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Current molecular biologic techniques for characterizing environmental microbial community

Dawen GAO, Yu TAO

Frontiers of Environmental Science & Engineering 2012, Volume 6, Issue 1,   Pages 82-97 doi: 10.1007/s11783-011-0306-6

Abstract: 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.

Keywords： molecular biological technique     microbial community     denaturing gradient gel electrophoresis (DGGE)     terminal    

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Seasonal microbial community shift in a saline sewage treatment plant

Qingmei YAN, Xuxiang ZHANG, Tong ZHANG, Herbert H P FANG

Frontiers of Environmental Science & Engineering 2011, Volume 5, Issue 1,   Pages 40-47 doi: 10.1007/s11783-011-0304-8

Abstract: 2007 to May 2008 to analyze the microbial community shift along with environmental variations using denaturinggradient gel electrophoresis of polymerase chain reaction amplified 16S rDNA fragments.

Keywords： sewage treatment plants     polymerase chain reaction (PCR)     denaturing gradient gel electrophoresis (DGGE    

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Interaction and independence on methane oxidation of landfill cover soil among three impact factors: water, oxygen and ammonium

Pinjing HE, Na YANG, Wenjuan FANG, Fan Lü, Liming SHAO

Frontiers of Environmental Science & Engineering 2011, Volume 5, Issue 2,   Pages 175-185 doi: 10.1007/s11783-011-0320-8

Abstract: To understand the influence patterns and interactions of three important environmental factors, i.e. soil water content, oxygen concentration, and ammonium addition, on methane oxidation, the soils from landfill cover layers were incubated under full factorial parameter settings. In addition to the methane oxidation rate, the quantities and community structures of methanotrophs were analyzed to determine the methane oxidation capacity of the soils. Canonical correspondence analysis was utilized to distinguish the important impact factors. Water content was found to be the most important factor influencing the methane oxidation rate and Type II methanotrophs, and the optimum value was 15% (w/w), which induced methane oxidation rates 10- and 6- times greater than those observed at 5% (w/w) and 20% (w/w), respectively. Ambient oxygen conditions were more suitable for methane oxidation than 3% oxygen. The addition of of ammonium induced different effects on methane oxidation capacity when conducted at low or high water content. With regard to the methanotrophs, Type II was sensitive to the changes of water content, while Type I was influenced by oxygen content. Furthermore, the methanotrophic acidophile, , was detected in soils with a pH of 4.9, which extended their known living environments.

Keywords： quantitative polymerase chain reaction (PCR)     denaturing gradient gel electrophoresis (DGGE)     principal    

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Cultivation of aerobic granular sludge in a conventional, continuous flow, completely mixed activated sludge system

Xi CHEN,Linjiang YUAN,Wenjuan LU,Yuyou LI,Pei LIU,Kun NIE

Frontiers of Environmental Science & Engineering 2015, Volume 9, Issue 2,   Pages 324-333 doi: 10.1007/s11783-014-0627-3

Abstract: The microbial community structure of the granules was also analyzed by polymerase chain reaction-denaturinggradient gel electrophoresis (PCR-DGGE).

Keywords： activated sludge system (CMAS)     continuous flow     shear force     filamentous bacteria     polymerase chain reaction-denaturinggradient gel electrophoresis (PCR-DGGE)    

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Application of proteomics in environmental science

Xiaona CHU, Jiangyong HU, Say Leong ONG,

Frontiers of Environmental Science & Engineering 2009, Volume 3, Issue 4,   Pages 393-403 doi: 10.1007/s11783-009-0145-x

Abstract: article provides a review on the development of the main proteomic technologies, including both the gelbased and non-gel based technologies, and their applications in environmental science.

Keywords： proteomics     environmental stress     two dimensional (2D) gel electrophoresis     mass spectrometry    

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PulseNet China, a model for future laboratory-based bacterial infectious disease surveillance in China

Wei Li, Shan Lu, Zhigang Cui, Jinghua Cui, Haijian Zhou, Yiqing Wang, Zhujun Shao, Changyun Ye, Biao Kan, Jianguo Xu

Frontiers of Medicine 2012, Volume 6, Issue 4,   Pages 366-375 doi: 10.1007/s11684-012-0214-6

Abstract:

Surveillance is critical for the prevention and control of infectious disease. China’s real-time web-based infectious disease reporting system is a distinguished achievement. However, many aspects of the current China Infectious Disease Surveillance System do not yet meet the demand for timely outbreak detection and identification of emerging infectious disease. PulseNet, the national molecular typing network for foodborne disease surveillance was first established by the Centers for Disease Control and Prevention of the United States in 1995 and has proven valuable in the early detection of outbreaks and tracing the pathogen source. Since 2001, the China CDC laboratory for bacterial pathogen analysis has been a member of the PulseNet International family; and has been adapting the idea and methodology of PulseNet to develop a model for a future national laboratory-based surveillance system for all bacterial infectious disease. We summarized the development progress for the PulseNet China system and discussed it as a model for the future of China’s national laboratory-based surveillance system.

