PXD043061-1

PXD043061 is an original dataset announced via ProteomeXchange.

Title	Identification and characterization of ARID1A-interacting proteins in renal tubular cells and their molecular regulation of angiogenesis
Description	Defects and deficiency of AT-rich interactive domain-containing protein 1A (ARID1A) encoded by a tumor suppressor gene ARID1A have recently been suggested to get involved in angiogenesis, a crucial process in carcinogenesis. However, molecular mechanisms of ARID1A deficiency to induce angiogenesis in kidney cancer remain underinvestigated. Herein, we performed large-scale identification of ARID1A protein interactors in renal tubular epithelial cells (RTECs) and investigated their role in angiogenesis. Using immunoprecipitation (IP) followed by nanoLC-ESI-LTQ-Orbitrap tandem mass spectrometry (MS/MS), 74 ARID1A-interacting proteins were identified. Protein-protein interactions analysis revealed that these identified proteins interacted directly or indirectly with ARID1A. Among them, the direct interaction between ARID1A and β-actin was validated by IP and reciprocal IP followed by Western blotting. Small interfering RNA (siRNA) was used for single and double knockdowns of ARID1A and ACTB. Semi-quantitative RT-PCR demonstrated that deficiency of ARID1A, but not ACTB, significantly affected expression of angiogenesis-related genes in RTECs (VEGF and FGF2 were increased, whereas PDGF and EGF were decreased). However, the knockdowns did not affect TGFB1 and FGF1 levels. Only secreted products derived from ARID1A-deficient RTECs significantly increased endothelial cells (ECs) migration and tube formation. Double knockdowns of both ARID1A and ACTB did not enhance the effects of single ARID1A knockdown in all assays. In summary, we report herein a large dataset of the ARID1A-interacting proteins in RTECs using an IP-MS/MS approach and confirm the direct interaction between ARID1A and β-actin. However, the role of ARID1A deficiency in angiogenesis is independent of β-actin.
HostingRepository	PRIDE
AnnounceDate	2024-11-19
AnnouncementXML	Submission_2024-11-18_16:47:49.016.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD043061
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	No PTMs are included in the dataset
Instrument	LTQ Orbitrap XL

Revision	Datetime	Status	ChangeLog Entry
0	2023-06-16 09:03:55	ID requested
⏵ 1	2024-11-18 16:47:49	announced

10.1186/s12967-023-04750-y;

Yoodee S, Peerapen P, Plumworasawat S, Malaitad T, Thongboonkerd V, Identification and characterization of ARID1A-interacting proteins in renal tubular cells and their molecular regulation of angiogenesis. J Transl Med, 21(1):862(2023) [pubmed]

10.6019/PXD043061;

submitter keyword: Renal epithelial cells, Endothelial cells, Interacting proteins,Actin, Renal cancer, Tumor suppressor

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. PXD043061
     1. Label: PRIDE project
     2. Name: Identification and characterization of ARID1A-interacting proteins in renal tubular cells and their molecular regulation of angiogenesis