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

Neural Regeneration Research 2023年第11期18卷 2489-2496页

作者： zhourui wu Chen Li Ran Zhu Yiqiu Cao Thomas C.Chen Liming Cheng Key Laboratory of Spine and Spinal cord Injury Repair and Regeneration(Tongji University) Ministry of EducationShanghaiChina Division of Spine Department of OrthopedicsTongji HospitalTongji University School of MedicineShanghaiChina Institute of Spinal and Spinal Cord Injury Tongji University School of MedicineShanghaiChina Department of Neurosurgery Keck School of MedicalUniversity of Southern CaliforniaLos AngelesCAUSA

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

关键词： 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

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Physiochemical and biological characteristics of fouling on landfill leachate treatment systems surface

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Journal of Environmental Sciences 2024年第1期135卷 59-71页

作者： zhourui Gong Shu Yang Rui Zhang Yangqing Wang Xiaoqing wu Liyan Song School of resources and environmental engineering Anhui UniversityHefei 230601China Anhui Shengjin Lake Wetland Ecology National Long-term Scientific Research Base Dongzhi 247230China Key Laboratory of Three Gorges Reservoir Region’s Eco-Environment Ministry of EducationChongqing UniversityChongqing 400045China Chongqing Institute of Green and Intelligent Technology Chinese Academy of SciencesChongqing 400714China Xing Lu Huan Jing Co.LTD. Luzhou 646000China

Fouling of landfill leachate,a biofilm formation process on the surface of the collection system,migration pipeline and treatment system causes low efficiency of leachate transportation and treatment and increases cost for maintenance of those *** addition,landfill leachate fouling might accumulate pathogens and antibiotic resistance genes(ARGs),posing threats to the *** of the landfill leachate fouling and its associated environmental behavior is essential for the management of *** this study,physicochemical and biological properties of landfill leachate fouling and the possible accumulation capacity of pathogens and ARGs were investigated in nitrification(aerobic condition)and denitrification(anaerobic condition)process during landfill leachate biological treatment,*** show that microbial(bacterial,archaeal,eukaryotic,and viral)community structure and function(carbon fixation,methanogenesis,nitrification and denitrification)differed in fouling under aerobic and anaerobic conditions,driven by the supplemental leachate water *** fouling had a higher abundance of nitrification and denitrification functional genes,while anaerobic fouling harbored a higher abundance of carbon fixation and methanogenesis *** forms of leachate fouling had a higher abundance of pathogens and ARGs than the associated leachate,suggesting the accumulation capacity of fouling on biotic ***,aerobic fouling harbored three orders of magnitude higher multidrug resistance genes mex D than its associated *** finding provides fundamental knowledge on the biological properties of leachate fouling and suggests that leachate fouling might harbor significant pathogens and ARGs.

关键词： Landfill leachate fouling Biofilm Microbiome Carbon and nitrogen cycle Pathogens Antibiotic resistance genes

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New strategies for the repair of spinal cord injury

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Chinese Science Bulletin 2014年第31期59卷 4041-4049页

作者： zhourui wu Ziru Zhao Yan Yu Xiao Hu Wei Xu Zhili Zeng Yi Eve Sun Liming Cheng Department of Spine Surgery Shanghai Tongji HospitalTongji University School of Medicine Translational Stem Cell Center Shanghai Tongji HospitalTongji University School of Medicine

Spinal cord injury(SCI)leads to several neurologic damages to patients with sensory and motor function *** some inspiring results were reported in animal,even in non-human primate models,the clinical translation of these research achievements barely move forward for the SCI *** review mainly focused on the pathogenesis of the primary and secondary injury,the clinical therapies and the new technologies in spinal cord ***,the key scientific issues on this field were discussed in the ***,some suggestions were proposed for the scientific and clinical researches.

