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New insights into substrate folding preference of plant OSCs

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Science Bulletin 2016年第18期61卷 1407-1412页

作者： yongshuo ma Yuan Zhou Sergey Ovchinnikov Per Jr.Greisen Sanwen Huang Yi Shang Institute of Vegetables and Flowers Chinese Academy of Agricultural Sciences Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture Sino-Dutch Joint Laboratory of Horticultural Genomics Department of Biochemistry University of Washington Department of Modelling Novo Nordisk A/S 2760 Ml?vDenmark Agricultural Genomic Institute at Shenzhen Chinese Academy of Agricultural Sciences

Sterols and triterpenes are structurally diverse bioactive molecules generated through cyclization of linear 2,3-oxidosqualene. Based on carbocationic intermediates generated during initial substrate preorganization step, oxidosqualene cyclases （OSCs） are roughly segregated into protosteryl cation group that mainly catalyzes tetracyclic products and dammarenyl cation group which mostly generates pentacyclic products. However, in contrast to well-studied cascade of ring-forming reactions, little is known about the mechanism underlying the initial sub- strate folding process. Previously, we have identified a cucurbitadienol synthase （Bi） and its null allele bi （C393Y） from cucumber. By integration of homology modeling, residue coevolution and site-directed mutagenesis, we discover that four covarying amino acids including C393 constitute a dynamic domain that may be involved in substrate folding process for Bi. We also reveal a group of co-conserved residues that closely associated with the segregation of plant OSCs. These residues may act col- laboratively in choice of specific substrate folding inter- mediate for OSCs. Thus, engineer plant OSCs from into five-ringed producer. our findings open a door to four-ringed skeleton catalysts

关键词： Oxidosqualene cyclase Homologymodeling Residue coevolution Substrate folding

A structural and data-driven approach to engineering a plant cytochrome P450 enzyme

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Science China(Life Sciences) 2019年第7期62卷 873-882页

作者： Dawei Li yongshuo ma Yuan Zhou Junbo Gou Yang Zhong Lingling Zhao Lida Han Sergey Ovchinnikov Ling ma Sanwen Huang Per Greisen Yi Shang Agricultural Genome Institute at Shenzhen Chinese Academy of Agricultural SciencesShenzhen 518124China School of Pharmacy Tongji Medical CollegeHuazhong University of Science and TechnologyWuhan 430030China Institute of Apicultural Research Chinese Academy of Agricultural SciencesBeijing 100093China Biotechnology Research Institute Chinese Academy of Agricultural SciencesBeijing 100081China FAS Center for Systems Biology Harvard UniversityCambridge MA 02138USA The CAAS-YNNU-YIN MO RE Joint Academy of Potato Science Yunnan Normal UniversityYunnan 650500China Global Research Novo Nordisk A/SMalov DK-2760Denmark

Functional manipulation of biosynthetic enzymes such as cytochrome P450 s(or P450 s) has attracted great interest in metabolic engineering of plant natural *** and mogrosides are plant triterpenoids that share the same backbone but display contrasting *** structural and functional diversity of the two metabolites can be manipulated by engineering P450 ***,the functional redesign of P450 s through directed evolution(DE) or structure-guided protein engineering is time consuming and challenging,often because of a lack of high-throughput screening methods and crystal structures of P450 *** this study,we used an integrated approach combining computational protein design,evolutionary information,and experimental data-driven optimization to alter the substrate specificity of a multifunctional P450(CYP87 D20)from *** three rounds of iterative design and evaluation of 96 protein variants,CYP87 D20,which is involved in the cucurbitacin C biosynthetic pathway,was successfully transformed into a P450 mono-oxygenase that performs a single specific hydroxylation at C11 of *** integrated P450-engineering approach can be further applied to create a de novo pathway to produce mogrol,the precursor of the natural sweetener mogroside,or to alter the structural diversity of plant triterpenoids by functionally manipulating other P450 s.

