Single-Locus and Multi-Locus Genome-Wide Association Studies for Intramuscular Fat in Duroc Pigs.
Duroc pigs
candidate gene
intramuscular fat
multi-locus genome-wide association studies
single-locus genome-wide association studies
Journal
Frontiers in genetics
ISSN: 1664-8021
Titre abrégé: Front Genet
Pays: Switzerland
ID NLM: 101560621
Informations de publication
Date de publication:
2019
2019
Historique:
received:
09
12
2018
accepted:
13
06
2019
entrez:
19
7
2019
pubmed:
19
7
2019
medline:
19
7
2019
Statut:
epublish
Résumé
Intramuscular fat (IMF) is an important quantitative trait of meat, which affects the associated sensory properties and nutritional value of pork. To gain a better understanding of the genetic determinants of IMF, we used a composite strategy, including single-locus and multi-locus association analyses to perform genome-wide association studies (GWAS) for IMF in 1,490 Duroc boars. We estimated the genomic heritability of IMF to be 0.23 ± 0.04. A total of 30 single nucleotide polymorphisms (SNPs) were found to be significantly associated with IMF. The single-locus mixed linear model (MLM) and multiple-locus methods multi-locus random-SNP-effect mixed linear model (mrMLM), fast multi-locus random-SNP-effect efficient mixed model association (FASTmrEMMA), and integrative sure independence screening expectation maximization Bayesian least absolute shrinkage and selection operator model (ISIS EM-BLASSO) analyses identified 5, 9, 8, and 21 significant SNPs, respectively. Interestingly, a novel quantitative trait locus (QTL) on SSC 7 was found to affect IMF. In addition, 10 candidate genes (
Identifiants
pubmed: 31316554
doi: 10.3389/fgene.2019.00619
pmc: PMC6609572
doi:
Types de publication
Journal Article
Langues
eng
Pagination
619Références
DNA Cell Biol. 2000 May;19(5):275-81
pubmed: 10855794
J Cell Sci. 2001 Jun;114(Pt 11):2085-94
pubmed: 11493644
Nat Rev Genet. 2002 May;3(5):391-7
pubmed: 11988764
Science. 2002 Jun 21;296(5576):2225-9
pubmed: 12029063
J Anim Sci. 2002 Dec;80(12):3046-52
pubmed: 12542142
Bioinformatics. 2005 Jan 15;21(2):263-5
pubmed: 15297300
Nat Genet. 2006 Feb;38(2):203-8
pubmed: 16380716
Cell Metab. 2006 Jan;3(1):25-34
pubmed: 16399502
BMC Genet. 2005 Dec 30;6 Suppl 1:S134
pubmed: 16451593
Hum Mol Genet. 2006 Mar 15;15(6):979-87
pubmed: 16461337
J Anim Sci. 2006 Dec;84(12):3251-8
pubmed: 17093217
Regul Pept. 2007 Feb 1;138(2-3):56-8
pubmed: 17184856
Gene Expr Patterns. 2007 Feb;7(4):396-404
pubmed: 17239664
Am J Hum Genet. 2007 Sep;81(3):559-75
pubmed: 17701901
Eur J Endocrinol. 2007 Oct;157(4):451-7
pubmed: 17893259
Biochimie. 2007 Dec;89(12):1447-53
pubmed: 17933451
J Anim Sci. 2008 Feb;86(2):254-66
pubmed: 17965326
JAMA. 2008 Mar 19;299(11):1335-44
pubmed: 18349094
Eur Heart J. 2008 Dec;29(24):2959-71
pubmed: 18775919
J Dairy Sci. 2008 Nov;91(11):4414-23
pubmed: 18946147
J Med Chem. 2009 Jul 9;52(13):3829-45
pubmed: 19309080
J Anim Sci. 2009 Sep;87(9):2774-80
pubmed: 19502499
Inflamm Res. 2009 Nov;58(11):727-36
pubmed: 19543691
J Anim Sci. 2010 Apr;88(13 Suppl):E51-60
pubmed: 19717774
