ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2013
SNP genotyping in melons: genetic variation, population structure, and linkage disequilibrium.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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40 citing papers in PubMed.
- Molecular polymorphisms of the nuclear and chloroplast genomes among African melon germplasms reveal abundant and unique genetic diversity, especially in Sudan.Annals of botany · 2025Article
- Polyphyletic domestication and inter-lineage hybridization magnified genetic diversity of cultivated melon,Breeding science · 2025Article
- Variation for QTL alleles associated with total dissolved solids among crop types in a GWAS of a Beta vulgaris diversity panel.The plant genome · 2025Article
- Genetic Dissection of ToLCNDV Resistance in Resistant Sources ofInternational journal of molecular sciences · 2024Article
- Deciphering the population structure and genetic basis of growth traits from whole-genome resequencing of the leopard coral grouper (Zoological research · 2024Article
- A Novel Introgression Line Library Derived from a Wild Melon Gives Insights into the Genetics of Melon Domestication, Uncovering New Genetic Variability Useful for Breeding.International journal of molecular sciences · 2023Article
- Melon diversity on the Silk Road by molecular phylogenetic analysis in Kazakhstan melons.Breeding science · 2023Article
- Genetic diversity analysis and variety identification using SSR and SNP markers in melon.BMC plant biology · 2023Article
- Thorough Characterization ofFoods (Basel, Switzerland) · 2023Article
- Advanced Genetic Studies on Powdery Mildew Resistance in TGR-1551.International journal of molecular sciences · 2022Article
- Spanish Melon Landraces: Revealing Useful Diversity by Genomic, Morphological, and Metabolomic Analysis.International journal of molecular sciences · 2022Article
- Multi-environment genomic prediction for soluble solids content in peach (Frontiers in plant science · 2022Article
- On the genetic architecture in a public tropical maize panel of the symbiosis between corn and plant growth-promoting bacteria aiming to improve plant resilience.Molecular breeding : new strategies in plant improvement · 2021Article
- Genome-Wide SNP Markers for Genotypic and Phenotypic Differentiation of Melon (International journal of molecular sciences · 2021Article
- Resistance to Cucumber Green Mottle Mosaic Virus inPlants (Basel, Switzerland) · 2021Article
- Chasing breeding footprints through structural variations in Cucumis melo and wild relatives.G3 (Bethesda, Md.) · 2021Article
- Resequencing of 297 melon accessions reveals the genomic history of improvement and loci related to fruit traits in melon.Plant biotechnology journal · 2020Article
- A machine learning framework for genotyping the structural variations with copy number variant.BMC medical genomics · 2020Article
- Melon Genome Regions Associated with TGR-1551-Derived Resistance toInternational journal of molecular sciences · 2020Article
- Re-evaluation of the role of Indian germplasm as center of melon diversification based on genotyping-by-sequencing analysis.BMC genomics · 2019Article
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Authors and funding
11 authors.
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Abstract
Novel sequencing technologies were recently used to generate sequences from multiple melon (Cucumis melo L.) genotypes, enabling the in silico identification of large single nucleotide polymorphism (SNP) collections. In order to optimize the use of these markers, SNP validation and large-scale genotyping are necessary. In this paper, we present the first validated design for a genotyping array with 768 SNPs that are evenly distributed throughout the melon genome. This customized Illumina GoldenGate assay was used to genotype a collection of 74 accessions, representing most of the botanical groups of the species. Of the assayed loci, 91 % were successfully genotyped. The array provided a large number of polymorphic SNPs within and across accessions. This set of SNPs detected high levels of variation in accessions from this crop's center of origin as well as from several other areas of melon diversification. Allele distribution throughout the genome revealed regions that distinguished between the two main groups of cultivated accessions (inodorus and cantalupensis). Population structure analysis showed a subdivision into five subpopulations, reflecting the history of the crop. A considerably low level of LD was detected, which decayed rapidly within a few kilobases. Our results show that the GoldenGate assay can be used successfully for high-throughput SNP genotyping in melon. Since many of the genotyped accessions are currently being used as the parents of breeding populations in various programs, this set of mapped markers could be used for future mapping and breeding efforts.
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