Whole genome fine mapping of quantitative trait loci for ultrasound and carcass merit traits in beef cattle

2011 ◽  
Vol 91 (1) ◽  
pp. 61-73 ◽  
Author(s):  
Sungael Nalaila ◽  
Paul Stothard ◽  
Stephen Moore ◽  
Zhiquan Wang ◽  
Changxi Li
Keyword(s):  
Quantitative Trait Loci ◽  
Beef Cattle ◽  
Fine Mapping ◽  
Quantitative Trait ◽  
Snp Markers ◽  
Whole Genome ◽  
Association Analyses ◽  
University Of Alberta ◽  
Trait Loci ◽  
Carcass Merit

Nalaila, S. M., Stothard, P., Moore, S. S., Wang, Z. and Li, C. 2011. Whole genome fine mapping of quantitative trait loci for ultrasound and carcass merit traits in beef cattle. Can. J. Anim. Sci. 91: 61–73. Quantitative trait loci (QTL) mapped to large chromosomal regions have limited utility as DNA markers for marker-assisted selection (MAS) and are less informative as a reference for the identification of the underlying causative quantitative trait nucleotides (QTN). The objective of this study was to conduct a whole genome fine mapping of QTL for ultrasound and carcass merit traits in beef cattle using a greater density of single nucleotide polymorphism (SNP) markers, and to identify SNP markers within the QTL regions that are associated with the traits. A total of 418 steers from 28 sires were used in this study with nine ultrasound and seven carcass merit traits that were collected as part of a feedlot trial conducted from 2003 to 2005 at the University of Alberta Kinsella ranch. Sires and their progeny were genotyped for a total of 4592 SNP markers distributed across all 29 bovine autosomes (BTA). Across-family analyses detected 12 QTL for five ultrasound traits on nine chromosomes and 18 QTL for six carcass merit traits on 10 chromosomes (P<0.05). Within-family analyses identified 78 significant QTL for nine ultrasound and seven carcass merit traits (P<0.01). The use of a denser panel of SNP markers allowed fine mapping of QTL to smaller chromosomal regions ranging from 0.6 to 11 cM compared with relatively larger QTL regions of 4 to 24 cM reported in previous studies. Furthermore, single SNP marker association analyses identified 22 SNPs that were significantly associated with three ultrasound and four carcass merit traits under 12 QTL regions (P<0.05). These identified SNP markers significantly associated with the traits under the fine mapped QTL regions provide genomic tools for potential application of MAS and a reference to assist with the identification of QTN causing variations in ultrasound and carcass merit traits in beef cattle.

scholarly journals Fine mapping of quantitative trait loci underlying sensory meat quality traits in three French beef cattle breeds1

2014 ◽  
Vol 92 (10) ◽  
pp. 4329-4341 ◽  
Author(s):  
S. Allais ◽  
H. Levéziel ◽  
J. F. Hocquette ◽  
S. Rousset ◽  
C. Denoyelle ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Beef Cattle ◽  
Meat Quality ◽  
Fine Mapping ◽  
Quantitative Trait ◽  
Quality Traits ◽  
Meat Quality Traits ◽  
Trait Loci ◽  
French Beef

Fine mapping quantitative trait loci for feed intake and feed efficiency in beef cattle1

2009 ◽  
Vol 87 (1) ◽  
pp. 37-45 ◽  
Author(s):  
E. L. Sherman ◽  
J. D. Nkrumah ◽  
C. Li ◽  
R. Bartusiak ◽  
B. Murdoch ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Fine Mapping ◽  
Feed Intake ◽  
Quantitative Trait ◽  
Feed Efficiency ◽  
Trait Loci

scholarly journals A Fine mapping quantitative trait loci that underlie resistance to soybean sudden death syndrome using NILs and SNPs.

2018 ◽  
pp. 583-591
Author(s):  
Yi Chen Lee ◽  
M Javed Iqbal ◽  
Victor N Njiti ◽  
Stella Kantartzi ◽  
David A. Lightfoot
Keyword(s):  
Quantitative Trait Loci ◽  
Sudden Death ◽  
Candidate Genes ◽  
Quantitative Trait ◽  
Soybean Cyst Nematode ◽  
Snp Markers ◽  
Sudden Death Syndrome ◽  
Isogenic Line ◽  
Trait Loci ◽  
Glycine Max L

Soybean (Glycine max (L.) Merr.) cultivars differ in their resistance to sudden death syndrome (SDS), caused by Fusarium virguliforme. Breeding for improving SDS response has been challenging, due to interactions among the 18-42 known resistance loci. Four quantitative trait loci (QTL) for resistance to SDS (cqRfs–cqRfs3) were clustered within 20 cM of the rhg1 locus underlying resistance to soybean cyst nematode (SCN) on Chromosome (Chr.) 18. Another locus on Chr. 20 (cqRfs5) was reported to interact with this cluster. The aims here were to compare the inheritance of resistance to SDS in a near isogenic line (NIL) population that was fixed for resistance to SCN but segregated at two of the four loci (cqRfs1 and cqRfs) for SDS resistance; to examine the interaction with the locus on Chr. 20; and to identify candidate genes underlying QTL. Used were; a NIL population derived from residual heterozygosity in an F5:7 recombinant inbred line EF60 (lines 1-38); SDS response data from two locations and years; four segregating microsatellite and 1,500 SNP markers. Polymorphic regions were found from 2,788 Kbp to 8,938 Kbp on Chr. 18 and 33,100 Kbp to 34,943 Kbp on Chr. 20 that were significantly (0.005 < P > 0.0001) associated with resistance to SDS. The QTL fine maps suggested that the two loci on Chr. 18 were three loci (cqRfs1, cqRfs, and cqRfs19). Candidate genes were inferred.  An epistatic interaction was inferred between Chr. 18 and Chr. 20 loci. Therefore, SDS resistance QTL were both complex and interacting.

scholarly journals Fine-mapping quantitative trait loci affecting murine external ear tissue regeneration in the LG/J by SM/J advanced intercross line

Heredity ◽  
2014 ◽  
Vol 112 (5) ◽  
pp. 508-518 ◽  
Author(s):  
J M Cheverud ◽  
H A Lawson ◽  
K Bouckaert ◽  
A V Kossenkov ◽  
L C Showe ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Tissue Regeneration ◽  
Fine Mapping ◽  
Quantitative Trait ◽  
External Ear ◽  
Advanced Intercross Line ◽  
Trait Loci

Whole-genome resequencing identifies quantitative trait loci associated with mycorrhizal colonization of soybean

2019 ◽  
Vol 133 (2) ◽  
pp. 409-417 ◽  
Author(s):  
Michelle L. Pawlowski ◽  
Tri D. Vuong ◽  
Babu Valliyodan ◽  
Henry T. Nguyen ◽  
Glen L. Hartman
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Mycorrhizal Colonization ◽  
Whole Genome ◽  
Genome Resequencing ◽  
Trait Loci ◽  
Whole Genome Resequencing

A whole-genome scan for quantitative trait loci affecting teat number in pigs.

2001 ◽  
Vol 79 (9) ◽  
pp. 2320 ◽  
Author(s):  
H Hirooka ◽  
D J de Koning ◽  
B Harlizius ◽  
J A van Arendonk ◽  
A P Rattink ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Genome Scan ◽  
Whole Genome ◽  
Trait Loci ◽  
Teat Number ◽  
Whole Genome Scan
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