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A segregating population from a tomato second cycle hybrid allows the identification of novel QTL for fruit quality traits

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Abstract

The domestication process of tomato (Solanum lycopersium L.) resulted in very low variability for most agronomic interesting traits. In this work we explore the variability present in an unusual segregating population obtained by selfing a second cycle hybrid to identify and mapping novel Quantitative Trait Loci (QTL) for fruit quality traits. With this aim, a molecular characterization of the population by 130 single nucleotide polymorphism designed from genome sequencing of the parental lines was performed, which resulted in a genetic map and the location of seven novel QTL associated with the inheritance of the fruit quality traits: fruit diameter (R2 ranging from 0.179 to 0.207), fruit weight (R2 = 0.171) and fruit shape index (R2 ranging from 0.179 to 0.341). The analysis through the G-statistic allowed to define the consistence of the novel QTL identified, especially those associated to fruit shape index and fruit diameter. This approach has also led to the identification of new codominant molecular markers flanking the QTL which will be useful in future genetic breeding programs.

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Acknowledgements

We thank Dr. Fernando J. Yuste-Lisbona for the critical review of the manuscript. The authors thank to the BEC.AR Programme (Scholarship Programme for Overseas Training of Argentine Professionals in the Fields of Sciences, Technology and Productive Innovation) for funding the scholarship in Spain for VGC and the ANPCyT (National Agency for Scientist and Technological Promotion) for funding part of the project (PICT 2014-3181). This research was also supported by the Spanish Ministry of Science, Innovation and Universities through the grant AGL2017-88702-C2-1-R and Campus de Excelencia Internacional Agroalimentario (CeiA3).

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Contributions

VGC performed the phenotyping, designed the markers, genotyped the molecular markers and performed the QTL analysis. VC sequenced the parental genotypes and listed the polymorphic SNPs. GRR developed the plant material and sequenced the parental genotypes. GRP developed the plant material and conceptualized the research. LAP, GRP, RL and JC devised the study. CC designed the markers and contributed to the QTL analysis. VGC, RL and JC wrote the manuscript. All the authors reviewed the manuscript.

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Correspondence to Guillermo Raúl Pratta.

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Online Resource 1

Marker name, chromosome (CH), polymorphism and sequences for primers.

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Reference genetic map and reference physical map used to select the position of the designed molecular markers. CH: chromosome; (a): reference genetic map (TraitGenetics EXPEN2012, Fernandez-Pozo et al., 2015); (b): reference physical map (Tomato - Kazusa and SolCAP markers mapped to genome, Fernandez-Pozo et al., 2015); cM: centimorgan; black spots in (a): approximate location of the marker in the genetic map; black spots in (b): represents the location of the marker in the physical map. The scale of physical map was lightly modified from original to reflect the real size of the chromosomes in Megabases (Mb). The image is an adaptation from SolGenomicsNetworks – Comparative Map Viewer (Fernandez-Pozo et al., 2015).

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Cabodevila, V.G., Cambiaso, V., Rodríguez, G.R. et al. A segregating population from a tomato second cycle hybrid allows the identification of novel QTL for fruit quality traits. Euphytica 217, 6 (2021). https://doi.org/10.1007/s10681-020-02731-6

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  • DOI: https://doi.org/10.1007/s10681-020-02731-6

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