ArticleBMC genomics2014
Mapping in the era of sequencing: high density genotyping and its application for mapping TYLCV resistance in Solanum pimpinellifolium.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed, 24 citations in OpenAlex.
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- Assessment of Genetic Differentiation and Linkage Disequilibrium inG3 (Bethesda, Md.) · 2019Article
- The effect of isolation methods of tomato pollen on the results of metabolic profiling.Metabolomics : Official journal of the Metabolomic Society · 2019Article
- High-Altitude Wild SpeciesFrontiers in plant science · 2019Article
- Breeding Has Increased the Diversity of Cultivated Tomato in The Netherlands.Frontiers in plant science · 2019Article
- The Genome Sequence of the Wild TomatoFrontiers in plant science · 2018Article
- Resistance to Tomato Yellow Leaf Curl Virus in Tomato Germplasm.Frontiers in plant science · 2018Article
- Low-coverage resequencing detects meiotic recombination pattern and features in tomato RILs.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- Use of Natural Diversity and Biotechnology to Increase the Quality and Nutritional Content of Tomato and Grape.Frontiers in plant science · 2017Review
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundA RIL population between Solanum lycopersicum cv. Moneymaker and S. pimpinellifolium G1.1554 was genotyped with a custom made SNP array. Additionally, a subset of the lines was genotyped by sequencing (GBS).
resultsA total of 1974 polymorphic SNPs were selected to develop a linkage map of 715 unique genetic loci. We generated plots for visualizing the recombination patterns of the population relating physical and genetic positions along the genome.This linkage map was used to identify two QTLs for TYLCV resistance which contained favourable alleles derived from S. pimpinellifolium. Further GBS was used to saturate regions of interest, and the mapping resolution of the two QTLs was improved. The analysis showed highest significance on Chromosome 11 close to the region of 51.3 Mb (qTy-p11) and another on Chromosome 3 near 46.5 Mb (qTy-p3). Furthermore, we explored the population using untargeted metabolic profiling, and the most significant differences between susceptible and resistant plants were mainly associated with sucrose and flavonoid glycosides.
conclusionsThe SNP information obtained from an array allowed a first QTL screening of our RIL population. With additional SNP data of a RILs subset, obtained through GBS, we were able to perform an in silico mapping improvement to further confirm regions associated with our trait of interest. With the combination of different ~ omics platforms we provide valuable insight into the genetics of S. pimpinellifolium-derived TYLCV resistance.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.