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The grain Hardness locus characterized in a diverse wheat panel (Triticum aestivum L.) adapted to the central part of the Fertile Crescent: genetic diversity, haplotype structure, and phylogeny.
Mol Genet Genomics. 2016 Jun; 291(3):1259-75.MG

Abstract

Wheat belongs to the most important crops domesticated in the Fertile Crescent. In this region, fortunately, locally adapted wheat landraces are still present in farmers' fields. This material might be of immense value for future breeding programs. However, especially wheat germplasm adapted to the central part of the Fertile Crescent has been poorly characterized for allelic variation at key loci of agricultural importance. Grain hardness is an important trait influencing milling and baking quality of wheat. This trait is mainly determined by three tightly linked genes, namely, Puroindoline a (Pina), Puroindoline b (Pinb), and Grain softness protein-1 (Gsp-1), at the Hardness (Ha-D) locus on chromosome 5DS. To investigate genetic diversity and haplotype structure, we resequenced 96 diverse wheat lines at Pina-D1, Pinb-D1, Gsp-A1, Gsp-B1, and Gsp-D1. Three types of null alleles were identified using diagnostic primers: the first type was a multiple deletion of Pina-D1, Pinb-D1, and Gsp-D1 (Pina-D1k), the second was a Pina-D1 deletion (Pina-D1b); and the third type was a deletion of Gsp-D1, representing a novel null allele designated here as Gsp-D1k. Sequence analysis resulted in four allelic variants at Pinb-D1 and five at Gsp-A1, among them Gsp-A1-V was novel. Pina-D1, Gsp-B1 and Gsp-D1 sequences were monomorphic. Haplotype and phylogenetic analysis suggested that (1) bread wheat inherited its 5DS telomeric region probably from wild diploid Ae. tauschii subsp. tauschii found within an area from Transcaucasia to Caspian Iran; and that (2) the Ha-A and Ha-B homoeoloci were most closely related to sequences of wild tetraploid T. dicocco ides. This study provides a good overview of available genetic diversity at Pina-D1, Pinb-D1, and Gsp-1, which can be exploited to extend the range of grain texture traits in wheat.

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Authors+Show Affiliations

Shaaf S
Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstrasse 3, 06466, Stadt Seeland, OT Gatersleben, Germany. Department of Agronomy and Plant Breeding, College of Agriculture, Sanandaj Branch, Islamic Azad University, P.O. Box 618, Sanandaj, Iran.
Sharma R
Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstrasse 3, 06466, Stadt Seeland, OT Gatersleben, Germany. College of Life Science, University of Dundee at The James Hutton Institute, Invergowrie, Dundee, DD2 5DA, UK.
Baloch FS
Department of Field Crops, Faculty of Agriculture, University of Çukurova, 01330, Adana, Turkey.
Badaeva ED
N. I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Gubkina Street 3, Moscow, 119991, Russia.
Knüpffer H
Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstrasse 3, 06466, Stadt Seeland, OT Gatersleben, Germany.
Kilian B
Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstrasse 3, 06466, Stadt Seeland, OT Gatersleben, Germany. benjamin.kilian@bayer.com. Bayer CropScience NV, Innovation Center, BCS Breeding & Trait Development, Technologiepark 38, 9052, Zwijnaarde (Gent), Belgium. benjamin.kilian@bayer.com.
Özkan H
Department of Field Crops, Faculty of Agriculture, University of Çukurova, 01330, Adana, Turkey. hozkan@cu.edu.tr.

MeSH

Adaptation, BiologicalEvolution, MolecularGenetic VariationHaplotypesPhylogenyPlant ProteinsQuantitative Trait LociSequence Analysis, DNATriticum

Pub Type(s)

