PXD001691

PXD001691 is an original dataset announced via ProteomeXchange.

Title	An optimised protocol for protein extraction from salt gland-enriched tissues of a mangrove tree species for proteomic analysis
Description	Preparation of proteins from salt-gland-enriched tissues of mangrove plant is necessary for a systematic study of proteins involved in the plant’s unique desalination mechanism. Extraction of high-quality proteins from the leaves of mangrove tree species, however, is difficult due to the presence of high levels of endogenous phenolic compounds. In our study, preparation of proteins from only a part of the leaf tissues was required, rendering extraction even more challenging. By comparing several extraction methods, we developed a reliable procedure for obtaining sufficient proteins from salt gland-enriched tissues of the mangrove species Avicennia officinalis. Protein extraction was markedly improved using a phenol-based extraction method. Despite the lower protein yield obtained, one-dimensional protein gel profiles with greater resolution could be obtained, with more than twice the number of proteins detected when 1D-LC-MS/MS analyses were compared. Further analysis of proteins that were solely present in each extraction method favoured the phenol-based extraction. Phenol-based extracts contained nearly 10 times more solely-detected proteins than those were detectable in the extracts without using phenol. The protocol established could thus be applied for downstream high-throughput proteomic analyses involving LC-MS/MS or equivalent.
HostingRepository	PRIDE
AnnounceDate	2015-07-20
AnnouncementXML	Submission_2015-07-20_06:28:52.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Wee-Kee Tan
SpeciesList	scientific name: Avicennia officinalis; NCBI TaxID: 1134458;
ModificationList	monohydroxylated residue; acetylated residue; methylthiolated residue
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2015-01-19 01:12:04	ID requested
⏵ 1	2015-07-20 06:28:53	announced

Tan WK, Ang Y, Lim TK, Lim TM, Kumar P, Loh CS, Lin Q, Proteome profile of salt gland-rich epidermis extracted from a salt-tolerant tree species. Electrophoresis, 36(19):2473-81(2015) [pubmed]

curator keyword: Technical

submitter keyword: Avicennia / mangrove / protein extraction/ phenol / salt gland-enriched tissues /1D-LC-MS/MS

Lin Qingsong
contact affiliation	Department of Biological Sciences, National University of Singapore 14 Science Drive 4 Singapore 117543
contact email	dbslinqs@nus.edu.sg
lab head
Wee-Kee Tan
contact affiliation	NUS Environmental Research Institute, National University of Singapore, 5A Engineering Drive 1, T-Lab, #02-01, Singapore 117411.
contact email	eritwk@nus.edu.sg
dataset submitter

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.pride.ebi.ac.uk/pride/data/archive/2015/07/PXD001691

PRIDE project URI

• PRIDE
  1. PXD001691
     1. Label: PRIDE project
     2. Name: An optimised protocol for protein extraction from salt gland-enriched tissues of a mangrove tree species for proteomic analysis