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Genome-Wide Association Study Reveals Novel Genomic Regions Associated with 10 Grain Minerals in Synthetic Hexaploid Wheat.
Int J Mol Sci. 2018 Oct 19; 19(10)IJ

Abstract

Synthetic hexaploid wheat (SHW; Triticum durum L. × Aegilops tauschii Coss.) is a means of introducing novel genes/genomic regions into bread wheat (T. aestivum L.) and a potential genetic resource for improving grain mineral concentrations. We quantified 10 grain minerals (Ca, Cd, Cu, Co, Fe, Li, Mg, Mn, Ni, and Zn) using an inductively coupled mass spectrometer in 123 SHWs for a genome-wide association study (GWAS). A GWAS with 35,648 single nucleotide polymorphism (SNP) markers identified 92 marker-trait associations (MTAs), of which 60 were novel and 40 were within genes, and the genes underlying 20 MTAs had annotations suggesting a potential role in grain mineral concentration. Twenty-four MTAs on the D-genome were novel and showed the potential of Ae. tauschii for improving grain mineral concentrations such as Ca, Co, Cu, Li, Mg, Mn, and Ni. Interestingly, the large number of novel MTAs (36) identified on the AB genome of these SHWs indicated that there is a lot of variation yet to be explored and to be used in the A and B genome along with the D-genome. Regression analysis identified a positive correlation between a cumulative number of favorable alleles at MTA loci in a genotype and grain mineral concentration. Additionally, we identified multi-traits and stable MTAs and recommended 13 top 10% SHWs with a higher concentration of beneficial grain minerals (Cu, Fe, Mg, Mn, Ni, and Zn), a large number of favorable alleles compared to low ranking genotypes and checks that could be utilized in the breeding program for the genetic biofortification. This study will further enhance our understanding of the genetic architecture of grain minerals in wheat and related cereals.

Authors+Show Affiliations

Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE 68583-0915, USA. madhav.bhatta@huskers.unl.edu.Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE 68583-0915, USA. pbaenziger1@unl.edu.Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE 68583-0915, USA. bwaters2@unl.edu.Food Science and Technology Department, University of Nebraska, Lincoln, NE 68588-6205, USA. rpoudel2@huskers.unl.edu.Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE 68583-0915, USA. vikas.belamkar@unl.edu.Wheat Genetics Resource Center, Department of Plant Pathology, Kansas State University, Manhattan, KS 66506-5502, USA. jpoland@ksu.edu.International Maize and Wheat Improvement Center (CIMMYT), Emek, 06511 Ankara, Turkey. a.morgounov@cgiar.org.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

30347689

Citation

Bhatta, Madhav, et al. "Genome-Wide Association Study Reveals Novel Genomic Regions Associated With 10 Grain Minerals in Synthetic Hexaploid Wheat." International Journal of Molecular Sciences, vol. 19, no. 10, 2018.
Bhatta M, Baenziger PS, Waters BM, et al. Genome-Wide Association Study Reveals Novel Genomic Regions Associated with 10 Grain Minerals in Synthetic Hexaploid Wheat. Int J Mol Sci. 2018;19(10).
Bhatta, M., Baenziger, P. S., Waters, B. M., Poudel, R., Belamkar, V., Poland, J., & Morgounov, A. (2018). Genome-Wide Association Study Reveals Novel Genomic Regions Associated with 10 Grain Minerals in Synthetic Hexaploid Wheat. International Journal of Molecular Sciences, 19(10). https://doi.org/10.3390/ijms19103237
Bhatta M, et al. Genome-Wide Association Study Reveals Novel Genomic Regions Associated With 10 Grain Minerals in Synthetic Hexaploid Wheat. Int J Mol Sci. 2018 Oct 19;19(10) PubMed PMID: 30347689.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-Wide Association Study Reveals Novel Genomic Regions Associated with 10 Grain Minerals in Synthetic Hexaploid Wheat. AU - Bhatta,Madhav, AU - Baenziger,P Stephen, AU - Waters,Brian M, AU - Poudel,Rachana, AU - Belamkar,Vikas, AU - Poland,Jesse, AU - Morgounov,Alexey, Y1 - 2018/10/19/ PY - 2018/09/20/received PY - 2018/10/05/revised PY - 2018/10/12/accepted PY - 2018/10/24/entrez PY - 2018/10/24/pubmed PY - 2019/1/22/medline KW - Aegilops tauschii KW - Triticum aestivum KW - Triticum durum KW - bread wheat KW - favorable alleles KW - genes KW - genetic biofortification KW - marker-trait associations JF - International journal of molecular sciences JO - Int J Mol Sci VL - 19 IS - 10 N2 - Synthetic hexaploid wheat (SHW; Triticum durum L. × Aegilops tauschii Coss.) is a means of introducing novel genes/genomic regions into bread wheat (T. aestivum L.) and a potential genetic resource for improving grain mineral concentrations. We quantified 10 grain minerals (Ca, Cd, Cu, Co, Fe, Li, Mg, Mn, Ni, and Zn) using an inductively coupled mass spectrometer in 123 SHWs for a genome-wide association study (GWAS). A GWAS with 35,648 single nucleotide polymorphism (SNP) markers identified 92 marker-trait associations (MTAs), of which 60 were novel and 40 were within genes, and the genes underlying 20 MTAs had annotations suggesting a potential role in grain mineral concentration. Twenty-four MTAs on the D-genome were novel and showed the potential of Ae. tauschii for improving grain mineral concentrations such as Ca, Co, Cu, Li, Mg, Mn, and Ni. Interestingly, the large number of novel MTAs (36) identified on the AB genome of these SHWs indicated that there is a lot of variation yet to be explored and to be used in the A and B genome along with the D-genome. Regression analysis identified a positive correlation between a cumulative number of favorable alleles at MTA loci in a genotype and grain mineral concentration. Additionally, we identified multi-traits and stable MTAs and recommended 13 top 10% SHWs with a higher concentration of beneficial grain minerals (Cu, Fe, Mg, Mn, Ni, and Zn), a large number of favorable alleles compared to low ranking genotypes and checks that could be utilized in the breeding program for the genetic biofortification. This study will further enhance our understanding of the genetic architecture of grain minerals in wheat and related cereals. SN - 1422-0067 UR - https://www.unboundmedicine.com/medline/citation/30347689/Genome_Wide_Association_Study_Reveals_Novel_Genomic_Regions_Associated_with_10_Grain_Minerals_in_Synthetic_Hexaploid_Wheat_ L2 - https://www.mdpi.com/resolver?pii=ijms19103237 DB - PRIME DP - Unbound Medicine ER -