Transcriptome and metabolome of synthetic Solanum autotetraploids reveal key genomic stress events following polyploidization

TitleTranscriptome and metabolome of synthetic Solanum autotetraploids reveal key genomic stress events following polyploidization
Publication TypeArticolo su Rivista peer-reviewed
Year of Publication2016
AuthorsFasano, C., Diretto Gianfranco, Aversano R., D'Agostino N., Di Matteo A., Frusciante L., Giuliano Giovanni, and Carputo D.
JournalNew Phytologist
Volume210
Pagination1382-1394
ISSN0028646X
KeywordsAmino Acid, Biological, biological model, Chromosomes, Diploidy, Gene expression, gene expression profiling, gene expression regulation, gene regulatory network, Gene Regulatory Networks, Genetic, genetic analysis, genetics, Genomics, genotype, hybridization, metabolism, metabolome, metabolomics, Models, Plant, plant chromosome, plant leaf, Plant leaves, polyploidy, potato, Solanum, Solanum bulbocastanum, Solanum commersonii, Solanum tuberosum, species difference, Species Specificity, transcriptome, wild population
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. © 2016 New Phytologist Trust.

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URLhttps://www.scopus.com/inward/record.uri?eid=2-s2.0-84959386575&doi=10.1111%2fnph.13878&partnerID=40&md5=fb803c8740c067a5d1f4652112759bcf
DOI10.1111/nph.13878