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PXD022914-1

PXD022914 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleOptimization of Protein Isolation and Label–free Quantitative Proteomic Analysis in Four Different Tissues of Korean Ginseng
DescriptionKorean ginseng is one of the most valuable medicinal plants worldwide. Yet, our understanding of ginseng proteomics is largely limited due to difficulties in extraction and resolution of ginseng proteins because of the presence of natural contaminants such as polysaccharides, phenols, and glycosides. Here, we compared four different protein extraction methods, namely, TCA/acetone, TCA/acetone–MeOH/chloroform, Phenol–TCA/acetone, and Phenol–MeOH/chloroform methods. Consequently, the TCA/acetone–MeOH/chloroform method displayed the highest extraction efficiency, thus it was used for the comparative proteome profiling of leaf, root, shoot, and fruit by a label–free quantitative proteomics approach. This approach led to the identification of 2,604 significantly modulated proteins among four tissues. We could pinpoint differential pathways and proteins associated with ginsenoside biosynthesis including the methylerythritol 4–phosphate (MEP) pathway, the mevalonate (MVA) pathway, UDP–glycosyltransferases (UGTs), and oxidoreductases (CYP450s). The current study reports an efficient and reproducible method for the isolation of proteins from a wide range of ginseng tissues and provides a detailed organ–based proteome map and a more comprehensive view of enzymatic alterations in ginsenoside biosynthesis.
HostingRepositoryPRIDE
AnnounceDate2021-09-07
AnnouncementXMLSubmission_2021-09-07_04:24:39.080.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterSun Tae Kim
SpeciesList scientific name: Panax ginseng; NCBI TaxID: 4054;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-12-04 03:03:48ID requested
12021-09-07 04:24:40announced
Publication List
Van Nguyen T, Kim SW, Min CW, Gupta R, Lee GH, Jang JW, Rathi D, Shin HW, Jung JY, Jo IH, Hong WJ, Jung KH, Kim S, Kim YJ, Kim ST, Optimization of Protein Isolation and Label-Free Quantitative Proteomic Analysis in Four Different Tissues of Korean Ginseng. Plants (Basel), 10(7):(2021) [pubmed]
Keyword List
submitter keyword: Label–free proteomics, Panax ginseng, Ginsenosides
Cytochromes p450, UDP–glycosyltransferase, MEP pathway, MVA pathway, TCA/acetone, Methanol/chloroform
Contact List
Sun Tae Kim
contact affiliationDepartment of Plant Bioscience, Life and Industry Convergence Research Institute,Pusan National University, Miryang 50463, Republic of Korea
contact emailstkim5505@gmail.com
lab head
Sun Tae Kim
contact affiliationPusan National University
contact emailstkim5505@gmail.com
dataset submitter
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