关键词： plant P450 engineering protein design Rosetta amino acid co-evolution cucurbitacin mogroside

Functional diversity and metabolic engineering of plantspecialized metabolites

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Life Metabolism 2022年第2期1卷 109-121页

作者： Shaoqun Zhou yongshuo ma Yi Shang Xiaoquan Qi Sanwen Huang Jiayang Li Shenzhen Branch Guangdong Laboratory of Lingnan Modern AgricultureGenome Analysis Laboratory of the Ministry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhenGuangdong 518120China Department of Chemical Engineering Massachusetts Institute of TechnologyCambridgeMA 02142USA Yunnan Key Laboratory of Potato Biology The CAAS-YNNU-YINMORE Joint Academy of Potato SciencesYunnan Normal UniversityKunmingYunan 650500China Key Laboratory of Plant Molecular Physiology Institute of BotanyChinese Academy of SciencesBeijing 100093China State Key Laboratory of Plant Genomics National Center for Plant Gene ResearchInstitute of Genetics and Developmental BiologyInnovation Academy for Seed DesignChinese Academy of SciencesBeijing 100101China

Plants are talented biochemists that produce a broad diversity of small *** so-called specialized metabolites(SMs)play critical roles in the adaptive evolution of plants to defend against biotic and abiotic stresses,attract pollinators,and modulate soil microbiota for their own *** plant SMs have been used as nutrition and flavor compounds in our daily food,as well as drugs for treatment of human *** multi-omics tools have significantly accelerated the process of biosynthetic pathway elucidation in plants through correlation analyses,genetic mapping,and de novo biosynthetic gene cluster *** the biosynthesis of plant SMs has enabled reconstitution of naturally occurring specialized metabolic pathways in microbial hosts,providing a sustainable supply of these high-value *** this review,we illustrate the general functions of several typical plant SMs in natural ecosystems and for human *** then provide an overview of current methods elucidating the biosynthetic pathways of plant SMs,and synthetic biology strategies that optimize the efficiency of heterologous biosynthetic pathways in microbial *** forward,dissection of the functions and application of plant SMs by using current multidiscipline approaches would be greatly benefit to the scientific community and human societies.

关键词： plant specialized metabolites metabolic engineering

Developmentally Regulated Glucosylation of Bitter Triterpenoid in Cucumber by the UDP-Glucosyltransferase UGT73AM3

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Molecular Plant 2017年第7期10卷 1000-1003页

作者： Yang Zhong Xiaofeng Xue Zhiqiang Liu yongshuo ma Kewu Zeng Lida Han Jingjing Qi Dae-Kyun Ro Soren Bak Sanwen Huang Yuan Zhou Yi Shang Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture Sino-Dutch Joint Laboratory of Horticultural Genomics Institute of Vegetables and Flowers Chinese Academy of Agricultural Sciences Beijing 100081 China Agriculturat Genome Institute at Shenzhen Chinese Academy of Agricultural Science Shenzhen 518124 China Tongji School of Pharmacy Huazhong University of Science and Technology 13 Hangkong Road Wuhan 430030 China Institute of Apicuiture Research Chinese Academy of Agricultural Sciences Beijing 100093 China School of Life Science Shanxi University Taiyuan 030006 China School of Pharmaceutical Sciences Peking University Health Science Center Beijing 100191 China Biotechnology Research Institute Chinese Academy of Agricultural Sciences Beijing 100081 China College of Life Sciences Nanjing Agricultural University Nanjing 210095 China Department of Biological Sciences University of Calgary Calgary T2N 1N4 Canada Department of Plant and Environmental Sciences Copenhagen PlantScience Centre University of Copenhagen Copenhagen 1871 Denmark

Dear Editor,Plants have evolved great plasticity to adapt to external environments. A huge number of structurally diverse metabolites gener- ated through the glycosylation process is one potential mechanism that contr... 详细信息

关键词： SATIVUS L GLYCOSYLTRANSFERASES BIOSYNTHESIS RESISTANCE

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基于改进生成对抗网络的谐波状态估计方法

电力系统自动化 2022年第1期46卷 139-145页

作者：马永硕齐林海肖湘宁王红华北电力大学控制与计算机工程学院北京市102206 华北电力大学电气与电子工程学院北京市102206

传统的基于最小二乘法的谐波状态估计受到量测装置少、精确的谐波阻抗获取难、网络拓扑结构复杂以及电网运行方式变化等因素的限制,造成量测方程欠定、系统非全局可观以及节点间耦合关系难以准确提取等问题。文中提出了一种基于改进生... 详细信息

传统的基于最小二乘法的谐波状态估计受到量测装置少、精确的谐波阻抗获取难、网络拓扑结构复杂以及电网运行方式变化等因素的限制,造成量测方程欠定、系统非全局可观以及节点间耦合关系难以准确提取等问题。文中提出了一种基于改进生成对抗网络的谐波状态估计方法。该方法基于pix2pix谐波状态估计网络拟合监测节点与目标节点间的耦合关系,利用采集的历史谐波数据,对模型进行批量训练,通过训练之后的生成网络估算目标节点谐波电流、谐波电压幅值,实现基于数据驱动的谐波状态估计。在加噪环境下对模型进行测试,仿真结果验证了所提方法的有效性。

