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Designer enzyme for green materials innovation: Lactate-polymerizing enzyme as a key catalyst

Seiichi Taguchi

《化学科学与工程前沿（英文）》 2017年第11卷第1期页码 139-142 doi: 10.1007/s11705-017-1636-0

摘要： Establishment of the regeneratable whole-cell catalyst platform for the?production of biobased polymeric materials is a?typical topic of synthetic biology. In this commentary, discovery story of a “lactate-polymerizing enzyme” (LPE)?and LPE-based?achievements for creating a new variety of polyesters with incorporated unnatural monomers are presented. Besides the importance of microbial platform itself is discussed referring to the “ballooning”- .

关键词： synthetic biology enzyme evolutionary engineering polyhydroxyalkanoate

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Evolutionary engineering of

Jixian GONG, Nan DUAN, Xueming ZHAO

《化学科学与工程前沿（英文）》 2012年第6卷第2期页码 174-178 doi: 10.1007/s11705-012-1276-3

摘要： Evolutionary engineering is a novel whole-genome wide engineering strategy inspired by natural evolution for strain improvement. Astaxanthin has been widely used in cosmetics, pharmaceutical and health care food due to its capability of quenching active oxygen. Strain improvement of , one of the main sources for natural astaxanthin, is of commercial interest for astaxanthin production. In this study a selection procedure was developed for adaptive evolution of strains under endogenetic selective pressure induced by additive in environmental niches. Six agents, which can induce active oxygen in cells, were added to the culture medium respectively to produce selective pressure in process of evolution. The initial strain, 2-1557, was mutagenized to acquire the initial strain population, which was then cultivated for 550 h at selective pressure and the culture was transferred every 48h. Finally, six evolved strains were selected after 150 generations of evolution. The evolved strains produced up to 48.2% more astaxanthin than the initial strain. Our procedure may provide a promising alternative for improvement of high-production strain.

关键词： evolutionary engineering astaxanthin strain improvement

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Cofactor engineering in cyanobacteria to overcome imbalance between NADPH and NADH: A mini review

Jongmoon Park,Yunnam Choi

《化学科学与工程前沿（英文）》 2017年第11卷第1期页码 66-71 doi: 10.1007/s11705-016-1591-1

摘要： Cyanobacteria can produce useful renewable fuels and high-value chemicals using sunlight and atmospheric carbon dioxide by photosynthesis. Genetic manipulation has increased the variety of chemicals that cyanobacteria can produce. However, their uniquely abundant NADPH-pool, in other words insufficient supply of NADH, tends to limit their production yields in case of utilizing NADH-dependent enzyme, which is quite common in heterotrophic microbes. To overcome this cofactor imbalance and enhance cyanobacterial fuel and chemical production, various approaches for cofactor engineering have been employed. In this review, we focus on three approaches: (1) utilization of NADPH-dependent enzymes, (2) increasing NADH production, and (3) changing cofactor specificity of NADH-dependent enzymes from NADH to NADPH.

关键词： NADH-dependent enzyme NADPH-dependent enzyme transhydrogenase site-directed mutagenesis enzyme engineering

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Influence of glucose feeding on the ligninolytic enzyme production of the white-rot fungus Phanerochaete

ZHOU Xiaoyan, WEN Xianghua, FENG Yan

《环境科学与工程前沿（英文）》 2007年第1卷第1期页码 89-94 doi: 10.1007/s11783-007-0017-1

摘要： The present work studied the influence of glucose feeding on the ligninolytic enzyme production of in a nitrogen-limited (C/N ratio is 56/8.8 mmol/L) medium. Several sets of shaking flask experiments were conducted. The results showed that 2 g/L glucose feeding on the first day of the culture (24 h after the inoculation) stimulated both fungal biomass growth and enzyme production. The manganese peroxidase (MnP) activity was 2.5 times greater than that produced in cultures without glucose feeding. Furthermore, the glucose feeding mode in fed-batch culture was also investigated. Compared to cultures with glucose feeding every 48 h, cultures with glucose feeding of 1.5 g/L (final concentration) every 24 h produced more enzymes. The peak and total yield of MnP activity were 2.7 and 3 times greater compared to the contrast culture, respectively, and the enzyme was kept stable for 4 days with an activity of over 200 U/L.

