RK (1999) Identification of quantitative trait loci affecting female reproductive traits in a multigeneration Meishan-White composite swine population. J Anim Sci 77(6), 1385-1391
37. Sato S, Oyamada Y, Atsuji K, Nade T, Sato S, et al. (2003) Quantitative trait loci analysis for growth and carcass traits in a Meishan x Duroc F2 resource population. J Anim Sci 81(12), 2938-2949
38. Schuler GD (1997) Sequence mapping by electronic PCR. Genome Res 7, 541-550
39. Su YH, Xiong YZ, Zhang Q, Jiang SW, Yu L, et al. (2002a) [Detection of quantitative trait loci for growth in large white x Meishan intercross]. Yi Chuan Xue Bao 29(7), 607-611
40. Su YH, Xiong YZ, Zhang Q, Jiang SW, Lei MG, et al. (2002b) [Mapping quantitative trait loci for fat deposition in carcass in pigs]. Yi Chuan Xue Bao 29(8), 681-684
41. Su YH, Ma BY, Xiong YZ (2004) Genetic location of body composition traits in pigs. Hereditas (Beijing) 26(2), 163-166
42. Szyda J, Liu Z, Grindflek E, Lien S (2002) Application of a mixed inheritance model to the detection of quantitative trait loci in swine. J Appl Genet 43(1), 69-83
43. Szyda J, Grindflek E, Liu Z, Lien S (2003) Multivariate mixed inheritance models for QTL detection on porcine chromosome 6. Genet Res 81(1), 65-73
44. Varona L, Ovilo C, Clop A, Noguera JL, Perez-Enciso M, et al. (2002) QTL mapping for growth and carcass traits in an Iberian by Landrace pig intercross: additive, dominant and epistatic effects. Genet Res 80(2), 145-154
45. Wada Y, Akita T, Awata T, Furukawa T, Sugai N, et al. (2000) Quantitative trait loci (QTL) analysis in a Meishan x Gottingen cross population. Anim Genet 31(6), 376-384
46. Walling GA, Archibald AL, Cattermole JA, Downing AC, Finlayson HA, et al. (1998) Mapping of quantitative trait loci on porcine chromosome 4. Anim Genet 29(6), 415-24
47. Walling GA, Visscher PM, Andersson L, Rothschild MF, Wang L, et al. (2000) Combined analyses of data from quantitative trait loci mapping studies. Chromosome 4 effects on porcine growth and fatness. Genetics 155(3), 1369-1378
48. Wang L, Yu TP, Tuggle CK, Liu HC, Rothschild MF (1998) A directed search for quantitative trait loci on chromosomes 4 and 7 in pigs. J Anim Sci 76(10), 2560-2567
49. Williams RW, Gu J, Qi S, Lu L (2001) The genetic structure of recombinant inbred mice: High-resolution consensus maps for complex trait analysis. Genome Biol 2(11): 0046.1-0046.18 (http://genomebiology.com/2001/2/11/research/0046)