3种检测吡咯喹啉醌的方法比较

目的:研究和比较3种检测吡咯喹啉醌(PQQ)的方法,确定各种方法的特点和适用范围。方法:设计和改进了3种检测PQQ的方法,分别为活性电泳法、光谱法和NBT-Gly法,探讨其检测限和线性范围、精密度、样品检测和加样回收率。结果:活性电泳法专一性好,具有很高的灵敏度,可检测到12.6 ng/mL PQQ,可靠但准确性较差;NBT-Gly法操作简便,可用于大量样品的检测,但重复性不佳;光谱法精密度较好,但样品中存在吸光物质时对检测结果影响较大。结论:活性电泳法、光谱法和NBT-Gly法均可用于PQQ的检测,活性电泳法适于培养上清等复杂样品的粗略定量,NBT-Gly法适于大量样品的检测,光谱法适于纯度较高的PQQ的定量。     

扩增内标及其在食源性致病菌PCR检测中的应用

虽然PCR技术不断地得到了发展和改进,但检测结果容易出现假阴性而影响检测准确性的现象一直没有得到很好的解决。现在大多数学者普遍认为,在PCR体系中加入扩增内标(即一段人工构建合成的DNA序列或者是一段致病菌的看家基因序列)能有效指示假阴性现象的出现,是PCR检测技术标准化的措施之一。本文将从PCR检测方法中假阴性出现的原因、扩增内标的构建以及扩增内标在PCR检测方面的应用三方面进行综合评述,并结合本实验室的工作基础,介绍扩增内标的简捷构建过程和应用要点,希望在不影响检测灵敏度的前提下,发挥扩增内标对假阴性的指示作用。     

A review of detection range testing in aquatic passive acoustic telemetry studies

Passive acoustic telemetry provides an important tool to study the spatial ecology and behaviour of organisms in marine and freshwater systems, but understanding the detection range of acoustic receivers is critical for interpreting acoustic data and establishing receiver spacing to maximize study efficiency. This study presents a comprehensive review of how acoustic detection range has been considered and assessed to date, summarizes important variables to monitor when determining the detection range of a receiver array, and provides recommendations to account for detection range during experimental design, analysis and data interpretation. A total of 378 passive acoustic telemetry studies (1986–2012) were scored against a set of pre-defined criteria to provide a standardized assessment of how well detection range was accounted for, from a maximum possible score of 45. Scores ranged from 0 to 39 (11.1 ± 0.4; mean ± 1 SE). Over the past decade mean scores have been consistently between 6.7 and 12.9 which indicates that detection range has not been adequately considered in most contemporary acoustic telemetry studies. Given the highly variable nature of detection range over space and time, it is necessary to create a culture of detection range testing among the scientific community. For robust telemetry studies it is recommended that consideration of detection range should be given a greater focus within study design, execution and data analysis. To aid array design in new systems, short-term detection range tests should be conducted in the most representative area of the study system prior to deployment. As well, fixed distance sentinel tags should ideally be deployed at a representative receiver site within the array to provide a continuous assessment of detection range and influential environmental parameters should be monitored to facilitate modeling of detection range variability over time. When warranted, data analysis should incorporate modeled variation in detection ranges.     

Absence of evidence is not evidence of absence

Imperfect detection of a species is often a problem when attempting to establish its presence or absence at a set of locations. Failing to find the required evidence that a species is present at a location does not imply that the species is absent, merely that it has not been found. Some of the consequences of imperfect detection is that assessments of factors influencing species presence/absence can be misleading, and how certain can one be that the species is really absent given it has not detected at a location. In this talk I shall briefly review some of the consequences of imperfect detection, methodological advances that enable the detection process to be explicitly accounted for, and practical ways in which the required additional information can be collected.     

大肠杆菌变种的两种分子生物学检测方法分析

目的:对大肠杆菌的一种重要的变种--肠出血性大肠杆菌O157-H7的几种检测方法进行比较研究.方法:以自动免疫磁珠收集系统(AIMS)、自动酶标免疫测试系统(VIDAS)与传统常规的分离方法进行对比分析.结果:运用自动免疫磁珠收集系统(AIMS)方法对80份可能含有肠出血性大肠杆菌O157-H7的实样进行检测,检出份数为6份,检出率为7.5％,而且在一周之内可以全部对上述检出实样进行鉴定.AIMS法能够检出浓度在10cfu/mL模拟实样之中的肠出血性大肠杆菌O157-H7,然后将此法与CHROMagar 0157琼脂板相结合,其效果则更为明显.而自动酶标免疫测试系统(VIDAS)与传统与的分离方法则检测的效果不佳,检出率为0.自动免疫磁珠收集系统(AIMS)检测方法与自动酶标免疫测试系统(VIDAS)、传统与的分离方法在检出率方面存在显著的统计学差异,P＜0.01.结论:运用自动免疫磁珠收集系统(AIMS)结合CHROMagar 0157琼脂板对出血性大肠杆菌O157-H7进行检测,检出率较高、灵敏度较高且快速便捷,可以用于O157-H7外环境检测与食品污染源的实际调查之中,应该对其加以广泛地推广并应用.     

