ArticleBMC genomics2015
A dense SNP genetic map constructed using restriction site-associated DNA sequencing enables detection of QTLs controlling apple fruit quality.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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42 citing papers in PubMed, 85 citations in OpenAlex.
- Dissecting fruit weight and quality traits in Australian passion fruit through genetic linkage mapping and QTL analysis.Frontiers in plant science · 2026Article
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- Natural variation in MdNAC5 contributes to fruit firmness and ripening divergence in apple.Horticulture research · 2025Article
- The art of tartness: the genetics of organic acid content in fresh fruits.Horticulture research · 2024Article
- Genomic prediction and genome-wide association study using combined genotypic data from different genotyping systems: application to apple fruit quality traits.Horticulture research · 2024Article
- Genomic analysis of fruit size and shape traits in apple: unveiling candidate genes through GWAS analysis.Horticulture research · 2024Article
- High-density genetic map and quantitative trait loci map of skin color in hawthorn (Frontiers in genetics · 2024Article
- Population Structure and Association Mapping for Agronomical and Biochemical Traits of a Large Spanish Apple Germplasm.Plants (Basel, Switzerland) · 2023Article
- A bulked segregant analysis tool for out-crossing species (BSATOS) and QTL-based genomics-assisted prediction of complex traits in apple.Journal of advanced research · 2022Article
- Construction of a highly saturated genetic map and identification of quantitative trait loci for leaf traits in jujube.Frontiers in plant science · 2022Article
- Construction of a High-Density Genetic Map and Identification of Quantitative Trait Loci Linked to Fruit Quality Traits in Apricots Using Specific-Locus Amplified Fragment Sequencing.Frontiers in plant science · 2022Article
- Characterization of the genetic and regulatory networks associated with sugar and acid metabolism in applesFrontiers in plant science · 2022Article
- Research Progress on Genetic Basis of Fruit Quality Traits in Apple (Frontiers in plant science · 2022Review
- SNP detection and population structure evaluation ofPhysiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
- Quantitative trait loci-based genomics-assisted prediction for the degree of apple fruit cover color.The plant genome · 2020Article
- Review of the Impact of Apple Fruit Ripening, Texture and Chemical Contents on Genetically Determined Susceptibility to Storage Rots.Plants (Basel, Switzerland) · 2020Review
- High-density genetic linkage map construction and cane cold hardiness QTL mapping for Vitis based on restriction site-associated DNA sequencing.BMC genomics · 2020Article
- Identification of two QTLs associated with high fruit acidity in apple using pooled genome sequencing analysis.Horticulture research · 2020Article
- High-density genetic linkage-map construction of hawthorn and QTL mapping for important fruit traits.PloS one · 2020Article
- Construction of a high-density genetic map and QTL mapping of leaf traits and plant growth in an interspecific FBMC plant biology · 2019Article
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Authors and funding
10 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundGenetic map based quantitative trait locus (QTL) analysis is an important method for studying important horticultural traits in apple. To facilitate molecular breeding studies of fruit quality traits in apple, we aim to construct a high density map which was efficient for QTL mapping and possible to search for candidate genes directly in mapped QTLs regions.
methodsA total of 1733 F1 seedlings derived from 'Jonathan' × 'Golden Delicious' was used for the map constructionand QTL analysis. The SNP markers were developed by restriction site-associated DNA sequencing (RADseq). Phenotyping data of fruit quality traits were calculated in 2008-2011. Once QTLs were mapped, candidate genes were searched for in the corresponding regions of the apple genome sequence underlying the QTLs. Then some of the candidate genes were validated using real-time PCR.
resultsA high-density genetic map with 3441 SNP markers from 297 individuals was generated. Of the 3441 markers, 2017 were mapped to 'Jonathan' with a length of 1343.4 cM and the average distance between markers was 0.67 cM, 1932 were mapped to 'Golden Delicious' with a length of 1516.0 cM and the average distance between markers was 0.78 cM. Twelve significant QTLs linked to the control of fruit weight, fruit firmness, sugar content and fruit acidity were mapped to seven linkage groups. Based on gene annotation, 80, 64 and 17 genes related to fruit weight, fruit firmness and fruit acidity, respectively, were analyzed.Among the 17 candidate genes associated with control of fruit acidity, changes in the expression of MDP0000582174 (MdMYB4) were in agreement with the pattern of changes in malic acid content in apple during ripening, and the relative expression of MDP0000239624 (MdME) was significantly correlated withfruit acidity.
conclusionsWe demonstrated the construction of a dense SNP genetic map in apple using next generation sequencing and that the increased resolution enabled the detection of narrow interval QTLs linked to the three fruit quality traits assessed. The candidate genes MDP0000582174 and MDP0000239624 were found to be related to fruit acidity regulation. We conclude that application of RADseq for genetic map construction improved the precision of QTL detection and should be utilized in future studies on the regulatory mechanisms of important fruit traits in apple.
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