关键词： enzyme production fed-batch culture nitrogen-limited inoculation mmol/L

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The impact of government incentives and penalties on willingness to recycle plastic waste: An evolutionary

Zhen Wang, Jiazhen Huo, Yongrui Duan

《环境科学与工程前沿（英文）》 2020年第14卷第2期 doi: 10.1007/s11783-019-1208-2

摘要： • Punishments increase the participation probability of collectors and recyclers. • Policy-sponsored incentives make collectors and recyclers to participate earlier. • Recyclers are more sensitive to government punishments than collectors. Because governments have introduced policies involving incentives and penalties to promote the recycling of plastic waste, it is important to understand the impact of such incentives and penalties on the willingness of stakeholders to participate. In this study, government is included as a player, alongside waste collectors and recyclers, in a tripartite evolutionary game model of plastic waste recycling. The study explores the evolutionary equilibrium and performs a simulation analysis to elucidate the effect of government incentives and penalties on the willingness of other players to participate in recycling. Three conclusions are drawn from this research. First, an increase in incentives or in penalties increases the probability that collectors and recyclers will participate in the recycling process. Second, policy support incentives encourage collectors and recyclers to participate in plastic waste recycling earlier than subsidy incentives do. Finally, recyclers are more sensitive than collectors to government-imposed penalties.

关键词： Plastic waste Recycle Reuse Government incentives Government penalties Evolutionary game

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Diffusion process in enzyme–metal hybrid catalysts

《化学科学与工程前沿（英文）》 2022年第16卷第6期页码 921-929 doi: 10.1007/s11705-022-2144-4

摘要： Enzyme–metal hybrid catalysts bridge the gap between enzymatic and heterogeneous catalysis, which is significant for expanding biocatalysis to a broader scope. Previous studies have demonstrated that the enzyme–metal hybrid catalysts exhibited considerably higher catalytic efficiency in cascade reactions, compared with that of the combination of separated enzyme and metal catalysts. However, the precise mechanism of this phenomenon remains unclear. Here, we investigated the diffusion process in enzyme–metal hybrid catalysts using Pd/lipase-Pluronic conjugates and the combination of immobilized lipase (Novozyme 435) and Pd/C as models. With reference to experimental data in previous studies, the Weisz–Prater parameter and efficiency factor of internal diffusion were calculated to evaluate the internal diffusion limitations in these catalysts. Thereafter, a kinetic model was developed and fitted to describe the proximity effect in hybrid catalysts. Results indicated that the enhanced catalytic efficiency of hybrid catalysts may arise from the decreased internal diffusion limitation, size effect of Pd clusters and proximity of the enzyme and metal active sites, which provides a theoretical foundation for the rational design of enzyme–metal hybrid catalysts.

关键词： enzyme–metal hybrid catalyst internal diffusion proximity effect kinetic model

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Detection of Escherichia coli in wastewater based on enzyme immunoassay

XI Haiyan, CAI Qiang, HE Miao, SHI Hanchang

《环境科学与工程前沿（英文）》 2007年第1卷第3期页码 381-384 doi: 10.1007/s11783-007-0065-6

摘要： This research describes a fast detection method on the basis of enzyme-linked immunosorbent assay (ELISA) for in drainage of wastewater treatment plants. Optimized conditions such as the reaction format (sandwich or direct), the concentrations of diluted horse radish peroxidase (HRP)- conjugate, and anti-HPR antibody and pretreatment of were studied. Those results showed that the linear range of detection for was 10 cfu/mL– 6 × 10 cfu/mL. Compared with conventional methods, it is a convenient and sensitive detection method with low cost.

关键词： conventional sandwich pretreatment enzyme-linked immunosorbent detection

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Enzyme@bismuth-ellagic acid: a versatile platform for enzyme immobilization with enhanced acid-base stability

《化学科学与工程前沿（英文）》 2023年第17卷第6期页码 784-794 doi: 10.1007/s11705-022-2278-4

摘要： In situ encapsulation is an effective way to synthesize enzyme@metal–organic framework biocatalysts; however, it is limited by the conditions of metal–organic framework synthesis and its acid-base stability. Herein, a biocatalytic platform with improved acid-base stability was constructed via a one-pot method using bismuth-ellagic acid as the carrier. Bismuth-ellagic acid is a green phenol-based metal–organic framework whose organic precursor is extracted from natural plants. After encapsulation, the stability, especially the acid-base stability, of amyloglucosidases@bismuth-ellagic acid was enhanced, which remained stable over a wide pH range (2–12) and achieved multiple recycling. By selecting a suitable buffer, bismuth-ellagic acid can encapsulate different types of enzymes and enable interactions between the encapsulated enzymes and cofactors, as well as between multiple enzymes. The green precursor, simple and convenient preparation process provided a versatile strategy for enzymes encapsulation.

