PXD008266

PXD008266 is an original dataset announced via ProteomeXchange.

Title	A proteomics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees
Description	Secretory Carrier-Associated Membrane Proteins (SCAMPs) are highly conserved 32–38 kDa proteins that are involved in membrane trafficking. A proteomics approach was taken to elucidate function of the SCAMPs in wood formation of transgenic Populus trees carrying an RNAi construct for Populus tremula x tremuloides SCAMP3 (PttSCAMP3; Potri.019G104000). Secondary xylem tissues were run on a SynaptTM G2 HDMS mass spectrometer equipped with a nanoflow electrospray ionization interface. Multivariate OnPLS (orthogonal projections to latent structures) modeling was applied to identify consistent changes in the proteomes of the transgenic lines compared to the wild type trees. The woody tissues of the transgenic trees displayed increased amounts of both polysaccharides and lignin oligomers, indicating increased deposition of both the carbohydrate and lignin components of the secondary cell walls. This coincided with slightly increased wood density as well as significantly increased thickness of the suberized cork in the transgenic lines. The OnPLS model identified a rather large number of proteins that were more abundant in the transgenic lines than in the wild type. Several of these were related to secretion and/or endocytosis as well as both primary and secondary cell wall biosynthesis, suggesting function of the Populus SCAMP proteins in membrane trafficking to fine-tune the abundance of cell wall precursors and/or proteins involved in cell wall biosynthesis and transport. The data provides a multi-level source of information for future studies on the function of the SCAMP proteins in plant stem tissues.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:42:03.126.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joakim Bygdell
SpeciesList	scientific name: Populus tremula x Populus tremuloides; NCBI TaxID: 47664;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Synapt G2 HDMS

Revision	Datetime	Status	ChangeLog Entry
0	2017-11-22 05:12:09	ID requested
1	2018-01-10 04:35:30	announced
2	2018-01-10 04:43:08	announced	Updated project metadata.
3	2019-03-06 02:11:27	announced	Updated project metadata.
⏵ 4	2024-10-22 04:42:08	announced	2024-10-22: Updated project metadata.

Obudulu O, M, ä, hler N, Skotare T, Bygdell J, Abreu IN, Ahnlund M, Latha Gandla M, Petterle A, Moritz T, Hvidsten TR, J, ö, nsson LJ, Wingsle G, Trygg J, Tuominen H, trees. BMC Genomics, 19(1):11(2018) [pubmed]

10.1186/s12864-017-4411-1;

curator keyword: Biological

submitter keyword: HDMSE, Wood formation,Populus, xylem

Hannele Tuominen
contact affiliation	Umeå Plant Science Centre, Department of Plant Physiology, Umeå University, 90187 Umeå, Sweden
contact email	hannele.tuominen@umu.se
lab head
Joakim Bygdell
contact affiliation	Computational Life Science Cluster (CLiC), Deptartment of Chemistry, Umeå University
contact email	joakim.bygdell@umu.se
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD008266
     1. Label: PRIDE project
     2. Name: A proteomics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees