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Cell surface protein engineering for high-performance whole-cell catalysts

Hajime Nakatani,Katsutoshi Hori

《化学科学与工程前沿（英文）》 2017年 第11卷 第1期   页码 46-57 doi: 10.1007/s11705-017-1609-3

摘要： Cell surface protein engineering facilitated by accumulation of information on genome and protein structure involves heterologous production and modification of cell surface proteins using genetic engineering, and is important for the development of high-performance whole-cell catalysts. In this field, cell surface display is a major technology by exposing target proteins, such as enzymes, on the cell surface using a carrier protein. The target proteins are fused to the carrier proteins that transport and tether them to the cell surface, as well as to a secretion signal. This paper reviews cell surface display systems for prokaryotic and eukaryotic cells from the perspective of carrier proteins, which determine the number of displayed molecules, and the localization, size, and direction ( or terminal anchoring) of the passengers. We also discuss advanced methods for displaying multiple enzymes and a new method for the immobilization of whole-cell catalysts using adhesive surface proteins.

关键词： cell surface engineering     surface display     whole-cell catalysts     bioprocess    

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Efficient acetoin production from pyruvate by engineered whole-cell biocatalysis

《化学科学与工程前沿（英文）》 2023年 第17卷 第4期   页码 425-436 doi: 10.1007/s11705-022-2229-0

摘要： Acetoin is an important platform chemical, which has a wide range of applications in many industries. Halomonas bluephagenesis, a chassis for next generation of industrial biotechnology, has advantages of fast growth and high tolerance to organic acid salts and alkaline environment. Here, α-acetolactate synthase and α-acetolactate decarboxylase from Bacillus subtilis 168 were co-expressed in H. bluephagenesis to produce acetoin from pyruvate. After reaction condition optimization and further increase of α-acetolactate decarboxylase expression, acetoin production and yield were significantly enhanced to 223.4 mmol·L–1 and 0.491 mol·mol–1 from 125.4 mmol·L–1 and 0.333 mol·mol–1, respectively. Finally, the highest titer of 974.3 mmol·L–1 (85.84 g·L–1) of acetoin was accumulated from 2143.4 mmol·L–1 (188.6 g·L–1) of pyruvic acid within 8 h in fed-batch bioconversion under optimal reaction conditions. Moreover, the reusability of the cell catalysis was also tested, and the result illustrated that the whole-cell catalysis obtained 433.3, 440.2, 379.0, 442.8 and 339.4 mmol·L–1 (38.2, 38.8, 33.4, 39.0 and 29.9 g·L–1) acetoin in five repeated cycles under the same conditions. This work therefore provided an efficient H. bluephagenesis whole-cell catalysis with a broad development prospect in biosynthesis of acetoin.

关键词： acetoin     pyruvate     α-acetolactate synthetase     α-acetolactate decarboxylase     Halomonas bluephagenesis     whole-cell biocatalysis    

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Efficient production of D-1,2,4-butanetriol from D-xylose by engineered

Shewei Hu, Qian Gao, Xin Wang, Jianming Yang, Nana Xu, Kequan Chen, Sheng Xu, Pingkai Ouyang

《化学科学与工程前沿（英文）》 2018年 第12卷 第4期   页码 772-779 doi: 10.1007/s11705-018-1731-x

摘要： We have developed a whole-cell bioconversion system for the production of D-1,2,4-butanetriol (BT) from renewable biomass. A plasmid pETduet- T7- T7- was constructed and transformed to BL21(DE3) to obtain the whole cells of BL21- capable of bioconversion D-xylose to BT. Then, the factors including carbon sources, nitrogen sources, metal ions, and culture conditions (pH, temperature, IPTG) were identified, and their effects on the whole-cell activity for BT production were investigated. To obtain the highest whole-cell activity, the optimal cultivation parameters are: 15 g·L yeast extract, 5 g·L sucrose, 3g·L KH PO , 5 g·L NaCl, 3g·L NH Cl, 0.25 g·L MgSO ?7H O and 1 mL·L the mixture of trace elements. With the optimized whole cells of BL21- , 60 g·L of xylose was converted to 28g·L BT with a molar yield of 66 %, which is higher than those reported in the biotechnological system.

