scholarly journals Genome-wide association mapping of growth dynamics detects time-specific and general quantitative trait loci

2015 ◽  
Vol 66 (18) ◽  
pp. 5567-5580 ◽  
Author(s):  
Johanna A. Bac-Molenaar ◽  
Dick Vreugdenhil ◽  
Christine Granier ◽  
Joost J.B. Keurentjes
Keyword(s):  
Quantitative Trait Loci ◽  
Association Mapping ◽  
Quantitative Trait ◽  
Growth Dynamics ◽  
Genome Wide Association ◽  
Genome Wide ◽  
Trait Loci ◽  
Time Specific

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 Identification, deployment, and transferability of quantitative trait loci from genome-wide association studies in plants

2020 ◽  
Vol 24 ◽  
pp. 100145 ◽  
Author(s):  
Mohsen Mohammadi ◽  
Alencar Xavier ◽  
Travis Beckett ◽  
Savannah Beyer ◽  
Liyang Chen ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Association Studies ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genome Wide ◽  
Trait Loci

scholarly journals Mouse BMD quantitative trait loci show improved concordance with human genome-wide association loci when recalculated on a new, common mouse genetic map

2010 ◽  
Vol 25 (8) ◽  
pp. 1808-1820 ◽  
Author(s):  
Cheryl L Ackert-Bicknell ◽  
David Karasik ◽  
Qian Li ◽  
Randy V Smith ◽  
Yi-Hsiang Hsu ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Human Genome ◽  
Genetic Map ◽  
Quantitative Trait ◽  
Genome Wide Association ◽  
Genome Wide ◽  
Trait Loci ◽  
Mouse Genetic

scholarly journals Multi-trait GWAS using high-density genotypes identifies genes associated with body traits in Nile tilapia

2020 ◽  
Author(s):  
Grazyella Yoshida ◽  
José Manuel Yáñez
Keyword(s):  
Quantitative Trait Loci ◽  
Candidate Genes ◽  
Quantitative Trait ◽  
Nile Tilapia ◽  
Statistical Power ◽  
Association Studies ◽  
Genotype Imputation ◽  
Genome Wide Association ◽  
Genome Wide ◽  
Trait Loci

Abstract Background: Body traits are generally controlled by several genes in vertebrates (i.e. polygenes), which in turn make them difficult to identify through association mapping. Increasing the power of association studies by combining approaches such as genotype imputation and multi-trait analysis improves the ability to detect quantitative trait loci associated with polygenic traits, such as body traits. Results: A multi-trait genome-wide association study (mtGWAS) was performed to identify quantitative trait loci (QTL) and genes associated with body traits in Nile tilapia (Oreochromos niloticus) using genotypes imputed to whole-genome sequence (WGS). To increase the statistical power of mtGWAS for the detection of genetic associations, summary statistics from single-trait genome-wide association studies (stGWAS) for eight different body traits recorded in 1,309 animals were used. The mtGWAS increased the statistical power from the original sample size from 13% to 44%, depending on the trait analyzed. The better resolution of the WGS data combined with the increased power of the mtGWAS approach, allowed the detection of significant markers not previously found in the stGWAS. Some lead single nucleotide polymorphisms (SNPs) were found within important functional candidate genes previously associated with growth-related traits. For instance, we identified SNP within the α1,6-fucosyltransferase (FUT8), solute carrier family 4 member 2 (SLC4A2), A disintegrin and metalloproteinase with thrombospondin motifs 9 (ADAMTS9) and heart development protein with EGF like domains 1 (HEG1) genes, which have been associated with average daily gain in sheep, osteopetrosis in cattle, chest size in goats, and growth and meat quality in sheep, respectively. Conclusions: The high-resolution mtGWAS presented, allowed identification of significant SNPs, linked to strong functional candidate genes, associated with body traits in Nile tilapia. These results provide further insights about the genetic variants and genes underlying body trait variation in cichlid fish with high accuracy and strong statistical support.

scholarly journals Multi-trait GWAS using imputed high-density genotypes from whole-genome sequencing identifies genes associated with body traits in Nile tilapia

2020 ◽  
Author(s):  
Grazyella Yoshida ◽  
José Manuel Yáñez
Keyword(s):  
Quantitative Trait Loci ◽  
Candidate Genes ◽  
Quantitative Trait ◽  
Nile Tilapia ◽  
Statistical Power ◽  
Association Studies ◽  
Genome Wide Association ◽  
Whole Genome ◽  
Genome Wide ◽  
Trait Loci

Abstract Background: Body traits are generally controlled by several genes in vertebrates (i.e. polygenes), which in turn make them difficult to identify through association mapping. Increasing the power of association studies by combining approaches such as genotype imputation and multi-trait analysis improves the ability to detect quantitative trait loci associated with polygenic traits, such as body traits. Results: A multi-trait genome-wide association study (mtGWAS) was performed to identify quantitative trait loci (QTL) and genes associated with body traits in Nile tilapia (Oreochromos niloticus) using genotypes imputed to whole-genome sequence (WGS). To increase the statistical power of mtGWAS for the detection of genetic associations, summary statistics from single-trait genome-wide association studies (stGWAS) for eight different body traits recorded in 1,309 animals were used. The mtGWAS increased the statistical power from the original sample size from 13% to 44%, depending on the trait analyzed. The better resolution of the WGS data combined with the increased power of the mtGWAS approach, allowed the detection of significant markers not previously found in the stGWAS. Some lead single nucleotide polymorphisms (SNPs) were found within important functional candidate genes previously associated with growth-related traits. For instance, we identified SNP within the α1,6-fucosyltransferase (FUT8), solute carrier family 4 member 2 (SLC4A2), A disintegrin and metalloproteinase with thrombospondin motifs 9 (ADAMTS9) and heart development protein with EGF like domains 1 (HEG1) genes, which have been associated with average daily gain in sheep, osteopetrosis in cattle, chest size in goats, and growth and meat quality in sheep, respectively. Conclusions: The high-resolution mtGWAS presented, allowed identification of significant SNPs, linked to strong functional candidate genes, associated with body traits in Nile tilapia. These results provide further insights about the genetic variants and genes underlying body trait variation in cichlid fish with high accuracy and strong statistical support.

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