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Srgap2 suppression ameliorates retinal ganglion cell degeneration in mice

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Neural Regeneration Research 2023年第10期18卷 2307-2314页

作者： Yi-Jing Gan Ying Cao Zu-Hui Zhang Jing Zhang Gang Chen Ling-Qin Dong tong Li Mei-Xiao Shen Jia Qu zai-Long Chi State Key Laboratory of Ophthalmology Optometry and Vision ScienceEye HospitalWenzhou Medical UniversityWenzhouZhejiang ProvinceChina Department of Ophthalmology The First Affiliated Hospital of University of Science and Technology of ChinaDivision of Life Sciences and MedicineUniversity of Science and Technology of ChinaHefeiAnhui ProvinceChina

Slit-Robo GTPase-activating protein 2(SRGAP2) plays important roles in axon guidance, neuronal migration, synapse formation, and nerve regeneration. However, the role of SRGAP2 in neuroretinal degenerative disease remains unclear. In this study, we found that SRGAP2 protein was first expressed in the retina of normal mice at the embryonic stage and was mainly located in the mature retinal ganglion cell layer and the inner nuclear layer. SRGAP2 protein in the retina and optic nerve increased after optic nerve crush. Then, we established a heterozygous knockout(Srgap2+/–) mouse model of optic nerve crush and found that Srgap2 suppression increased retinal ganglion cell survival, lowered intraocular pressure, inhibited glial cell activation, and partially restored retinal function. In vitro experiments showed that Srgap2 suppression activated the mammalian target of rapamycin signaling pathway. RNA sequencing results showed that the expression of small heat shock protein genes(Cryaa, Cryba4, and Crygs) related to optic nerve injury were upregulated in the retina of Srgap2+/– mice. These results suggest that Srgap2 suppression reduced the robust activation of glial cells, activated the mammalian target of rapamycin signaling pathway related to nerve protein, increased the expression of small heat shock protein genes, inhibited the degeneration of retinal ganglion cells, and partially restored optic nerve function.

关键词： astrocyte crystallins intraocular hypertension microglia mTOR neuroprotection optic nerve crush optic neuropathy RGC degeneration Srgap2

mvPPT:A Highly Efficient and Sensitive Pathogenicity Prediction Tool for Missense Variants

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Genomics, Proteomics & Bioinformatics 2023年第2期21卷 414-426页

作者： Shi-Yuan tong Ke Fan zai-Wei Zhou Lin-Yun Liu Shu-Qing Zhang Yinghui Fu Guang-Zhong Wang Ying Zhu Yong-Chun Yu Jing'an District Central Hospital of Shanghai State Key Laboratory of Medical NeurobiologyMOEFrontiers Center for Brain ScienceInstitutes of Brain ScienceFudan UniversityShanghai 200032China Shanghai Xunyin Biotechnology Co. Ltd.Shanghai 201802China CAS Key Laboratory of Computational Biology Shanghai Institute of Nutrition and HealthUniversity of Chinese Academy of SciencesChinese Academy of SciencesShanghai 200031China Huashan Hospital State Key Laboratory of Medical NeurobiologyMOE Frontiers Center for Brain ScienceInstitutes of Brain ScienceFudan UniversityShanghai 200032China

Next-generation sequencing technologies both boost the discovery of variants in the human genome and exacerbate the challenges of pathogenic variant *** this study,we developed Pathogenicity Prediction Tool for missense variants(mvPPT),a highly sensitive and accurate missense variant classifier based on gradient *** adopts high-confidence training sets with a wide spectrum of variant profiles,and extracts three categories of features,including scores from existing prediction tools,frequencies(allele frequencies,amino acid frequencies,and genotype frequencies),and genomic *** with established predictors,mvPPT achieves superior performance in all test sets,regardless of data *** addition,our study also provides guidance for training set and feature selection strategies,as well as reveals highly relevant features,which may further provide biological insights into variant pathogenicity.

