Genome-wide association studies of agronomic and quality traits in a set of German winter barley (Hordeum vulgare L.) cultivars using Diversity Arrays Technology (DArT)

2014 ◽  
Vol 55 (3) ◽  
pp. 295-305 ◽  
Author(s):  
Jeannette Lex ◽  
Jutta Ahlemeyer ◽  
Wolfgang Friedt ◽  
Frank Ordon
Keyword(s):  
Hordeum Vulgare ◽  
Association Studies ◽  
Winter Barley ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Quality Traits ◽  
Hordeum Vulgare L ◽  
Diversity Arrays Technology ◽  
Genome Wide

scholarly journals Genome-wide association studies provide insights into the genetic determination of fruit traits of pear

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Ming-Yue Zhang ◽  
Cheng Xue ◽  
Hongju Hu ◽  
Jiaming Li ◽  
Yongsong Xue ◽  
...  
Keyword(s):  
Fruit Quality ◽  
Molecular Breeding ◽  
Association Studies ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Quality Traits ◽  
Fruit Traits ◽  
Stone Cell ◽  
Genome Wide ◽  
Fruit Quality Traits

AbstractPear is a major fruit tree crop distributed worldwide, yet its breeding is a very time-consuming process. To facilitate molecular breeding and gene identification, here we have performed genome-wide association studies (GWAS) on eleven fruit traits. We identify 37 loci associated with eight fruit quality traits and five loci associated with three fruit phenological traits. Scans for selective sweeps indicate that traits including fruit stone cell content, organic acid and sugar contents might have been under continuous selection during breeding improvement. One candidate gene, PbrSTONE, identified in GWAS, has been functionally verified to be involved in the regulation of stone cell formation, one of the most important fruit quality traits in pear. Our study provides insights into the complex fruit related biology and identifies genes controlling important traits in pear through GWAS, which extends the genetic resources and basis for facilitating molecular breeding in perennial trees.

scholarly journals Genomic Prediction and Genome-Wide Association Studies of Flour Yield and Alveograph Quality Traits Using Advanced Winter Wheat Breeding Material

Genes ◽  
2019 ◽  
Vol 10 (9) ◽  
pp. 669 ◽  
Author(s):  
Peter S. Kristensen ◽  
Just Jensen ◽  
Jeppe R. Andersen ◽  
Carlos Guzmán ◽  
Jihad Orabi ◽  
...  
Keyword(s):  
Winter Wheat ◽  
Genomic Prediction ◽  
Association Studies ◽  
Wheat Breeding ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Quality Traits ◽  
Breeding Programs ◽  
Genome Wide ◽  
Flour Yield

Use of genetic markers and genomic prediction might improve genetic gain for quality traits in wheat breeding programs. Here, flour yield and Alveograph quality traits were inspected in 635 F6 winter wheat breeding lines from two breeding cycles. Genome-wide association studies revealed single nucleotide polymorphisms (SNPs) on chromosome 5D significantly associated with flour yield, Alveograph P (dough tenacity), and Alveograph W (dough strength). Additionally, SNPs on chromosome 1D were associated with Alveograph P and W, SNPs on chromosome 1B were associated with Alveograph P, and SNPs on chromosome 4A were associated with Alveograph L (dough extensibility). Predictive abilities based on genomic best linear unbiased prediction (GBLUP) models ranged from 0.50 for flour yield to 0.79 for Alveograph W based on a leave-one-out cross-validation strategy. Predictive abilities were negatively affected by smaller training set sizes, lower genetic relationship between lines in training and validation sets, and by genotype–environment (G×E) interactions. Bayesian Power Lasso models and genomic feature models resulted in similar or slightly improved predictions compared to GBLUP models. SNPs with the largest effects can be used for screening large numbers of lines in early generations in breeding programs to select lines that potentially have good quality traits. In later generations, genomic predictions might be used for a more accurate selection of high quality wheat lines.

Genome-wide association studies in elite varieties of German winter barley using single-marker and haplotype-based methods

2015 ◽  
Vol 134 (1) ◽  
pp. 28-39 ◽  
Author(s):  
Inka Gawenda ◽  
Patrick Thorwarth ◽  
Torsten Günther ◽  
Frank Ordon ◽  
Karl J. Schmid
Keyword(s):  
Association Studies ◽  
Winter Barley ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genome Wide ◽  
Single Marker

P5018 Genome-wide association studies for dry-cured ham quality traits in Italian Large White and Italian Duroc pigs

2016 ◽  
Vol 94 (suppl_4) ◽  
pp. 124-124
Author(s):  
L. Fontanesi ◽  
G. Schiavo ◽  
G. Galimberti ◽  
S. Bovo ◽  
F. Bertolini ◽  
...  
Keyword(s):  
Association Studies ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Quality Traits ◽  
Large White ◽  
Genome Wide ◽  
Dry Cured Ham

scholarly journals Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley

2020 ◽  
Author(s):  
Hao Luo ◽  
Camilla Beate Hill ◽  
Gaofeng Zhou ◽  
Xiao-Qi Zhang ◽  
Chengdao Li
Keyword(s):  
Association Studies ◽  
Missense Variant ◽  
Binding Activity ◽  
Genome Wide Association ◽  
Yield Potential ◽  
Genome Wide Association Studies ◽  
Hordeum Vulgare L ◽  
Coleoptile Length ◽  
Dna Binding Activity ◽  
Genome Wide

Abstract BackgroundDrought is projected to become more frequent and severe in a changing climate, which requires deep sowing of crop seeds to reach soil moisture. Coleoptile length is a key agronomic trait in cereal crops such as barley, as long coleoptiles are linked to drought tolerance and improved seedling establishment under early water-limited growing conditions. ResultsIn this study, we detected large genetic variation in a panel of 328 diverse barley (Hordeum vulgare L.) accessions. To understand the overall genetic basis of barley coleoptile length, all accessions were geminated in the dark and phenotyped for coleoptile length after 2 weeks. The investigated barleys had significant variation for coleoptile length. We then conducted genome-wide association studies (GWASs) with more than 30,000 molecular markers and identified 8 genes and 12 intergenic loci significantly associated with coleoptile length in our barley panel. The Squamosa promoter-binding-like protein 3 gene (SPL3) on chromosome 6H was identified as a major candidate gene. The missense variant on the second exon changed serine to alanine in the conserved SBP domain, which likely impacted its DNA-binding activity. ConclusionThis study provides genetic loci for seedling coleoptile length along with candidate genes for future potential incorporation in breeding programmes to enhance early vigour and yield potential in water-limited environments.

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