关键词： bismuth-ellagic acid in situ encapsulation enzyme@MOF biocomposites

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Soil enzyme activities and their indication for fertility of urban forest soil

SHAN Qihua, YU Yuanchun, ZHANG Jinchi, YU Jian

《环境科学与工程前沿（英文）》 2008年第2卷第2期页码 218-223 doi: 10.1007/s11783-008-0037-5

摘要： To reveal the biological characteristics of urban forest soil and the effects of soil enzyme on soil fertility as well as the correlation between physicochemical properties and enzyme activities, 44 urban forest soil profiles in Nanjing were investigated. Basic soil physicochemical properties and enzyme activities were analyzed in the laboratory. Hydrogen peroxidase, dehydrogenase, alkaline phosphatase, and cellulase were determined by potassium permanganate titration, TTC (CHN·Cl) colorimetry, phenyl phosphate dinatrium colorimetry, and anthrone colorimetry, respectively. The result showed that soil pH, organic carbon (C), and total nitrogen (N) had great effects on hydrogen peroxidase, dehydrogenase, and alkaline phosphatase activities in 0–20 cm thick soil. However, pH only had great effect on hydrogen peroxidase, dehydrogenase, and alkaline phosphatase activities in 20–40 cm thick soil. Hydrogen peroxidase, dehydrogenase, and alkaline phosphatase were important biological indicators for the fertility of urban forest soil. Both in 0–20 cm and 20–40 cm soil, soil enzyme system (hydrogen peroxidase, dehydrogenase, alkaline phosphatase, and cellulase) had a close relationship with a combination of physicochemical indicators (pH, organic C, total N, available K, available P, cation exchange capacity (CEC), and microbial biomass carbon (C)). The more soil enzyme activities there were, the higher the fertility of urban forest soil.

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基于候选方案排序的进化决策方法

荔建琦,陈火旺,王兵山

《中国工程科学》 2001年第3卷第1期页码 62-70

摘要：

由于无法得到准确的期望效用函数，在信息不完全和结果不确定的环境下作出决策是困难的。提出基于候选方案排序的进化决策方法。通常通过分析得出一组与候选方案期望效用相关的指标，设计决策规则归结为寻找二者之间的相关关系。如果将所有候选方案按其对效用有影响的指标分为n类，并利用进化算法在n!空间中搜索全部方案的期望效用排序，则根据此排序作出最佳决策。提出针对排序问题的遗传算法。该方法较少依赖专家知识，无须显式地构造期望效用函数，能有效处理非数值或非量化指标以及指标冲突和指标相关等问题，在带随机噪声环境下仍能获得稳健解。在仿真机器人控制器设计中的应用表明了该方法的有效性。

关键词：进化决策进化机器人排序问题遗传算法

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Research on the ecological compensation standard of the basin pollution control project based on evolutionary

Dongbin HU, Huiwu LIU, Xiaohong CHEN, Yang CHEN

《工程管理前沿（英文）》 2019年第6卷第4期页码 575-583 doi: 10.1007/s42524-019-0044-1

摘要： Ecological compensation is a new resource and environment management model. As one of the main areas for implementing ecological compensation policies, basin ecological compensation has become an important measure for encouraging basin pollution control projects and improving the quality of regional economic development. By applying the basic game analysis of evolutionary game theory and building an evolutionary game model with a “reward–punishment” mechanism, this paper compares the interest-related decision-making behaviors of the upstream and downstream stakeholders of basin ecological compensation. By using data on the water quality of Xiangjiang River Basin, this paper calculates the rewards and penalties in different intervals by building a parametric regression mathematical model and employing the local linear regression method. Results show that a decline in water quality should be fined RMB 925500 yuan, an improvement in water quality should be awarded RMB 1227800 yuan, and a deteriorating water quality should be severely fined RMB 5087600 yuan.

