PXD027351 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Online Nanoflow Two-Dimension Comprehensive Active Modulation Reversed Phase-Reversed Phase Liquid Chromatography High Resolution Mass Spectrometry for Metaproteomics of Environmen-tal and Microbiome Samples |
Description | Metaproteomics is a powerful analytical approach that can assess the functional capabilities deployed by microbial communi-ties in both environmental and biomedical microbiome settings. Yet the mass spectra resulting from these mixed biological communities are challenging due to the high number of low intensity peak features. The use of multiple dimensions of chroma-tographic separation prior to mass spectrometry analyses has been applied to proteomics previously but can require increased sampling handling and instrument time. Here we demonstrate an automated online comprehensive active-modulation two-dimensional liquid chromatography method for metaproteome sample analysis. A high pH PLRP-S column was used in the first dimension followed by low pH separation in the second dimension using dual modulating C18 traps and a C18 column. This method increased the number of unique peptides found in ocean metaproteome samples by more than 50% when com-pared to a one dimension separation while using the same amount of sample and instrument time. |
HostingRepository | PRIDE |
AnnounceDate | 2022-05-20 |
AnnouncementXML | Submission_2022-05-20_03:29:33.426.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD027351 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Matthew McIlvin |
SpeciesList | scientific name: marine plankton environmental sample; NCBI TaxID: 632957; scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Orbitrap Fusion |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-07-15 23:42:43 | ID requested | |
⏵ 1 | 2022-05-20 03:29:34 | announced | |
Publication List
McIlvin MR, Saito MA, Online Nanoflow Two-Dimension Comprehensive Active Modulation Reversed Phase-Reversed Phase Liquid Chromatography High-Resolution Mass Spectrometry for Metaproteomics of Environmental and Microbiome Samples. J Proteome Res, 20(9):4589-4597(2021) [pubmed] |
Keyword List
submitter keyword: metaproteomics, ocean, proteomics, RPRP, 2DLC, automated, LC, LCMS, comprehensive active modulation |
Contact List
Mak Saito |
contact affiliation | Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Unites States |
contact email | msaito@whoi.edu |
lab head | |
Matthew McIlvin |
contact affiliation | Woods Hole Oceanographic Inst. |
contact email | mmcilvin@whoi.edu |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
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[ - ]
- PRIDE
- PXD027351
- Label: PRIDE project
- Name: Online Nanoflow Two-Dimension Comprehensive Active Modulation Reversed Phase-Reversed Phase Liquid Chromatography High Resolution Mass Spectrometry for Metaproteomics of Environmen-tal and Microbiome Samples