关键词：脊髓损伤修复临床治疗动物模型科学问题运动功能研究成果发病机制

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Temporal and spatial cellular and molecular pathological alterations with single-cell resolution in the adult spinal cord after injury

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Signal Transduction and Targeted Therapy 2022年第4期7卷 1155-1169页

作者： Chen Li zhourui wu Liqiang Zhou Jingliang Shao Xiao Hu Wei Xu Yilong Ren Xingfei Zhu Weihong Ge Kunshan Zhang Jiping Liu Runzhi Huang Jing Yu Dandan Luo Xuejiao Yang Wenmin Zhu Rongrong Zhu Changhong Zheng Yi Eve Sun Liming Cheng Division of Spine Department of OrthopaedicsTongji HospitalTongji University School of MedicineShanghai 200065China Key Laboratory of Spine and Spinal cord Injury Repair and Regeneration(Tongji University) Ministry of EducationShanghai 200072China Institute of Spinal and Spinal Cord Injury Tongji University School of MedicineShanghai 200065China Stem Cell Translational Research Center Tongji HospitalTongji University School of MedicineShanghai 200065China Department of Psychiatry and Biobehavioral Sciences David Geffen School of MedicineUniversity of California Los AngelesLos AngelesCA 90095USA

Spinal cord injury(SCI)involves diverse injury responses in different cell types in a temporally and spatially specific ***,using single-cell transcriptomic analyses combined with classic anatomical,behavioral,electrophysiological analyses,we report,with single-cell resolution,temporal molecular and cellular changes in crush-injured adult mouse spinal *** revealed pathological changes of 12 different major cell types,three of which infiltrated into the spinal cord at distinct times *** discovered novel microglia and astrocyte subtypes in the uninjured spinal cord,and their dynamic conversions into additional stage-specific subtypes/*** dynamic changes occur at 3-days post-injury and by day-14 the second wave of microglial activation emerged,accompanied with changes in various cell types including neurons,indicative of the second round of *** day-38,major cell types are still substantially deviated from uninjured states,demonstrating prolonged *** study provides a comprehensive mapping of cellular/molecular pathological changes along the temporal axis after SCI,which may facilitate the development of novel therapeutic strategies,including those targeting microglia.

关键词： alterations injury pathological

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Comparison of different spinal loading conditions

Comparison of different spinal loading conditions

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第十一届全国生物力学学术会议暨第十三届全国生物流变学学术会议

作者： Rui Zhu Zhili Zeng Yan Yu zhourui wu Wei Xu Xiao Hu Yangchun wu Wei Zuo Liming Cheng Tongji Hospital Tongji University School of Medicine

Objective:The musculature is the most important component for preserving spinal ***,muscle forces were seldom used for finite element studies involving the spine,and it is simplified loads which are used *** spinal loads caused by muscle forces and by simplified loads have not yet been compared and it is unknown how much the results differ for these two types of *** aim of this study is to estimate

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Unbiased transcriptomic analyses reveal distinct effects of immune deficiency in CNS function with and without injury

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Protein & Cell 2019年第8期10卷 566-590页

作者： Dandan Luo Weihong Ge Xiao Hu Chen Li Chia-Ming Lee Liqiang Zhou zhourui wu Juehua Yu Sheng Lin Jing Yu Wei Xu Lei Chen Chong Zhang Kun Jiang Xingfei Zhu Haotian Li Xinpei Gao Yanan Geng Bo Jing Zhen Wang Changhong Zheng Rongrong Zhu Qiao Yan Quan Lin Keqiang Ye Yi E.Sun Liming Cheng Division of Spine Surgery Department of Orthopedics Tongji Hospital Tongji University School of Medicine Institute of Spine and Spine Cord Injury of Tongji University Stem Cell Translational Research Center Tongji Hospital Tongji University School of Medicine Department of Psychiatry and Biobehavioral Sciences David Geffen School of Medicine University of California Los Angeles Department of Pathology and Laboratory Medicine Center for neurodegeneration disease Emory University School of Medicine