关键词： evolutionary game ecological compensation standard Xiangjiang River Basin

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Application of a Novel Fuzzy Clustering Method Based on Chaos Immune Evolutionary Algorithm for Edge

《机械工程前沿（英文）》 2006年第1卷第1期页码 85-89 doi: 10.1007/s11465-005-0023-6

摘要：

A novel fuzzy clustering method based on chaos immune evolutionary algorithm (CIEFCM) is presented to solve fuzzy edge detection problems in image processing. In CIEFCM, a tiny disturbance is added to a filial generation group using a chaos variable and the disturbance amplitude is adjusted step by step, which greatly improves the colony diversity of the immune evolution algorithm (IEA). The experimental results show that the method not only can correctly detect the fuzzy edge and exiguous edge but can evidently improve the searching efficiency of fuzzy clustering algorithm based on IEA.

关键词： disturbance amplitude disturbance diversity generation processing

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基于空间收缩的并行演化算法

王涛,李歧强

《中国工程科学》 2003年第5卷第3期页码 57-61

摘要：

提出了一种基于空间收缩的求解MINLP问题的新算法。算法应用了快速有效的不完全演化搜索较优解的分布信息，通过分布信息定位最优解的可能分布，再由精英个体信息决定下次搜索空间。仿真结果表明该算法在搜索效率、应用范围、解的精确性和鲁棒性上都优于其他现存演化算法。

关键词：空间收缩演化算法 MINLP

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利用异源酶组合构建酿酒酵母中咖啡酸的生物合成 Article

刘岚清, 刘宏, 张伟, 姚明东, 李炳志, 刘夺, 元英进

《工程（英文）》 2019年第5卷第2期页码 287-295 doi: 10.1016/j.eng.2018.11.029

摘要：

微生物中构建植物源天然产物的生物合成面临着许多挑战，尤其是当需要表达与激活植物源细胞色素P450酶的时候。通过从几种细菌中筛选HpaB和HpaC两种酶，本文在酿酒酵母中构建了具有活性的4-羟基苯乙酸3-羟化酶（4 HPA3H），它可以发挥植物源细胞色素P450酶的相似作用，用于生产咖啡酸。在与一个共同的酪氨酸氨裂解酶（TAL）协同作用下，不同的异源HpaB酶和HpaC酶组合在将底物L-酪氨酸转化为目标产物咖啡酸上展现出不同能力。以铜绿假单胞菌的HpaB酶和肠沙门氏菌的HpaC酶的异源酶组合可生产最高咖啡酸产量，摇瓶培养下可达到（289.4 ± 4.6）mg·L⁻¹。酵母底盘细胞与异源酶的相容性得到了有效的改善，咖啡酸的产量比初始值提高了40倍。铜绿假单胞菌HpaB酶中黄素腺嘌呤二核苷酸（FAD）结合域周围的6个关键氨基酸残基与其他细菌来源的HpaB酶有明显区别，可能在影响酶活性方面起关键作用。综上，我们建立了一种有效的方法来构建高效的酵母系统用于合成非天然羟基苯丙烷类化合物。

关键词：酿酒酵母咖啡酸异源酶细胞色素P450酶合成生物学

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多目标优化与决策问题的演化算法

谢涛,陈火旺

《中国工程科学》 2002年第4卷第2期页码 59-68

摘要：

近年来，多目标优化与决策问题求解已成为演化计算的一个重要研究方向。为使演化算法的种群解能尽快收敛并均匀分布于多目标问题的非劣最优域，多目标演化算法的研究热点集中在基于Pareto最优概念的种群个体的比较与排序、适应值賦值与小生境技术等方面。介绍了多目标优化与决策技术的发展历史与分类方法，分析了基于Pareto最优概念与不基于Pareto最优概念两大类的多目标演化算法，并详细比较与分析了几种典型多目标演化算法。其次，论述了与多目标演化算法研究紧密相关的一些问题，如多目标问题解的性质，测试函数集设计，算法性能评估技术，算法收敛性，并行实现以及实际多目标优化问题的处理等。

关键词：演化计算多目标优化与决策 Pareto最优