PXD003667 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Shedding light on biofilm formation of Halobacterium salinarum R1 by SWATH-LC/MS/MS analysis of planktonic and sessile cells |
Description | Early and mature biofilm formation in the extremely halophilic euryarchaeon Halobacterium salinarum strain R1 was characterized by SWATH-LC/MS/MS. Using a simple surfactant-assisted protein solubilization protocol and one-dimensional ultrahigh performance nanoflow chromatography on the front end, 63.2% and 58.6% of the predicted Hbt. salinarum R1 proteome could be detected and quantified, respectively. Analysis of biophysical protein properties, functional analysis and pathway mapping indicate that we achieved a comprehensive characterization of the proteome. 60.8% of quantified proteins (or 34.5% of the predicted proteome) exhibited significant abundance changes between planktonic and biofilm states, demonstrating that haloarchaeal biofilm formation represents a profound “lifestyle change” on the molecular level. Taken together our results and analysis constitute the first comprehensive study to track the molecular changes from planktonic cells to initial and mature archaeal biofilms on the proteome level. Proteins exemplifying different protein expression level profiles were selected, and their corresponding gene transcripts targeted by qRT-PCR to test the feasibility of establishing rapid PCR-based assays for archaeal biofilm formation. |
HostingRepository | PRIDE |
AnnounceDate | 2016-09-28 |
AnnouncementXML | Submission_2016-09-28_06:32:16.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Christof Lenz |
SpeciesList | scientific name: Halobacterium salinarum; NCBI TaxID: 2242; |
ModificationList | No PTMs are included in the dataset |
Instrument | TripleTOF 5600 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2016-02-19 07:06:30 | ID requested | |
⏵ 1 | 2016-09-28 06:32:17 | announced | |
Publication List
Losensky G, Jung K, Urlaub H, Pfeifer F, Fr, ö, ls S, Lenz C, Shedding light on biofilm formation of Halobacterium salinarum R1 by SWATH-LC/MS/MS analysis of planktonic and sessile cells. Proteomics, 17(7):(2017) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: SWATH, label-free, quantitation, Archaea, Biofilm |
Contact List
Christof Lenz |
contact affiliation | Max Planck Institute for Biophysical Chemistry Bioanalytical Mass Spectrometry Am Fassberg 11 D-37077 Göttingen Germany |
contact email | christof.lenz@mpibpc.mpg.de |
lab head | |
Christof Lenz |
contact affiliation | Max Planck Institute for Biophysical Chemistry |
contact email | christof.lenz@mpibpc.mpg.de |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD003667
- Label: PRIDE project
- Name: Shedding light on biofilm formation of Halobacterium salinarum R1 by SWATH-LC/MS/MS analysis of planktonic and sessile cells