Integrated bioinformatics analysis identifies the effects of Sema3A/NRP1 signaling in oligodendrocytes after spinal cord injury in rats

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Biochemistry, Biophysics and Molecular Biology

Main article text

 

Introduction

Materials and Methods

Analysis method of the data spectrum

Data download and processing

Identification of DEGs

Functional enrichment analysis

Protein-protein interaction (PPI) network analysis

Animals

SCI rat model establishment

Virus injection

Nissl staining

Real-time quantitative PCR (qPCR) analysis

Western blotting

Immunofluorescence staining

Behavioral testing

Statistical analyses

Results

The expression of OLs and PDGFR α after SCI

Increased expression of Sema3A and NRP1 after SCI

Analysis of the function and pathway of DEGs in SCI model rats

Sema3A regulates the expression of NRP1 after SCI

Sema3A/NRP1 signaling regulates the expression of PDGFR α and OLs

Inhibition of Sema3A/NRP1 signaling promotes function recovery after SCI

Discussion

Supplemental Information

Schematic of viral injection

(a) Schematic diagram of virus injection location (b-d) represents the transfection effect of spinal cord T9, T10 and T11 viruses after injection.

DOI: 10.7717/peerj.13856/supp-1

PPI network analysis

PPI network analysis of the DEGs. Green represents downregulated diûerential genes, red represents upregulated diûerential genes and blue represents key genes. Gray lines represent the protein interaction relationships.

DOI: 10.7717/peerj.13856/supp-2

NRP1 involved in KEGG

all NRP1-involved pathways that we summarized from all pathway enrichment results.

DOI: 10.7717/peerj.13856/supp-3

Construction of viral plasmid

DOI: 10.7717/peerj.13856/supp-5

ARRIVE checklist

DOI: 10.7717/peerj.13856/supp-6

GO analysis R code

DOI: 10.7717/peerj.13856/supp-7

KEGG analysis R code

DOI: 10.7717/peerj.13856/supp-8

WB original bands

DOI: 10.7717/peerj.13856/supp-10

PCR original data

DOI: 10.7717/peerj.13856/supp-11

Original data and statistical report of each graph

DOI: 10.7717/peerj.13856/supp-12

Additional Information and Declarations

Competing Interests

The authors declare there are no competing interests.

Author Contributions

Rong Hu conceived and designed the experiments, performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the article, and approved the final draft.

Mengting Shi conceived and designed the experiments, analyzed the data, prepared figures and/or tables, and approved the final draft.

Haipeng Xu conceived and designed the experiments, performed the experiments, analyzed the data, authored or reviewed drafts of the article, and approved the final draft.

Xingying Wu conceived and designed the experiments, prepared figures and/or tables, and approved the final draft.

Kelin He conceived and designed the experiments, analyzed the data, authored or reviewed drafts of the article, and approved the final draft.

Yi Chen conceived and designed the experiments, prepared figures and/or tables, and approved the final draft.

Lei Wu analyzed the data, authored or reviewed drafts of the article, and approved the final draft.

Ruijie Ma performed the experiments, analyzed the data, authored or reviewed drafts of the article, and approved the final draft.

Animal Ethics

The following information was supplied relating to ethical approvals (i.e., approving body and any reference numbers):

Zhejiang Chinese Medical University provided full approval for this research (IACUC-20190128-02).

Data Availability

The following information was supplied regarding data availability:

Raw data is available at NCBI: GSE45006.

Funding

This work was supported by the National Natural Science Foundation of China (No. 82174487); Zhejiang Provincial Program for the Cultivation of High-level Innovative Health Talents; Zhejiang Chinese Medical University Research Fund. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

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