PXD004605-5
PXD004605 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | One-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale. |
Description | We successfully identified the proteome expressed in Escherichia coli (E. coli) cells on a microarray scale using one-dimensional capillary liquid chromatography-tandem mass spectrometry (LC-MS/MS) with a 350 cm long, 100 microm i. d., monolithic silica-C(18) capillary column. E. coli tryptic digest (4 microg) was injected onto the column, and a 41 h gradient was applied with a flow rate of 500 nL/min at less than 20 MPa. In total, 22,196 nonredundant tryptic peptides from 2602 proteins, including 830 membrane proteins, were identified from the E. coli cells (triplicate analysis), in which an equivalent number of genes was detected by transcriptome analysis. Approximately a 5-fold larger peak response on average was obtained in this system, compared with that obtained by conventional capillary LC-MS/MS analysis with a 15 cm long, 3 microm diameter C(18) silica particle-packed column. The higher response suggests that the influence of ionization suppression was drastically reduced by the high-efficiency separation on the long monolithic silica column coupled with the shallow gradient. Because this high-resolution system does not require any additional separation prior to LC-MS/MS, this "one-shot" proteomics approach can simplify the workflow of shotgun proteomics and minimize the sample amount, as well as reduce the total analysis time, despite the use of prolonged shallow gradient elution. |
HostingRepository | jPOST |
AnnounceDate | 2016-07-20 |
AnnouncementXML | Submission_2021-02-04_16:48:24.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Tomoya Niinae |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; |
ModificationList | S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide |
Instrument | LTQ Orbitrap |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2016-07-19 22:40:39 | ID requested | |
1 | 2016-07-19 22:53:39 | announced | |
2 | 2016-07-20 00:37:11 | announced | Updated Announce date and Modification list. |
3 | 2016-11-17 18:20:12 | announced | Updated Announce date and Modification list. |
4 | 2018-09-18 21:58:42 | announced | Updated CV, FTP location and Modification list. |
⏵ 5 | 2021-02-04 16:48:25 | announced | 2021-02-04: Updated FTP location. |
6 | 2022-09-18 02:32:38 | announced | 2022-09-18: Updated FTP location. |
Publication List
Iwasaki M, Miwa S, Ikegami T, Tomita M, Tanaka N, Ishihama Y, One-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale. Anal Chem, 82(7):2616-20(2010) [pubmed] |
Keyword List
submitter keyword: E. coli |
Contact List
Yasushi Ishihama | |
---|---|
lab head | |
Tomoya Niinae | |
contact affiliation | Kyoto university |
dataset submitter |
Full Dataset Link List
jPOST dataset URI |
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.biosciencedbc.jp/archive/jpostrepos/JPST000059 |