title: Transcriptome and metabolome of synthetic Solanum autotetraploids reveal key genomic stress events following polyploidization.
abstract: Polyploids are generally classified as autopolyploids, derived from a single species, and allopolyploids, arising from interspecific hybridization. The former represent ideal materials with which to study the consequences of genome doubling and ascertain whether there are molecular and functional rules operating following polyploidization events. To investigate whether the effects of autopolyploidization are common to different species, or if species-specific or stochastic events are prevalent, we performed a comprehensive transcriptomic and metabolomic characterization of diploids and autotetraploids of Solanum commersonii and Solanum bulbocastanum. Autopolyploidization remodelled the transcriptome and the metabolome of both species. In S. commersonii, differentially expressed genes (DEGs) were highly enriched in pericentromeric regions. Most changes were stochastic, suggesting a strong genotypic response. However, a set of robustly regulated transcripts and metabolites was also detected, including purine bases and nucleosides, which are likely to underlie a common response to polyploidization. We hypothesize that autopolyploidization results in nucleotide pool imbalance, which in turn triggers a genomic shock responsible for the stochastic events observed. The more extensive genomic stress and the higher number of stochastic events observed in S. commersonii with respect to S. bulbocastanum could be the result of the higher nucleoside depletion observed in this species.
authors.affiliation: Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy.
authors.forename: Carlo
authors.initials: C
authors.lastname: Fasano
authors.affiliation: Italian National Agency for New Technologies, Energy, and Sustainable Development, Casaccia Research Centre, Rome, 00123, Italy.
authors.forename: Gianfranco
authors.initials: G
authors.lastname: Diretto
authors.affiliation: Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy.
authors.forename: Riccardo
authors.initials: R
authors.lastname: Aversano
authors.affiliation: Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria - Centro di ricerca per l'orticoltura (CRA-ORT), via dei Cavalleggeri 25, Pontecagnano, Salerno, 84098, Italy.
authors.forename: Nunzio
authors.initials: N
authors.lastname: D'Agostino
authors.affiliation: Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy.
authors.forename: Antonio
authors.initials: A
authors.lastname: Di Matteo
authors.affiliation: Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy.
authors.forename: Luigi
authors.initials: L
authors.lastname: Frusciante
authors.affiliation: Italian National Agency for New Technologies, Energy, and Sustainable Development, Casaccia Research Centre, Rome, 00123, Italy.
authors.forename: Giovanni
authors.initials: G
authors.lastname: Giuliano
authors.affiliation: Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy.
authors.forename: Domenico
authors.initials: D
authors.lastname: Carputo
mesh_terms: D032461:Chromosomes, Plant / Q000235:genetics; D004171:Diploidy; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D053263:Gene Regulatory Networks; D005838:Genotype; D006824:Hybridization, Genetic; D055442:Metabolome; D055432:Metabolomics; D008954:Models, Biological; D018515:Plant Leaves / Q000235:genetics / Q000378:metabolism; D011123:Polyploidy; D032322:Solanum / Q000235:genetics* / Q000378:metabolism; D013045:Species Specificity; D059467:Transcriptome
keywords: autopolyploid; metabolome; nucleotide pool imbalance; potato; transcriptome; wild Solanum