ArticleBMC genomics2014
Patchwork sequencing of tomato San Marzano and Vesuviano varieties highlights genome-wide variations.
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 17 papers.
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Who cites it
17 citing papers in PubMed.
- Whole-genome resequencing reveals genomic footprints of Italian sweet and hot pepper heirlooms giving insight into genes underlying key agronomic and qualitative traits.BMC genomic data · 2022Article
- Cultivated Tomato (Plants (Basel, Switzerland) · 2020Article
- Accelerating Tomato Breeding by Exploiting Genomic Selection Approaches.Plants (Basel, Switzerland) · 2020Review
- Plant Genome Editing and the Relevance of Off-Target Changes.Plant physiology · 2020Article
- Genome-wide variations analysis of sorghum cultivar Hongyingzi for brewing Moutai liquor.Hereditas · 2020Article
- Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era.Plants (Basel, Switzerland) · 2020Review
- Optimizing N Fertilization to Improve Yield, Technological and Nutritional Quality of Tomato Grown in High Fertility Soil Conditions.Plants (Basel, Switzerland) · 2020Article
- Biochar Administration to San Marzano Tomato Plants Cultivated Under Low-Input Farming Increases Growth, Fruit Yield, and Affects Gene Expression.Frontiers in plant science · 2020Article
- Mediterranean Long Shelf-Life Landraces: An Untapped Genetic Resource for Tomato Improvement.Frontiers in plant science · 2019Article
- Whole-genome re-sequencing of two Italian tomato landraces reveals sequence variations in genes associated with stress tolerance, fruit quality and long shelf-life traits.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
- Unraveling the complexity of transcriptomic, metabolomic and quality environmental response of tomato fruit.BMC plant biology · 2017Article
- Exploiting the great potential of Sequence Capture data by a new tool, SUPER-CAP.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- Tandem Duplication Events in the Expansion of the Small Heat Shock Protein Gene Family in Solanum lycopersicum (cv. Heinz 1706).G3 (Bethesda, Md.) · 2016Article
- Analytical workflow of double-digest restriction site-associated DNA sequencing based on empirical and in silico optimization in tomato.DNA research : an international journal for rapid publication of reports on genes and genomes · 2016Article
- Genome-wide survey of artificial mutations induced by ethyl methanesulfonate and gamma rays in tomato.Plant biotechnology journal · 2016Article
- Metabolite Profiling of Italian Tomato Landraces with Different Fruit Types.Frontiers in plant science · 2016Article
- Mediterranean Tomato Landraces Exhibit Genotype-Specific Transcriptomic Responses to Water Stress.Physiologia plantarumArticle
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundInvestigation of tomato genetic resources is a crucial issue for better straight evolution and genetic studies as well as tomato breeding strategies. Traditional Vesuviano and San Marzano varieties grown in Campania region (Southern Italy) are famous for their remarkable fruit quality. Owing to their economic and social importance is crucial to understand the genetic basis of their unique traits.
resultsHere, we present the draft genome sequences of tomato Vesuviano and San Marzano genome. A 40x genome coverage was obtained from a hybrid Illumina paired-end reads assembling that combines de novo assembly with iterative mapping to the reference S. lycopersicum genome (SL2.40). Insertions, deletions and SNP variants were carefully measured. When assessed on the basis of the reference annotation, 30% of protein-coding genes are predicted to have variants in both varieties. Copy genes number and gene location were assessed by mRNA transcripts mapping, showing a closer relationship of San Marzano with reference genome. Distinctive variations in key genes and transcription/regulation factors related to fruit quality have been revealed for both cultivars.
conclusionsThe effort performed highlighted varieties relationships and important variants in fruit key processes useful to dissect the path from sequence variant to phenotype.
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