PXD015212-1

PXD015212 is an original dataset announced via ProteomeXchange.

Title	Co-immunoprecipitation of FAMA-interacting proteins in Arabidopsis thaliana seedlings
Description	Identifying interaction partners and protein complex compositions for transcription factors (TFs) can produce valuable information on the mechanisms by which they regulate gene expression or are themselves regulated by signaling pathways in the cell. FAMA is a TF that is specifically expressed in the last stages of stomatal guard cell development in the epidermis of young leaves and other aerial tissues of higher plants. It is a master regulator of guard cell development and promotes terminal differentiation of the guard cell precursor by both activating and repressing hundreds of genes. How this is achieved mechanistically is still unclear. We therefore isolated putative FAMA interaction partners from young Arabidopsis seedlings expressing FAMA-CFP under the FAMA promoter using proteasome inhibitor treatment and formaldehyde crosslinking, followed by a classical co-immunoprecipitation mass spectrometry approach. Plants expressing nuclear GFP under a stomatal lineage specific promoter were used as controls. In two independent experiments with different crosslinking and immunoprecipitation conditions, we found ICE1, a known heterodimerization partner of FAMA, to be enriched in FAMA-CFP versus control samples. Other proteins with known transcriptional regulator or co-regulator function were not identified, presumably due to the low abundance of the bait protein. The interaction of FAMA with BRXL2, another regulator of guard cell development, which was detected in one experiment, is likely an artifact since BRXL2 does not localize to the nucleus under normal conditions.
HostingRepository	PRIDE
AnnounceDate	2019-09-26
AnnouncementXML	Submission_2019-09-26_08:25:04.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Shouling Xu
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-08-29 04:22:52	ID requested
⏵ 1	2019-09-26 08:25:05	announced
2	2024-10-22 04:57:34	announced	2024-10-22: Updated project metadata.

Mair A, Xu SL, Branon TC, Ting AY, Bergmann DC, enabled by TurboID. Elife, 8():(2019) [pubmed]

submitter keyword: Plant, seedling, Arabidopsis thaliana, bHLH transcription factor, FAMA, stomatal guard cell, interaction partners, co-immunoprecipitation, LC-MS/MS

Shouling Xu
contact affiliation	Carnegie Mass Spectometry facility Carnegie Science at Stanford
contact email	sxu@ciw.edu
lab head
Shouling Xu
contact affiliation	Carnegie Institution at Stanford
contact email	sxu@ciw.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD015212
     1. Label: PRIDE project
     2. Name: Co-immunoprecipitation of FAMA-interacting proteins in Arabidopsis thaliana seedlings