ArticleG3 (Bethesda, Md.)2014
High-resolution genetic map for understanding the effect of genome-wide recombination rate on nucleotide diversity in watermelon.
Article in G3 (Bethesda, Md.), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Genome-Wide Identification of Melon Single-Nucleotide Polymorphisms and Structural Variations Associated with Resistance toPlants (Basel, Switzerland) · 2026Article
- Harnessing genetic variation in watermelon (Citrullus lanatus) and trait dissection in segregating populations through multivariate approaches.BMC plant biology · 2026Article
- QTL and PACE analyses identify candidate genes for anthracnose resistance in tomato.Frontiers in plant science · 2023Article
- From molecules to populations: appreciating and estimating recombination rate variation.Nature reviews. Genetics · 2020Review
- Article
- Genome of 'Charleston Gray', the principal American watermelon cultivar, and genetic characterization of 1,365 accessions in the U.S. National Plant Germplasm System watermelon collection.Plant biotechnology journal · 2019Article
- Haplotype Networking of GWAS Hits for Citrulline Variation Associated with the Domestication of Watermelon.International journal of molecular sciences · 2019Article
- Whole genome resequencing of watermelons to identify single nucleotide polymorphisms related to flesh color and lycopene content.PloS one · 2019Article
- Construction of A High-Density Genetic Map and Mapping of Fruit Traits in Watermelon (International journal of molecular sciences · 2018Article
- Building Ultra-High-Density Linkage Maps Based on Efficient Filtering of Trustable Markers.Genetics · 2017Article
- A GBS-SNP-based linkage map and quantitative trait loci (QTL) associated with resistance to Fusarium oxysporum f. sp. niveum race 2 identified in Citrullus lanatus var. citroides.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
- Genome-wide divergence, haplotype distribution and population demographic histories for Gossypium hirsutum and Gossypium barbadense as revealed by genome-anchored SNPs.Scientific reports · 2017Article
- Effect of Co-segregating Markers on High-Density Genetic Maps and Prediction of Map Expansion Using Machine Learning Algorithms.Frontiers in plant science · 2017Article
- Genome-wide Diversity and Association Mapping for Capsaicinoids and Fruit Weight in Capsicum annuum L.Scientific reports · 2016Article
- Genome analysis and avirulence gene cloning using a high-density RADseq linkage map of the flax rust fungus, Melampsora lini.BMC genomics · 2016Article
- Article
- Genome-Wide Divergence and Linkage Disequilibrium Analyses forFrontiers in plant science · 2016Article
- Genome-Wide Differentiation of Various Melon Horticultural Groups for Use in GWAS for Fruit Firmness and Construction of a High Resolution Genetic Map.Frontiers in plant science · 2016Article
- Differential gene expression and alternative splicing between diploid and tetraploid watermelon.Journal of experimental botany · 2015Article
- Article
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Authors and funding
12 authors.
Funding
Abstract
We used genotyping by sequencing to identify a set of 10,480 single nucleotide polymorphism (SNP) markers for constructing a high-resolution genetic map of 1096 cM for watermelon. We assessed the genome-wide variation in recombination rate (GWRR) across the map and found an association between GWRR and genome-wide nucleotide diversity. Collinearity between the map and the genome-wide reference sequence for watermelon was studied to identify inconsistency and chromosome rearrangements. We assessed genome-wide nucleotide diversity, linkage disequilibrium (LD), and selective sweep for wild, semi-wild, and domesticated accessions of Citrullus lanatus var. lanatus to track signals of domestication. Principal component analysis combined with chromosome-wide phylogenetic study based on 1563 SNPs obtained after LD pruning with minor allele frequency of 0.05 resolved the differences between semi-wild and wild accessions as well as relationships among worldwide sweet watermelon. Population structure analysis revealed predominant ancestries for wild, semi-wild, and domesticated watermelons as well as admixture of various ancestries that were important for domestication. Sliding window analysis of Tajima's D across various chromosomes was used to resolve selective sweep. LD decay was estimated for various chromosomes. We identified a strong selective sweep on chromosome 3 consisting of important genes that might have had a role in sweet watermelon domestication.
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