Journal Article

Language

eng

PubMed ID

26898967

Citation

Shaaf, Salar, et al. "The Grain Hardness Locus Characterized in a Diverse Wheat Panel (Triticum Aestivum L.) Adapted to the Central Part of the Fertile Crescent: Genetic Diversity, Haplotype Structure, and Phylogeny." Molecular Genetics and Genomics : MGG, vol. 291, no. 3, 2016, pp. 1259-75.
Shaaf S, Sharma R, Baloch FS, et al. The grain Hardness locus characterized in a diverse wheat panel (Triticum aestivum L.) adapted to the central part of the Fertile Crescent: genetic diversity, haplotype structure, and phylogeny. Mol Genet Genomics. 2016;291(3):1259-75.
Shaaf, S., Sharma, R., Baloch, F. S., Badaeva, E. D., Knüpffer, H., Kilian, B., & Özkan, H. (2016). The grain Hardness locus characterized in a diverse wheat panel (Triticum aestivum L.) adapted to the central part of the Fertile Crescent: genetic diversity, haplotype structure, and phylogeny. Molecular Genetics and Genomics : MGG, 291(3), 1259-75. https://doi.org/10.1007/s00438-016-1180-5
Shaaf S, et al. The Grain Hardness Locus Characterized in a Diverse Wheat Panel (Triticum Aestivum L.) Adapted to the Central Part of the Fertile Crescent: Genetic Diversity, Haplotype Structure, and Phylogeny. Mol Genet Genomics. 2016;291(3):1259-75. PubMed PMID: 26898967.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - The grain Hardness locus characterized in a diverse wheat panel (Triticum aestivum L.) adapted to the central part of the Fertile Crescent: genetic diversity, haplotype structure, and phylogeny. AU - Shaaf,Salar, AU - Sharma,Rajiv, AU - Baloch,Faheem Shehzad, AU - Badaeva,Ekaterina D, AU - Knüpffer,Helmut, AU - Kilian,Benjamin, AU - Özkan,Hakan, Y1 - 2016/02/22/ PY - 2015/05/04/received PY - 2016/02/03/accepted PY - 2016/2/23/entrez PY - 2016/2/24/pubmed PY - 2017/1/27/medline KW - Aegilops KW - Domestication KW - Fertile Crescent KW - Genetic diversity KW - Grain softness protein KW - Hardness locus KW - Phylogeny KW - Puroindoline KW - Triticum SP - 1259 EP - 75 JF - Molecular genetics and genomics : MGG JO - Mol Genet Genomics VL - 291 IS - 3 N2 - Wheat belongs to the most important crops domesticated in the Fertile Crescent. In this region, fortunately, locally adapted wheat landraces are still present in farmers' fields. This material might be of immense value for future breeding programs. However, especially wheat germplasm adapted to the central part of the Fertile Crescent has been poorly characterized for allelic variation at key loci of agricultural importance. Grain hardness is an important trait influencing milling and baking quality of wheat. This trait is mainly determined by three tightly linked genes, namely, Puroindoline a (Pina), Puroindoline b (Pinb), and Grain softness protein-1 (Gsp-1), at the Hardness (Ha-D) locus on chromosome 5DS. To investigate genetic diversity and haplotype structure, we resequenced 96 diverse wheat lines at Pina-D1, Pinb-D1, Gsp-A1, Gsp-B1, and Gsp-D1. Three types of null alleles were identified using diagnostic primers: the first type was a multiple deletion of Pina-D1, Pinb-D1, and Gsp-D1 (Pina-D1k), the second was a Pina-D1 deletion (Pina-D1b); and the third type was a deletion of Gsp-D1, representing a novel null allele designated here as Gsp-D1k. Sequence analysis resulted in four allelic variants at Pinb-D1 and five at Gsp-A1, among them Gsp-A1-V was novel. Pina-D1, Gsp-B1 and Gsp-D1 sequences were monomorphic. Haplotype and phylogenetic analysis suggested that (1) bread wheat inherited its 5DS telomeric region probably from wild diploid Ae. tauschii subsp. tauschii found within an area from Transcaucasia to Caspian Iran; and that (2) the Ha-A and Ha-B homoeoloci were most closely related to sequences of wild tetraploid T. dicocco ides. This study provides a good overview of available genetic diversity at Pina-D1, Pinb-D1, and Gsp-1, which can be exploited to extend the range of grain texture traits in wheat. SN - 1617-4623 UR - https://www.unboundmedicine.com/medline/citation/26898967/The_grain_Hardness_locus_characterized_in_a_diverse_wheat_panel__Triticum_aestivum_L___adapted_to_the_central_part_of_the_Fertile_Crescent:_genetic_diversity_haplotype_structure_and_phylogeny_ DB - PRIME DP - Unbound Medicine ER -