关键词： Machine learning Missensevariant Genomics Computational biology Pathogenicityprediction

Cloning and sequence analysis of nine novel MYB genes in Taxodiaceae plants

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Journal of Forestry Research 2014年第4期25卷 795-804页

作者： Yong-quan LU Qing JIA zai-kang tong The Nurturing Station for the State Key Laboratory of Subtropical Silviculture Zhejiang Agriculture and Forestry University

Myeloblastosis （MYB） is one of the largest transcribed factor families in plants. To gain an overall picture of the evolution of MYB genes in relict plants, we cloned nine novel MYB genes in Taxodiaceae plants （ Taxodium distichum, Taxodium ascendens, Cryptomeria japonica var. Sinensis, Cryptomeria japonica cv. Araucarioides, Cryptomer Ja- ponica, Metasequoia glyptostroboides, Cunninghamia lanceolata, Tai- wania cryptomerioides and Glyptostrobus pensilis）. The deduced amino acid sequences for MYBs showed that the nine MYB proteins contained two DNA binding domains. The first domain is from amino acid position 29 to 78, wherein three tryptophanes at 33, 53 and 73 were separated by 19 amino acids, respectively. The second domain is from amino acid position 82 to 127, wherein three tryptophanes at 86, 105 and 124 were separated by 18 amino acids, respectively, whereas the first tryptophane at amino acid position 86 is replaced by a phenylalanine. The characteri- zation of these conserved domains at nine MYBs indicated that they all belong to the R2R3-MYB group. The secondary structure analysis showed that a-helix and 13-turn are the major motifs of the predicted secondary structure of MYBs. The three dimensional model of each MYB protein showed that the structure is like clip, making it more flexi- ble and mobile. The similarities between the nine MYB proteins in Taxodiaceae were calculated. The highest identical value of 99% is be- tween CjsMYB, CjMYB and CjaMYB, whereas the lowest value of 82% is between TaMYB and C1MYB. According to the phylogenetic tree, the distances between different genera were relatively large whereas those within genera were relatively small. As expected, accessions of the same genus formed a subgroup before being grouped with other genera.

关键词： Myeloblastosis Taxodiaceae clone analysis R2R3-MYB group

MicroRNAs as critical regulators in liver fibrosis

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Portal Hypertension & Cirrhosis 2023年第3期2卷 144-148页

作者： Xiaolin Wang Qiuhong zai Yong He Qing Xie Department of Infectious Diseases Ruijin HospitalShanghai Jiao Tong University School of MedicineShanghaiChina Shanghai Institute of Materia Medica(SIMM) Chinese Academy of SciencesShanghaiChina University of Chinese Academy of Sciences BeijingChina

Liver fibrosis,a common characteristic of chronic liver diseases,is a major challenge to global *** progression of liver fibrosis is responsible for liver-related morbidity and ***,the pathogenesis of liver fibrosis remains unclear and an effective therapy has not yet been *** of hepatic stellate cells(HSCs)is well-known to act as a central driver of liver fibrosis,while resident and infiltrating inflammatory cells further modulate HSC activation via extracellular ***(miRNAs)are small,noncoding RNAs that are critical regulators for liver physiological and pathological processes by negatively regulating target gene expression and facilitating intercellular ***,we review the involvement of miRNAs in the development and progression of liver fibrosis in various hepatic cells,including HSCs,hepatocytes,and inflammatory cells,and discuss the potential of miRNAs as biomarkers and therapeutic targets for liver fibrosis.

