scholarly journals Detection of quantitative trait loci for resistance/susceptibility to pseudorabies virus in swine

2002 ◽  
Vol 83 (1) ◽  
pp. 167-172 ◽  
Author(s):  
Gerald Reiner ◽  
Elke Melchinger ◽  
Marcela Kramarova ◽  
Eberhardt Pfaff ◽  
Matthias Büttner ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Pseudorabies Virus ◽  
Neurological Symptoms ◽  
Pseudoautosomal Region ◽  
Phenotypic Variance ◽  
Large White ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci

This study describes genetic differences in resistance/susceptibility to pseudorabies virus (PrV) between European Large White and Chinese Meishan pigs, with a mapping of quantitative trait loci (QTL) obtained from a genome-wide scan in F2 animals. Eighty-nine F2 pigs were challenged intranasally at 12 weeks with 105 p.f.u. of the wild-type PrV strain NIA-3. For QTL analysis, 85 microsatellite markers, evenly spaced on the 18 porcine autosomes and on the pseudoautosomal region of the X chromosome, were genotyped. All pigs developed clinical signs, i.e. fever, from 3 to 7 days p.i. The pure-bred Large White pigs, the F1 and three-quarters of the F2 animals, but none of the Meishan pigs, developed neurological symptoms and died or were euthanized. QTLs for appearance/non-appearance of neurological symptoms were found on chromosomes 9, 5, 6 and 13. They explained 10·6–17·9% of F2 phenotypic variance. QTL effects for rectal temperature after PrV challenge were found on chromosomes 2, 4, 8, 10, 11 and 16. Effects on chromosomes 9, 10 and 11 were significant on a genome-wide level. The results present chromosomal regions that are associated with presence/absence of neurological symptoms as well as temperature course after intranasal challenge with NIA-3. The QTLs are in proximity to important candidate genes that are assumed to play crucial roles in host defence against PrV.

Detection of quantitative trait loci for locomotion and osteochondrosis-related traits in Large White ✕ Meishan pigs

2003 ◽  
Vol 76 (2) ◽  
pp. 155-165 ◽  
Author(s):  
G.J. Lee ◽  
A.L. Archibald ◽  
G.B. Garth ◽  
A.S. Law ◽  
D. Nicholson ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Chromosome 1 ◽  
Chromosome 15 ◽  
Large White ◽  
Chromosome 13 ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci ◽  
Gait Score

AbstractData from the F2 generation of a Large White (LW) ✕ Meishan (MS) crossbred population were analysed to detect quantitative trait loci (QTL) for leg and gait scores, osteochondrosis and physis scores. Legs, feet and gait score were assessed in 308 F2 animals at 85 ( + 5) kg and osteochondrosis and physis scores were recorded for the right foreleg after slaughter. A genome scan was performed using 111 genetic markers chosen to span the genome that were genotyped on the F2 animals and their F1 parents and purebred grandparents. A QTL on chromosome 1 affecting gait score was significant at the genome-wide significance level. Additional QTL significant at the chromosome-wide 5% threshold level (approx. equivalent to the genome-wide suggestive level) were detected on chromosome 1 for front feet and back legs scores, on chromosome 13 for front legs and front feet scores, on chromosome 14 for front legs, front feet and back legs scores and on chromosome 15 for back feet score. None of the QTL for osteochondrosis score exceeded the chromosome-wide suggestive level, but one chromosome-wide QTL for physis score was found on chromosome 7. On chromosome 1, gait and front feet scores mapped to the middle of the chromosome and showed additive effects in favour of the LW alleles and no dominance effects. The QTL for back legs score mapped to the distal end of the chromosome and showed a dominant effect and no additive effect. On chromosomes 14 and 15, the LW allele was again superior to the MS allele. On chromosome 13, there were both additive and dominance effects in favour of the MS allele. The MS alleles on chromosome 13 may have potential for introgression into a commercial LW population. The other putative QTLs identified may have value in marker-assisted selection in LW or MS-synthetic populations.

scholarly journals A Genome-Wide Association Study Identifies Protein Quantitative Trait Loci (pQTLs)

PLoS Genetics ◽  
2008 ◽  
Vol 4 (5) ◽  
pp. e1000072 ◽  
Author(s):  
David Melzer ◽  
John R. B. Perry ◽  
Dena Hernandez ◽  
Anna-Maria Corsi ◽  
Kara Stevens ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Association Study ◽  
Quantitative Trait ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci

scholarly journals Meta-Analysis of Quantitative Trait Loci Associated with Seedling-Stage Salt Tolerance in Rice (Oryza sativa L.)

