PXD017891

PXD017891 is an original dataset announced via ProteomeXchange.

Title	Optimization of skeletal protein preparation for LC-MS/MS sequencing yields additional coral skeletal proteins in Stylophora pistillata
Description	Stony corals generate their calcium carbonate exoskeleton in a highly controlled biomineralization process mediated by a variety of macromolecules including proteins. Fully identifying and classifying these proteins is crucial to understanding their role in exoskeleton formation, yet no optimal method to extract and isolate and characterize coral skeletal proteins has been established and their complete composition remains obscure. Here, we tested four skeletal protein extraction protocols using acetone precipitation and ultrafiltration dialysis filters to present a comprehensive scleractinian coral skeletal proteome. We identified a total of 60 proteins in the coral skeleton, 44 of which were not present in previously published stony coral skeletal proteomes. Extracted protein treatment protocols carried out in this study revealed that there is no “one optimal method” and each protocol revealed a unique set of method-exclusive proteins. To better understand the general mechanism of skeletal protein transportation, we further examined the proteins’ gene ontology, transmembrane domains, and signal peptides. We found that transmembrane domain proteins and signal peptide secretion pathways, by themselves, could not explain the transportation of proteins to the skeleton . We therefore propose that proteins are transported to the skeletal via vesicles and possibly non-traditional secretion pathways.
HostingRepository	PRIDE
AnnounceDate	2020-06-16
AnnouncementXML	Submission_2020-06-16_00:56:23.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD017891
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	David Morgenstern
SpeciesList	scientific name: Stylophora pistillata; NCBI TaxID: 50429;
ModificationList	Deamidated; Oxidation; Acetyl; acetylated residue; monohydroxylated residue; Carbamidomethyl; Carboxy; iodoacetamide derivatized residue; deamidated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-03-05 01:22:24	ID requested
⏵ 1	2020-06-16 00:56:24	announced

Dataset with its publication pending

submitter keyword: Scleractinia, Cnidaria, centrifugal filtration, acetone precipitation, highly acidic proteins

Tali Mass
contact affiliation	Department of Marine Biology, University of Haifa, Israel
contact email	tmass@univ.haifa.ac.il
lab head
David Morgenstern
contact affiliation	Weizmann institute
contact email	david.morgenstern@weizmann.ac.il
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/2020/06/PXD017891

PRIDE project URI

• PRIDE
  1. PXD017891
     1. Label: PRIDE project
     2. Name: Optimization of skeletal protein preparation for LC-MS/MS sequencing yields additional coral skeletal proteins in Stylophora pistillata