ArticleThe plant genome2019
Sequencing-Based Bin Map Construction of a Tomato Mapping Population, Facilitating High-Resolution Quantitative Trait Loci Detection.
Article in The plant genome, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers, 1 of them a synthesis that pooled it.
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Who cites it
51 citing papers in PubMed, 1 synthesis or guideline pooled it.
- eQTL Meta-Analysis Reveals Conserved and Population-Specific Regulatory Variation Underlying Nutritional Trait Evolution and Domestication in Tomato.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Pooled it
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- KhufuEnv, an auxiliary toolkit for building computational pipelines for plant and animal breeding.BMC bioinformatics · 2026Article
- Structural Variation and 3D Genome-Driven DNA/RNA Methylation Divergence Contributing to Cotton Fiber Domestication.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- The pyramiding ofFrontiers in plant science · 2026Article
- Integrating Multi-omics Analysis to Decipher the Genetic Basis of Heterosis in Xieyou9308.Rice (New York, N.Y.) · 2025Article
- Unraveling Plant Recombination Patterns: Insights From Genome k-mers.Plant direct · 2025Article
- Resequencing and phenotyping of the first highly inbred eggplant multiparent population revealHorticulture research · 2025Article
- Benchmarking of low coverage sequencing workflows for precision genotyping in eggplant.BMC plant biology · 2025Article
- Identification of late blight resistance QTLsMolecular breeding : new strategies in plant improvement · 2025Article
- A special short-wing petal faba genome and genetic dissection of floral and yield-related traits accelerate breeding and improvement of faba bean.Genome biology · 2025Article
- Identification of QTL for branch traits in soybean (Frontiers in genetics · 2025Article
- Natural variation in MdNAC5 contributes to fruit firmness and ripening divergence in apple.Horticulture research · 2025Article
- Shifts in plant architecture drive species-specific responses to drought in a Sorghum recombinant inbred line population.Plant biology (Stuttgart, Germany) · 2025Article
- Dissection of major QTLs and candidate genes for seedling stage salt/drought tolerance in tomato.BMC genomics · 2024Article
- Molecular and biochemical components associated with chilling tolerance in tomato: comparison of different developmental stages.Molecular horticulture · 2024Article
- Unveiling synergistic QTLs associated with slow wilting in soybean (Glycine max [L.] Merr.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Aphid Resistance Segregates Independently of Cardenolide and Glucosinolate Content in anPlants (Basel, Switzerland) · 2024Article
- Fine mapping of the panicle length QTLMolecular breeding : new strategies in plant improvement · 2024Article
- Gossypium purpurascens genome provides insight into the origin and domestication of upland cotton.Journal of advanced research · 2024Article
Corrections and comments
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Authors and funding
16 authors.
Funding
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Abstract
Genotyping-by-sequencing (GBS) was employed to construct a highly saturated genetic linkage map of a tomato ( L.) recombinant inbred line (RIL) population, derived from a cross between cultivar NC EBR-1 and the wild tomato L. accession LA2093. A pipeline was developed to convert single nucleotide polymorphism (SNP) data into genomic bins, which could be used for fine mapping of quantitative trait loci (QTL) and identification of candidate genes. The pipeline, implemented in a python script named SNPbinner, adopts a hidden Markov model approach for calculation of recombination breakpoints followed by genomic bins construction. The total length of the newly developed high-resolution genetic map was 1.2-fold larger than previously estimated based on restriction fragment length polymorphism (RFLP) and polymerase chain reaction (PCR)-based markers. The map was used to verify and refine QTL previously identified for two fruit quality traits in the RIL population, fruit weight (FW) and fruit lycopene content (LYC). Two well-described FW QTL ( and ) were localized precisely at their known underlying causative genes, and the QTL intervals were decreased by two- to tenfold. A major QTL for LYC content () was verified at high resolution and its underlying causative gene was determined to be ζ (). The RIL population, the high resolution genetic map, and the easy-to-use genotyping pipeline, SNPbinner, are made publicly available.
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