Abstract
KEY MESSAGE: Salt tolerance at germination and seedling growth stages was investigated. GWAS revealed nine genomic regions with pleiotropic effects on salt tolerance. Salt tolerant genotypes were identified for future breeding program. With 20% of the irrigated land worldwide affected by it, salinity is a serious threat to plant development and crop production. While wheat is the most stable food source worldwide, it has been classified as moderately tolerant to salinity. In several crop plants; such as barley, maize and rice, it has been shown that salinity tolerance at seed germination and seedling establishment is under polygenic control. As yield was the ultimate goal of breeders and geneticists, less attention has been paid to understanding the genetic architecture of salt tolerance at early stages. Thus, the genetic control of salt tolerance at these stages is poorly understood relative to the late stages. In the current study, 176 genotypes of spring wheat were tested for salinity tolerance at seed germination and seedling establishment. Genome-Wide Association Study (GWAS) has been used to identify the genomic regions/genes conferring salt tolerance at seed germination and seedling establishment. Salinity stress negatively impacted all germination and seedling development parameters. A set of 137 SNPs showed significant association with the traits of interest. Across the whole genome, 33 regions showed high linkage disequilibrium (LD). These high LD regions harbored 15 SNPs with pleiotropic effect (i.e. SNPs that control more than one trait). Nine genes belonging to different functional groups were found to be associated with the pleiotropic SNPs. Noteworthy, chromosome 2B harbored the gene TraesCS2B02G135900 that acts as a potassium transporter. Remarkably, one SNP marker, reported in an early study, associated with salt tolerance was validated in this study. Our findings represent potential targets of genetic manipulation to understand and improve salinity tolerance in wheat.
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Claims 7
Claim · model-written summary
Salinity stress reduced germination and seedling development parameters.
- Taxon
- spring wheat
Triticum aestivumt0 - Treatment
- Salinity stresse0
- Outcome
- germination and seedling development parameterse0
- Direction
- negatively impactede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Salinity stress negatively impacted all germination and seedling development parameters.”
t0“spring wheat”
Claim · model-written summary
A total of 137 SNPs were significantly associated with the studied traits.
- Taxon
- spring wheatTriticum aestivumt0
- Gene
- SNPse0
- Outcome
- traits of intereste0
- Value
- 137 SNPse0
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“A set of 137 SNPs showed significant association with the traits of interest.”
t0“spring wheat”
Claim · model-written summary
Thirty-three genomic regions had high linkage disequilibrium.
- Taxon
- spring wheatTriticum aestivumt0
- Outcome
- regions showed high linkage disequilibriume0
- Value
- 33 regionse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Across the whole genome, 33 regions showed high linkage disequilibrium (LD).”
t0“spring wheat”
Claim · model-written summary
Fifteen SNPs in high-LD regions had pleiotropic effects.
- Taxon
- spring wheatTriticum aestivumt0
- Gene
- SNPse0
- Outcome
- pleiotropic effecte0
- Value
- 15 SNPse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“These high LD regions harbored 15 SNPs with pleiotropic effect (i.e. SNPs that control more than one trait).”
t0“spring wheat”
Claim · model-written summary
Nine genes were associated with pleiotropic SNPs.
- Taxon
- spring wheatTriticum aestivumt0
- Gene
- genese0
- Outcome
- associated with the pleiotropic SNPse0
- Value
- Nine genese0
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Nine genes belonging to different functional groups were found to be associated with the pleiotropic SNPs.”
t0“spring wheat”
Claim · model-written summary
Chromosome 2B contained TraesCS2B02G135900, a potassium transporter.
- Taxon
- spring wheatTriticum aestivumt0
- Gene
- TraesCS2B02G135900e0
- Outcome
- acts as a potassium transportere0
Not reportedSetting
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Noteworthy, chromosome 2B harbored the gene TraesCS2B02G135900 that acts as a potassium transporter.”
t0“spring wheat”
Claim · model-written summary
A previously reported SNP marker associated with salt tolerance was validated.
- Taxon
- spring wheatTriticum aestivumt0
- Gene
- SNP markere0
- Outcome
- associated with salt tolerance was validatede0
- Comparator
- an early studye0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Remarkably, one SNP marker, reported in an early study, associated with salt tolerance was validated in this study.”
t0“spring wheat”
The same questions in other papers
salinity · growth · Triticum aestivum (wheat)Positive and negative results
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