固定化微生物在生物膜式生化需氧量传感器中的应用现状

生化需氧量(Biochemical oxygen demand,BOD)微生物传感器是一种快速检测水样中有机污染物含量的设备,固定化微生物是其核心部件之一,对其稳定性、响应时间、使用寿命及实际应用范围等性能有着重要影响。生物膜式BOD传感器较其他类型的BOD微生物传感器具有结构简单、灵敏度高、响应时间短等优点,受到广泛的研究和应用。本文主要针对固定化微生物在生物膜式BOD传感器中的应用情况,概述较典型的微生物固定化方式的原理、特点及应用;总结几类应用较多或具有较好前景的载体材料,并讨论载体特性与传感器性能之间的关系;综述微生物在该领域的应用现状;简要介绍生物膜式BOD传感器的实际应用及商业化现状,比较其与另外几种BOD微生物传感器的优缺点;分析生物膜式BOD传感器中固定化微生物现存的一些问题及其发展趋势。     

Evaluating soil microbial carbon use efficiency explicitly as a function of cellular processes: implications for measurements and models

Carbon use efficiency (CUE), the proportion of carbon (C) consumed by microbes that is converted into biomass, is an important parameter for soil C models with explicit microbial controls. While often considered as a single parameter, CUE is an emergent property of multiple microbial processes, including assimilation efficiency, biomass-specific respiration, enzyme production, and respiratory costs of enzyme production. These processes occur over variable time scales and imply different fates for C, and the same emergent CUE value can result when C is allocated in fundamentally different ways (e.g. a high investment in enzyme production vs. a high assimilation cost). We developed a model that represents the individual processes underlying emergent CUE to test how shifts in microbial allocation alter equilibrium soil C pool sizes. We found that an increase in emergent CUE that results from a change in assimilation efficiency, biomass specific respiration, or respiration costs from enzyme production causes soil organic C (SOC) to decline, while the same change in emergent CUE resulting from a change in enzyme production causes SOC to increase. We also used the model to test the sensitivity of CUE from isotopic C tracer estimates to changes in microbial allocation processes. We found that these estimates do not account for the same microbial processes represented by emergent CUE in models. We propose that considering microbial processes explicitly rather than representing CUE as a single parameter can improve data-model integration. In addition, modeling microbial processes explicitly will account for a wider range of possible outcomes from shifts in microbial C allocation, such as when increased SOC results from increasing CUE.     

Selectivity enhancement of an Escherichia coli bacterial electrode using enzyme and transport inhibitors

The feasibility of using specific enzyme and transport inhibitors to minimize the glutamine response of a potentiometric microbial sensor is demonstrated. The glutamine response of a bacterial electrode prepared with Escherichia coli as the biocatalyst in conjunction with an ammonia gas-sensing electrode was greatly reduced by treating the electrode with the enzyme inhibitor 6-diazo-5-oxo-L-norleucine (DONL) and the transport inhibitor gamma-L-glutamylhydrazide. Each inhibitor effectively decreased glutamine response to a level sufficiently low to be considered negligible in clinical studies. Although the sensor ultimately recovered from the effects of a single exposure to an inhibitor, continuous exposure at an optimum concentration maintained a low response to glutamine. Furthermore, the treatment of the sensor with both inhibitors simultaneously resulted in a negligible response to glutamine of <1 mV, indicating that both inhibitors are necessary for optimum inhibition of glutamine response. This approach is promising as a means of enhancing the selectivity of microbial sensors.     

Evaluation of select sensors for real-time monitoring of Escherichia coli in water distribution systems

This study evaluated real-time sensing of Escherichia coli as a microbial contaminant in water distribution systems. Most sensors responded to increased E. coli concentrations, showing that select sensors can detect microbial water quality changes and be utilized as part of a contaminant warning system.     

High cell density fed-batch fermentations for lipase production: feeding strategies and oxygen transfer

This review is focused on the production of microbial lipases by high cell density fermentation. Lipases are among the most widely used of the enzyme catalysts. Although lipases are produced by animals and plants, industrial lipases are sourced almost exclusively from microorganisms. Many of the commercial lipases are produced using recombinant species. Microbial lipases are mostly produced by batch and fed-batch fermentation. Lipases are generally secreted by the cell into the extracellular environment. Thus, a crude preparation of lipases can be obtained by removing the microbial cells from the fermentation broth. This crude cell-free broth may be further concentrated and used as is, or lipases may be purified from it to various levels. For many large volume applications, lipases must be produced at extremely low cost. High cell density fermentation is a promising method for low-cost production: it allows a high concentration of the biomass and the enzyme to be attained rapidly and this eases the downstream recovery of the enzyme. High density fermentation enhances enzyme productivity compared with the traditional submerged culture batch fermentation. In production of enzymes, a high cell density is generally achieved through fed-batch operation, not through perfusion culture which is cumbersome. The feeding strategies used in fed-batch fermentations for producing lipases and the implications of these strategies are discussed. Most lipase-producing microbial fermentations require oxygen. Oxygen transfer in such fermentations is discussed.     

