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Zhang H, Li Y, Liu W, Sun Y, Tang J, Che J, Yang S, Wang X, Zhang R. Genetic Analysis of Adaptive Traits in Spring Wheat in Northeast China. Life (Basel) 2024; 14:168. [PMID: 38398677 PMCID: PMC10890535 DOI: 10.3390/life14020168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2023] [Revised: 01/13/2024] [Accepted: 01/17/2024] [Indexed: 02/25/2024] Open
Abstract
The dissection of the genetic architecture and the detection of the loci for adaptive traits are important for marker-assisted selection (MAS) for breeding. A spring wheat diversity panel with 251 cultivars, mainly from China, was obtained to conduct a genome-wide association study (GWAS) to detect the new loci, including the heading date (HD), maturating date (MD), plant height (PH), and lodging resistance (LR). In total, 41 loci existing in all 21 chromosomes, except for 4A and 6B, were identified, and each explained 4.3-18.9% of the phenotypic variations existing in two or more environments. Of these, 13 loci are overlapped with the known genes or quantitative trait loci (QTLs), whereas the other 28 are likely to be novel. The 1A locus (296.9-297.7 Mb) is a multi-effect locus for LR and PH, whereas the locus on chromosome 6D (464.5-471.0 Mb) affects both the HD and MD. Furthermore, four candidate genes for adaptive traits were identified, involved in cell division, signal transduction, and plant development. Additionally, two competitive, allele-specific PCR (KASP) markers, Kasp_2D_PH for PH and Kasp_6D_HD for HD, were developed and validated in another 162 spring wheat accessions. Our study uncovered the genetic basis of adaptive traits and provided the associated SNPs and varieties with more favorable alleles for wheat MAS breeding.
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Affiliation(s)
- Hongji Zhang
- Crop Resources Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China; (W.L.); (Y.S.); (J.T.); (S.Y.); (X.W.)
| | - Yuyao Li
- Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China;
| | - Wenlin Liu
- Crop Resources Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China; (W.L.); (Y.S.); (J.T.); (S.Y.); (X.W.)
| | - Yan Sun
- Crop Resources Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China; (W.L.); (Y.S.); (J.T.); (S.Y.); (X.W.)
| | - Jingquan Tang
- Crop Resources Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China; (W.L.); (Y.S.); (J.T.); (S.Y.); (X.W.)
| | - Jingyu Che
- Keshan Branch of Heilongjiang Academy of Agricultural Sciences, Qiqihar 161600, China;
| | - Shuping Yang
- Crop Resources Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China; (W.L.); (Y.S.); (J.T.); (S.Y.); (X.W.)
| | - Xiangyu Wang
- Crop Resources Institute, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China; (W.L.); (Y.S.); (J.T.); (S.Y.); (X.W.)
| | - Rui Zhang
- Institute of Forage and Grassland Sciences, Heilongjiang Academy of Agricultural Sciences, Harbin 150086, China;
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Tyrka M, Krajewski P, Bednarek PT, Rączka K, Drzazga T, Matysik P, Martofel R, Woźna-Pawlak U, Jasińska D, Niewińska M, Ługowska B, Ratajczak D, Sikora T, Witkowski E, Dorczyk A, Tyrka D. Genome-wide association mapping in elite winter wheat breeding for yield improvement. J Appl Genet 2023; 64:377-391. [PMID: 37120451 PMCID: PMC10457411 DOI: 10.1007/s13353-023-00758-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2022] [Revised: 03/19/2023] [Accepted: 04/03/2023] [Indexed: 05/01/2023]
Abstract
Increased grain yield (GY) is the primary breeding target of wheat breeders. We performed the genome-wide association study (GWAS) on 168 elite winter wheat lines from an ongoing breeding program to identify the main determinants of grain yield. Sequencing of Diversity Array Technology fragments (DArTseq) resulted in 19,350 single-nucleotide polymorphism (SNP) and presence-absence variation (PAV) markers. We identified 15 main genomic regions located in ten wheat chromosomes (1B, 2B, 2D, 3A, 3D, 5A, 5B, 6A, 6B, and 7B) that explained from 7.9 to 20.3% of the variation in grain yield and 13.3% of the yield stability. Loci identified in the reduced genepool are important for wheat improvement using marker-assisted selection. We found marker-trait associations between three genes involved in starch biosynthesis and grain yield. Two starch synthase genes (TraesCS2B03G1238800 and TraesCS2D03G1048800) and a sucrose synthase gene (TraesCS3D03G0024300) were found in regions of QGy.rut-2B.2, QGy.rut-2D.1, and QGy.rut-3D, respectively. These loci and other significantly associated SNP markers found in this study can be used for pyramiding favorable alleles in high-yielding varieties or to improve the accuracy of prediction in genomic selection.
