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Evaluation of genetic response of mesenchymal stem cells to nanosecond pulsed electric fields by whole transcriptome sequencing

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World Journal of Stem Cells 2024年第3期16卷 305-323页

作者： Jian-Jing Lin Tong Ning Shi-Cheng Jia Ke-Jia Li Yong-Can Huang Qiang Liu Jian-Hao Lin Xin-Tao Zhang Department of Sports Medicine and Rehabilitation Peking University Shenzhen HospitalShenzhen 518036Guangdong ProvinceChina Institute of Medical Science The Second HospitalCheeloo College of MedicineShandong UniversityJinan 250033Shandong ProvinceChina Department of Biomedical Engineering Institute of Future TechnologyPeking UniversityBeijing 100871China Shenzhen Engineering Laboratory of Orthopaedic Regenerative Technologies Peking University Shenzhen HospitalShenzhen 518036Guangdong ProvinceChina Arthritis Clinical and Research Center Peking University People’s HospitalBeijing 100044China

BACKGROUND Mesenchymal stem cells(MSCs)modulated by various exogenous signals have been applied extensively in regenerative medicine ***,nanosecond pulsed electric fields(nsPEFs),characterized by short duration and high strength,significantly influence cell phenotypes and regulate MSCs differentiation via multiple ***,we used transcriptomics to study changes in messenger RNA(mRNA),long noncoding RNA(lncRNA),microRNA(miRNA),and circular RNA expression during nsPEFs *** To explore gene expression profiles and potential transcriptional regulatory mechanisms in MSCs pretreated with *** The impact of nsPEFs on the MSCs transcriptome was investigated through whole transcriptome *** were pretreated with 5-pulse nsPEFs(100 ns at 10 kV/cm,1 Hz),followed by total RNA *** transcript was normalized by fragments per kilobase per *** change and difference significance were applied to screen the differentially expressed genes(DEGs).Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses were performed to elucidate gene functions,complemented by quantitative polymerase chain reaction *** In total,263 DEGs were discovered,with 92 upregulated and 171 *** were predominantly enriched in epithelial cell proliferation,osteoblast differentiation,mesenchymal cell differentiation,nuclear division,and wound *** cellular components,DEGs are primarily involved in condensed chromosome,chromosomal region,actin cytoskeleton,and *** aspect of molecular functions,DEGs are mainly involved in glycosaminoglycan binding,integrin binding,nuclear steroid receptor activity,cytoskeletal motor activity,and steroid *** real-time polymerase chain reaction confirmed targeted transcript *** Our systematic investigation of the wide-ranging transcriptional pattern modulated by nsPEFs revealed the differential expression of 26

关键词： Nanosecond pulsed electric fields whole transcriptome sequencing Mesenchymal stem cells Genetic response Stem cell engineering

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whole transcriptome analysis of RNA expression profiles reveals the potential regulating action of long noncoding RNA in lactating cows fed a high concentrate diet

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Animal Nutrition 2021年第4期7卷 1315-1328页

作者： Qu Chen Chen Wu Zhihao Yao Liuping Cai Yingdong Ni Shengyong Mao Ruqian Zhao Key Laboratory of Animal Physiology&Biochemistry Nanjing Agricultural UniversityNanjing 210095China Laboratory of Gastrointestinal Microbiology Jiangsu Key Laboratory of Gastrointestinal Nutrition and Animal HealthCollege of Animal Science and TechnologyNanjing Agricultural UniversityNanjing 210095China

Subacute ruminal acidosis(SARA)is a common metabolic disease in the dairy farming industry which is usually caused by an excessive amount of high concentrate *** not only threatens animal welfare but also leads to economic losses in the farming *** liver plays an important role in the distribution of nutritional substances and metabolism;however,a high concentrate diet can cause hepatic metabolic disorders and liver ***,noncoding RNA has been considered as a critical regulator of hepatic disease,however,its role in the bovine liver is *** this study,12 mid-lactating dairy cows were randomly assigned to a control(CON)group(40% concentrate of dry matter,n=6)and a SARA group(60% concentrate of dry matter,n=6).After 21 d of treatment,all cows were sacrificed,and liver tissue samples were *** dairy cows were randomly selected from the CON and SARA groups respectively to perform whole transcriptome *** than 20,000 messenger RNA(mRNA),10,000 long noncoding RNA(lncRNA),3,500 circular RNA(circRNA)and 1,000 micro RNA(miRNA)were ***,43 mRNA,121 lncRNA and 3 miRNA were differentially expressed,whereas no obvious differentially expressed circRNA were detected between the 2 *** Ontology(GO)annotation revealed that the differentially expressed genes were mainly enriched in oxidoreductase activity,stress,metabolism,the immune response,cell apoptosis,and cell *** Encyclopedia of Genes and Genomes(KEGG)enrichment analysis showed that the deferentially expressed genes were highly enriched in the phosphatidylinositol 3 kinase(PI3) K-serine/threonine kinase(AKT)signaling pathway(P<0.05).According to KEGG pathway analysis,the differentially expressed lncRNA(DElncRNA)target genes were mainly related to proteasomes,peroxisomes,and the hypoxia-inducible factor-1 signaling pathway(P<0.005).Further bioinformatics and integrative analyses revealed that the lncRNA were strongly correlated with mRN

关键词： whole transcriptome sequencing Liver High concentrate diet Dairy cow

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whole transcriptome analysis on blue light-induced eye damage

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International Journal of Ophthalmology(English edition) 2020年第8期13卷 1210-1222页

作者： Xin-Li Ouyang Bo-Yu Chen Yong-Fang Xie Yi-De Wu Shao-Jia Guo Xiao-Yun Dong Guo-Hui Wang Key Laboratory of Biological Medicines in Universities of Shandong Province Weifang Medical UniversityWeifang 261053Shandong ProvinceChina Shijiazhuang Aier Eye Hospital Bethune International Peace Hospital of PLAShijiazhuang 050082Hebei ProvinceChina

AIM:To analyze abnormal gene expressions of mice eyes exposed to blue light using RNA-seq and analyze the related signaling ***:Kunming mice were divided into an experimental group that was exposed to blue light and a control group that was exposed to natural *** 14 d,the mice were euthanized and their eyeballs were *** transcriptome analysis was attempted to analyze the gene expression of the eyeballs using RNA-seq to reconstruct genetic *** Ontology(GO)and Kyoto Encyclopedia of Genes and Genomes(KEGG)analysis were used to reveal the related signaling ***:The 737 differentially expressed genes were identified,including 430 up and 307 down regulated genes,by calculating the gene FPKM in each sample and conducting differential gene *** and KEGG pathway enrichment analysis showed that blue light damage may associated with the visual perception,sensory perception of light stimulus,phototransduction,and JAKSTAT signaling *** lnc RNA,circ RNA and mi RNA analysis showed that blue light exposure affected pathways for retinal cone cell development and phototransduction,among ***:Exposure to blue light can cause a certain degree of abnormal gene expression and modulate signaling pathways in the eye.

关键词： blue light eye whole transcriptome sequencing gene expression signaling pathways mice

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