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GrainGenes Reference Report: TAG-137:58

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Reference	TAG-137:58
Title	Genome-wide association studies reveal novel loci for grain size in two-rowed barley (Hordeum vulgare L.)
Journal	Theoretical and Applied Genetics
Year	2024
Volume	137
Author	Hong Y [ Show all 8 ]
Abstract	SNP-based and InDel-based GWAS on multi-environment data identified genomic regions associated with barley grain size. Abstract. Barley yield and quality are greatly influenced by grain size. Improving barley grain size in breeding programs requires knowledge of genetic loci and alleles in germplasm resources. In this study, a collection of 334 worldwide two-rowed barley accessions with extensive genetic diversity was evaluated for grain size including grain length (GL), grain width (GW), and thousand-grain weight (TGW) across six independent field trials. Significant differences were observed in genotype and environments for all measured traits. SNP- and InDel-based GWAS were applied to dissect the genetic architecture of grain size with an SLAF-seq strategy. Two approaches using the FarmCPU model revealed 38 significant marker-trait associations (MTAs) with PVE ranging from 0.01% to 20.68%. Among these MTAs, five were on genomic regions where no previously reported QTL for grain size. Superior alleles of TGW-associated SNP233060 and GL-associated InDel11006 exhibited significantly higher levels of phenotype. The significant MTAs could be used in marker-assisted selection breeding.
External Databases	https://doi.org/10.1007/s00122-024-04562-8
Locus	[ Hide all but 1 of 87 ] SNP212 SNP64923 SNP96149 SNP97164 SNP156729 SNP169681 SNP180970 SNP193672 SNP29199 SNP37139 SNP54824 SNP113257 SNP117253 SNP20312 SNP99890 SNP120164 SNP149345 SNP187899 SNP233060 InDel2636 InDel7281 InDel11006 InDel12581 InDel12919 InDel16289 InDel19656 InDel21817 InDel23052 InDel2574 InDel3528 InDel3648 InDel22129 InDel25136 InDel6563 InDel13593 InDel19342 InDel26392 HORVU.MOREX.r3.3HG0254450.1 HORVU.MOREX.r3.3HG0254460.1 HORVU.MOREX.r3.3HG0254470.1 HORVU.MOREX.r3.3HG0254480.1 HORVU.MOREX.r3.3HG0254490.1 HORVU.MOREX.r3.6HG0571300.1 HORVU.MOREX.r3.6HG0571310.1 HORVU.MOREX.r3.6HG0571320.1 HORVU.MOREX.r3.6HG0571330.1 HORVU.MOREX.r3.6HG0571340.1 HORVU.MOREX.r3.6HG0571350.1 HORVU.MOREX.r3.6HG0571360.1 HORVU.MOREX.r3.6HG0571370.1 HORVU.MOREX.r3.6HG0571380.1 HORVU.MOREX.r3.6HG0571390.1 HORVU.MOREX.r3.6HG0571400.1 HORVU.MOREX.r3.6HG0571410.1 HORVU.MOREX.r3.6HG0571420.1 HORVU.MOREX.r3.5HG0433900.1 HORVU.MOREX.r3.5HG0433910.1 HORVU.MOREX.r3.5HG0433920.1 HORVU.MOREX.r3.5HG0433930.1 HORVU.MOREX.r3.5HG0433940.1 HORVU.MOREX.r3.5HG0433950.1 HORVU.MOREX.r3.5HG0433960.1 HORVU.MOREX.r3.5HG0433970.1 HORVU.MOREX.r3.5HG0433980.1 HORVU.MOREX.r3.5HG0433990.1 HORVU.MOREX.r3.5HG0434000.1 HORVU.MOREX.r3.5HG0434010.1 HORVU.MOREX.r3.7HG0747020.1 HORVU.MOREX.r3.7HG0747030.1 HORVU.MOREX.r3.7HG0747040.1 HORVU.MOREX.r3.7HG0747050.1 HORVU.MOREX.r3.7HG0747060.1 HORVU.MOREX.r3.7HG0747070.1 HORVU.MOREX.r3.7HG0747250.1 HORVU.MOREX.r3.7HG0747260.1 HORVU.MOREX.r3.7HG0747270.1 HORVU.MOREX.r3.7HG0747280.1 HORVU.MOREX.r3.7HG0747290.1 HORVU.MOREX.r3.7HG0747300.1 HORVU.MOREX.r3.7HG0747310.1 HORVU.MOREX.r3.7HG0747320.1 HORVU.MOREX.r3.7HG0747330.1 HORVU.MOREX.r3.7HG0747340.1 HORVU.MOREX.r3.7HG0747350.1 HORVU.MOREX.r3.7HG0747360.1 HORVU.MOREX.r3.7HG0747370.1 HORVU.MOREX.r3.7HG0747380.1
Probe	SNP212 [ Show all 87 ]
QTL	QGL.WorldBarley2_SNP-1H [ Show all 37 ]

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