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Current molecular biologic techniques for characterizing environmental microbial community

Dawen GAO, Yu TAO

《环境科学与工程前沿（英文）》 2012年第6卷第1期页码 82-97 doi: 10.1007/s11783-011-0306-6

摘要： Microbes are vital to the earth because of their enormous numbers and instinct function maintaining the natural balance. Since the microbiology was applied in environmental science and engineering more than a century ago, researchers desire for more and more information concerning the microbial spatio-temporal variations in almost every fields from contaminated soil to wastewater treatment plant (WWTP). For the past 30 years, molecular biologic techniques explored for environmental microbial community (EMC) have spanned a broad range of approaches to facilitate the researches with the assistance of computer science: faster, more accurate and more sensitive. In this feature article, we outlined several current and emerging molecular biologic techniques applied in detection of EMC, and presented and assessed in detail the application of three promising tools.

关键词： molecular biological technique microbial community denaturing gradient gel electrophoresis (DGGE) terminal restriction fragment length polymorphism (T-RFLP) environmental applications

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生物技术在养羊业科学研究中的应用

刘守仁

《中国工程科学》 2001年第3卷第7期页码 37-41

摘要：

介绍了冷冻精液、胚胎移植、胚胎冷冻、胚胎分割、体外受精、核移植克隆、基因导入等技术。这些技术的应用使养羊业育种和生产水平大为提高，产生了显著的经济效益。同时，为养羊业科研和生产开辟了新的途径。

关键词：生物技术养羊业

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生物检测及分子诊断高端装备的研制及应用

彭年才,李磊,李政,苗保刚,李明,赵垚,蒋庄德

《中国工程科学》 2013年第15卷第1期页码 57-62

摘要：

以生物检测与分子诊断技术发展为背景，总结了团队在医学诊断、疾控、食品安全、检疫检验、生物学医学科学研究等领域的分子诊断高端装备的研制情况，重点介绍了实时荧光定量聚合酶链式反应（PCR）分子诊断仪关键技术的研发及仪器工程化技术、检测性能的验证和在社会发展重点领域中的成功应用，手持式腺嘌呤核苷三磷酸（ATP）生物发光法细菌快速检测仪的研发与应用，以及后续的全自动核酸定量检测与高分辨分析设备研制。

关键词：生物检测分子诊断实时荧光定量PCR ATP荧光检测

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现代节水农业技术发展趋势与未来研发重点

吴普特,冯浩,牛文全,赵西宁

《中国工程科学》 2007年第9卷第2期页码 12-18

摘要：

在分析我国节水农业技术发展现状与趋势的基础上，结合现代节水农业技术发展与需求，提出未来我国现代节水农业技术研发重点和发展方向，即现代生物节水技术、非常规水高效安全利用技术、节水灌溉技术与装备、旱作高效用水技术与新材料、区域高效节水农业综合技术。

关键词：生物节水技术非常规水资源节水灌溉技术旱作高效用水技术集成

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Machinability of ultrasonic vibration-assisted micro-grinding in biological bone using nanolubricant

《机械工程前沿（英文）》 2023年第18卷第1期 doi: 10.1007/s11465-022-0717-z

摘要： Bone grinding is an essential and vital procedure in most surgical operations. Currently, the insufficient cooling capacity of dry grinding, poor visibility of drip irrigation surgery area, and large grinding force leading to high grinding temperature are the technical bottlenecks of micro-grinding. A new micro-grinding process called ultrasonic vibration-assisted nanoparticle jet mist cooling (U-NJMC) is innovatively proposed to solve the technical problem. It combines the advantages of ultrasonic vibration (UV) and nanoparticle jet mist cooling (NJMC). Notwithstanding, the combined effect of multi parameter collaborative of U-NJMC on cooling has not been investigated. The grinding force, friction coefficient, specific grinding energy, and grinding temperature under dry, drip irrigation, UV, minimum quantity lubrication (MQL), NJMC, and U-NJMC micro-grinding were compared and analyzed. Results showed that the minimum normal grinding force and tangential grinding force of U-NJMC micro-grinding were 1.39 and 0.32 N, which were 75.1% and 82.9% less than those in dry grinding, respectively. The minimum friction coefficient and specific grinding energy were achieved using U-NJMC. Compared with dry, drip, UV, MQL, and NJMC grinding, the friction coefficient of U-NJMC was decreased by 31.3%, 17.0%, 19.0%, 9.8%, and 12.5%, respectively, and the specific grinding energy was decreased by 83.0%, 72.7%, 77.8%, 52.3%, and 64.7%, respectively. Compared with UV or NJMC alone, the grinding temperature of U-NJMC was decreased by 33.5% and 10.0%, respectively. These results showed that U-NJMC provides a novel approach for clinical surgical micro-grinding of biological bone.

