GWAS and QTLanalysis for 124 individual traits
Data files
Dec 21, 2024 version files 140.42 MB
-
Expanded_View_Figure_1.pdf
86.41 MB
-
Expanded_View_Figure_2.pdf
54.01 MB
-
README.md
1.41 KB
Abstract
Investigating the genetic architecture of important agronomic traits in grapevine, like grape quality and resilience to abiotic stress, has been hampered by bottlenecks in genotyping and phenotyping. Here, we developed a high-density 200K single nucleotide polymorphism array and validated its effectiveness by genotyping 471 accessions from three F1 breeding populations. We developed a high-throughput grape phenotyping tool that accurately captures berry color, shape and size. By integrating data from the two platforms, associated loci were identified over three growing seasons. Association mapping, and haplotype analysis identified novel loci and candidate genes for berry shape (bHLH017), soluble sugars (ACT) and organic acids (ALTM1 and FUSC2), as well as vine cold tolerance (NAC08), and fine mapped the flower sex determination locus. Furthermore, we validated the functional role of NAC08, demonstrating that it activated the expression of RFS6 to increase raffinose levels and confer cold tolerance. Together, these augmented tools, the integrated data, and novel loci establish a better foundation for trait aggregation that will enhance breeding efficiency and boost the development of high-quality grape varieties.
README: GWAS and QTLanalysis for 124 individual traits
https://doi.org/10.5061/dryad.02v6wwqcx
Description of the data and file structure
HTP was carried out for three years (2020, 2021, and 2022) of berries produced by the BF × Y73 F1 population. We verified the distributions of all traits in the population and conducted genome wide association studies (GWAS) and quantitative trait locus (QTL) analysis for 124 individual traits related to berry morphometry and color, as well as 4 composite traits (Figures EV1 and EV2, Supporting Information). The Expanded Figure EV1 (Figure EV1) and Expanded Figure EV2 (Figure EV2) have been submitted.
Files and variables
File: Expanded_View_Figure_1.pdf
Description: GWAS results of 124 individual traits
File: Expanded_View_Figure_2.pdf
Description: QTL results of 124 individual traits
Code/software
A PDF reader (such as Adobe Acrobat Reader or any equivalent software) is required to view the PDF file containing the association results. No additional software, code, or packages are needed to access this file.
Access information
Other publicly accessible locations of the data:
- There are no other publicly accessible locations for the data at this time.
Data was derived from the following sources:
- The data was not derived from other sources.