Genome-Wide Association Study of Arabinoxylan Content from a 562 Hexaploid Wheat Collection
Abstract
:1. Introduction
2. Results
2.1. Population Structure Analysis
2.2. Arabinoxylan Content of 562 Bread Wheat Varieties
2.3. Genome-Wide Association Studies (GWASs)
2.4. Candidate Gene Identification
2.5. Arabinoxylan Distribution of the Genotypes for the Three SNPs
2.6. Arabinoxylan Content by Country According to the Three SNP Genotypes
2.7. Arabinoxylan Content in Three Allelic Combinations
2.8. Arabinoxylan Content of 41 Domestic Wheat Varieties
3. Discussion
4. Materials and Methods
4.1. Materials and Arabinoxylan Extraction
4.2. DNA Extraction and Genotyping
4.3. Genome-Wide Association Analysis and Population Structure
4.4. Identification of Putative Candidate Genes
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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SNP | Chr. | Position | p-Value | RefSeq Sequence | FDR | Gene Name | Alleles |
---|---|---|---|---|---|---|---|
AX–95086356 | 1BL | 677224871 | 2.24 × 10−7 | NC_057795.1 | 0.000791 | F-box/FBD/LRR-repeat protein | A/G |
AX–94502724 | 3DL | 354080813 | 1.90 × 10−8 | NC_057802.1 | 0.001791 | NA | C/T |
AX–94470319 | 4BL | 609317748 | 1.15 × 10−8 | NC_057804.1 | 0.000369 | Disease resistance protein RPM1/PIK6-NP-like | A/G |
AX–95019636 | 5BL | 696490490 | 7.41 × 10−7 | NC_057807.1 | 0.00473 | U2 small nuclear ribonucleoprotein A′-like | C/T |
AX–94534026 | 5DL | 548367051 | 5.47 × 10−6 | NC_057808.1 | 0.021813 | serine/arginine repetitive matrix protein 1-like | C/T |
AX–94713015 | 5DL | 409878931 | 5.27 × 10−6 | NC_057808.1 | 0.021813 | bZIP transcription factior 29 | A/G |
AX–95092984 | 7BS | 67265891 | 6.94 × 10−8 | NC_057813.1 | 0.001109 | Carboxypeptidase | A/C |
AX–94934861 | 7DS | 2522044 | 5.39 × 10−6 | NC_057814.1 | 0.021813 | Disease resistance protein RPP13/PIK6-NP-like | A/G |
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Lee, M.H.; Park, J.; Kim, K.-H.; Kim, K.-M.; Kang, C.-S.; Lee, G.E.; Choi, J.Y.; Shon, J.; Ko, J.-M.; Choi, C. Genome-Wide Association Study of Arabinoxylan Content from a 562 Hexaploid Wheat Collection. Plants 2023, 12, 184. https://doi.org/10.3390/plants12010184
Lee MH, Park J, Kim K-H, Kim K-M, Kang C-S, Lee GE, Choi JY, Shon J, Ko J-M, Choi C. Genome-Wide Association Study of Arabinoxylan Content from a 562 Hexaploid Wheat Collection. Plants. 2023; 12(1):184. https://doi.org/10.3390/plants12010184
Chicago/Turabian StyleLee, Myoung Hui, Jinhee Park, Kyeong-Hoon Kim, Kyeong-Min Kim, Chon-Sik Kang, Go Eun Lee, Jun Yong Choi, Jiyoung Shon, Jong-Min Ko, and Changhyun Choi. 2023. "Genome-Wide Association Study of Arabinoxylan Content from a 562 Hexaploid Wheat Collection" Plants 12, no. 1: 184. https://doi.org/10.3390/plants12010184