Proof of hepatitis A virus negative-sense RNA by RNA/DNA-hybrid detection: a method for specific detection of both viral negative- and positive-strand RNA species.

The detection of hepatitis A virus (HAV) negative-strand RNA, which is synthesized during replication of the positive-strand RNA genome, proved to be difficult. We developed a method for the specific detection of HAV negative-strand RNA by RNA-DNA hybridization and luminescence detection using an anti-RNA:DNA hybrid antibody. This method, which is also applicable for the specific detection of positive-strand RNA, offers a simple, yet relatively rapid and certain means of detecting low amounts of RNA such as HAV negative-strand RNA. By using appropriate hybridization DNA probes, the method should be applicable for the detection of single-stranded RNA species of different viruses in general.     

Using hierarchical models to compare the sensitivity of metabarcoding and qPCR for eDNA detection

Environmental DNA (eDNA) sampling—the detection of intra- or extra-cellular DNA in environmental samples—is a rapid and sensitive survey method for detecting aquatic species. Single-species detection methods (typically based on PCR or LAMP) have been shown to be more sensitive for detecting target species than multi-species detection methods, such as metabarcoding. However, previous studies have generally only compared these two eDNA detection approaches for a single target species and have used different methodological and statistical approaches. Here we present a comparison of single- and multi-species eDNA detection methods, drawing on two published case studies (one fish, one amphibian) and two new extensive datasets on a freshwater mammal (the platypus). To ensure consistent conclusions regarding the sensitivity of each eDNA method, we use the same hierarchical site occupancy-detection model for each dataset, incorporating uncertainty at the site, water sample, and technical replicate level. Overall, qPCR achieved higher detection probabilities than metabarcoding across species and datasets. However, differences in sensitivity between detection methods varied depending on methodological decisions concerning what constitutes a true positive detection (i.e., qPCR and metabarcoding thresholds). The decision as to which eDNA detection method to use should always be influenced by the study aims, but our results suggest that single-species detection methods based on qPCR may be preferable when the aim is to achieve a high detection probability for target species.     

Effect of detection heterogeneity in occupancy‐detection models: an experimental test of time‐to‐first‐detection methods

Imperfect detection can bias estimates of site occupancy in ecological surveys but can be corrected by estimating detection probability. Time‐to‐first‐detection (TTD) occupancy models have been proposed as a cost–effective survey method that allows detection probability to be estimated from single site visits. Nevertheless, few studies have validated the performance of occupancy‐detection models by creating a situation where occupancy is known, and model outputs can be compared with the truth. We tested the performance of TTD occupancy models in the face of detection heterogeneity using an experiment based on standard survey methods to monitor koala Phascolarctos cinereus populations in Australia. Known numbers of koala faecal pellets were placed under trees, and observers, uninformed as to which trees had pellets under them, carried out a TTD survey. We fitted five TTD occupancy models to the survey data, each making different assumptions about detectability, to evaluate how well each estimated the true occupancy status. Relative to the truth, all five models produced strongly biased estimates, overestimating detection probability and underestimating the number of occupied trees. Despite this, goodness‐of‐fit tests indicated that some models fitted the data well, with no evidence of model misfit. Hence, TTD occupancy models that appear to perform well with respect to the available data may be performing poorly. The reason for poor model performance was unaccounted for heterogeneity in detection probability, which is known to bias occupancy‐detection models. This poses a problem because unaccounted for heterogeneity could not be detected using goodness‐of‐fit tests and was only revealed because we knew the experimentally determined outcome. A challenge for occupancy‐detection models is to find ways to identify and mitigate the impacts of unobserved heterogeneity, which could unknowingly bias many models.     

生物单分子光学探测方法的进展

活细胞中单分子的实时显视是单分子生物学的关键技术,本文针对单分子显视的光学方法做了评述。分别描述了共焦荧光显微术、荧光全内反射显微术以及荧光共振能量转移探测的技术细节,分析了这些技术对于单分子探测所具备的优势和不足。并对单分子方法的未来发展给出预测。指出包括原于力在内的各种探测手段的联合使用和创新荧光染料技术是进一步提高分辨率的突破口。而随着高灵敏和低噪音探测器的发展,各种新方法的出现也有可能突破目前荧光染料尺度给予的分辨极限。     