关键词：谐波状态估计深度学习生成对抗网络 pix2pix 卷积神经网络

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The Genome of Medicinal Plant macleaya cordata Provides New Insights into Benzylisoquinoline Alkaloids Metabolism

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Molecular Plant 2017年第7期10卷 975-989页

作者： Xiubin Liu Yisong Liu Peng Huang yongshuo ma Zhixing Qing Qi Tang Huifen Cao Pi Cheng Yajie Zheng Zejun Yuan Yuan Zhou Jinfeng Liu Zhaoshan Tang Yixiu Zhuo Yancong Zhang Linlan Yu Jialu Huang Peng Yang Qiong Peng dinbo Zhang Wenkai Jiang Zhonghua Zhang Kui Lin Dae-Kyun Ro Xiaoya Chen Xingyao Xiong Yi Shang Sanwen Huang Jianguo Zeng National and Local Union Engineering Research Center of Veterinary Herbal Medicine Resource and Initiative Hunan Co-Innovation Center for Utilization of Botanical Functional Ingredients Horticulture and Landscape College Veterinary Medicine College Hunan Agricultural University Changsha 410128 China Institute of Vegetables and Flowers Chinese Academy of Agricultural Sciences Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture Sino-Dutch Joint Laboratory of Horticultural Genomics Beijing 100081 China Agricuitural Genome Institute at Shenzhen Chinese Academy of Agricultural Sciences Shenzhen 518124 China School of Pharmacy Hunan University of Chinese Medicine Changsha 410208 China MOE Key Laboratory for Biodiversity Science and Ecological Engineering and College of Life Sciences Beijing Normal University Beijing 100875 China Micolta Bioresource Inc. Changsha 410016 China Herbal Extract Engineering Research Center Changsha 410331 China Biotechnology Research Center Hunan Academy of Agricultural Sciences Changsha 410125 China Novogene Bioinformatics Institute Beijing 100083 China Department of Biological Sciences University of Calgary Calgary T2N1N4 Canada National Key Laboratory of Plant Molecular Genetics National Plant Gene Research Center Institute of Plant Physiology and Ecology Shanghai Institutes forBiological Sciences Chinese Academy of Sciences Shanghai 200032 China Plant Science Research Center Shanghai Chenshan Botanical Garden Shanghai 201602 China

The overuse of antibiotics in animal agriculture and medicine has caused a series of potential threats to public health. macleaya cordata is a medicinal plant species from the Papaveraceae family, providing a safe resource for the manufacture of antimicrobial feed additive for livestock. The active constituents from M. cordata are known to include benzylisoquinoline alkaloids （BIAs） such as sanguinarine （SAN） and chelerythrine （CHE）, but their metabolic pathways have yet to be studied in this non-model plant. The active biosynthesis of SAN and CHE in M. cordata was first examined and confirmed by feeding ^13C-labeled tyrosine. To gain further insights, we de novo sequenced the whole genome of M. cordata, the first to be sequenced from the Papaveraceae family. The M. cordata genome covering 378 Mb encodes 22,328 predicted protein-coding genes with 43.5% being transposable elements. As a member of basal eudicot, M. cordata genome lacks the paleohexaploidy event that occurred in almost all eudicots. From the genomics data, a complete set of 16 metabolic genes for SAN and CHE biosynthesis was retrieved, and 14 of their biochemical activities were validated. These genomics and metabolic data show the conserved BIA metabolic pathways in M. cordata and provide the knowledge foundation for future productions of SAN and CHE by crop improvement or microbial pathway reconstruction.

关键词： macleaya cordata genome Benzylisoquinoline alkaloids Secondary metabolism Sanguinarine Chelerythrine Isotopic labeling

GB/T 35468-2017《种植屋面用耐根穿刺防水卷材》耐根穿刺性能验证试验报告

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中国建筑防水 2018年第15期 20-24页

作者：聂秋枫邢越马永硕王茂良北京市园林科学研究院绿化植物育种北京市重点实验室北京100102

GB/T 35468—2017《种植屋面用耐根穿刺防水卷材》的耐根穿刺性能验证试验报告分为两部分,一是对采用行业标准JC/T 1075—2008开展耐根穿刺性能检测的结果进行分析总结;二是参照FLL标准进行根茎类植物耐根穿刺性能的探索性试验。根据两... 详细信息

