Genetic analysis of the effect of zinc deficiency on Arabidopsis growth and mineral concentrations

Ghandilyan, Artak; Kutman, Ümit Barış; Kutman, Bahar Yıldız; Çakmak, İsmail; Aarts, Mark G. M.

doi:10.1007/s11104-012-1334-0

Cited by 11 publications

(7 citation statements)

References 35 publications

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“…The co-localization of QTLs may reflect the correlations observed between the ionomic traits. Based on A. thaliana QTL analysis, different ionomic traits demonstrated significant correlation which most robust was the correlations between Zn, Mn, and Fe traits 16 , 42 . The result of co-localization frequency of ionomic QTLs on detected MQTLs regions in this study revealed the possible signs of MQTLs interaction, which impacts the association of ionomic traits at the genomic level.…”

Section: Discussionmentioning

confidence: 99%

Genomic analysis of ionome-related QTLs in Arabidopsis thaliana

Shariatipour

Heidari

Ravi

et al. 2021

Sci Rep

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Ionome contributes to maintain cell integrity and acts as cofactors for catalyzing regulatory pathways. Identifying ionome contributing genomic regions provides a practical framework to dissect the genetic architecture of ionomic traits for use in biofortification. Meta-QTL (MQTL) analysis is a robust method to discover stable genomic regions for traits regardless of the genetic background. This study used information of 483 QTLs for ionomic traits identified from 12 populations for MQTL analysis in Arabidopsis thaliana. The selected QTLs were projected onto the newly constructed genetic consensus map and 33 MQTLs distributed on A. thaliana chromosomes were identified. The average confidence interval (CI) of the drafted MQTLs was 1.30 cM, reduced eight folds from a mean CI of 10.88 cM for the original QTLs. Four MQTLs were considered as stable MQTLs over different genetic backgrounds and environments. In parallel to the gene density over the A. thaliana genome, the genomic distribution of MQTLs over the genetic and physical maps indicated the highest density at non- and sub-telomeric chromosomal regions, respectively. Several candidate genes identified in the MQTLs intervals were associated with ion transportation, tolerance, and homeostasis. The genomic context of the identified MQTLs suggested nine chromosomal regions for Zn, Mn, and Fe control. The QTLs for potassium (K) and phosphorus (P) were the most frequently co-located with Zn (78.3%), Mn (76.2%), and Fe (88.2% and 70.6%) QTLs. The current MQTL analysis demonstrates that meta-QTL analysis is cheaper than, and as informative as genome-wide association study (GWAS) in refining the known QTLs.

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Section: Discussionmentioning

confidence: 99%

Genomic analysis of ionome-related QTLs in Arabidopsis thaliana

Shariatipour

Heidari

Ravi

et al. 2021

Sci Rep

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“…Interestingly, no overlap between leaf and seed Zn concentrations was found and very little overlap in QTLs for ion concentrations when plants were grown in soil or hydroponics. This was obvious even in the same RIL populations under controlled greenhouse conditions, potentially indicating that rhizosphere-related processes and internal plant remobilization have a significant impact on Zn storage ( Ghandilyan et al, 2009 , 2012 ). The low resolution in QTL mapping further imposes difficulties to identify causal individual genes that explain a significant part of the trait variance within the population.…”

Section: Introductionmentioning

confidence: 95%

Natural Genetic Variation of Seed Micronutrients of Arabidopsis thaliana Grown in Zinc-Deficient and Zinc-Amended Soil

2016

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The quality of edible seeds for human and animal nutrition is crucially dependent on high zinc (Zn) and iron (Fe) seed concentrations. The micronutrient bioavailability is strongly reduced by seed phytate that forms complexes with seed cations. Superior genotypes with increased seed Zn concentrations had been identified, but low micronutrient seed levels often prevail when the plants are grown in Zn-deficient soils, which are globally widespread and correlate with human Zn-deficiency. Here, seed Zn concentrations of Arabidopsis accessions grown in Zn-deficient and Zn-amended conditions were measured together with seed Fe and manganese (Mn), in a panel of 108 accessions. By applying genome-wide association, de novo candidate genes potentially involved in the seed micronutrient accumulation were identified. However, a candidate inositol 1,3,4-trisphosphate 5/6-kinase 3 gene (ITPK3), located close to a significant nucleotide polymorphism associated with relative Zn seed concentrations, was dispensable for seed micronutrients accumulation in Col-0. Loss of this gene in itpk3-1 did neither affect phytate seed levels, nor seed Zn, Fe, and Mn. It is concluded that large natural variance of micronutrient seed levels is identified in the population and several accessions maintain high seed Zn despite growth in Zn-deficient conditions.

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“…Deficiency of Zn is a common problem in different regions (Ghandilyan et al, 2012). Optimum soybean yield can be obtained when Zn and P concentrations in the soil are greater than extension recommendations (Anthony et al, 2012a).…”

Section: Ajabsmentioning

confidence: 99%

Effect of Polymer Seed Coating With Micronutrients on Soybeans in Southeastern Coastal Plains

Wiatrak¹

2013

American Journal of Agricultural and Biological Sciences

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Polymer seed coating with micronutrients may affect soybean (Glycine max (L.) Merr) growth and yields under dryland conditions. The objective of this study was to determine the effect of two seed application rates (265 and 395 mL 100 kg seeds −1 ) of polymer based mixture of Copper (Cu), Manganese (Mn) and Zinc (Zn) micronutrients on dryland soybeans near Blackville, SC from 2011 to 2012. Soybeans were evaluated for plant Normalized Difference Vegetation Index (NDVI), Leaf Area Index (LAI), plant height, seed weight and grain yields. Compared to untreated control, polymer seed coating significantly increased grain yields by 8.1 and 14.0% with seed applications at 265 and 395 mL 100 kg seeds −1 , respectively. Plant NDVI improved by 10.5% with application of polymer seed coating treatment at 395 mL 100 kg seeds −1 . Seed coating at 265 and 395 mL 100 kg seedssignificantly increased plant NDVI by 10.2 and 10.8% at 8 weeks after soybean planting and 4.6 and 4.2% at 12 weeks after planting. Based on significant linear relationships, grain yields increased by 179.2 kg ha −1 with increasing plant NDVI by 0.1 unit at 6 weeks after planting soybeans and 99.4 kg ha −1 with increasing weight by 1 g of 100 seeds. Treatment application did not affect plant NDVI at 4 through 6 and 9 weeks after planting, plant LAI at 8 and 12 weeks after planting and plant height. These results indicate that polymer seed coating may help to improve some growth parameters and grain yields of soybean under dryland conditions in Southeastern Coastal Plains.

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Genetic analysis of the effect of zinc deficiency on Arabidopsis growth and mineral concentrations

Cited by 11 publications

References 35 publications

Genomic analysis of ionome-related QTLs in Arabidopsis thaliana

Genomic analysis of ionome-related QTLs in Arabidopsis thaliana

Natural Genetic Variation of Seed Micronutrients of Arabidopsis thaliana Grown in Zinc-Deficient and Zinc-Amended Soil

Effect of Polymer Seed Coating With Micronutrients on Soybeans in Southeastern Coastal Plains

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