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Fruit metabolic and transcriptional programs differentiate among Andean tomato (Solanum lycopersicum L.) accessions

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Abstract

Main conclusion

Andean tomatoes differed from the wild ancestor in the metabolic composition and the expression of genes related with mitochondrial functions, and environmental stresses, making them potentially suitable for breeding programmes.

Abstract

Traditional landraces or “criollo” tomatoes (Solanum lycopersicum L.) from Andean areas of Argentina, selected for their fruit quality, were analysed in this study. We explored the metabolome and transcriptome of the ripe fruit in nine landrace accessions representing the seven genetic groups and compared them to the mature fruit of the wild progenitor Solanum pimpinellifolium. The content of branched- (isoleucine and valine) and aromatic (phenylalanine and tryptophan) amino acids, citrate and sugars were significantly different in the fruit of several “criollo” tomatoes compared to S. pimpinellifolium. The transcriptomic profile of the ripe fruit showed several genes significantly and highly regulated in all varieties compared to S. pimpinellifolium, like genes encoding histones and mitochondrial proteins. Additionally, network analysis including transcripts and metabolites identified major hubs with the largest number of connections such as constitutive photomorphogenic protein 1 (a RING finger-type ubiquitin E3 ligase), five Zn finger transcription factors, ascorbate peroxidase, acetolactate synthase, and sucrose non-fermenting 1 kinase. Co-expression analysis of these genes revealed a potential function in acquiring tomato fruit quality during domestication.

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Data availability

The data sets generated during the current study are available in the GEO repository under number GSE125476.

Abbreviations

APX:

Ascorbate peroxidase

COP1:

Constitutive photomorphogenic 1

GO:

Gene ontology

PCA:

Principal component analysis

SNF1:

Sucrose non-fermenting 1 kinase

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Acknowledgements

We thank the Reviewers for their constructive comments to improve the quality of this manuscript. MD and EB were recipients of fellowships of Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET). MIZ, SBB, FC, IEP, and EMV are career members of CONICET, and PDA is a member of the National Institute of Agricultural Technology (INTA). This work was partially supported by grant number PICT2017-0978 and PICT 2007-01942 of Agencia Nacional de Promoción Científica y Tecnológica (ANPCyT), and INTA.

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Author notes

  1. Matilde D’Angelo

    Present address: Animal Nutrition and Welfare Service, Animal and Food Science Department, Universitat Autónoma de Barcelona, 08193, Bellaterra, Spain

  2. Matilde D’Angelo and María I. Zanor contributed equally to this work.

Authors and Affiliations

  1. Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET-UNR), Rosario, Argentina

    Matilde D’Angelo, María I. Zanor, Silvana B. Boggio & Estela M. Valle

  2. Instituto de Fisiología Biología Molecular y Neurociencias (IFIBYNE-CONICET-UBA), Buenos Aires, Argentina

    Estanislao Burgos & Fernando Carrari

  3. Facultad de Ciencias Agrarias, Universidad Nacional de Cuyo, Mendoza, Argentina

    Pablo D. Asprelli & Iris E. Peralta

  4. IADIZA CCT-CONICET, Mendoza, Argentina

    Iris E. Peralta

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  1. Matilde D’Angelo
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Correspondence to Estela M. Valle.

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D’Angelo, M., Zanor, M.I., Burgos, E. et al. Fruit metabolic and transcriptional programs differentiate among Andean tomato (Solanum lycopersicum L.) accessions. Planta 250, 1927–1940 (2019). https://doi.org/10.1007/s00425-019-03274-4

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