QTL Analysis of Yield and End-Use Quality Traits in Texas Hard Red Winter Wheat

Dogan, Mehmet; Wang, Zhen; Cerit, Mustafa; Valenzuela-Antelo, Jorge L.; Dhakal, Smit; Chu, Chenggen; Xue, Qingwu; Ibrahim, Amir M. H.; Rudd, Jackie C.; Bernardo, Amy; St. Amand, Paul; Bai, Guihua; Zhang, Hongbin; Liu, Shuyu

doi:10.3390/agronomy13030689

Open AccessEditor’s ChoiceArticle

QTL Analysis of Yield and End-Use Quality Traits in Texas Hard Red Winter Wheat

by

Mehmet Dogan

^1,2,†

,

Zhen Wang

^1,2,

Mustafa Cerit

^1,2,‡,

Jorge L. Valenzuela-Antelo

^1,2,§,

Smit Dhakal

^1,‖,

Chenggen Chu

^1,¶

,

Qingwu Xue

¹,

Amir M. H. Ibrahim

²,

Jackie C. Rudd

¹,

Amy Bernardo

³,

Paul St. Amand

³,

Guihua Bai

³

,

Hongbin Zhang

² and

Shuyu Liu

^1,*

¹

Texas A&M AgriLife Research and Extension Center, 6500 Amarillo Blvd. W., Amarillo, TX 79106, USA

²

Department of Soil and Crop Sciences, Texas A&M University, 370 Olsen Blvd, College Station, TX 77843, USA

³

USDA-ARS, Hard Winter Wheat Genetics Research Unit, Throckmorton Hall 4008, Manhattan, KS 66506, USA

^*

Author to whom correspondence should be addressed.

^†

Present address: Field Crops Central Research Institute, Sehit Cem Ersever Cd., Yenimahalle, Ankara 06170, Türkiye.

^‡

Present address: Aegean Agricultural Research Institute, Canakkale Asfaltı Cd., Menemen, Izmir 35661, Türkiye.

^§

Present address: Bayer Crop Science Mexico, Tlajomulco Research Station, Tlajomulco de Zuniga, Jalisco 45660, Mexico.

^‖

Present address: PowerPollen, 27253 US HWY 69, Ames, IA 50010, USA.

^¶

Present address: USDA-ARS, Sugarbeet, and Potato Research Unit, 1616 Albrecht Blvd N, Fargo, ND 58102, USA.

Agronomy 2023, 13(3), 689; https://doi.org/10.3390/agronomy13030689

Submission received: 16 February 2023 / Revised: 22 February 2023 / Accepted: 22 February 2023 / Published: 26 February 2023

(This article belongs to the Section Crop Breeding and Genetics)

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Abstract

Genetic dissection of complex traits by quantitative trait locus (QTL) analysis permits the understanding of the genotypic effects of QTL, interactions between QTLs, and QTL-by-environment interactions in wheat. This study aimed to identify the QTL linked to yield, its components, end-use quality traits including kernel, flour, and dough rheology, and related agronomic traits under dryland and irrigated conditions. A mapping population of 179 F_2:6 recombinant inbred lines (RILs) derived from ‘TAM 111’/‘TX05A001822’ was evaluated for these traits to investigate their genetic stability and phenotypic plasticity using 2658 single nucleotide polymorphisms (SNPs) with 35 linkage groups. Traits associated with chromosome regions were detected for individual and across-environment QTL by inclusive composite interval mapping. A total of 30 QTL regions were identified, including 14 consistent QTLs mapped on 11 chromosomes and six pleiotropic QTLs mapped on 5 chromosomes. Three consistent QTLs in chromosomes 1A, 3B, and 6D might be novel. Three major QTLs with both consistent and pleiotropic effects were co-localized with known genes. The first QTL for dough mixing properties was physically clustered around Glu-D1 and had an phenotypic variation explained (PVE) up to 31.3%. The second QTL for kernel-related traits was physically close to the TaCWI-4A (cell wall invertase) gene, which influences the thousand kernel weight, heading date, and harvest index, with a PVE of up to 12.3%. The third QTL, which was colocalized with the TaCWI-5D gene for kernel traits, was identified with a PVE of 6.7%. Epistasis was also detected, but major QTLs were not involved in significant epistasis or interactions with environmental effects. The current study provided new information that is useful for enhanced wheat breeding, which will benefit from the deployment of the favorable alleles for end-use quality, yield, and other agronomic traits in wheat-breeding programs through marker-assisted selection.

Keywords: bread wheat; quantitative trait loci; favorable allele; end-use quality; dough rheology; yield components

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MDPI and ACS Style

Dogan, M.; Wang, Z.; Cerit, M.; Valenzuela-Antelo, J.L.; Dhakal, S.; Chu, C.; Xue, Q.; Ibrahim, A.M.H.; Rudd, J.C.; Bernardo, A.; et al. QTL Analysis of Yield and End-Use Quality Traits in Texas Hard Red Winter Wheat. Agronomy 2023, 13, 689. https://doi.org/10.3390/agronomy13030689

AMA Style

Dogan M, Wang Z, Cerit M, Valenzuela-Antelo JL, Dhakal S, Chu C, Xue Q, Ibrahim AMH, Rudd JC, Bernardo A, et al. QTL Analysis of Yield and End-Use Quality Traits in Texas Hard Red Winter Wheat. Agronomy. 2023; 13(3):689. https://doi.org/10.3390/agronomy13030689

Chicago/Turabian Style

Dogan, Mehmet, Zhen Wang, Mustafa Cerit, Jorge L. Valenzuela-Antelo, Smit Dhakal, Chenggen Chu, Qingwu Xue, Amir M. H. Ibrahim, Jackie C. Rudd, Amy Bernardo, and et al. 2023. "QTL Analysis of Yield and End-Use Quality Traits in Texas Hard Red Winter Wheat" Agronomy 13, no. 3: 689. https://doi.org/10.3390/agronomy13030689

APA Style

Dogan, M., Wang, Z., Cerit, M., Valenzuela-Antelo, J. L., Dhakal, S., Chu, C., Xue, Q., Ibrahim, A. M. H., Rudd, J. C., Bernardo, A., St. Amand, P., Bai, G., Zhang, H., & Liu, S. (2023). QTL Analysis of Yield and End-Use Quality Traits in Texas Hard Red Winter Wheat. Agronomy, 13(3), 689. https://doi.org/10.3390/agronomy13030689

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QTL Analysis of Yield and End-Use Quality Traits in Texas Hard Red Winter Wheat

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