DNA based biosensors

Compared to advances in enzyme sensors, immunosensors, and microbial biosensors, relatively little work exists on DNA based biosensors. Here we review the DNA based biosensors that rely on nucleic acid hybridization. Major types DNA biosensors--electrochemical, optical, acoustic, and piezoelectric--are introduced and compared. The specificity and response characteristics of DNA biosensors are discussed. Overall, a promising future is foreseen for the DNA based sensor technology.     

Physiological shifts in the microbial community drive changes in enzyme activity in a perennial agroecosystem

Perennial agroecosystems have the potential to promote plant–microbial linkages by increasing the quantity of root carbon entering the soil. However, an understanding of how perennial cropping systems affect microbial communities remains incomplete. The objective of this study was to determine the potential for a fertilized perennial bioenergy cropping system to impact microbial growth and enzyme activity. Three times throughout the growing season we examined the activity of four enzymes involved in decomposition (ß-glucosidase, ß-xylosidase, cellobiohydrolase, and N-acetyl glucosaminidase) in replicated plots of an annual (corn) and perennial-based (switchgrass) cropping system. We also took simultaneous measurements of microbial biomass and potential rates of microbial respiration and net N mineralization. Microbial biomass was unaffected by cropping system. Mid-summer, however, we observed increases in enzyme activity and potential microbial respiration in the perennial system that were independent of microbial biomass, likely in response to labile carbon inputs. Further, we observed lower net N mineralization, higher microbial biomass nitrogen and higher activity of nitrogen liberating enzymes, which are indicative of a community with high nitrogen demands. Overall, our research demonstrates that perennial agroecosystems can affect the physiological capacity of the microbial community, yielding communities with greater nitrogen retention and greater rates of decomposition as a result of allocation of resources towards enzyme production and nitrogen mining. These results can inform biogeochemical models with respect to the importance of temporally dynamic changes in carbon and nitrogen availability and microbial carbon use efficiency as drivers of enzyme production.     

Single-stranded DNAzyme-based Pb2+ fluorescent sensor that can work well over a wide temperature range

DNAzymes have become an excellent choice for sensing applications. Based on DNAzymes, three generations of Pb(2+) fluorescent sensors have been reported. In these sensors, two oligonucleotide strands (substrate strand and enzyme strand) were used, which not only increased the complexity of the detection system, but also brought some difficulties for the use of the sensors at elevated temperatures. To overcome this problem, a single-stranded DNAzyme-based Pb(2+) fluorescent sensor was designed by combining the substrate sequence and the enzyme sequence into one oligonucleotide strand. The intramolecular duplex structure of this single-stranded DNAzyme kept the fluorophore and the quencher, labeled at its two ends, in close proximity; thus the background fluorescence was significantly suppressed. Using this fluorescent sensor, Pb(2+) quantitation can be achieved with high sensitivity and high selectivity. In addition, the extraordinary stability of the intramolecular duplex structure could assure a low background fluorescence at high temperature, even if the number of complementary base pairs between the substrate sequence and the enzyme sequence was reduced, allowing the sensor to work well over a wide temperature range. Similar performances of the fluorescent sensor at 4, 25 and 37°C suggested that this sensor has a good ability to resist temperature fluctuations.     

Fluorescent biosensors of protein function

Fluorescent biosensors allow researchers to image and quantify protein activity and small molecule signals in living cells with high spatial and temporal resolution. Genetically encoded sensors are coded by a DNA sequence and hence constructed entirely out of amino acids. These biosensors typically utilize light-emitting proteins, such as derivatives of the green fluorescent protein (GFP), and have been developed for a wide range of small molecules and enzyme activities. Fluorescent biosensors can be genetically targeted to distinct locations within cells, such as organelles and membranes. This feature facilitates elucidation of how protein activities and cellular signals are modulated in different regions of the cell. Improvements in the dynamic range and robustness of sensors have enabled high throughput screening for molecules that act as agonists or antagonists of protein function.     