The mammalian central nervous system(CNS) is considered an immune privileged system as it is separated from the periphery by the blood brain barrier(BBB). Yet,immune functions have been postulated to heavily infiuence the functional state of the CNS, especially after injury or during neurodegeneration. There is controversy regarding whether adaptive immune responses are beneficial or detrimental to CNS injury repair. In this study, we utilized immunocompromised SCID mice and subjected them to spinal cord injury(SCI). We analyzed motor function, electrophysiology, histochemistry, and performed unbiased RNA-sequencing. SCID mice displayed improved CNS functional recovery compared to WT mice after SCI. Weighted gene-coexpression network analysis(WGCNA) of spinal cord transcriptomes revealed that SCID mice had reduced expression of immune function-related genes and heightened expression of neural transmission-related genes after SCI,which was confirmed by immunohistochemical analysis and was consistent with better functional *** analyses also indicated heightened expression of neurotransmission-related genes before injury in SCID mice, suggesting that a steady state of immune-deficiency potentially led to CNS hyper-connectivity. Consequently, SCID mice without injury demonstrated worse performance in Morris water maze test. Taken together, not only reduced infiammation after injury but also dampened steady-state immune function without injury heightened the neurotransmission program, resulting in better or worse behavioral outcomes respectively. This study revealed the intricate relationship between immune and nervous systems, raising the possibility for therapeutic manipulation of neural function via immune modulation.

关键词： spinal cord injury repair immune deficiency transcriptomic analysis neurotransmision

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室管膜细胞修复脊髓损伤的研究进展

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中华实验外科杂志 2018年第7期35卷 1390-1392页

作者：李琛吴周睿程黎明同济大学附属同济医院脊柱外科上海200065

脊髓损伤致残率极高，迄今为止仍是一个医学难题。近年来，随着中枢神经系统中内源性神经十细胞的发展和研究不断深入，应用内源性神经干细胞治疗脑疾病已取得一定进展，但几乎没有激活脊髓内源性神经十细胞修复脊髓损伤组织促进功能恢... 详细信息

脊髓损伤致残率极高，迄今为止仍是一个医学难题。近年来，随着中枢神经系统中内源性神经十细胞的发展和研究不断深入，应用内源性神经干细胞治疗脑疾病已取得一定进展，但几乎没有激活脊髓内源性神经十细胞修复脊髓损伤组织促进功能恢复的报道。确认内源性神经干细胞在成年脊髓中的作用及分布、分析其进展转归机制、寻找其激活干预靶点，已成为治疗脊髓损伤一个新的思路。最新研究表明脊髓中央管室管膜细胞具有神经干细胞潜能，现就目前研究进展加以综述。

关键词：室管膜细胞脊髓损伤内源性神经干细胞小生境神经再生损伤修复

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Correction to:Temporal and spatial cellular and molecular pathological alterations with single-cell resolution in the adult spinal cord after injury

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Signal Transduction and Targeted Therapy 2022年第6期7卷 2117-2118页

作者： Chen Li zhourui wu Liqiang Zhou Jingliang Shao Xiao Hu Wei Xu Yilong Ren Xingfei Zhu Weihong Ge Kunshan Zhang Jiping Liu Runzhi Huang Jing Yu Dandan Luo Xuejiao Yang Wenmin Zhu Rongrong Zhu Changhong Zheng Yi Eve Sun Liming Cheng Division of Spine Department of Orthopaedics Tongji Hospital Tongji University School of Medicine Shanghai 200065 China Key Laboratory of Spine and Spinal cord Injury Repair and Regeneration (Tongji University) Ministry of Education Shanghai 200072 China Institute of Spinal and Spinal Cord Injury Tongji University School of Medicine Shanghai 200065 China Stem Cell Translational Research Center Tongji Hospital Tongji University School of Medicine Shanghai 200065 China Department of Psychiatry and Biobehavioral Sciences David Geffen School of Medicine University of California Los Angeles Los Angeles CA 90095 USA

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基于GPR、CatBoost、XGBoost三种模型预测江西地区水面蒸发量

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水资源与水工程学报 2020年第6期31卷 116-125,131页

作者：陈志月吴立峰刘小强伍周睿董建华南昌工程学院鄱阳湖流域水工程安全与资源高效利用国家地方联合工程实验室江西南昌330099 河海大学水文水资源学院江苏南京210098 西北农林科技大学旱区农业水土工程教育部重点实验室陕西杨凌712100 昆明理工大学农业与食品学院云南昆明650500

