Association mapping: A powerful method in identification of marker-trait associations for Cu, P and K nutrients in seeds of chickpea

Esin Ozkuru, Duygu Ates, Seda Nemli, Semih Erdogmus, Nur Karaca, Hasan Yilmaz, Bulent Yagmur, Canan Kartal, Muzaffer Tosun, Ozgul Ozdestan, Semih Otles, Abdullah Kahriman, Bahattin Tanyolac

Overview

The objectives of this study were (i) determining genetic diversity among C. arietinum and C. reticulatum species (ii) identification of marker-trait associations for Cu, P and K nutrients in seeds of chickpea (iii) identification of the impact of environment and genotype (iv) identification of candidate genes with related to the markers associated with Cu, P and K nutrient uptake by annotation in BLAST.

Summary

This is the first study revealing the marker-trait associations and environmental interactions for Cu, P and K concentrations in Cicer seeds with a large population of both C. arietinum and C. reticulatum species with many environmental parameters. Identified markers, candidate genes and suggested methods such as GBS technology provides broader understanding for future research and can also be used in marker-assisted selection for biofortification of chickpea seeds in breeding programmes.

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Author Comments

Esin Ozkuru
Esin Ozkuru
Ege University
This research suggested that association mapping and use of GBS technology are powerful methodologies for identification of marker-trait associations and the effects of environmental conditions for Cu, P and K uptake in chickpea seeds for and provides broader understanding for further association mapping, molecular breeding, and marker-assisted selection studies.Esin Ozkuru

Resources

Association mapping of loci linked to copper, phosphorus, and potassium concentrations in the seeds of C. arietinum and C. reticulatum.

Genomics 2019 12 27;111(6):1873-1881. Epub 2018 Dec 27.

Ege University, Department of Bioengineering, 35040 Bornova-Izmir, Turkey. Electronic address:

Due to its high nutritional value, chickpea is one of the most important and cost-effective legumes for human diet. Nutrient elements, such as Cu, P, K have numerous essential functions for the human metabolism. In this study, association mapping of loci linked to the seed Cu, P and K concentrations were performed on a population consisting of 107 Cicer reticulatum and 73 Cicer arietinum individuals in four environments (two locations x two years). A total of 121,840 SNPs were genotyped across 180 individuals by GBS analysis. The association mapping between the SNP markers and the seed Cu, P, K concentrations were identified and eight SNPs were found to be significantly associated with variations in three nutrient elements in more than two environments This research suggests that association mapping is a useful methodology for the identification of loci controlling the Cu, P and K uptake in chickpea seeds for further association mapping, molecular breeding, and marker-assisted selection and plant breeding studies and provides a broader understanding of the relationship between the investigated Cicer species and the effects of environmental conditions.

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http://dx.doi.org/10.1016/j.ygeno.2018.12.010DOI Listing
December 2019
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