Screen-printed enzyme sensors for l-lysine determination

Sensors for the determination of L-lysine in samples of fermentation broth have been developed. Low-cost screen-printed sensors comprising a platinum working electrode, an Ag/AgCl pseudo reference and a carbon counter electrode were used as transducers for the enzyme sensors. L-lysine-(alpha)-oxidase from Trichoderma viride has been immobilized by entrapment into a polyurethane hydrogel. Sensors were characterized for L-lysine with respect to pH value, linear range, reproducibility, repeatability, storage and working stability. The sensitivities to other amino acids were also determined. A batch system with two working electrodes, one with immobilized enzyme and one without was adapted for the determination of L-lysine by differential measurements. Good agreement was found between L-lysine concentrations measured by the enzyme sensors and by a conventional amino acid analyzer.     

The evolutionary landscape of cytosolic microbial sensors in humans

Host-pathogen interactions are generally initiated by host recognition of microbial components or danger signals triggered by microbial invasion. This recognition involves germline-encoded microbial sensors or pattern-recognition receptors (PRRs). By studying the way in which natural selection has driven the evolution of these microbial sensors in humans, we can identify genes playing an essential role and distinguish them from other, more redundant genes. We characterized the sequence diversity of the NOD-like receptor family, including the NALP and NOD/IPAF subfamilies, in various populations worldwide and compared this diversity with that of other PRR families, such as Toll-like receptors (TLRs) and RIG-I-like receptors (RLRs). We found that most NALPs had evolved under strong selective constraints, suggesting that their functions are essential and possibly much broader than previously thought. Conversely, most NOD/IPAF subfamily members were subject to more relaxed selective constraints, suggesting greater redundancy. Furthermore, some NALP genes, including NLRP1, NLRP14, and CIITA, were found to have evolved adaptively. We identified those variants conferring a selective advantage on some human populations as the most likely targets of positive selection. More generally, the strength of selection differed considerably between the major families of microbial sensors. Endosomal TLRs and most NALPs were found to evolve under stronger purifying selection than most NOD/IPAF subfamily members and cell-surface TLRs and RLRs, suggesting some degree of redundancy in the signaling pathways triggered by these molecules. This study provides novel perspectives and experimentally testable hypotheses concerning the relative biological relevance of the various families of microbial sensors in humans.     

Programming living sensors for environment,health and biomanufacturing

Synthetic biology offers new tools and capabilities of engineering cells with desired functions for example as new biosensing platforms leveraging engineered microbes. In the last two decades, bacterial cells have been programmed to sense and respond to various input cues for versatile purposes including environmental monitoring, disease diagnosis and adaptive biomanufacturing. Despite demonstrated proof-of-concept success in the laboratory, the real-world applications of microbial sensors have been restricted due to certain technical and societal limitations. Yet, most limitations can be addressed by new technological developments in synthetic biology such as circuit design, biocontainment and machine learning. Here, we summarize the latest advances in synthetic biology and discuss how they could accelerate the development, enhance the performance and address the present limitations of microbial sensors to facilitate their use in the field. We view that programmable living sensors are promising sensing platforms to achieve sustainable, affordable and easy-to-use on-site detection in diverse settings.     

Characterisation and optimisation of AC conductimetric biosensors

Urease, immobilised on interdigitated gold electrodes, is employed as a model enzyme for characterisation and optimisation of a.c. conductimetric sensors. The sensors' response is measured over a frequency range of 20 Hz to 300 kHz and an optimum operating frequency established. The activity of the urease, both in solution and immobilised states, is investigated and Km values obtained. The effect of method of immobilisation and enzyme loading on the sensors' performance are studied and urease electrodes are characterised as a function of temperature, pH and electrolyte concentration. An important finding, particularly for conductimetric sensors designed for clinical use, is that proper consideration of the effects of electrode polarisation must be taken into account in order to maintain high sensor sensitivity at physiological electrolyte concentrations. Measurements of urea concentration in untreated serum are described.     