水面蒸发量是水资源规划与管理、农业灌溉设计和水文模拟等方面的基础数据,它是水量平衡计算中的关键要素。为了提高水面蒸发量的预测精度,选用了3种经验模型和3种学习机模型预测江西地区水面蒸发量,3种学习机模型包括GPR模型、XGBoost... 详细信息

水面蒸发量是水资源规划与管理、农业灌溉设计和水文模拟等方面的基础数据,它是水量平衡计算中的关键要素。为了提高水面蒸发量的预测精度,选用了3种经验模型和3种学习机模型预测江西地区水面蒸发量,3种学习机模型包括GPR模型、XGBoost模型和Cat Boost模型。依据江西地区2001-2015年16个气象站的逐日气象资料,如最高(低)气温、全球太阳辐射、地外太阳辐射、相对湿度和风速,构建10种不同的输入参数,通过对4种统计指标(R2、RMSE、MBE、MAE)的大小进行评估来评价模型的模拟精度。结果表明:当气象资料充足时,推荐CatBoost 10模型为江西地区水面蒸发量的预测模型,该模型在验证期的R2、RMSE、MBE、MAE值分别为0.744、0.842、0.006、0.633 mm/d;在输入组合相同的条件下,3种学习机模型的模拟精度均优于相应的经验模型。通过研究对比提高了江西地区水面蒸发量模型预测的精度。

关键词：水面蒸发量预测模型经验模型 GPR Cat Boost XGBoost 江西地区

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管状通道下微创经椎间孔入路单节段腰椎椎间融合术临床疗效

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中华医学杂志 2016年第11期96卷 874-878页

作者：曾至立徐委英龙于研胡笑吴周睿贾永伟王建杰程黎明同济大学附属同济医院脊柱外科上海200065

目的探讨Spotlight管状微创工作通道下的经椎间孔入路椎间融合（MIS-TLIF）治疗单节段腰椎退变性疾病的临床疗效.方法回顾性分析2013年11月至2014年10月同济大学附属同济医院脊柱外科32例行Spotlight微创通道下的单节段MIS-TLIF手术资... 详细信息

目的探讨Spotlight管状微创工作通道下的经椎间孔入路椎间融合（MIS-TLIF）治疗单节段腰椎退变性疾病的临床疗效.方法回顾性分析2013年11月至2014年10月同济大学附属同济医院脊柱外科32例行Spotlight微创通道下的单节段MIS-TLIF手术资料,记录患者手术时间,术中射线暴露时间,术中出血量,术后引流量.记录患者手术前后腰、腿视觉模拟量表评分（VAS）及Oswestry功能障碍指数（ODI）评分评估患者功能改善情况,测量椎间隙平均高度、腰椎Cobb角和手术节段Cobb角评价椎间孔恢复及腰椎矢状位曲度改变情况,末次随访以Bridwell评价椎间融合情况,以MacNab量表评价临床治疗效果.结果所有病例均顺利完成手术,手术时间（171.9±31.1） min;术中射线暴露时间为（36.7±16.4）s;术中出血（153.3±64.8） ml,术后引流（58.9±49.2） ml.所有患者均获得随访,随访时间（11.6±3.3）个月,术后2周及末次随访时腰、腿VAS评分及ODI评分较术前明显改善（P＜0.01）;术前椎间隙高度为（0.98±0.26） cm,术后2周及末次随访为（1.28±0.21） cm和（1.22±0.20） cm,（P＜0.01）.根据Bridwell椎间融合评价标准,术后3个月Ⅰ级和Ⅱ级为26例,占总数的81.3％,末次随访Ⅰ级和Ⅱ级为31例,占总数的96.9％;根据MacNab量表评价量表,其中优22例,良8例,可2例.结论 Spotlight微创工作通道下的MIS-TLIF治疗单节段腰椎退变性疾病安全、有效,具有创伤小、恢复快的优点.

关键词：脊柱融合术外科手术,最小侵入性腰椎 Spotlight微创通道

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