关键词： D-1     2     4-butanetriol     whole-cell bioconversion     carbon source     nitrogen sources     metal ions     culture conditions    

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Self-assembly of metal-cholesterol oxidase hybrid nanostructures and application in bioconversion of

Yu Xin, Qiuyue Gao, Yu Gu, Mengyao Hao, Guangming Fan, Liang Zhang

《化学科学与工程前沿（英文）》 2021年 第15卷 第3期   页码 615-629 doi: 10.1007/s11705-020-1989-7

摘要： A cholesterol oxidase (COD) was hybridized with Ca , Zn , Al , Fe and Mn . After precipitation with PO at 4 °C for 72 h, the resulting pellets were freeze-dried. In scanning electron microscopy assays, the metal-COD complexes revealed flower-like or granular structures after hybridization. Fourier transform infrared spectroscopy assay revealed the characteristic peaks of both the enzyme and metal materials. X-ray diffraction analysis indicated that COD was encapsulated in CaHPO ·2H O-, Zn (PO ) ·4H O-, AlPO -, FeP - and Mn (PO ) ·3H O-based nanostructures, respectively. Differential scanning calorimetry assay indicated significant increases in thermo-denaturation temperatures from 60.5 °C to 167.02 °C, 167.02 °C, 137.70 °C, 172.85 °C and 160.99 °C, respectively. Using steroid derivatives as substrates, this enzyme could convert cholesterol, pregnenolone, dehydroepiandrosterone, ergosterol, -sitosterol and stigmasterol to related single products. Hybridization in metal-based nanostructures could significantly enhance the initial conversion ratio and reaction stability of the enzyme. In addition, substrate selectivity could be affected by various metal materials. Briefly, using Ca , Zn , Al , Fe and Mn as hybrid raw materials could help to encapsulate COD in related metal-enzyme nanostructures, and could help to promote the stability and tolerant properties of the enzyme, while also enhancing its catalytic characteristics.

关键词： cholesterol oxidase     metal-enzyme hybridization     nanostructures     sterol derivatives     bioconversion    

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Organizational evolution of project management teams over the whole lifecycle of megaprojects: Case study

《工程管理前沿（英文）》   页码 439-454 doi: 10.1007/s42524-022-0211-7

摘要： Project management teams are critical in the implementation of megaprojects, but their evolution throughout the project lifecycle has not been clearly explained. This paper explores the organizational evolution of megaproject management teams through a longitudinal retrospective case study of the Hong Kong–Zhuhai–Macao Bridge (HZMB) project. The organizational evolution is examined in terms of management objectives, management content, and organizational structure. The organizational evolution of the HZMB project management team exhibits stage differentiation with the coexistence of turbulence and stability. Changes in the external environment are the driving force for organizational evolution, whereas a flexible organizational strategy is critical in promoting this evolution. Basing on the HZMB case study, this paper summarizes six critical measures that facilitate the organizational evolution of megaproject management teams. Our findings add value to megaproject management theory and provide a better understanding of the dynamics and complexity of megaproject organizational management.

关键词： megaproject     organizational evolution     whole lifecycle management     project management team    

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TCGA whole-transcriptome sequencing data reveals significantly dysregulated genes and signaling pathways

null

《医学前沿（英文）》 2015年 第9卷 第3期   页码 322-330 doi: 10.1007/s11684-015-0408-9

摘要：

This study systematically evaluates the TCGA whole-transcriptome sequencing data of hepatocellular carcinoma (HCC) by comparing the global gene expression profiles between tumors and their corresponding non-tumorous liver tissue. Based on the differential gene expression analysis, we identified a number of novel dysregulated genes, in addition to those previously reported. Top-listing upregulated (CENPF and FOXM1) and downregulated (CLEC4G, CRHBP, and CLEC1B) genes were successfully validated using qPCR on our cohort of 65 pairs of human HCCs. Further examination for the mechanistic overview by subjecting significantly upregulated and downregulated genes to gene set enrichment analysis showed that different cellular pathways were involved. This study provides useful information on the transcriptomic landscape and molecular mechanism of hepatocarcinogenesis for development of new biomarkers and further in-depth characterization.