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Affiliation(s)
- Mirosław Tyrka
- Department of Biotechnology and Bioinformatics, Rzeszow University of Technology, Powstańców Warszawy 6, 35-959, Rzeszów, Poland.
| | - Paweł Krajewski
- Institute of Plant Genetics, Polish Academy of Sciences, Strzeszyńska 34, 60-479, Poznań, Poland
| | - Piotr Tomasz Bednarek
- Plant Breeding and Acclimatization Institute - National Research Institute, Radzików, 05-870, Błonie, Poland
| | - Kinga Rączka
- Department of Biotechnology and Bioinformatics, Rzeszow University of Technology, Powstańców Warszawy 6, 35-959, Rzeszów, Poland
| | - Tadeusz Drzazga
- Małopolska Plant Breeding Ltd, Sportowa 21, 55-040, Kobierzyce, Poland
| | - Przemysław Matysik
- Plant Breeding Strzelce Group IHAR Ltd, Główna 20, 99-307, Strzelce, Poland
| | - Róża Martofel
- Poznań Plant Breeding Ltd, Kasztanowa 5, 63-004, Tulce, Poland
| | | | - Dorota Jasińska
- Poznań Plant Breeding Ltd, Kasztanowa 5, 63-004, Tulce, Poland
| | | | | | | | - Teresa Sikora
- DANKO Plant Breeders Ltd, Ks. Strzybnego 23, 47-411, Rudnik, Poland
| | - Edward Witkowski
- Plant Breeding Smolice Ltd, Smolice 146, 63-740, Kobylin, Poland
| | - Ada Dorczyk
- Plant Breeding Smolice Ltd, Smolice 146, 63-740, Kobylin, Poland
| | - Dorota Tyrka
- Department of Biotechnology and Bioinformatics, Rzeszow University of Technology, Powstańców Warszawy 6, 35-959, Rzeszów, Poland
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Leonova IN, Ageeva EV. Localization of the quantitative trait loci related to lodging resistance in spring bread wheat (<i>Triticum aestivum</i> L.). Vavilovskii Zhurnal Genet Selektsii 2022; 26:675-683. [DOI: 10.18699/vjgb-22-82] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2022] [Revised: 07/12/2022] [Accepted: 07/12/2022] [Indexed: 12/05/2022] Open
Affiliation(s)
- I. N. Leonova
- Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences
| | - E. V. Ageeva
- Siberian Research Institute of Plant Production and Breeding – Branch of the Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences
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Buerstmayr H, Dreccer MF, Miladinović D, Qiu L, Rajcan I, Reif J, Varshney RK, Vollmann J. Plant breeding for increased sustainability: challenges, opportunities and progress. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:3679-3683. [PMID: 36355071 DOI: 10.1007/s00122-022-04238-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Accepted: 10/10/2022] [Indexed: 06/16/2023]
Affiliation(s)
- Hermann Buerstmayr
- University of Natural Resources and Life Sciences Vienna, Vienna, Austria.
| | - Maria Fernanda Dreccer
- Commonwealth Scientific and Industrial Research Organisation - Agriculture and Food, Queensland Bioscience Precinct, 306 Carmody Rd, St Lucia, QLD, 4067, Australia
| | - Dragana Miladinović
- Institute of Field and Vegetable Crops, National Institute of Republic of Serbia, Novi Sad, Serbia
| | - Lijuan Qiu
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Istvan Rajcan
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| | - Jochen Reif
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466, Stadt Seeland, Germany
| | - Rajeev K Varshney
- Centre for Crop and Food Innovation, State Agricultural Biotechnology Centre, Food Futures Institute, Murdoch University, Murdoch, Australia
| | - Johann Vollmann
- University of Natural Resources and Life Sciences Vienna, Vienna, Austria
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