PXD005283 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | A novel protein extraction method for proteomics of the trunk disease fungus Lasiodiplodia theobromae (Botryosphaeriaceae) |
Description | Fungal proteomics is a developing field that requires renewed interest and attention from the scientific community in many aspects. One of the most compelling objectives of fungal biology is to find out how fungal pathogens colonize a host, in order to find new ways of impeding this colonization, and proteomics is an important and useful tool to this end. However, fungi are also taxonomically interesting and are important biochemical model organisms for the study of many cellular processes, such as cytoskeletal regulation. Additionally, fungi are sources of secondary metabolites, many of which serve as medications for humans. Nevertheless, much work remains in developing systems-biology approaches to understanding fungal gene expression and secondary metabolism. Current fungal proteomics approaches involve 2D SDS-PAGE and extensive, complex, protein extraction methodologies. In this work, an application of a modified Folch extraction to protein extraction was used to perform de novo peptide sequencing of the proteome from the plant and human pathogen Lasiodiplodia theobromae, which greatly streamlined and simplified the analysis process. Using a metaproteomics bioinformatics approach, many novel proteins for L. theobromae were identified and targeted for further biochemical characterization and annotation efforts. |
HostingRepository | PRIDE |
AnnounceDate | 2017-04-05 |
AnnouncementXML | Submission_2017-04-05_05:39:08.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD005283 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Carla Uranga |
SpeciesList | scientific name: Lasiodiplodia theobromae; NCBI TaxID: 45133; |
ModificationList | Ammonia-loss; Glu->pyro-Glu; Oxidation; Acetyl; Carbamidomethyl; Gln->pyro-Glu |
Instrument | TripleTOF 5600 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2016-11-07 02:48:36 | ID requested | |
⏵ 1 | 2017-04-05 05:39:10 | announced | |
2 | 2017-11-13 00:21:50 | announced | Updated publication reference for PubMed record(s): 28580409, 26926564. |
Publication List
Uranga CC, Beld J, Mrse A, C, ó, rdova-Guerrero I, Burkart MD, Hern, á, ndez-Mart, í, nez R, Fatty acid esters produced by Lasiodiplodia theobromae function as growth regulators in tobacco seedlings. Biochem Biophys Res Commun, 472(2):339-45(2016) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: Trunk-disease fungi, LC-nanoESI-MS, proteomics, de novo peptide sequencing, gene ontology |
Contact List
Majid Ghassemian, PhD |
contact affiliation | University of California, San Diego Proteomics Mass Spectrometry Depertment |
contact email | mghassemian@ucsd.edu |
lab head | |
Carla Uranga |
contact affiliation | UCSD/CICESE |
contact email | urangacarla@gmail.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD005283
- Label: PRIDE project
- Name: A novel protein extraction method for proteomics of the trunk disease fungus Lasiodiplodia theobromae (Botryosphaeriaceae)