关键词： micro-grinding biological bone ultrasonic vibration (UV) nanoparticle jet mist cooling (NJMC) grinding force grinding temperature

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Influences and mechanisms of nanofullerene on the horizontal transfer of plasmid-encoded antibiotic resistance genes between

Qingkun Ji, Caihong Zhang, Dan Li

《环境科学与工程前沿（英文）》 2020年第14卷第6期 doi: 10.1007/s11783-020-1287-0

摘要： Abstract • Sub-inhibitory levels of nC60 promote conjugative transfer of ARGs. • nC60 can induce ROS generation, oxidative stress and SOS response. • nC60 can increase cell membrane permeability and alter gene expression. • Results provide evidence of nC60 promoting antibiotic resistance dissemination. The spread and development of antibiotic resistance globally have led to severe public health problems. It has been shown that some non-antibiotic substances can also promote the diffusion and spread of antibiotic resistance genes (ARGs). Nanofullerene (nC60) is a type of nanomaterial widely used around the world, and some studies have discovered both the biological toxicity and environmental toxicity of nC60. In this study, cellular and molecular biology techniques were employed to investigate the influences of nC60 at sub-minimum inhibitory concentrations (sub-MICs) on the conjugation of ARGs between the E. coli strains. Compared with the control group, nC60 significantly increased the conjugation rates of ARGs by 1.32‒10.82 folds within the concentration range of 7.03‒1800 mg/L. This study further explored the mechanism of this phenomenon, finding that sub-MICs of nC60 could induce the production of reactive oxygen species (ROS), trigger SOS-response and oxidative stress, affect the expression of outer membrane proteins (OMPs) genes, increase membrane permeability, and thus promote the occurrence of conjugation. This research enriches our understanding of the environmental toxicity of nC60, raises our risk awareness toward nC60, and may promote the more rational employment of nC60 materials.

关键词： Nanofullerene Sub-minimum inhibitory concentrations Antibiotic resistance genes Conjugation Molecular biological techniques

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微生物资源分子鉴定技术的研究进展

张羽,马爱进,高利芬,彭海,贾英民,孙宝国

《中国工程科学》 2021年第23卷第5期页码 86-93 doi: 10.15302/J-SSCAE-2021.05.011

摘要：

微生物作为全世界分布最广且拥有量最多的生物资源，应用领域广泛，具有突出的经济价值和社会价值。以往虽已有众多微生物研究，但限于技术方法无法深入展开，随着微生物检测技术的不断发展，为微生物研究提供了新途径和新方法。本文总结了国内外微生物资源分子鉴定技术的发展及其应用情况，主要有脱氧核糖核酸（DNA）含量测定、核酸杂交技术、DNA 指纹图谱技术、核酸扩增技术、基因芯片技术和高通量测序技术等；梳理了现有微生物资源分子鉴定技术的优缺点；分析了微生物资源分子鉴定技术存在的问题，如依赖于实验室环境，实验结果的重现性、准确性不足，缺乏相应的微生物数据库。为促进我国微生物资源的保护和利用，研究建议，要继续加强对各鉴定技术的研究，建立具有自主知识产权的微生物资源鉴定平台，完善微生物资源数据库等。

关键词：微生物资源，分子鉴定，核酸扩增技术，基因芯片技术，高通量测序技术，微生物数据库

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Microorganism-derived biological macromolecules for tissue engineering

《医学前沿（英文）》 2022年第16卷第3期页码 358-377 doi: 10.1007/s11684-021-0903-0

摘要： According to literature, certain microorganism productions mediate biological effects. However, their beneficial characteristics remain unclear. Nowadays, scientists concentrate on obtaining natural materials from live creatures as new sources to produce innovative smart biomaterials for increasing tissue reconstruction in tissue engineering and regenerative medicine. The present review aims to introduce microorganism-derived biological macromolecules, such as pullulan, alginate, dextran, curdlan, and hyaluronic acid, and their available sources for tissue engineering. Growing evidence indicates that these materials can be used as biological material in scaffolds to enhance regeneration in damaged tissues and contribute to cosmetic and dermatological applications. These natural-based materials are attractive in pharmaceutical, regenerative medicine, and biomedical applications. This study provides a detailed overview of natural-based biomaterials, their chemical and physical properties, and new directions for future research and therapeutic applications.

关键词： biological macromolecules regenerative medicine tissue engineering exopolysaccharide carbohydrate

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Low intensity ultrasound stimulates biological activity of aerobic activated sludge

LIU Hong, YAN Yixin, WANG Wenyan, YU Yongyong

《环境科学与工程前沿（英文）》 2007年第1卷第1期页码 67-72 doi: 10.1007/s11783-007-0013-5

摘要： This work aims to explore a procedure to improve biological wastewater treatment efficiency using low intensity ultrasound. The aerobic activated sludge from a municipal wastewater treatment plant was used as the experimental material. Oxygen uptake rate (OUR) of the activated sludge (AS) was determined to indicate the changes of AS activity stimulated by ultrasound at 35 kHz for 0 40 min with ultrasonic intensities of 0 1.2 W/cm. The highest OUR was observed at the ultrasonic intensity of 0.3 W/cm and an irradiation period of 10 min; more than 15% increase was achieved immediately after sonication. More significantly, the AS activity stimulated by ultrasound could last 24 h after sonication, and the AS activity achieved its peak value within 8 h after sonication, or nearly 100% higher than the initial level after sonication. Therefore, to improve the wastewater treatment efficiency of bioreactors, ultrasound with an intensity of 0.3 W/cm could be employed to irradiate a part of the AS in the bioreactor for 10 min every 8 h.