GB/T 35468—2017《种植屋面用耐根穿刺防水卷材》的耐根穿刺性能验证试验报告分为两部分,一是对采用行业标准JC/T 1075—2008开展耐根穿刺性能检测的结果进行分析总结;二是参照FLL标准进行根茎类植物耐根穿刺性能的探索性试验。根据两部分验证试验结果,国标中耐根穿刺性能试验方法仍基本采用行业标准的方法,未添加根茎类植物的检测;并延续行标中采用火棘作为唯一试验植物的做法。

关键词：国家标准种植屋面用耐根穿刺防水卷材耐根穿刺性能验证试验

梅EST-SSR特征及其对红叶李的可转移性研究

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北京农学院学报 2017年第2期32卷 1-5页

作者：弓清秀聂秋枫马永硕王浩邢越张恒月赵蓓蓓李迎春辛海波冯慧王茂良丛日晨徐佳北京市园林科学研究院绿化植物育种北京市重点实验室北京100102 北京市黄垡苗圃北京102601

【目的】分析梅EST-SSR特征及其对红叶李的可转移性。【方法】从National Center for Biotechnology Information(NCBI)下载4 589条梅表达序列标签(Expressed Sequence Tag;EST),去除无效碱基后进行拼接和简单重复序列(Simple Sequence Repeat)位点查找;设计引物进行PCR扩增。【结果】获得4 392条unigene,长度为2 420.422kb;搜索到776个SSR位点,分布在650条EST上,出现频率为14.8%。随机设计了15对引物,以4个红叶李品种基因组DNA为模板,进行了PCR扩增,有9对引物可以扩增到清晰稳定的产物,6对多态性引物共检测出20个位点,平均每对引物可以扩增出3.3条多态性片段,平均多态性信息含量(PIC)为0.8。【结论】SSR位点在梅EST序列上分布频率较高,梅EST-SSR在红叶李中具有较高的多态性,可用于红叶李亲缘关系分析和遗传图谱构建等方面的研究。

关键词：梅红叶李表达序列标签简单重复序列

陆表自然和人文要素相互作用——“全球变化及应对”重点专项研究进展

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大气科学学报 2024年第1期47卷 1-22页

作者：王开存王灿李龙辉汪涛吴国灿付永硕马倩张井勇蔡闻佳曹静喻朝庆朱华晟南卓铜陈旻张晶纪多颖沈妙根唐文君何斌占文凤北京大学城市与环境学院北京100871 清华大学环境学院北京100084 南京师范大学地理科学学院江苏南京210023 中国科学院青藏高原研究所北京100085 北京师范大学地理科学学部北京100875 北京师范大学水科学研究院北京100875 中国科学院大气物理研究所北京100029 清华大学地球系统科学系北京100084 清华大学经济与管理学院北京100084 海南大学生态与环境学院海南海口570228 南京大学国际地球系统科学研究所江苏南京210023

在国家重点研发计划支持下,项目提出了陆表不均一性检测和订正的新方法,解决了渐变型不均一性检测和订正的难题,构建了中国地表太阳辐射、气温、地温、风速和降水等参数均一化站点和格点数据集,修订了关于中国地表风速变化趋势、增温格... 详细信息

在国家重点研发计划支持下,项目提出了陆表不均一性检测和订正的新方法,解决了渐变型不均一性检测和订正的难题,构建了中国地表太阳辐射、气温、地温、风速和降水等参数均一化站点和格点数据集,修订了关于中国地表风速变化趋势、增温格局及其形成机制的结论。融合多源数据,构建并验证了千米级、流域级或县域级的电厂、人口、生物质能、取水量、氮排放、二氧化碳排放等影响自然系统的关键人文要素历史和未来预估数据集。构建了未来关键人文要素情景,研制了碳中和目标下甲烷和氧化亚氮排放情景和用于驱动全球模式的未来情景,预估了中国碳中和战略的实施对全球变暖的减缓作用,发现中国碳中和对远期和中期全球变暖的减缓作用显著。给出了中国各省份水体氮排放安全阈值及超越时间,阐明了中国粮食产量与氮施肥的关系,提出了在保障粮食安全的前提下减少水体氮排放的有效途径,指出重构城乡养分循环体系是同时保障粮食安全和恢复水质的必要途径。发现全球饱和水汽压差的年际变化与大气二氧化碳浓度上升速率的年际变化显著相关,阐明了饱和水汽压差变化在调控生态系统生产力中的重要角色以及多因素耦合作用在生态系统生产力变化中的复杂影响。建议更全面细致地评估中国各种碳中和实现路径的社会经济和自然生态影响,以保证碳中和目标与其他可持续发展目标的协同实现。

关键词：气候变化未来情景碳中和陆面过程生态系统生产力粮食安全