PXD045313

PXD045313 is an original dataset announced via ProteomeXchange.

Title	Caffeine causes cell cycle arrest at G0/G1 and increases of ubiquitinated proteins, ATP and mitochondrial membrane potential in renal cells
Description	Caffeine is a well-known purine alkaloid commonly found in coffee. Several lines of previous and recent evidence have shown that habitual coffee drinking is associated with lower risks for chronic kidney disease (CKD) and nephrolithiasis. However, cellular and molecular mechanisms underlying its renoprotective effects remain largely unknown due to a lack of knowledge on cellular adaptive response to caffeine. This study investigated cellular adaptive response of renal tubular cells to caffeine at the protein level. Cellular proteome of MDCK cells treated with caffeine at a physiologic concentration (100 μM) for 24 h was analyzed comparing with that of untreated cells by label-free quantitative proteomics. From a total of 936 proteins identified, comparative analysis revealed significant changes in levels of 148 proteins induced by caffeine. These significantly altered proteins were involved mainly in proteasome, ribosome, tricarboxylic acid (TCA) (or Krebs) cycle, DNA replication, spliceosome, biosynthesis of amino acid, carbon metabolism, nucleocytoplasmic transport, cell cycle, cytoplasmic translation, translation initiation, and mRNA metabolic process. Functional validation by various assays confirmed that caffeine decreased cell population at G2/M, increased cell population at G0/G1, increased level of ubiquitinated proteins, increased intracellular ATP and enhanced mitochondrial membrane potential in MDCK cells. These data may help unravelling molecular mechanisms underlying the biological effects of caffeine on renal tubular cells at cellular and protein levels.
HostingRepository	PRIDE
AnnounceDate	2023-12-11
AnnouncementXML	Submission_2023-12-11_01:52:36.639.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD045313
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Visith Thongboonkerd
SpeciesList	scientific name: Canis familiaris (Dog) (Canis lupus familiaris); NCBI TaxID: 9615;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-12 08:16:51	ID requested
⏵ 1	2023-12-11 01:52:37	announced

10.6019/PXD045313;

10.1016/j.csbj.2023.09.023;

Kanlaya R, Subkod C, Nanthawuttiphan S, Thongboonkerd V, Caffeine causes cell cycle arrest at G0/G1 and increases of ubiquitinated proteins, ATP and mitochondrial membrane potential in renal cells. Comput Struct Biotechnol J, 21():4552-4566(2023) [pubmed]

submitter keyword: CKD

Coffee

Energy

Kidney

Metabolism

Nephrolithiasis

Proteomics

Renoprotection

Prof. Visith Thongboonkerd
contact affiliation	Medical Proteomics Unit, Research Department, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand
contact email	vthongbo@yahoo.com
lab head
Visith Thongboonkerd
contact affiliation	Mahidol University
contact email	sirirajms@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD045313
     1. Label: PRIDE project
     2. Name: Caffeine causes cell cycle arrest at G0/G1 and increases of ubiquitinated proteins, ATP and mitochondrial membrane potential in renal cells