Allelic variations and differential expressions detected at quantitative trait loci for salt stress tolerance in wheat

Abstract

The increasing salinization of agricultural lands is a threat to global wheat production. Understanding of the mechanistic basis of salt tolerance (ST) is essential for developing breeding and selection strategies that would allow for increased wheat production under saline conditions to meet the increasing global demand. We used a set that consists of 150 internationally derived winter and facultative wheat cultivars genotyped with a 90K SNP chip and phenotyped for STacross three growth stages and for ionic (leaf K + and Na + contents) traits to dissect the genetic architecture regulating ST in wheat. Genome-wide association mapping revealed 187 Single Nucleotide Polymorphism (SNPs) (R 2 = 3.00-30.67%), representing 37 quantitative trait loci (QTL), significantly associated with the ST traits. Of these, four QTL on 1BS, 2AL, 2BS and 3AL were associated with ST across the three growth stages and with the ionic traits. Novel QTL were also detected on 1BS and 1DL. Candidate genes linked to these polymorphisms were uncovered, and expression analyses were performed and validated on them under saline and non-saline conditions using transcriptomics and qRT-PCR data. Expressed sequence comparisons in contrasting ST wheat genotypes identified several non-synonymous/missense mutation sites that are contributory to the ST trait variations, indicating the biological relevance of these polymorphisms that can be exploited in breeding for ST in wheat.

GWAS of a soybean breeding collection from South East and South Kazakhstan for resistance to fungal diseases

“…On the other hand, in the study by M.K. Turner et al (2017), it was shown that smaller panels might allow for detection of false negative associations that would not have been detected in more extensive panels (Oyiga et al, 2017). Therefore, the results of this study using relatively small soybean collection size (n = 182) may potentially relate to the above-mentioned findings by M.K.…”

A systemic approach provides insights into the salt stress adaptation mechanisms of contrasting bread wheat genotypes

“…To unravel candidate QTGs that might contain alleles controlling salt stress-related traits, salt-4 0 0 responsive transcripts within the LD blocks harboring markers with significant phenotypic 4 0 1 effect were identified and analyzed. The Table 3 presents the candidate QTGs from two QTL 4 0 2 identified in an association panel (Oyiga et al, 2018) and an AB-QTL mapping population (Table 3). Among them, TraesCS2A02G395000 showed the strongest stress response in other abiotic stress studies for the four candidate QTGs determined in both intervals (Table 4 1 6 3).…”

“…Therefore, this gene is a strong 5 3 9 candidate that can be prioritized for further validation analyses. The AB-QTL mapping Wang et al (2014) b From mapping study (Oyiga et al, 2018) c From mapping study (Dadshani, 2018) d GFOLD values from tolerant genotypes are bold and from the susceptible are in italics. e Based on the Interpro results from the RefSeqv1.0 annotation (Alaux et al, 2018).…”

Increasing Salinity Tolerance of Crops

“…QTL [30,71,182,189,[201][202][203][204][205][206][207], and durum wheat [41, 73, [211][212][213]. When QTL have been discovered, one approach is to then identify the gene in that region of DNA, which is responsible for the salt tolerance phenotype.…”