关键词： extracellular vesicles hepatic stellate cells liver fibrosis microRNA

Development of amplified consensus genetic markers in Taxodiaceae based on Cryptomeria japonica ESTs data

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Journal of Forestry Research 2013年第3期24卷 503-508页

作者： LU Yong-quan JIA Qing tong zai-kang The Nurturing Station for the State Key Laboratory of Subtropical Silviculture Zhejiang Agriculture and Forestry University

Amplified consensus genetic marker （ACGM） is a PCR-based marker technique that uses primers designed within conserved regions of coding sequences. After a comparison of Cryptomeria japonica and Arabidopsis ESTs to search for conserved sequences, 237 single e-PCR products were obtained. We randomly selected 110 candidate ACGM markers to test. Of the 110 candidate ACGM markers tested, 106 yielded stable and clear PCR products in C. japonica. We then tested the utility of these 106 primer pairs in 10 species, representing 7 genera of Taxodi- aceae. The number of specific amplification primer pairs among those 10 species varied from 49 to 103 （or 46.2±97.2%）. The 106 primer pairs （ACGM loci） were high transferable to Cryptomeria fortunei Hooibrenk （97.2%） but were low in Metasequoia glyptostroboides （46.2%）. The number of PCR bands per primer pair ranged from 1.06 to 1.15, which means that most of the ACGM primers can obtain a single band within these 10 Taxodiaceae species. In summary, our study shows that ACGM is a technique applicable for marker development even in species with limited sequence data.

关键词： ACGM Taxodiaceae Cryptomeriajaponica EST database

不同饲喂方式对早期断奶“茶卡羊”羔羊生长性能、养殖收益及血清生化指标的影响

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西南农业学报 2024年第3期37卷 648-655页

作者：刘宏金许显莉韩学平张骞郭同庆王循刚罗崇亮胡林勇赵娜才让周在徐世晓中国科学院西北高原生物研究所/中国科学院三江源国家公园研究院西宁810008 中国科学院高原生物适应和进化重点实验室西宁810008 中国科学院大学北京100049 青海省畜牧总站西宁810001 青海省刚察县畜牧兽医工作站青海刚察810399

【目的】探究早期断奶后不同饲喂方式对舍饲羔羊生长性能、养殖收益及血清生化指标的影响。【方法】选取体重(5.94±0.34)kg、日龄(20±1)相近的健康茶卡羊公羔40只,用耳标标记,随机分为早期断奶组(A、B、C组)和随母哺乳组(D组,对照),每... 详细信息

【目的】探究早期断奶后不同饲喂方式对舍饲羔羊生长性能、养殖收益及血清生化指标的影响。【方法】选取体重(5.94±0.34)kg、日龄(20±1)相近的健康茶卡羊公羔40只,用耳标标记,随机分为早期断奶组(A、B、C组)和随母哺乳组(D组,对照),每组10只。早期断奶组羔羊于21日龄开始断奶并用代乳粉替代饲喂至60日龄后进行不同日粮组合饲喂,即A组:开食料+燕麦青干草+玉米青贮;B组:开食料+燕麦青干草;C组:开食料+玉米青贮,饲喂时间为65 d。D组羔羊随母哺乳至试验结束。【结果】生长性能方面,A组羔羊增质量(16.43 kg)、平均日增重(156.48 g/d)、增重比例(362.32%)及饲料转化效率(4.28)显著高于其它各处理组(P0.05,下同)。养殖收益方面,随母哺乳组羔羊收益最低(171.16元/只),断奶后A组饲喂方式显著提高羔羊养殖收益,为217.35元/只。不同饲喂方式显著影响羔羊血清部分激素、氮代谢及免疫功能;激素方面,生长激素(GH)、胰岛素生长因子(IGF-1)和胃泌素含量A组显著高于其它各处理组;氮代谢方面,A组显著提升羔羊氮代谢能力,主要表现为较低的尿素氮(7.12 mmol/L)和尿酸含量(122.25μmol/L);免疫功能方面,免疫球蛋白G(IgG)和免疫球蛋白A(IgA)含量在A组显著高于其它处理组。免疫球蛋白M(IgM)在各处理组间无显著差异。【结论】茶卡羊羔羊早期断奶后采用开食料、玉米青贮和燕麦青干草混合饲喂方式有利于其生长性能、养殖收益及机体各功能的发挥。农牧民应树立羔羊早期断奶观念,在早期断奶后通过科学的饲喂管理提升羔羊养殖水平,以期获得良好的生长性能及养殖收益。

