Proteomics

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Testing TMT-SPS-MS3 and label free approach in recalcitrant Mago (Mangifera indica L.) peel tissues


ABSTRACT: Significant progress has been observed in recent years in proteomics tools. However, minimal application of the newest proteomic tools has been massively applied in plant recalcitrant tissues in non-model fruits. This constant occurrence constrains the progress in understanding essential molecular processes during postharvest shelf life (PSL) of fleshy fruits. In fact, comparative proteomic studies in fruit like mango, guava, papaya, and avocado are minimal. Therefore, we set up a label free quantitation (LFQ) and TMT-SPS-MS3 pipeline for comparative study of mango peels during PSL. Our protocol included different protein extraction and peptide fractionation before mass spectrometry analysis. In doing so we were able to confidently identify 4,400 proteins with high confidence, among which 1087 were differentially accumulated. The combination of phenolic protein extraction, high-pH reverse-phase peptide fractionation and LFQ exhibited the best approach for relative quantification, but other protein extraction, peptide fractionation and data acquisition showed significant complementation. LFQ and Byonic also allowed the determination of intact N-glyco peptides on proteins such as the desiccation-related protein, which molecular dynamics analysis support the occurrence of N-glycans providing stability of the protein. Our study represents the first massive proteomics comparison of mango peels during PSL.

INSTRUMENT(S): Orbitrap Fusion

ORGANISM(S): Mangifera Indica (mango)

TISSUE(S): Plant Cell, Pericarp

SUBMITTER: Miguel Elizalde  

LAB HEAD: Dr. Eliel Ruiz May

PROVIDER: PXD040720 | Pride | 2024-01-29

REPOSITORIES: Pride

Dataset's files

Source:
Action DRS
MEOH_Tommy_T0_A1_C18B125.raw Raw
MEOH_Tommy_T0_A2_C18B125.raw Raw
MEOH_Tommy_T0_A3_C18B125.raw Raw
MEOH_Tommy_T6_A1_C18B125.raw Raw
MEOH_Tommy_T6_A2_C18B125.raw Raw
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