Keywords： infectious disease     laboratory-based infectious disease surveillance     pulse field gel electrophoresis     multilocus    

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Removable Dyes—The Missing Link for In-Depth N-glycan Analysis via Multi-Method Approaches

Samanta Cajic,René Hennig,Valerian Grote,Udo Reichl,Erdmann Rapp,

Engineering doi: 10.1016/j.eng.2023.02.016

Abstract: (Fmoc)—to bridge the gap between diverse glycoanalytical methods, especially multiplexed capillary gelelectrophoresis with laser-induced fluorescence detection (xCGE-LIF) and matrix-assisted laser desorption

Keywords： Glycoproteins     N-glycans     Reversible labeling     Hydrophilic interaction liquid chromatography     Capillary gelelectrophoresis     Mass spectrometry    

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Removable Dyes—The Missing Link for In-Depth N-Glycan Analysis via Multi-Method Approaches Article

Samanta Cajic, René Hennig, Valerian Grote, Udo Reichl, Erdmann Rapp

Engineering 2023, Volume 26, Issue 7,   Pages 132-150 doi: https://doi.org/10.1016/j.eng.2023.02.016

Abstract: )—to bridge the gap between diverse glycoanalytical methods, especially multiplexed capillary gelelectrophoresis with laser-induced fluorescence detection (xCGE-LIF) and matrix-assisted laser desorption

Keywords： Glycoproteins     N-glycans     Reversible labeling     Hydrophilic interaction liquid chromatography     Capillary gelelectrophoresis     Mass spectrometry    

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prediction and optimization design of sustainable concrete based on squirrel search algorithm-extreme gradient

Frontiers of Structural and Civil Engineering   Pages 1310-1325 doi: 10.1007/s11709-023-0997-3

Abstract: traditional compressive strength test, this study combines five novel metaheuristic algorithms with extreme gradientThe results indicated that the squirrel search algorithm-extreme gradient boosting (SSA-XGB) yielded

Keywords： sustainable concrete     fly ash     slay     extreme gradient boosting technique     squirrel search algorithm    

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Vibration analysis of nano-structure multilayered graphene sheets using modified strain gradient theory

Amir ALLAHBAKHSHI,Masih ALLAHBAKHSHI

Frontiers of Mechanical Engineering 2015, Volume 10, Issue 2,   Pages 187-197 doi: 10.1007/s11465-015-0339-9

Abstract:

In this paper, for the first time, the modified strain gradient theory is used as a new size-dependentAfter obtaining the governing equations based on modified strain gradient theory via principle of minimum

Keywords： graphene     van der Waals (vdW) force     modi- fied strain gradient elasticity theory     size effect parameter    

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Visual chiral recognition of 1,1′-binaphthol through enantioselective collapse of gel based on an amphiphilic

Xuhong Zhang, Haimiao Li, Xin Zhang, Meng An, Weiwei Fang, Haitao Yu

Frontiers of Chemical Science and Engineering 2017, Volume 11, Issue 2,   Pages 231-237 doi: 10.1007/s11705-017-1633-3

Abstract: The resulting gel can be applied as a fascinating platform for visual recognition of enantiomeric 1-(2-hydroxynaphthalen-1-yl)naphthalen-2-ol (BINOL) through selective gel collapse.In addition, the mechanism for the reaction of the gel with chiral BINOL was investigated by scanning

Keywords： gelator     Schiff base     chiral recognition     gel formation     gel collapse    

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Microstructural and photocatalytic characterization of cement-paste sol-gel synthesized titanium dioxide

Elena CERRO-PRADA,Miguel MANSO,Vicente TORRES,Jesús SORIANO

Frontiers of Structural and Civil Engineering 2016, Volume 10, Issue 2,   Pages 189-197 doi: 10.1007/s11709-015-0326-6

Abstract: containing calcium silicate hydrate (C-H-S) particles are identified as networking centers of a C-S-H gelnew cement matrix may be twofold advantageous since it additionally promotes the formation of C-S-H gel

Keywords： cement composites     photocatalytic TiO2     sol-gel     C-S-H gel     microstructure    

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Velocity gradient elasticity for nonlinear vibration of carbon nanotube resonators

