Proteomics and transcriptomics explore the effect of mixture of herbal extract on diabetic wound healing process

Liu, Yang; Zhang, Xi; Yang, Liping; Zhou, Shuai; Li, Yuewei; Shen, Yiyu; Lu, Shengli; Zhou, Jianda; Liu, Yu

doi:10.1016/j.phymed.2023.154892

Cited by 11 publications

(4 citation statements)

References 72 publications

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“…Transcriptomics and proteomics studies and KEGG enrichment analysis have shown that MHE activates the autophagy pathway, mTOR signalling pathway and PI3k‐Akt signalling pathway. 70 It has also been shown that emodin protects PC‐12 cells from high glucose‐induced cell apoptosis and autophagy. The neuroprotective effect may be achieved by upregulating miR‐9, and regulating the PI3K/AKT and NF‐kB signalling pathways.…”

Section: Autophagy In Dfusmentioning

confidence: 99%

The role of programmed cell death in diabetic foot ulcers

Li,

Jiang,

Xia

2023

International Wound Journal

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Diabetic foot ulcer, is a chronic complication afflicting individuals with diabetes, continue to increase worldwide, immensely burdening society. Programmed cell death, which includes apoptosis, autophagy, ferroptosis, necroptosis and pyroptosis, has been increasingly implicated in the pathogenesis of diabetic foot ulcer. This review is based on an exhaustive examination of the literature on ‘programmed cell death’ and ‘diabetic foot ulcers’ via PubMed. The findings revealed that natural bioactive compounds, noncoding RNAs and certain proteins play crucial roles in the healing of diabetic foot ulcers through various forms of programmed cell death, including apoptosis, autophagy, ferroptosis and pyroptosis.

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Section: Autophagy In Dfusmentioning

confidence: 99%

The role of programmed cell death in diabetic foot ulcers

Li,

Jiang,

Xia

2023

International Wound Journal

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“…Proteomics and transcriptomics represent high-throughput omic technologies that have been harnessed to explore new pathological mechanisms and potential therapeutic targets for many diseases. − Specifically, a combination of transcriptomic and proteomic approaches − can screen molecules that undergo significant changes at the transcriptional or protein level. This approach is not limited to individual genes or proteins and reflects their inter-regulatory relationships to a certain extent, providing systematic insights into the disease-related pathological changes.…”

Section: Introductionmentioning

confidence: 99%

Combined Transcriptomic and Proteomic Profiling of the Mouse Anterior Cingulate Cortex Identifies Potential Therapeutic Targets for Pulpitis-Induced Pain

Kang,

Si,

Zhang

et al. 2024

ACS Omega

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Pulpitis is a common dental emergency that presents with intense pain; there is still no specific medicine to treat pulpitis-induced pain to date. Herein, differentially expressed genes in mouse anterior cingulate cortex (ACC) were investigated 7 days after pulp exposure via a combination of high-throughput transcriptomic and proteomic analyses. We screened 34 key genes associated with 8 critical pathways. Among these, genes (Elovl5, Ikbke, and Nbeal2) involved in immune or inflammatory responses exhibited exclusive regulation at the transcriptomic level, as confirmed by qRT-PCR. We also investigated the comprehensive expression profiles of genes (Erg1, Shank2, Bche, Serinf1, and Pax6) related to synaptic plasticity. Furthermore, the underlying mechanisms for pulpitis-induced pain through immune or inflammatory responses and synaptic plasticity were discussed. Taken together, our findings shed light on the mechanisms underlying pulpitis-induced pain, deepening our understanding of the molecular pathways and providing potential therapeutic and diagnostic targets.

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“…In previous studies, we successfully established an animal model of rotator cuff tendinopathy in diabetic rats by comparing the histological and biomechanical changes of supraspinatus tendon at 2,4,8 and 12 weeks after diabetes induction [ 13 ]. More and more studies have explored the changes of gene transcription in diabetes-related complications through transcriptomics technology, and most of them have used rat models as experimental objects [ 14 – 17 ], so the rat model can be used as experimental objects close to the human model. In this study, we collected tendons of the supraspinatus tendon from T2DM and normal rats and then performed transcriptome sequencing.…”

Section: Introductionmentioning

confidence: 99%

Transcriptomics reveals dynamic changes in the “gene profiles” of rat supraspinatus tendon at three different time points after diabetes induction

Xu,

Zhang,

Wang

et al. 2024

BMC Med Genomics

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Objective There is increasing evidence that type 2 diabetes mellitus (T2DM) is an independent risk factor for the occur of tendinopathy. Therefore, this study is the first to explore the dynamic changes of the “gene profile” of supraspinatus tendon in rats at different time points after T2DM induction through transcriptomics, providing potential molecular markers for exploring the pathogenesis of diabetic tendinopathy. Methods A total of 40 Sprague-Dawley rats were randomly divided into normal (NG, n = 10) and T2DM groups (T2DM, n = 30) and subdivided into three groups according to the duration of diabetes: T2DM-4w, T2DM-8w, and T2DM-12w groups; the duration was calculated from the time point of T2DM rat model establishment. The three comparison groups were set up in this study, T2DM-4w group vs. NG, T2DM-8w group vs. NG, and T2DM-12w group vs. NG. Differentially expressed genes (DEGs) in 3 comparison groups were screened. The intersection of the three comparison groups’ DEGs was defined as key genes that changed consistently in the supraspinatus tendon after diabetes induction. Cluster analysis, gene ontology (GO) functional annotation analysis and Kyoto encyclopedia of genes and genomes (KEGG) functional annotation and enrichment analysis were performed for DEGs. Results T2DM-4w group vs. NG, T2DM-8w group vs. NG, and T2DM-12w group vs. NG detected 519 (251 up-regulated and 268 down-regulated), 459 (342 up-regulated and 117 down-regulated) and 328 (255 up-regulated and 73 down-regulated) DEGs, respectively. 103 key genes of sustained changes in the supraspinatus tendon following induction of diabetes, which are the first identified biomarkers of the supraspinatus tendon as it progresses through the course of diabetes.The GO analysis results showed that the most significant enrichment in biological processes was calcium ion transmembrane import into cytosol (3 DEGs). The most significant enrichment in cellular component was extracellular matrix (9 DEGs). The most significant enrichment in molecular function was glutamate-gated calcium ion channel activity (3 DEGs). The results of KEGG pathway enrichment analysis showed that there were 17 major pathways (p < 0.05) that diabetes affected supratinusculus tendinopathy, including cAMP signaling pathway and Calcium signaling pathway. Conclusions Transcriptomics reveals dynamic changes in the“gene profiles”of rat supraspinatus tendon at three different time points after diabetes induction. The 103 DEGs identified in this study may provide potential molecular markers for exploring the pathogenesis of diabetic tendinopathy, and the 17 major pathways enriched in KEGG may provide new ideas for exploring the pathogenesis of diabetic tendinopathy.

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Proteomics and transcriptomics explore the effect of mixture of herbal extract on diabetic wound healing process

Cited by 11 publications

References 72 publications

The role of programmed cell death in diabetic foot ulcers

The role of programmed cell death in diabetic foot ulcers

Combined Transcriptomic and Proteomic Profiling of the Mouse Anterior Cingulate Cortex Identifies Potential Therapeutic Targets for Pulpitis-Induced Pain

Transcriptomics reveals dynamic changes in the “gene profiles” of rat supraspinatus tendon at three different time points after diabetes induction

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