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Investigating phenotypic relationships in Italian sweet cherry cultivars through proteomic analysis

ABSTRACT: In this study ten sweet cherry cultivars from Italy were characterized through proteomic analysis of the corresponding fruits hand-harvested at the commercial ripening stage (89 BBCH scale). A TMT10plex-based MS approach was employed to highlight molecular differences between fruit ecotypes in terms of key components influencing fruit quality and allergenic potential. Multivariate analysis of total quantitative data outlined cultivar differences and phenotypic relationships between investigated cultivars. These data could successfully integrate genetic findings obtained with DNA fingerprinting techniques for the elucidation of molecular differences and relationships between fruit ecotypes.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Prunus Avium Subsp. Avium

TISSUE(S): Plant Cell

SUBMITTER: anna maria salzano

LAB HEAD: Andrea Scaloni

PROVIDER: PXD051478 | Pride | 2025-06-05

REPOSITORIES: Pride

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Project description:Molecular events regulating apple fruit ripening and sensory quality are largely unknown. Such knowledge is essential for genomic-assisted apple breeding and postharvest quality management. In this study, a parallel transcriptome profile analysis, scanning electron microscopic (SEM) examination and systematic physiological characterization were performed on two apple cultivars, Honeycrisp (HC) and Cripps Pink (CP), which have distinct ripening features and texture attributes. Systematic physiological characterization of fruit ripening based on weekly maturity data indicated substantial differences in fruit crispness and firmness at comparable ripening stages. SEM images of fruit cortex tissues prepared from fruits with equivalent maturity suggested that the cell wall thickness may contribute to the observed phenotypes of fruit firmness and crispness. A high-density long-oligo apple microarray consisting of duplex 190,135 cross-hybridization-free 50-70-mer isothermal probes, and representing 23,997 UniGene clusters, was manufactured on a Nimblegen array platform. Transcriptome profiling identified a total of 1793 and 1209 UniGene clusters differentially expressed during ripening from cortex tissues of HC and CP, respectively. UniGenes implicated in hormone metabolism and response, cell wall biosynthesis and modification and those encoding transcription factors were among the prominent functional groups. Between the two cultivars, most of the identified UniGenes were similarly regulated during fruit ripening; however, a short list of gene families or specific family members exhibited distinct expression patterns between the two cultivars, which may represent candidate genes regulating cultivar-specific apple fruit ripening patterns and quality attributes. Using a single color labeling system, a total of 24 microarray slides were utilized, one for each cortex tissue sample, for transcriptome profiling analysis. 2 cultivars x 3 developmental stages x 4 biological replicates.

			Action	DRS
	PrunusAviumUP.fasta	Fasta
	TMT1.raw	Raw
	TMT1bis.raw	Raw
	TMT1tris.raw	Raw
	TMT2.raw	Raw

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Investigating phenotypic relationships in Italian sweet cherry cultivars through proteomic analysis

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