Next Article in Journal
Acetate and Butyrate Improve β-cell Metabolism and Mitochondrial Respiration under Oxidative Stress
Previous Article in Journal
Surface Functionalization with Polyethylene Glycol and Polyethyleneimine Improves the Performance of Graphene-Based Materials for Safe and Efficient Intracellular Delivery by Laser-Induced Photoporation
Article

A High Resolution Melting Analysis-Based Genotyping Toolkit for the Peach (Prunus persica) Chilling Requirement

1
Department of Horticulture and Landscape Architecture, National Taiwan University, Taipei 10617, Taiwan
2
Crop Science Division and Guansi Experiment Station, Taiwan Agricultural Research Institute, Council of Agriculture, Taichung 41301, Taiwan
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Int. J. Mol. Sci. 2020, 21(4), 1543; https://doi.org/10.3390/ijms21041543
Received: 29 November 2019 / Revised: 16 February 2020 / Accepted: 22 February 2020 / Published: 24 February 2020
(This article belongs to the Section Molecular Plant Sciences)
The chilling requirement (CR) is the main factor controlling the peach floral bud break and subsequent reproductive growth. To date, several peach CR quantitative trait loci (QTLs) have been identified. To improve the accessibility and convenience of this genetic information for peach breeders, the aim of this study was to establish an easy-to-use genotype screening system using peach CR molecular markers as a toolkit for marker-assisted selection. Here, we integrated 22 CR-associated markers from three published QTLs and positioned them on the Prunus persica physical map. Then, we built a PCR-based genotyping platform by using high-resolution melting (HRM) analysis with specific primers and trained this platform with 27 peach cultivars. Due to ambiguous variant calls from a commercial HRM software, we developed an R-based pipeline using principal component analysis (PCA) to accurately differentiate genotypes. Based on the PCA results, this toolkit was able to determine the genotypes at the CR-related single nucleotide polymorphisms (SNPs) in all tested peach cultivars. In this study, we showed that this HRM-PCA pipeline served as a low-cost, high-throughput, and non-gel genotyping solution. This system has great potential to accelerate CR-focused peach breeding. View Full-Text
Keywords: chilling requirement (CR); genotyping; high-resolution melting (HRM) analysis; marker-assisted selection (MAS); principal component analysis (PCA); quantitative trait loci (QTLs); single nucleotide polymorphisms (SNPs) chilling requirement (CR); genotyping; high-resolution melting (HRM) analysis; marker-assisted selection (MAS); principal component analysis (PCA); quantitative trait loci (QTLs); single nucleotide polymorphisms (SNPs)
Show Figures

Figure 1

MDPI and ACS Style

Chou, L.; Huang, S.-J.; Hsieh, C.; Lu, M.-T.; Song, C.-W.; Hsu, F.-C. A High Resolution Melting Analysis-Based Genotyping Toolkit for the Peach (Prunus persica) Chilling Requirement. Int. J. Mol. Sci. 2020, 21, 1543. https://doi.org/10.3390/ijms21041543

AMA Style

Chou L, Huang S-J, Hsieh C, Lu M-T, Song C-W, Hsu F-C. A High Resolution Melting Analysis-Based Genotyping Toolkit for the Peach (Prunus persica) Chilling Requirement. International Journal of Molecular Sciences. 2020; 21(4):1543. https://doi.org/10.3390/ijms21041543

Chicago/Turabian Style

Chou, Lin, Shih-Jie Huang, Chen Hsieh, Ming-Te Lu, Chia-Wei Song, and Fu-Chiun Hsu. 2020. "A High Resolution Melting Analysis-Based Genotyping Toolkit for the Peach (Prunus persica) Chilling Requirement" International Journal of Molecular Sciences 21, no. 4: 1543. https://doi.org/10.3390/ijms21041543

Find Other Styles
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Back to TopTop