PXD025132 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Simple Strategy of Integrating the Micro-centrifugation-based Extraction and 4-Hexylphenylazosulfonate for the Preparation of Plant Microsomal Proteins for Bottom-Up Proteomics |
Description | The preparation of high-quality microsomal proteins (MPs) is of critical importance to high-throughput microsomal proteomics. The isolation of MPs for proteomic analysis has to date relied on Ultracentrifugation-based methods (UBMs), however, these methods are labor-intensive, time-consuming, and unaffordable to many laboratories. Here, we report a simple method developed by integrating the micro-centrifugation-based extraction (MME) method and 4-hexylphenylazosulfonate (Azo) surfactant for the isolation and solubilization of MPs from rice leaves. A mass spectrometry-based (MS) label-free proteomic approach was used for a comprehensive quantitative comparison of the extractability between the MME method and the plasma membrane extraction (PME) kit and of the ability to solubilize proteins between Azo and sodium dodecyl sulfate (SDS). Results showed that the MME method can not only effectively isolate MPs from rice leaves for a bottom-up proteomic analysis but also performs better than the PME kit in the enrichment of plasma membrane (PM) proteins. Additionally, Azo was found to effectively solubilize total proteins, including the MPs from rice leaves for bottom-up proteomics with performance comparable to that of SDS. Azo can be integrated with the MME approach as a simple and effective strategy to prepare MPs and could replace SDS for high-throughput proteomic studies. This is the first study revealing the applicability of the micro-centrifugation-based method and Azo in plant proteomics |
HostingRepository | PRIDE |
AnnounceDate | 2021-09-29 |
AnnouncementXML | Submission_2021-09-28_18:34:07.954.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Sun Tae Kim |
SpeciesList | scientific name: Oryza sativa Japonica Group; NCBI TaxID: 39947; |
ModificationList | monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-03-31 11:07:35 | ID requested | |
⏵ 1 | 2021-09-28 18:34:08 | announced | |
Publication List
Nguyen TV, Gupta R, Annas D, Yoon J, Kim YJ, Lee GH, Jang JW, Park KH, Rakwal R, Jung KH, Min CW, Kim ST, An Integrated Approach for the Efficient Extraction and Solubilization of Rice Microsomal Membrane Proteins for High-Throughput Proteomics. Front Plant Sci, 12():723369(2021) [pubmed] |
Keyword List
submitter keyword: Rice Leaves, Label-free Quantitative Proteomics, Microsomal Membrane Extraction, Plasma Membrane, Micro-centrifugation, Ultracentrifugation, Azo, SDS, MaxQuant, Perseus |
Contact List
Sun Tae Kim |
contact affiliation | Department of Plant Bioscience, Pusan National University, Miryang 50463, South Korea |
contact email | stki5505@gmail.com |
lab head | |
Sun Tae Kim |
contact affiliation | Pusan National University |
contact email | stkim5505@gmail.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD025132
- Label: PRIDE project
- Name: Simple Strategy of Integrating the Micro-centrifugation-based Extraction and 4-Hexylphenylazosulfonate for the Preparation of Plant Microsomal Proteins for Bottom-Up Proteomics