Dataset Information

Multiple-omics studies of pear fruit flesh

ABSTRACT: A comprehensive analysis of the metabolome, proteome, transcriptome, DNA methylome, and small RNAome profiles of pear fruit flesh at 11 developing stages, spanning from fruitlet to ripening.

ORGANISM(S): Pyrus X Bretschneideri

SUBMITTER: Shaoling Zhang

PROVIDER: PXD049025 | iProX | Fri Feb 02 00:00:00 GMT 2024

REPOSITORIES: iProX

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Publications

Multi-omics provide insights into the regulation of DNA methylation in pear fruit metabolism.

Gu Chao C Pei Mao-Song MS Guo Zhi-Hua ZH Wu Lei L Qi Kai-Jie KJ Wang Xue-Ping XP Liu Hong H Liu Zhongchi Z Lang Zhaobo Z Zhang Shaoling S

Genome biology 20240314 1

<h4>Background</h4>Extensive research has been conducted on fruit development in crops, but the metabolic regulatory networks underlying perennial fruit trees remain poorly understood. To address this knowledge gap, we conduct a comprehensive analysis of the metabolome, proteome, transcriptome, DNA methylome, and small RNAome profiles of pear fruit flesh at 11 developing stages, spanning from fruitlet to ripening. Here, we systematically investigate the metabolic landscape and regulatory network ...[more]

PMID: 38486226

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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.

Dataset Information

Multiple-omics studies of pear fruit flesh

Publications

Multi-omics provide insights into the regulation of DNA methylation in pear fruit metabolism.

Similar Datasets

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