关键词：早期断奶羔羊饲喂方式生长性能养殖收益血清生化指标

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Memetic algorithms-based neural network learning for basic oxygen furnace endpoint prediction

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Journal of Zhejiang University-Science A(Applied Physics & Engineering) 2010年第11期11卷 841-848页

作者： Peng CHEN Yong-zai LU Department of Automation Shanghai Jiao Tong University Shanghai 200240 China Department of Automation Zhejiang University Hangzhou 310027 China

Based on the critical position of the endpoint quality prediction for basic oxygen furnaces (BOFs) in steelmaking, and the latest results in computational intelligence (CI), this paper deals with the development of a novel memetic algorithm (MA) for neural network (NN) learning. Included in this is the integration of extremal optimization (EO) and Levenberg-Marquardt (LM) gradient search, and its application in BOF endpoint quality prediction. The fundamental analysis reveals that the proposed EO-LM algorithm may provide superior performance in generalization, computation efficiency, and avoid local minima, com-pared to traditional NN learning methods. Experimental results with production-scale BOF data show that the proposed method can effectively improve the NN model for BOF endpoint quality prediction.

关键词： Memetic algorithm (MA) Neural network (NN) learning Back propagation (BP) Extremal optimization (EO) Levenberg-Marquardt (LM) gradient search Basic oxygen furnace (BOF)

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以“学”为中心的问题式实验教学改革

大学化学 2024年第4期39卷 40-47页

作者：宰建陶陈虹锦魏霄张利马荔钱雪峰上海交通大学化学化工学院上海200240

基础化学实验不仅可以验证化学理论和训练实验技能,更应注重学生分析问题、解决问题能力的提升。针对基础学科拔尖学生的培养,我们本着因材施教的理念,开展了基础化学实验课程的教学内容、知识体系、教学方法的改革和实践。通过构建以... 详细信息

基础化学实验不仅可以验证化学理论和训练实验技能,更应注重学生分析问题、解决问题能力的提升。针对基础学科拔尖学生的培养,我们本着因材施教的理念,开展了基础化学实验课程的教学内容、知识体系、教学方法的改革和实践。通过构建以“学”为中心、问题为导向的教学模式,系统提升实验教学在人才培养中的效果和作用。

关键词：探究式课题研究创新能力培养基础化学实验

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Bromine and oxygen redox species mediated highly selective electro-epoxidation of styrene

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Organic Chemistry Frontiers 2022年第2期9卷 436-444页

作者： Yuchi Zhang Asma Iqbal Jiantao zai Shu-Yu Zhang Hongran Guo Xuejiao Liu Ibrahim ul Islam Hira Fazal Xuefeng Qian Shanghai Electrochemical Energy Devices Research Center School of Chemistry and Chemical Engineering and State Key Laboratory of Metal Matrix CompositesShanghai Jiao Tong University Shanghai200240P.R.China

Olefin epoxidation is an essential transformation and arouses great interest among the scientific community for the key role of epoxide in the chemical *** methods suffer from harmful oxidants and require harsh operating conditions and complex separation ***-epoxidation through bromine redox reactions is an eco-friendly ***,the lack of efficient electrodes always limits the selectivity of epoxidation and results in massive energy ***,we found that GF-CoS_(2)/CoS heterostructures anchored on graphite felt(GF-CoS_(2)/CoS)can efficiently facilitate the generation of bromine redox species on the *** synergistic cooperation between the bromine redox species and oxygen redox species(generated on a graphite rod cathode)can establish a benign electro-epoxidation system for olefin substrates in an ambient *** the optimized reaction conditions,the epoxidation of styrene can achieve a yield of 97% at 30 mA cm^(-2).Importantly,the applied voltage(4-5 V)is roughly half of the Pt-based electrode system(7.8-9.3 V),hence,saving half of the *** demonstrated that our proposed strategy could also be applied to other *** of the simple,sustainable,and economic advantages of the epoxidation process,we believe this strategy is highly desirable for technical applications.

关键词： redox epoxidation styrene