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Genome-Wide Association Study (GWAS) Uncovers Candidate Genes Linked to the Germination Performance of Bread Wheat (Triticum aestivum L.) under Salt Stress

ABSTRACT: An investigation into the Candidate Genes Linked to the Germination Performance of Bread Wheat under Salt Stress

INSTRUMENT(S): -

ORGANISM(S): Triticum Aestivum

SUBMITTER: Department of Agronomy and Plant Breeding, University of Tehran, Karaj, Iran

PROVIDER: PRJEB83663 | EVA | 2024-12-20

REPOSITORIES: EVA

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			Action	DRS
	final_checked.accessioned.vcf.gz	Vcf
	final_checked.accessioned.vcf.gz.csi	Vcf
	final_checked.vcf.csi	Other
	final_checked.vcf.gz	Vcf

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"Genome-Wide Association Study (GWAS) Uncovers Candidate Genes Linked to the Germination Performance of Bread Wheat (Triticum aestivum L.) under Salt Stress"

Project description:"Genome-Wide Association Study (GWAS) Uncovers Candidate Genes Linked to the Germination Performance of Bread Wheat (Triticum aestivum L.) under Salt Stress"

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"Genome-Wide Association Study (GWAS) Uncovers Candidate Genes Linked to the Germination Performance of Bread Wheat (Triticum aestivum L.) under Salt Stress"

Project description:"Genome-Wide Association Study (GWAS) Uncovers Candidate Genes Linked to the Germination Performance of Bread Wheat (Triticum aestivum L.) under Salt Stress"

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Agilent Microarray of South Australian bread wheat

Project description:Transcriptome of South Australian bread wheat under salt stress

2017-07-02 | E-MTAB-3270 | biostudies-arrayexpress

Genome-Wide Association Study (GWAS) and genome prediction of seedling salt tolerance in bread wheat (Triticum aestivum L.).

Project description:BackgroundSalinity tolerance in wheat is imperative for improving crop genetic capacity in response to the expanding phenomenon of soil salinization. However, little is known about the genetic foundation underlying salinity tolerance at the seedling growth stage of wheat. Herein, a GWAS analysis was carried out by the random-SNP-effect mixed linear model (mrMLM) multi-locus model to uncover candidate genes responsible for salt tolerance at the seedling stage in 298 Iranian bread wheat accessions, including 208 landraces and 90 cultivars.ResultsA total of 29 functional marker-trait associations (MTAs) were detected under salinity, 100 mM NaCl (sodium chloride). Of these, seven single nucleotide polymorphisms (SNPs) including rs54146, rs257, rs37983, rs18682, rs55629, rs15183, and rs63185 with R2 ≥ 10% were found to be linked with relative water content, root fresh weight, root dry weight, root volume, shoot high, proline, and shoot potassium (K+), respectively. Further, a total of 27 candidate genes were functionally annotated to be involved in response to the saline environment. Most of these genes have key roles in photosynthesis, response to abscisic acid, cell redox homeostasis, sucrose and carbohydrate metabolism, ubiquitination, transmembrane transport, chromatin silencing, and some genes harbored unknown functions that all together may respond to salinity as a complex network. For genomic prediction (GP), the genomic best linear unbiased prediction (GBLUP) model reflected genetic effects better than both bayesian ridge regression (BRR) and ridge regression-best linear unbiased prediction (RRBLUP), suggesting GBLUP as a favorable tool for wheat genomic selection.ConclusionThe SNPs and candidate genes identified in the current work can be used potentially for developing salt-tolerant varieties at the seedling growth stage by marker-assisted selection.

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Project description:Bread wheat (Triticum aestivum L., cv. Fielder) plants were grown under iron (Fe) deficient hydroponic conditions to analyise transcriptomic changes in leaf and root tissue.

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