关键词： TCGA     whole-transcriptome sequencing     HCC     liver cancer    

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两相分配生物反应器——浊点系统在生物转化中的应用

王志龙

《中国工程科学》 2005年 第7卷 第5期   页码 73-78

摘要：

利用两相分配生物反应器可以控制底物由非水相向水相释放，增加底物的溶解度和解除底物对微生物的抑制，保护产物降解，降低下游分离费用；论述了两相分配生物反应器的基本原理和发展概况，并以胆固醇边链切除生物转化为例，介绍了新开发的浊点系统两相分配生物反应器的巨大潜力。

关键词： 两相分配     生物转化     非离子表面活性剂     浊点系统     生物反应器    

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Analysis of the genomic landscape of primary central nervous system lymphoma using whole-genome sequencing

《医学前沿（英文）》   页码 889-906 doi: 10.1007/s11684-023-0994-x

摘要： Primary central nervous system lymphoma (PCNSL) is an uncommon non-Hodgkin’s lymphoma with poor prognosis. This study aimed to depict the genetic landscape of Chinese PCNSLs. Whole-genome sequencing was performed on 68 newly diagnosed Chinese PCNSL samples, whose genomic characteristics and clinicopathologic features were also analyzed. Structural variations were identified in all patients with a mean of 349, which did not significantly influence prognosis. Copy loss occurred in all samples, while gains were detected in 77.9% of the samples. The high level of copy number variations was significantly associated with poor progression-free survival (PFS) and overall survival (OS). A total of 263 genes mutated in coding regions were identified, including 6 newly discovered genes (ROBO2, KMT2C, CXCR4, MYOM2, BCLAF1, and NRXN3) detected in ≥ 10% of the cases. CD79B mutation was significantly associated with lower PFS, TMSB4X mutation and high expression of TMSB4X protein was associated with lower OS. A prognostic risk scoring system was also established for PCNSL, which included Karnofsky performance status and six mutated genes (BRD4, EBF1, BTG1, CCND3, STAG2, and TMSB4X). Collectively, this study comprehensively reveals the genomic landscape of newly diagnosed Chinese PCNSLs, thereby enriching the present understanding of the genetic mechanisms of PCNSL.

关键词： primary central nervous system lymphoma     whole-genome sequencing     TMSB4X     copy number variation     gene mutation    

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Whole-life Thinking and Engineering the Future

Roger Flanagan

《工程管理前沿（英文）》 2014年 第1卷 第3期   页码 290-296 doi: 10.15302/J-FEM-2014040

摘要： Whole-life thinking for engineers working on the built environment has become more important in a fast changing world. Whole-life thinking is not new, every project attempts to balance the initial capital cost with the operating and maintenance cost of an asset. Engineers are increasingly concerned with complex systems, in which the parts interact with each other and with the outside world in many ways — the relationships between the parts determine how the system behaves. Systems thinking provides one approach to developing a more robust whole-life approach. Systems thinking is a process of understanding how things influence one another within a wider perspective. Complexity, chaos, and risk are endemic in all major projects. New approaches are needed to produce more reliable whole-life predictions. Best value, rather than lowest cost, can be achieved by using whole-life appraisal as a part of the design and delivery strategy.

