Mapping Recombination Rate on the Autosomal Chromosomes Based on the Persistency of Linkage Disequilibrium Phase Among Autochthonous Beef Cattle Populations in Spain.
beef cattle
gene ontology
linkage disequilibrium
multiple populations
recombination rate
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:
16
11
2018
accepted:
23
10
2019
entrez:
12
12
2019
pubmed:
12
12
2019
medline:
12
12
2019
Statut:
epublish
Résumé
In organisms with sexual reproduction, genetic diversity, and genome evolution are governed by meiotic recombination caused by crossing-over, which is known to vary within the genome. In this study, we propose a simple method to estimate the recombination rate that makes use of the persistency of linkage disequilibrium (LD) phase among closely related populations. The biological material comprised 171 triplets (sire/dam/offspring) from seven populations of autochthonous beef cattle in Spain (Asturiana de los Valles, Avileña-Negra Ibérica, Bruna dels Pirineus, Morucha, Pirenaica, Retinta, and Rubia Gallega), which were genotyped for 777,962 SNPs with the BovineHD BeadChip. After standard quality filtering, we reconstructed the haplotype phases in the parental individuals and calculated the LD by the correlation -
Identifiants
pubmed: 31824571
doi: 10.3389/fgene.2019.01170
pmc: PMC6880760
doi:
Types de publication
Journal Article
Langues
eng
Pagination
1170Informations de copyright
Copyright © 2019 Mouresan, González-Rodríguez, Cañas-Álvarez, Munilla, Altarriba, Díaz, Baró, Molina, Lopez-Buesa, Piedrafita and Varona.
Références
Hum Genet. 2007 Nov;122(3-4):301-10
pubmed: 17609980
Animals (Basel). 2019 Mar 06;9(3):null
pubmed: 30845681
BMC Genet. 2016 Feb 01;17:32
pubmed: 26832943
Mol Biol Evol. 2016 Apr;33(4):928-45
pubmed: 26671457
Hum Mol Genet. 2012 May 1;21(9):2029-38
pubmed: 22291443
BMC Genet. 2009 Apr 24;10:19
pubmed: 19393054
Annu Rev Genet. 2007;41:369-99
pubmed: 18076329
Nat Genet. 2002 Jul;31(3):241-7
pubmed: 12053178
Am J Hum Genet. 2007 Nov;81(5):1084-97
pubmed: 17924348
BMC Genet. 2017 Mar 14;18(1):25
pubmed: 28288558
G3 (Bethesda). 2016 Aug 09;6(8):2265-71
pubmed: 27226166
Science. 2012 Apr 13;336(6078):193-8
pubmed: 22422862
Science. 2005 Oct 14;310(5746):321-4
pubmed: 16224025
Genome Res. 2003 Apr;13(4):635-43
pubmed: 12654718
Nature. 2008 Jul 24;454(7203):479-85
pubmed: 18615017
BMC Genomics. 2018 Apr 27;19(1):304
pubmed: 29703147
Nat Rev Genet. 2010 Mar;11(3):221-33
pubmed: 20168297
Science. 2002 Jun 21;296(5576):2225-9
pubmed: 12029063
Genome Res. 2004 Apr;14(4):528-38
pubmed: 15059993
Genome Res. 2009 Dec;19(12):2300-7
pubmed: 19752285
Philos Trans R Soc Lond B Biol Sci. 2017 Dec 19;372(1736):
pubmed: 29109228
PLoS Genet. 2009 Sep;5(9):e1000658
pubmed: 19763175
Immunology. 2016 Oct;149(2):131-8
pubmed: 27531825
BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S66
pubmed: 19208170
Cold Spring Harb Symp Quant Biol. 2009;74:177-86
pubmed: 19734202
Meat Sci. 2001 Jun;58(2):181-8
pubmed: 22062114
Nat Rev Genet. 2007 Jan;8(1):23-34
pubmed: 17146469
Genetics. 2002 Mar;160(3):1231-41
pubmed: 11901136
BMC Genet. 2017 Jan 21;18(1):6
pubmed: 28109261
Genet Sel Evol. 2016 Oct 28;48(1):81
pubmed: 27793093
Genet Epidemiol. 2009;33 Suppl 1:S88-92
pubmed: 19924707
Genetics. 2003 Dec;165(4):2213-33
pubmed: 14704198
Genetics. 2008 Jul;179(3):1503-12
pubmed: 18622038
BMC Genomics. 2014;15 Suppl 7:S6
pubmed: 25573652
Theor Appl Genet. 1968 Jun;38(6):226-31
pubmed: 24442307
Philos Trans R Soc Lond B Biol Sci. 2017 Dec 19;372(1736):null
pubmed: 29109225
Nucleic Acids Res. 2013 Jan;41(Database issue):D48-55
pubmed: 23203987
Curr Opin Genet Dev. 2002 Dec;12(6):657-63
pubmed: 12433578
Mol Biol Evol. 2014 Apr;31(4):1010-28
pubmed: 24489114
Nature. 2010 Oct 28;467(7319):1099-103
pubmed: 20981099
Science. 1992 Apr 10;256(5054):228-32
pubmed: 1566070
Philos Trans R Soc Lond B Biol Sci. 2017 Dec 19;372(1736):null
pubmed: 29109219
Heredity (Edinb). 2011 Dec;107(6):496-508
pubmed: 21673743
Genetics. 2017 Oct;207(2):767-784
pubmed: 28978774
J Anim Sci. 2015 Nov;93(11):5164-74
pubmed: 26641036
BMC Genet. 2015 Jun 25;16:67
pubmed: 26108536
Nature. 2007 Oct 18;449(7164):851-61
pubmed: 17943122
Ann Hum Genet. 1982 May;46(2):167-75
pubmed: 7114793
PLoS One. 2012;7(10):e46603
pubmed: 23056365
J Anim Sci. 2016 Jul;94(7):2779-88
pubmed: 27482665
PLoS Genet. 2006 Jul;2(7):e121
pubmed: 16895449
PLoS Genet. 2015 Nov 05;11(11):e1005387
pubmed: 26540184
PLoS One. 2011 Mar 28;6(3):e17913
pubmed: 21464928
PLoS Genet. 2012;8(7):e1002854
pubmed: 22844258
Animal. 2017 Oct;11(10):1667-1679
pubmed: 28270253
Genome Res. 2007 Apr;17(4):520-6
pubmed: 17351134
Mol Biol Evol. 2006 Feb;23(2):450-68
pubmed: 16280547
BMC Genet. 2009 Apr 24;10:18
pubmed: 19393043