镍污染对土壤微生物的生态效应

镍是高等植物和某些微生物必需的微量营养元素之一,在它们的生命活动中起着重要作用;但浓度较高时,也是一种极毒元素。大量的研究表明,镍污染土壤中微生物的生长、代谢、群落结构和种群多样性会受到不同程度的影响;微生物在长期受重金属威迫的环境中形成其适应性。利用微生物形成的这种适应机制,采用微生物技术治理重金属污染的土壤是可能的。本文还对镍污染土壤的微生物评价指标体系、土壤环境容量、微生物技术开发和综合治理技术开发等的进一步研究作了展望。     

Microbial nar-GFP cell sensors reveal oxygen limitations in highly agitated and aerated laboratory-scale fermentors

Background  

Small-scale microbial fermentations are often assumed to be homogeneous, and oxygen limitation due to inadequate micromixing is often overlooked as a potential problem. To assess the relative degree of micromixing, and hence propensity for oxygen limitation, a new cellular oxygen sensor has been developed. The oxygen responsive E. coli nitrate reductase (nar) promoter was used to construct an oxygen reporter plasmid (pNar-GFPuv) which allows cell-based reporting of oxygen limitation. Because there are greater than 10⁹ cells in a fermentor, one can outfit a vessel with more than 10⁹ sensors. Our concept was tested in high density, lab-scale (5 L), fed-batch, E. coli fermentations operated with varied mixing efficiency – one verses four impellers.     

Modeling of spherical fluorescent glucose microsensor systems: design of enzymatic smart tattoos

A two-substrate mathematical model of microspherical optical enzymatic glucose sensors is presented. The sensors are based on the well-known oxidation of glucose by glucose oxidase, and are constructed by the encapsulation of glucose oxidase within hydrogel microspheres coated with ultrathin polyelectrolyte multilayer films. In order to measure glucose via changes in oxygen concentration, a fluorescent oxygen indicator is co-encapsulated with the enzyme. The model was used to predict the temporal and spatial distributions of glucose and oxygen within the sphere for step increases in bulk glucose concentration. In addition, the model was used to observe the effect of varying sensor parameters, namely sphere size, film thickness, enzyme concentration, and mass transport of substrate and co-substrate within the sphere and film coatings, on the response of the sensors. A major finding was that the application of {PSS/PAH} films as thin as 12 nm can drastically improve the sensor performance over uncoated sensors based on calcium alginate microspheres. The model is proposed as an important tool for a priori design of these complex sensor structures.     

适配体传感器检测抗生素的研究进展

抗生素作为一种微生物的次级代谢产物,具有杀死或抑制微生物生长的作用。抗生素的滥用导致了它在食物中的残留量逐年增加。因此,需要建立一种快速灵敏检测方法用于食品中抗生素残留量的检测。核酸适配体传感器因其高选择性、高特异性和高灵敏性等优点而备受关注。同时,借助纳米材料独特的光、电特性,能够进一步提高适配体传感器的性能。本文综述了目前用于抗生素检测的核酸适配体传感器如荧光适配体传感器、比色适配体传感器和电化学适配体传感器等的研究进展。此外,还对该研究领域面临的挑战和未来前景进行了展望。     

Ethanol biosensors based on alcohol oxidase

The detection and quantification of ethanol with high sensitivity, selectivity and accuracy is required in many different areas. A variety of methods and strategies have been reported for the determination of this analyte including gas chromatography, liquid chromatography, refractometry and spectrophotometry, among other. The use of the enzyme alcohol oxidase (AOX) on the analysis of ethanol in complex samples allows a considerable enhancement in specificity. This paper reviews the state of the art on ethanol determination based on AOX sensors, using either electrochemical electrodes or immobilised enzyme reactors. Almost all AOX-based ethanol sensors developed so far are based on the monitoring of O2 consumption or H2O2 formation. This has been mostly achieved using amperometric electrodes set at appropriate potentials namely, -600 mV for O2 monitoring or +600 mV for H2O2 monitoring. Mediated and non-mediated bienzymatic systems have also been assembled using AOX coupled to horseradish peroxidase (HRP). Different types of electrodes have been proposed for the detection of ethanol, namely, membrane electrode, carbon paste electrodes, screen-printed electrodes and self-assembled monolayers. Another approach to work with this sensitive enzyme is to use high amounts of AOX in order to create an enzyme reservoir, a strategy which can be implemented using immobilised enzyme reactors. These reactors can be combined with a colorimetric detection in a flow-injection analysis system or with electrochemical transducers.     

土壤酶计量揭示了武夷山黄山松林土壤微生物沿海拔梯度的碳磷限制变化

了解土壤胞外酶活性和酶计量的变化对评估山地生态系统土壤养分有效性和微生物的营养限制状况具有重要意义.然而,亚热带山地森林土壤微生物的营养限制状况对海拔梯度变化的响应及其驱动因素尚不清楚.本研究以武夷山不同海拔(1200～2000 m)黄山松林为对象,测定了土壤基本性质、微生物生物量以及与碳(C)、氮(N)、磷(P)循环...