关键词： whole-life thinking     systems thinking     complexity     chaos     risk management through life    

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Transforming bacterial disease surveillance and investigation using whole-genome sequence to probe the

null

《医学前沿（英文）》 2018年 第12卷 第1期   页码 23-33 doi: 10.1007/s11684-017-0607-7

摘要：

Two decades have passed since the first bacterial whole-genome sequencing, which provides new opportunity for microbial genome. Consequently, considerable genetic diversity encoded by bacterial genomes and among the strains in the same species has been revealed. In recent years, genome sequencing techniques and bioinformatics have developed rapidly, which has resulted in transformation and expedited the application of strategy and methodology for bacterial genome comparison used in dissection of infectious disease epidemics. Bacterial whole-genome sequencing and bioinformatic computing allow genotyping to satisfy the requirements of epidemiological study in disease control. In this review, we outline the significance and summarize the roles of bacterial genome sequencing in the context of bacterial disease control and prevention. We discuss the applications of bacterial genome sequencing in outbreak detection, source tracing, transmission mode discovery, and new epidemic clone identification. Wide applications of genome sequencing and data sharing in infectious disease surveillance networks will considerably promote outbreak detection and early warning to prevent the dissemination of bacterial diseases.

关键词： genome sequencing     genomic epidemiology     bacteria     surveillance     infectious diseases    

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Innovations of phosphorus sustainability: implications for the whole chain

null

《农业科学与工程前沿（英文）》 2019年 第6卷 第4期   页码 321-331 doi: 10.15302/J-FASE-2019283

摘要：

Phosphorus (P) is a non-renewable resource, therefore ensuring global food and environmental security depends upon sustainable P management. To achieve this goal, sustainable P management in the upstream and downstream sectors of agriculture from mineral extraction to food consumption must be addressed systematically. The innovation and feasibility of P sustainability are highlighted from the perspective of the whole P-based chain, including the mining and processing of P rock, production of P fertilizers, soil and rhizosphere processes involving P, absorption and utilization of P by plants, P in livestock production, as well as flow and management of P at the catchment scale. The paper also emphasizes the importance of recycling P and the current challenges of P recovery. Finally, sustainable solutions of holistic P management are proposed from the perspective of technology improvement with policy support.

关键词： P-use efficiency     recycling     sustainable management     the whole P chain    

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The Research on Subject Behavioral Risk of Whole Life-cycle Water Conservation Projects

Hong-yong Liu,Ji Guo,Wei-tao He

《工程管理前沿（英文）》 2014年 第1卷 第4期   页码 348-352 doi: 10.15302/J-FEM-2014048

摘要： In 2011, water conservation projects construction in China entered a stage of rapid growth. In February 2013 three dam safety accidents occurred due to improper participant subject behaviors. Improving security and risk management of water conservation projects is therefore considered as imminent. It is urgent to research the risks of the participant subject behaviors. This article takes each participating subject in the whole life-cycle of water conservation projects as the research object, analyzes the risk behaviors and risk evolution processes, dissects the cause of the risks of the participating subject behaviors on the basis of the theory of risk effect, and puts forward that reinforcing the penalties, improving criminal cost and strengthening the engineering ethics education is an effective way to solve safety problems of the current projects.

关键词： water conservation projects     subject behavior     safety accident     risk effect     engineering ethics    

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Accounting greenhouse gas emissions of food consumption between urban and rural residents in China: a whole

《能源前沿（英文）》 2022年 第16卷 第2期   页码 357-374 doi: 10.1007/s11708-021-0763-y

摘要： Food consumption is necessary for human survival. On a global scale, the greenhouse gas (GHG) emission related to food consumption accounts for 19%–29% of the total GHG emission. China has the largest population in the world, which is experiencing a rapid development. Under the background of urbanization and the adjustment of the diet structure of Chinese residents, it is critical to mitigate the overall GHG emission caused by food consumption. This study aims to employ a single-region input-output (SRIO) model and a multi-regional input-output (MRIO) model to measure GHG emission generated from food consumption in China and compare the contributions of different industrial sectors, uncovering the differences between urban and rural residents and among different provinces (autonomous regions/municipalities), as well as identifying the driving forces of GHG emission from food consumption at a national level. The results indicate that the total GHG emission generated from food consumption in China tripled from 157 Mt CO2e in 2002 to 452 Mt CO2e in 2017. The fastest growing GHG emission is from the consumption of other processed food and meat products. Although GHG emissions from both urban and rural residents increased, the gap between them is increasing. Agriculture, processing and manufacture of food, manufacture of chemical and transportation, storage and post services sectors are key sectors inducing food consumption related GHG emissions. From a regional perspective, the top five emission provinces (autonomous regions/municipalities) include Shandong, Hubei, Guangdong, Zhejiang, and Jiangsu. Based on such results, policy recommendations are proposed to mitigate the overall GHG emission from food consumption.