Nature. 2009 Oct 8;461(7265):747-53
pubmed: 19812666
Meat Sci. 2010 Apr;84(4):645-50
pubmed: 20374837
Meat Sci. 2009 Oct;83(2):175-86
pubmed: 20416766
Nat Rev Genet. 2010 Jun;11(6):446-50
pubmed: 20479774
Nat Genet. 2010 Jul;42(7):565-9
pubmed: 20562875
Int J Biol Sci. 2010 Dec 02;6(7):769-72
pubmed: 21152117
Am J Hum Genet. 2011 Jan 7;88(1):76-82
pubmed: 21167468
Genet Epidemiol. 2011 Feb;35(2):111-8
pubmed: 21254218
Am J Surg Pathol. 2011 Apr;35(4):583-9
pubmed: 21412072
J Anim Sci. 2011 Aug;89(8):2297-309
pubmed: 21421834
Anim Biotechnol. 2011 Apr;22(2):51-63
pubmed: 21500107
Nucleic Acids Res. 2011 Jul;39(Web Server issue):W316-22
pubmed: 21715386
Meat Sci. 1986;16(4):283-95
pubmed: 22055083
Meat Sci. 1994;36(1-2):191-202
pubmed: 22061460
Animal. 2010 Feb;4(2):303-19
pubmed: 22443885
Animal. 2010 Apr;4(4):497-504
pubmed: 22444036
Nat Genet. 2012 Jun 17;44(7):821-4
pubmed: 22706312
Diabetes. 2012 Sep;61(9):2289-98
pubmed: 22751693
J Anim Sci. 2012 Sep;90(9):2883-93
pubmed: 22785162
J Anim Sci. 2013 Feb;91(2):623-32
pubmed: 23230112
BMC Genomics. 2012 Dec 19;13:711
pubmed: 23253381
Anim Genet. 2013 Dec;44(6):609-19
pubmed: 23668618
BMC Genet. 2013 Jun 13;14:52
pubmed: 23758625
Biochem Pharmacol. 2013 Aug 15;86(4):508-20
pubmed: 23796753
Meat Sci. 2013 Nov;95(3):608-15
pubmed: 23806853
Meat Sci. 2014 Jan;96(1):195-202
pubmed: 23896154
Nat Med. 2013 Oct;19(10):1252-63
pubmed: 24100998
PLoS Genet. 2013;9(12):e1003970
pubmed: 24339790
Nat Methods. 2014 Apr;11(4):407-9
pubmed: 24531419
Int J Genomics. 2014;2014:708562
pubmed: 24624372
J Anim Sci. 2014 Jun;92(6):2377-86
pubmed: 24671579
J Anim Sci. 2014 Jul;92(7):2846-60
pubmed: 24962532
Exp Ther Med. 2014 Dec;8(6):1813-1818
pubmed: 25371737
Biochem Biophys Res Commun. 2015 Jan 9;456(2):598-604
pubmed: 25490389
Asian-Australas J Anim Sci. 2015 Mar;28(3):318-22
pubmed: 25716824
Genet Sel Evol. 2015 Feb 22;47:7
pubmed: 25888076
PLoS Genet. 2015 May 05;11(5):e1005048
pubmed: 25942577
PLoS One. 2015 May 29;10(5):e0127712
pubmed: 26024229
J Anim Breed Genet. 2016 Aug;133(4):277-82
pubmed: 26578072
Mediators Inflamm. 2015;2015:520618
pubmed: 26648664
Sci Rep. 2016 Jan 20;6:19444
pubmed: 26787347
Endocrinology. 2016 May;157(5):1839-51
pubmed: 26943364
PLoS One. 2016 Mar 29;11(3):e0152496
pubmed: 27023885
Int J Mol Sci. 2016 Dec 14;17(12):
pubmed: 27983643
PLoS Comput Biol. 2017 Jan 31;13(1):e1005357
pubmed: 28141824
Brief Bioinform. 2017 Sep 1;18(5):906
pubmed: 28334354
Anim Sci J. 2017 Oct;88(10):1482-1490
pubmed: 28402008
Asian-Australas J Anim Sci. 2018 Feb;31(2):157-162
pubmed: 28728355
Sci Rep. 2017 Sep 29;7(1):12478
pubmed: 28963534
Asian-Australas J Anim Sci. 2018 Apr;31(4):480-488
pubmed: 29059722
Sci Rep. 2018 Jan 11;8(1):465
pubmed: 29323254
Cancer Res. 2018 Apr 1;78(7):1713-1725
pubmed: 29351902
Front Plant Sci. 2018 Apr 26;9:561
pubmed: 29755499
Front Plant Sci. 2018 May 07;9:611
pubmed: 29868068
Front Genet. 2018 Jun 19;9:220
pubmed: 29971093
Asian-Australas J Anim Sci. 2019 May;32(5):607-613
pubmed: 30381738
J Anim Breed Genet. 2019 Jan;136(1):3-14
pubmed: 30417949
Meat Sci. 2019 Apr;150:47-55
pubmed: 30584983