Identification of temporal genes involved in the mechanisms of spinal cord injury

Ma, Siyue; Wang, J; Liu, L; Xia, Liangping; Tao, Rong

doi:10.1038/sc.2016.183

Cited by 6 publications

(5 citation statements)

References 45 publications

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“…The statistically significant DEGs were acquired by utilizing the "DEseq" package (Wang et al, 2010), and set adjusted P-value (FDR) < 0.05 and |log2 (fold change (FC)) | > 1 as inclusion criteria. Then a hierarchical clustering analysis was performed using the "gplots" package (Ma et al, 2017) in R/Bioconductor software based on the expression level of DEGs in different groups, and colors represent different clustering information.…”

Section: Differential Expression Analysismentioning

confidence: 99%

Identification of SPRR3 as a novel diagnostic/prognostic biomarker for oral squamous cell carcinoma via RNA sequencing and bioinformatic analyses

Yang

Liu

et al. 2020

PeerJ

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Oral squamous cell carcinoma (OSCC) has always been one of the most aggressive and invasive cancers among oral and maxillofacial malignancies. As the morbidity and mortality of the disease have increased year by year, the search for a promising diagnostic and prognostic biomarker for the disease is becoming increasingly urgent. Tumorous and adjacent tissues were collected from three OSCC sufferers and we obtained 229 differentially expressed genes (DEGs) between tumor and normal tissues via high-throughput RNA sequence. Function and pathway enrichment analyses for DEGs were conducted to find a correlation between tumorigenesis status and DEGs. Protein interaction network and molecular complex detection (MCODE) were constructed to detect core modules. Two modules were enriched in MCODE. The diagnostic and prognostic values of the candidate genes were analyzed, which provided evidence for the candidate genes as new tumor markers. Small Proline Rich Protein 3 (SPRR3), a potential tumor marker that may be useful for the diagnosis of OSCC, was screened out. The survival analysis showed that SPRR3 under expression predicted the poor prognosis of OSCC patients. Further experiments have also shown that the expression of SPRR3 decreased as the malignancy of OSCC increased. Therefore, we believe that SPRR3 could be used as a novel diagnostic and prognostic tumor marker.

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Section: Differential Expression Analysismentioning

confidence: 99%

Identification of SPRR3 as a novel diagnostic/prognostic biomarker for oral squamous cell carcinoma via RNA sequencing and bioinformatic analyses

Yang

Liu

et al. 2020

PeerJ

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“…Transcriptional changes after SCI have been extensively studied in lean animals (21,31,37); therefore, in the present study, we used a clinically relevant rat model of spinal contusion injury coupled with diet-induced obesity to determine gene expression changes to the cord. Specifically, after either a thoracic spinal cord injury (tSCI) or sham laminectomy (sham), animals were allowed to recover on regular chow diet for 4 wk and then provided a high-fat diet (HFD) for an additional 8 wk sufficient to produce obesity.…”

mentioning

confidence: 99%

Chronic spinal cord changes in a high-fat diet-fed male rat model of thoracic spinal contusion

Spann

Lawson

Grill

et al. 2017

Physiological Genomics

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Individuals that suffer injury to the spinal cord can result in long-term, debilitating sequelae. Spinal cord-injured patients have increased risk for the development of metabolic disease, which can further hinder the effectiveness of treatments to rehabilitate the cord and improve quality of life. In the present study, we sought to understand the impact of high-fat diet (HFD)-induced obesity on spinal cord injury (SCI) by examining transcriptome changes in the area of the injury and rostral and caudal to site of damage 12 wk after injury. Adult, male Long-Evans rats received either thoracic level contusion of the spinal cord or sham laminectomy and then were allowed to recover on normal rat chow for 4 wk and further on HFD for an additional 8 wk. Spinal cord tissues harvested from the rats were processed for Affymetrix microarray and further transcriptomic analysis. Diverse changes in gene expression were identified in the injured cord in genes such as MMP12, APOC4, GPNMB, and IGF1 and 2. The greatest signaling changes occurred in pathways involved in cholesterol biosynthesis and immune cell trafficking. Together, the cord changes in the chronically obese rat following thoracic SCI reveal further potential targets for therapy. These could be further explored as they overlap with genes involved in metabolic disease.

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“…To demonstrate the effect of SynCAM3 deletion, we evaluated the relationship between SynCAM3 and gene expression in the injured cord. The heat map visually showed dynamic changes in the expression of all genes at 2, 4, 7, and 14 DPI ( Figure 1 C) [ 34 , 35 ]. It was confirmed that the most genetic changes occurred at seven DPI, when the expression of SynCAM3 was the lowest after SCI.…”

Section: Resultsmentioning

confidence: 99%

Synaptic Cell Adhesion Molecule 3 (SynCAM3) Deletion Promotes Recovery from Spinal Cord Injury by Limiting Glial Scar Formation

Song

Kwon

Kyung

et al. 2022

IJMS

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Synaptic cell adhesion molecules (SynCAMs) play an important role in the formation and maintenance of synapses and the regulation of synaptic plasticity. SynCAM3 is expressed in the synaptic cleft of the central nervous system (CNS) and is involved in the connection between axons and astrocytes. We hypothesized that SynCAM3 may be related to the astrocytic scar (glial scar, the most important factor of CNS injury treatment) through extracellular matrix (ECM) reconstitution. Thus, we investigated the influence of the selective removal of SynCAM3 on the outcomes of spinal cord injury (SCI). SynCAM3 knock-out (KO) mice were subjected to moderate compression injury of the lower thoracic spinal cord using wild-type (WT) (C57BL/6JJc1) mice as controls. Single-cell RNA sequencing analysis over time, quantitative real-time polymerase chain reaction (qRT-PCR) analysis, and immunohistochemistry (IHC) showed reduced scar formation in SynCAM3 KO mice compared to WT mice. SynCAM3 KO mice showed improved functional recovery from SCI by preventing the transformation of reactive astrocytes into scar-forming astrocytes, resulting in improved ECM reconstitution at four weeks after injury. Our findings suggest that SynCAM3 could be a novel therapeutic target for SCI.

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Identification of temporal genes involved in the mechanisms of spinal cord injury

Abstract: Several temporal genes, including TGFβ2, TGFβ3, ALDH2, ALDH3A2, ARG1 and NOS3, might be involved in SCI.

Cited by 6 publications

References 45 publications

Identification of SPRR3 as a novel diagnostic/prognostic biomarker for oral squamous cell carcinoma via RNA sequencing and bioinformatic analyses

Identification of SPRR3 as a novel diagnostic/prognostic biomarker for oral squamous cell carcinoma via RNA sequencing and bioinformatic analyses

Chronic spinal cord changes in a high-fat diet-fed male rat model of thoracic spinal contusion

Synaptic Cell Adhesion Molecule 3 (SynCAM3) Deletion Promotes Recovery from Spinal Cord Injury by Limiting Glial Scar Formation

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