Genome-Wide Association Study and QTL Meta-Analysis Identified Novel Genomic Loci Controlling Potassium Use Efficiency and Agronomic Traits in Bread Wheat

Frontiers in Plant Science
Luqman Bin SafdarUmar Masood Quraishi

Abstract

Potassium use efficiency, a complex trait, directly impacts the yield potential of crop plants. Low potassium efficiency leads to a high use of fertilizers, which is not only farmer unfriendly but also deteriorates the environment. Genome-wide association studies (GWAS) are widely used to dissect complex traits. However, most studies use single-locus one-dimensional GWAS models which do not provide true information about complex traits that are controlled by multiple loci. Here, both single-locus GWAS (MLM) and multi-locus GWAS (pLARmEB, FASTmrMLM, mrMLM, FASTmrEMMA) models were used with genotyping from 90 K Infinium SNP array and phenotype derived from four normal and potassium-stress environments, which identified 534 significant marker-trait associations (MTA) for agronomic and potassium related traits: pLARmEB = 279, FASTmrMLM = 213, mrMLM = 35, MLM = 6, FASTmrEMMA = 1. Further screening of these MTA led to the detection of eleven stable loci: q1A, q1D, q2B-1, q2B-2, q2D, q4D, q5B-1, q5B-2, q5B-3, q6D, and q7A. Moreover, Meta-QTL (MQTL) analysis of four independent QTL studies for potassium deficiency in bread wheat located 16 MQTL on 13 chromosomes. One locus identified in this study (q5B-1) colocalized with an MQTL (MQTL...Continue Reading

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Citations

Apr 19, 2021·BMC Plant Biology·Carmen García-FernándezJuan Jose Ferreira
Sep 30, 2021·Scientific Reports·Nikwan ShariatipourPiergiorgio Stevanato

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Datasets Mentioned

BETA
PRJEB36127
ERZ1283759

Methods Mentioned

BETA
dissection
environmental stress

Software Mentioned

FASTmrMLM
R
PlantSyntenyViewer
PowerMarker
pLARmEB
ggplot2
SPSS Statistics
BioMercator
GiaRoots
STRUTURE

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