Reduced non-CpG methylation is a potential epigenetic target after spinal cord injury

作     者：Zhourui Wu Chen Li Ran Zhu Yiqiu Cao Thomas C.Chen Liming Cheng Zhourui Wu;Chen Li;Ran Zhu;Yiqiu Cao;Thomas C.Chen;Liming Cheng

作者机构：Key Laboratory of Spine and Spinal cord Injury Repair and Regeneration(Tongji University)Ministry of EducationShanghaiChina Division of SpineDepartment of OrthopedicsTongji HospitalTongji University School of MedicineShanghaiChina Institute of Spinal and Spinal Cord InjuryTongji University School of MedicineShanghaiChina Department of NeurosurgeryKeck School of MedicalUniversity of Southern CaliforniaLos AngelesCAUSA 

出 版 物：《Neural Regeneration Research》 (中国神经再生研究（英文版）)

年 卷 期：2023年第18卷第11期

页      面：2489-2496页

核心收录：

学科分类：1002[医学-临床医学] 100210[医学-外科学(含：普外、骨外、泌尿外、胸心外、神外、整形、烧伤、野战外)] 10[医学] 

基　　金：National Key Research and Development Program of China,No.2016YFA0100800(to LC) International(Regional)Cooperation and Communication Program of the National Natural Science Foundation of China,No.81820108013(to LC) State Key Program of the National Natural Science Foundation of China,No.81330030(to LC) National Natural Science Foundation of China,Nos.82071370(to ZW),81301042(to LC) Shanghai Pujiang Program,No.19PJ1409200(to ZW) Shanghai Sailing Program,No.21YF1442400(to CL) 

主　　题：CpG methylation cytosine fraction differentially methylated regions DNA methylation DNA methyltransferases dynamic signatures Gene Ontology non-CpG methylation single-cell RNA-Seq spinal cord injury 

摘      要：DNA methylation is a critical epigenetic regulator in the occurrence and development of diseases and is closely related to various functional responses in relation to spinal cord *** investigate the role of DNA methylation in spinal cord injury,we constructed a library with reduced-representation bisulfite sequencing data obtained at various time points(day 0-42)after spinal cord injury in *** DNA methylation levels,specifically non-CpG(CHG and CHH)methylation levels,decreased modestly following spinal cord *** post-spinal cord injury were classified as early(day 0-3),intermediate(day7-14),and late(day 28-42)based on similarity and hie rarchical cluste ring of global DNA methylation *** non-CpG methylation level,which included CHG and CHH methylation levels,was markedly reduced despite accounting for a minor proportion of total methylation *** multiple genomic sites,including the 5’untranslated regions,promoter,exon,intron,and 3’untranslated regions,the non-CpG methylation level was markedly decreased following spinal cord injury,whereas the CpG methylation level remained unchanged at these *** one-half of the differentially methylated regions were located in intergenic areas;the other differentially methylated regions in both CpG and non-CpG regions were cluste red in intron regions,where the DNA methylation level was *** function of genes associated with differentially methylated regions in promoter regions was also *** Gene Ontology analysis results,DNA methylation was implicated in a number of essential functional responses to spinal cord injury,including neuronal synaptic connection creation and axon ***,neither CpG methylation nor non-CpG methylation was implicated in the functional response of glial or inflammatory *** summary,our work elucidated the dynamic pattern of DNA methylation in the spinal co rd following injury and identified reduced nonCpG meth