Hamid M. SEDIGHI, Hassen M. OUAKAD

Frontiers of Structural and Civil Engineering 2020, Volume 14, Issue 6,   Pages 1520-1530 doi: 10.1007/s11709-020-0672-x

Abstract: undertake two models to capture the nanostructure nonlocal size effects: the strain and the velocity gradientThe structural nonlinear behavior of the system assuming both strain and velocity gradient theories is

Keywords： velocity gradient elasticity theory     nanotube resonators     differential-quadrature method     nonlinear vibration    

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Predicting shear strength of slender beams without reinforcement using hybrid gradient boosting trees

Thuy-Anh NGUYEN; Hai-Bang LY; Van Quan TRAN

Frontiers of Structural and Civil Engineering 2022, Volume 16, Issue 10,   Pages 1267-1286 doi: 10.1007/s11709-022-0842-0

Abstract: Gradient Boosting (GB) technique was developed and evaluated in combination with three different optimization

Keywords： slender beam     shear strength     gradient boosting     optimization algorithms    

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Gradient-based compressive image fusion

Yang CHEN,Zheng QIN

Frontiers of Information Technology & Electronic Engineering 2015, Volume 16, Issue 3,   Pages 227-237 doi: 10.1631/FITEE.1400217

Abstract: We present a novel image fusion scheme based on gradient and scrambled block Hadamard ensemble (SBHE)In the fusion phase, the image gradient is calculated to reflect the abundance of its contour informationBy compositing the gradient of each image, gradient-based weights are obtained, with which compressiveSimulation results demonstrate that the gradient-based scheme has the best performance, in terms of bothFurthermore, the gradient-based fusion scheme proposed in this paper can be applied in different fusion

Keywords： Compressive sensing (CS)     Image fusion     Gradient-based image fusion     CS-based image fusion    

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Title Author Date Type Operation

Current molecular biologic techniques for characterizing environmental microbial community

Dawen GAO, Yu TAO

Journal Article

Seasonal microbial community shift in a saline sewage treatment plant

Qingmei YAN, Xuxiang ZHANG, Tong ZHANG, Herbert H P FANG

Journal Article

Interaction and independence on methane oxidation of landfill cover soil among three impact factors: water, oxygen and ammonium

Pinjing HE, Na YANG, Wenjuan FANG, Fan Lü, Liming SHAO

Journal Article

Cultivation of aerobic granular sludge in a conventional, continuous flow, completely mixed activated sludge system

Xi CHEN,Linjiang YUAN,Wenjuan LU,Yuyou LI,Pei LIU,Kun NIE

Journal Article

Application of proteomics in environmental science

Xiaona CHU, Jiangyong HU, Say Leong ONG,

Journal Article

PulseNet China, a model for future laboratory-based bacterial infectious disease surveillance in China

Wei Li, Shan Lu, Zhigang Cui, Jinghua Cui, Haijian Zhou, Yiqing Wang, Zhujun Shao, Changyun Ye, Biao Kan, Jianguo Xu

Journal Article

Removable Dyes—The Missing Link for In-Depth N-glycan Analysis via Multi-Method Approaches

Samanta Cajic,René Hennig,Valerian Grote,Udo Reichl,Erdmann Rapp,

Journal Article

Removable Dyes—The Missing Link for In-Depth N-Glycan Analysis via Multi-Method Approaches

Samanta Cajic, René Hennig, Valerian Grote, Udo Reichl, Erdmann Rapp

Journal Article

prediction and optimization design of sustainable concrete based on squirrel search algorithm-extreme gradient

Journal Article

Vibration analysis of nano-structure multilayered graphene sheets using modified strain gradient theory

Amir ALLAHBAKHSHI,Masih ALLAHBAKHSHI

Journal Article

Visual chiral recognition of 1,1′-binaphthol through enantioselective collapse of gel based on an amphiphilic

Xuhong Zhang, Haimiao Li, Xin Zhang, Meng An, Weiwei Fang, Haitao Yu

Journal Article

Microstructural and photocatalytic characterization of cement-paste sol-gel synthesized titanium dioxide

Elena CERRO-PRADA,Miguel MANSO,Vicente TORRES,Jesús SORIANO

Journal Article

Velocity gradient elasticity for nonlinear vibration of carbon nanotube resonators

Hamid M. SEDIGHI, Hassen M. OUAKAD

Journal Article

Predicting shear strength of slender beams without reinforcement using hybrid gradient boosting trees

Thuy-Anh NGUYEN; Hai-Bang LY; Van Quan TRAN

Journal Article

Gradient-based compressive image fusion

Yang CHEN,Zheng QIN

Journal Article