Transcriptome and proteomic analysis of mango (Mangifera indica Linn) fruits

• RNA sequencing of mango fruit results into 54,207 transcript assembled.
• LC–MS identified 7536 peptides that matched 2754 proteins.
• We provide comprehensive information on the transcriptome and proteome level of mango fruit.
• Providing a valuable reference for further research on gene expression and protein identification

Here we used Illumina RNA-seq technology for transcriptome sequencing of a mixed fruit sample from ‘Zill’ mango (Mangifera indica Linn) fruit pericarp and pulp during the development and ripening stages. RNA-seq generated 68,419,722 sequence reads that were assembled into 54,207 transcripts with a mean length of 858 bp, including 26,413 clusters and 27,794 singletons. A total of 42,515(78.43%) transcripts were annotated using public protein databases, with a cut-off E-value above 10− 5, of which 35,198 and 14,619 transcripts were assigned to gene ontology terms and clusters of orthologous groups respectively. Functional annotation against the Kyoto Encyclopedia of Genes and Genomes database identified 23,741(43.79%) transcripts which were mapped to 128 pathways. These pathways revealed many previously unknown transcripts. We also applied mass spectrometry-based transcriptome data to characterize the proteome of ripe fruit. LC–MS/MS analysis of the mango fruit proteome was using tandem mass spectrometry (MS/MS) in an LTQ Orbitrap Velos (Thermo) coupled online to the HPLC. This approach enabled the identification of 7536 peptides that matched 2754 proteins. Our study provides a comprehensive sequence for a systemic view of transcriptome during mango fruit development and the most comprehensive fruit proteome to date, which are useful for further genomics research and proteomic studies.Biological significanceOur study provides a comprehensive sequence for a systemic view of both the transcriptome and proteome of mango fruit, and a valuable reference for further research on gene expression and protein identification.This article is part of a Special Issue entitled: Proteomics of non-model organisms.

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