Plants ◽  
2019 ◽  
Vol 8 (2) ◽  
pp. 33 ◽  
Author(s):  
Md. Islam ◽  
John Ontoy ◽  
Prasanta Subudhi
Keyword(s):  
Quantitative Trait Loci ◽  
Salt Tolerance ◽  
Candidate Genes ◽  
Quantitative Trait ◽  
Oryza Sativa L ◽  
Meta Analysis ◽  
Seedling Stage ◽  
Phenotypic Variance ◽  
A Genome ◽  
Trait Loci

Soil and water salinity is one of the major abiotic stresses that reduce growth and productivity in major food crops including rice. The lack of congruence of salt tolerance quantitative trait loci (QTLs) in multiple genetic backgrounds and multiple environments is a major hindrance for undertaking marker-assisted selection (MAS). A genome-wide meta-analysis of QTLs controlling seedling-stage salt tolerance was conducted in rice using QTL information from 12 studies. Using a consensus map, 11 meta-QTLs for three traits with smaller confidence intervals were localized on chromosomes 1 and 2. The phenotypic variance of 3 meta-QTLs was ≥20%. Based on phenotyping of 56 diverse genotypes and breeding lines, six salt-tolerant genotypes (Bharathy, I Kung Ban 4-2 Mutant, Langmanbi, Fatehpur 3, CT-329, and IARI 5823) were identified. The perusal of the meta-QTL regions revealed several candidate genes associated with salt-tolerance attributes. The lack of association between meta-QTL linked markers and the level of salt tolerance could be due to the low resolution of meta-QTL regions and the genetic complexity of salt tolerance. The meta-QTLs identified in this study will be useful not only for MAS and pyramiding, but will also accelerate the fine mapping and cloning of candidate genes associated with salt-tolerance mechanisms in rice.

A genome-wide scan for quantitative trait loci affecting serum glucose and lipids in a White Duroc × Erhualian intercross F2 population

2009 ◽  
Vol 20 (6) ◽  
pp. 386-392 ◽  
Author(s):  
Rongrong Chen ◽  
Jun Ren ◽  
Wanbo Li ◽  
Xiang Huang ◽  
Xueming Yan ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Serum Glucose ◽  
F2 Population ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci ◽  
Genome Wide Scan

A genome-wide search for quantitative trait loci underlying asthma

Nature ◽  
1996 ◽  
Vol 383 (6597) ◽  
pp. 247-250 ◽  
Author(s):  
Susan E. Daniels ◽  
Sumit Bhattacharrya ◽  
Alan James ◽  
Nicholas I. Leaves ◽  
Alan Young ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci ◽  
Genome Wide Search

scholarly journals A genome-wide linkage scan identifies multiple quantitative trait loci for HDL-cholesterol levels in families with premature CAD and MI

2010 ◽  
Vol 51 (6) ◽  
pp. 1442-1451 ◽  
Author(s):  
Rong Yang ◽  
Lin Li ◽  
Sara Bretschger Seidelmann ◽  
Gong-Qing Shen ◽  
Sonia Sharma ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Hdl Cholesterol ◽  
Cholesterol Levels ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci ◽  
Premature Cad

A genome-wide linkage scan for quantitative trait loci underlying obesity related phenotypes in 434 Caucasian families

2006 ◽  
Vol 121 (1) ◽  
pp. 145-148 ◽  
Author(s):  
Lan-Juan Zhao ◽  
Peng Xiao ◽  
Yong-Jun Liu ◽  
Dong-Hai Xiong ◽  
Hui Shen ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci

scholarly journals A Genome-Wide Search for Quantitative Trait Loci That Influence Antisocial Drug Dependence in Adolescence

2005 ◽  
Vol 62 (9) ◽  
pp. 1042 ◽  
Author(s):  
Michael C. Stallings ◽  
Robin P. Corley ◽  
Briana Dennehey ◽  
John K. Hewitt ◽  
Kenneth S. Krauter ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Drug Dependence ◽  
Quantitative Trait ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci ◽  
Genome Wide Search

scholarly journals Common Expression Quantitative Trait Loci Shared by Histone Genes

2017 ◽  
Vol 2017 ◽  
pp. 1-14
Author(s):  
Hanseol Kim ◽  
Yujin Suh ◽  
Chaeyoung Lee
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Genome Wide Association Study ◽  
Histone Genes ◽  
Expression Quantitative Trait Loci ◽  
Nucleotide Polymorphisms ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci ◽  
Cycle Dependent

A genome-wide association study (GWAS) was conducted to examine expression quantitative trait loci (eQTLs) for histone genes. We examined common eQTLs for multiple histone genes in 373 European lymphoblastoid cell lines (LCLs). A linear regression model was employed to identify single-nucleotide polymorphisms (SNPs) associated with expression of the histone genes, and the number of eQTLs was determined by linkage disequilibrium analysis. Additional associations of the identified eQTLs with other genes were also examined. We identified 31 eQTLs for 29 histone genes through genome-wide analysis using 29 histone genes (P<2.97×10−10). Among them, 12 eQTLs were associated with the expression of multiple histone genes. Transcriptome-wide association analysis using the identified eQTLs showed their associations with additional 80 genes (P<4.75×10−6). In particular, expression of RPPH1, SCARNA2, and SCARNA7 genes was associated with 26, 25, and 23 eQTLs, respectively. This study suggests that histone genes shared 12 common eQTLs that might regulate cell cycle-dependent transcription of histone and other genes. Further investigations are needed to elucidate the transcriptional mechanisms of these genes.

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