关键词： greenhouse gas (GHG) emission     food consumption     industry sectors     mitigation measures     urban governance    

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Cluster voltage control method for “Whole County” distributed photovoltaics based on improved differential

《能源前沿（英文）》   页码 782-795 doi: 10.1007/s11708-023-0905-8

摘要： China is vigorously promoting the “whole county promotion” of distributed photovoltaics (DPVs). However, the high penetration rate of DPVs has brought problems such as voltage violation and power quality degradation to the distribution network, seriously affecting the safety and reliability of the power system. The traditional centralized control method of the distribution network has the problem of low efficiency, which is not practical enough in engineering practice. To address the problems, this paper proposes a cluster voltage control method for distributed photovoltaic grid-connected distribution network. First, it partitions the distribution network into clusters, and different clusters exchange terminal voltage information through a “virtual slack bus.” Then, in each cluster, based on the control strategy of “reactive power compensation first, active power curtailment later,” it employs an improved differential evolution (IDE) algorithm based on Cauchy disturbance to control the voltage. Simulation results in two different distribution systems show that the proposed method not only greatly improves the operational efficiency of the algorithm but also effectively controls the voltage of the distribution network, and maximizes the consumption capacity of DPVs based on qualified voltage.

关键词： distributed photovoltaics (DPVs)     cluster partitioning     improved differential evolution algorithm     voltage control     consumption capacity of distributed photovoltaics    

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Comments on “Innovations for phosphorus sustainability: implications for the whole food chain” in special

Peter M. VITOUSEK, Xuejun LIU

《农业科学与工程前沿（英文）》 2019年 第6卷 第4期   页码 441-442 doi: 10.15302/J-FASE-2019284

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标题 作者 时间 类型 操作

Cell surface protein engineering for high-performance whole-cell catalysts

Hajime Nakatani,Katsutoshi Hori

期刊论文

Efficient acetoin production from pyruvate by engineered whole-cell biocatalysis

期刊论文

Efficient production of D-1,2,4-butanetriol from D-xylose by engineered

Shewei Hu, Qian Gao, Xin Wang, Jianming Yang, Nana Xu, Kequan Chen, Sheng Xu, Pingkai Ouyang

期刊论文

Self-assembly of metal-cholesterol oxidase hybrid nanostructures and application in bioconversion of

Yu Xin, Qiuyue Gao, Yu Gu, Mengyao Hao, Guangming Fan, Liang Zhang

期刊论文

Organizational evolution of project management teams over the whole lifecycle of megaprojects: Case study

期刊论文

TCGA whole-transcriptome sequencing data reveals significantly dysregulated genes and signaling pathways

null

期刊论文

两相分配生物反应器——浊点系统在生物转化中的应用

王志龙

期刊论文

Analysis of the genomic landscape of primary central nervous system lymphoma using whole-genome sequencing

期刊论文

Whole-life Thinking and Engineering the Future

Roger Flanagan

期刊论文

Transforming bacterial disease surveillance and investigation using whole-genome sequence to probe the

null

期刊论文

Innovations of phosphorus sustainability: implications for the whole chain

null

期刊论文

The Research on Subject Behavioral Risk of Whole Life-cycle Water Conservation Projects

Hong-yong Liu,Ji Guo,Wei-tao He

期刊论文

Accounting greenhouse gas emissions of food consumption between urban and rural residents in China: a whole

期刊论文

Cluster voltage control method for “Whole County” distributed photovoltaics based on improved differential

期刊论文

Comments on “Innovations for phosphorus sustainability: implications for the whole food chain” in special

Peter M. VITOUSEK, Xuejun LIU

期刊论文