关键词： sonication irradiation kHz treatment efficiency AS activity

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Biological conversion pathways of sulfate reduction ammonium oxidation in anammox consortia

Zhen Bi, Deqing Wanyan, Xiang Li, Yong Huang

《环境科学与工程前沿（英文）》 2020年第14卷第3期 doi: 10.1007/s11783-019-1217-1

摘要： The SRAO phenomena tended to occur only under certain conditions. High amount of biomass and non-anaerobic condition is requirement for SRAO. Anammox bacteria cannot oxidize ammonium with sulfate as electron acceptor. AOB and AnAOB are mainly responsible for ammonium conversion. Heterotrophic sulfate reduction mainly contributed to sulfate conversion. For over two decades, sulfate reduction with ammonium oxidation (SRAO) had been reported from laboratory experiments. SRAO was considered an autotrophic process mediated by anammox bacteria, in which ammonium as electron donor was oxidized by the electron acceptor sulfate. This process had been attributed to observed transformations of nitrogenous and sulfurous compounds in natural environments. Results obtained differed largely for the conversion mole ratios (ammonium/sulfate), and even the intermediate and final products of sulfate reduction. Thus, the hypothesis of biological conversion pathways of ammonium and sulfate in anammox consortia is implausible. In this study, continuous reactor experiments (with working volume of 3.8L) and batch tests were conducted under normal anaerobic (0.2≤DO<0.5 mg/L) / strict anaerobic (DO<0.2 mg/L) conditions with different biomass proportions to verify the SRAO phenomena and identify possible pathways behind substrate conversion. Key findings were that SRAO occurred only in cases of high amounts of inoculant biomass under normal anaerobic condition, while absent under strict anaerobic conditions for same anammox consortia. Mass balance and stoichiometry were checked based on experimental results and the thermodynamics proposed by previous studies were critically discussed. Thus anammox bacteria do not possess the ability to oxidize ammonium with sulfate as electron acceptor and the assumed SRAO could, in fact, be a combination of aerobic ammonium oxidation, anammox and heterotrophic sulfate reduction processes.

关键词： Anammox bacteria Autotrophic Biological conversion Sulfate reducing ammonium oxidation (SRAO)

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Special issue on “Molecular Sensors and Molecular Logic Gates”

Luling Wu , Tony D. James

《化学科学与工程前沿（英文）》 2022年第16卷第1期页码 1-3 doi: 10.1007/s11705-021-2134-y

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Design of bio-oil additives via molecular signature descriptors using a multi-stage computer-aided molecular

《化学科学与工程前沿（英文）》 2022年第16卷第2期页码 168-182 doi: 10.1007/s11705-021-2056-8

摘要： Direct application of bio-oil from fast pyrolysis as a fuel has remained a challenge due to its undesirable attributes such as low heating value, high viscosity, high corrosiveness and storage instability. Solvent addition is a simple method for circumventing these disadvantages to allow further processing and storage. In this work, computer-aided molecular design tools were developed to design optimal solvents to upgrade bio-oil whilst having low environmental impact. Firstly, target solvent requirements were translated into measurable physical properties. As different property prediction models consist different levels of structural information, molecular signature descriptor was used as a common platform to formulate the design problem. Because of the differences in the required structural information of different property prediction models, signatures of different heights were needed in formulating the design problem. Due to the combinatorial nature of higher-order signatures, the complexity of a computer-aided molecular design problem increases with the height of signatures. Thus, a multi-stage framework was developed by developing consistency rules that restrict the number of higher-order signatures. Finally, phase stability analysis was conducted to evaluate the stability of the solvent-oil blend. As a result, optimal solvents that improve the solvent-oil blend properties while displaying low environmental impact were identified.

关键词： computer-aided molecular design bio-oil additives molecular signature descriptor

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Progress on molecular biomarkers and classification of malignant gliomas

null

《医学前沿（英文）》 2013年第7卷第2期页码 150-156 doi: 10.1007/s11684-013-0267-1

摘要：

Gliomas are the most common primary intracranial tumors in adults. Anaplastic gliomas (WHO grade III) and glioblastomas (WHO grade IV) represent the major groups of malignant gliomas in the brain. Several diagnostic, predictive, and prognostic biomarkers for malignant gliomas have been reported over the last few decades, and these markers have made great contributions to the accuracy of diagnosis, therapeutic decision making, and prognosis of patients. However, heterogeneity in patient outcomes may still be observed, which highlights the insufficiency of a classification system based purely on histopathology. Great efforts have been made to incorporate new information about the molecular landscape of gliomas into novel classifications that may potentially guide treatment. In this review, we summarize three distinctive biomarkers, three most commonly altered pathways, and three classifications based on microarray data in malignant gliomas.

关键词： malignant glioma molecular biomarker IDH1 MGMT molecular classification