PXD011136

PXD011136 is an original dataset announced via ProteomeXchange.

Title	Uncovering nutrient-regulated surface proteins using stable isotope labeling with amino acids in cell culture (SILAC) proteomics
Description	The presence of a protein at the cell surface is regulated by the exocytic and endocytic membrane trafficking pathways. We have recently discovered that the nutrient, or amino acids, plays a substantial role in promoting the endocytic membrane trafficking. Here we ask if the nutrient can regulate the cell surface presentation of proteins, which has not been addressed in the literature according to our knowledge. To that end, HeLa cells are labeled with heavy and light isotopes. In the forward labeling experiment, heavy and light cells are treated with DMEM and HBSS for 2 hours respectively. Cells are surface-biotinylated and are subsequently mixed, lysed and subjected to affinity purification by Streptavidin beads. Reverse labeling experiment is identically performed except that heavy and light cells are treated with HBSS and DMEM respectively. Our proteomics data demonstrate that many cell surface exposed proteins, such as signaling receptors, ligands, extracellular matrix proteins, trans-Golgi network cargo adaptor proteins and Golgi enzymes, can be regulated by the nutrient. Our study implies that the nutrient might play essential roles in intracellular membrane trafficking and in shaping a cell’s interactions with its environment.
HostingRepository	PRIDE
AnnounceDate	2019-04-03
AnnouncementXML	Submission_2019-04-03_04:28:21.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Bamaprasad Dutta
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-09-18 06:37:31	ID requested
⏵ 1	2019-04-03 04:28:22	announced

Shi M, Chen B, Mahajan D, Boh BK, Zhou Y, Dutta B, Tie HC, Sze SK, Wu G, Lu L, Amino acids stimulate the endosome-to-Golgi trafficking through Ragulator and small GTPase Arl5. Nat Commun, 9(1):4987(2018) [pubmed]

submitter keyword: SILAC, LC-MS/MS, Surface protein, membrane trafficking

Siu Kwan SZE
contact affiliation	Nanyang Technological University
contact email	sksze@ntu.edu.sg
lab head
Bamaprasad Dutta
contact affiliation	Nanyang Technological University
contact email	Bama0001@e.ntu.edu.sg
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD011136
     1. Label: PRIDE project
     2. Name: Uncovering nutrient-regulated surface proteins using stable isotope labeling with amino acids in cell culture (SILAC) proteomics