PXD045752

PXD045752 is an original dataset announced via ProteomeXchange.

Title	Multiplexing of TMT labeling reveals folate deficient diet specific proteome changes in NTDs
Description	Background: In the early stage of embryonic development, the neural tube (NT) cannot be closed properly due to some complex factors such as, environmental factors, genetic factors and the relationship between various factors, leading to the occurrence of neural tube defects (NTDs). Methods: In this study, we induced the mouse model of NTDs by feeding mice a low-folate diet and injecting 1.5mg/kg methotrexate on E7.5. Fetal mice were achieved at E13.5, then we extracted proteins from brain tissue with trypsin digestion. After enzymatic digestion, peptides were labeled with TMT/iTRAQ and then separated in high-performance liquid chromatography (HPLC) for subsequent LC-MS/MS analysis. To analyze the functional enrichment of differentially expressed proteins(DEPs) in the NTDs mice tissues with low folate induction, we used Gene Ontology(GO) and Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway annotation to analyze proteomic changes. Results: Low folate induced mouse model was successfully constructed. Folate was used as a sensitizing agent, the teratogenicity rate of the NTDs fetal mice was increased to 36.5% when methotrexate was injected to maternal mice at E7.5. 6614 proteins were identified by mass spectrometry, among them, 5656 proteins were quantified. In the following proteomic analysis, GO classification and KEGG pathway enrichment analysis were conducted, and heatmaps were drawn for differentially expressed proteins(DEPs). Moreover, the main pathways associated with NTDs, such as Hedgehog, Wnt, p53, Hippo signaling pathways, and one carbon pool by folate, can be identified through the generation of a protein-protein interaction (PPI) network. It was also found that the regulation of ribosomal proteins has a certain impact on neural tube development, such as RPL13 and RPL14, which are upregulated in NTDs. Conclusions: Our results revealed proteomic changes in the tissues of low folate induced NTDs mice, as well as validation showed that ribosomal proteins play a regulatory role during the development of NTDs, it provides new ideas for the pathogenesis and preventive measures of NTDs.
HostingRepository	PRIDE
AnnounceDate	2024-03-12
AnnouncementXML	Submission_2024-03-11_20:42:19.917.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Shan Wang
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-27 22:35:47	ID requested
⏵ 1	2024-03-11 20:42:20	announced

10.3389/FCELL.2024.1294726;

submitter keyword: Neural tube defects

Proteomics

Folate deficiency

Ribosome

RPL13

RPL14

Neural tube development

Shan Wang
contact affiliation	Capital Institute of Pediatrics, Beijing
contact email	13726256164@163.com
lab head
Shan Wang
contact affiliation	Capital Institute of Pediatrics, Beijing, China
contact email	wsaquarius@163.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD045752
     1. Label: PRIDE project
     2. Name: Multiplexing of TMT labeling reveals folate deficient diet specific proteome changes in NTDs