When is a cow in estrus? Clinical and practical aspects

Good detection of estrus is critically important in dairy husbandry. Incorrect detection of estrus is related to loss of profit due to extended calving intervals, milk loss, veterinary costs, etc. Detection of estrus remains a major problem despites enormous progress in the knowledge of reproductive physiology of the cow and in development of estrus detection aids. To achieve good estrus detection, many factors have to be taken into account. On one hand a cow has to express estrus and on the other hand the farmer has to detect it. Combined action of several hormones causes physiological changes that lead to ovulation and an environment in the uterus that allows sperm to fertilize the egg. Besides these internal actions, a number of external changes can be observed. When using visual observations, time of the day and time spend on observation have a great impact on detection rates. Many devices are available to aid in estrus detection, such as pedometers, mount devices, temperature, and hormone measurements.Expression of estrus can be influenced by many factors. Heritability, number of days postpartum, lactation number, milk production, and health are known to influence estrus expression. Environmental factors like nutrition, season, housing, herd size, etc. also play a role in estrus expression. To evaluate estrus detection, record keeping is very important; a number of formulas can be used to assess detection efficiency. Besides the farmer, the veterinarian and inseminator can play an important role in estrus confirmation and good insemination strategy. In the end, the time of ovulation and the age of the egg at sperm penetration is critical for conception. Therefore, emphasis in research needs to be on the timing of insemination relative to ovulation, and thus on the detection of ovulation.     

Interference-based detection of nucleic acid targets on optically coated silicon

Sequence-specific detection of polynucleotides typically requires modified reporter probes that are labeled with radioactive, fluorescent, or luminescent moieties. Although these detection methods are capable of high sensitivity, they require instrumentation for signal detection. In certain settings, such as clinical point of care, instrumentation might be impractical or unavailable. Here we describe a detection approach in which formation of a nucleic acid hybrid is enzymatically transduced into a molecular thin film that can be visually detected in white light. The system exploits a flat, optically coated silicon-based surface to which capture oligonucleotides are covalently attached. The optimized system is capable of detection of nucleic acid targets present at sub-attomole levels. To supplement visual detection, signals can be quantitated by a charge-coupled device. The design and composition of the optical surface, optimization of immobilization chemistry for attachment of capture probes, and characterization of the efficiency of the hybridization process are presented. We describe the application of this system to detection of a clinically relevant target, the mecA gene present in methicillin-resistant Staphylococcus aureus.     

Automated methods for multiplexed pathogen detection

Detection of pathogenic microorganisms in environmental samples is a difficult process. Concentration of the organisms of interest also co-concentrates inhibitors of many end-point detection methods, notably, nucleic acid methods. In addition, sensitive, highly multiplexed pathogen detection continues to be problematic. The primary function of the BEADS (Biodetection Enabling Analyte Delivery System) platform is the automated concentration and purification of target analytes from interfering substances, often present in these samples, via a renewable surface column. In one version of BEADS, automated immunomagnetic separation (IMS) is used to separate cells from their samples. Captured cells are transferred to a flow-through thermal cycler where PCR, using labeled primers, is performed. PCR products are then detected by hybridization to a DNA suspension array. In another version of BEADS, cell lysis is performed, and community RNA is purified and directly labeled. Multiplexed detection is accomplished by direct hybridization of the RNA to a planar microarray. The integrated IMS/PCR version of BEADS can successfully purify and amplify 10 E. coli O157:H7 cells from river water samples. Multiplexed PCR assays for the simultaneous detection of E. coli O157:H7, Salmonella, and Shigella on bead suspension arrays was demonstrated for the detection of as few as 100 cells for each organism. Results for the RNA version of BEADS are also showing promising results. Automation yields highly purified RNA, suitable for multiplexed detection on microarrays, with microarray detection specificity equivalent to PCR. Both versions of the BEADS platform show great promise for automated pathogen detection from environmental samples. Highly multiplexed pathogen detection using PCR continues to be problematic, but may be required for trace detection in large volume samples. The RNA approach solves the issues of highly multiplexed PCR and provides "live vs. dead" capabilities. However, sensitivity of the method will need to be improved for RNA analysis to replace PCR.     

基于深度学习的微藻自动检测系统研究

目的 微藻养殖产业规模巨大,在养殖过程中微藻易受杂菌和其他污染物的影响,因此需要定期对微藻进行检测,以确定其生长情况。现有的光学显微成像法和光谱分析法对实验人员、实验设备及场地的要求较高,无法做到实时快速检测。为了实现实时快速检测,需要一套检测要求低、速度快的实时微藻检测系统。方法 本文开发了一种基于深度学习的微藻检测系统,通过搭建一套基于明场成像的显微成像设备,使用采集的图像训练基于YOLOv3的神经网络,并将训练好的神经网络部署到微型计算机,从而实现了实时便携微藻检测。本文对特征提取网络进行改进,包括引入跨区域残差连接机制和注意力选择机制,另外还将优化器改为Adam优化器,使用多阶段多方法组合策略。结果 加载跨区域残差连接机制时最高平均精度（mAP）值为0.92。通过与人工结果进行对比,得到检测误差为2.47%。结论 该系统能够实现微藻实时便携检测,提供较为准确的检测结果,可以应用于微藻养殖中的定期检测。     

Comparison of three methods for beat-to-beat-interval extraction from continuous blood pressure and electrocardiogram with respect to heart rate variability analysis.

In recent years the analysis of heart rate variability (HRV) has become a suitable method for characterizing autonomous cardiovascular regulation. The aim of this study was to investigate the differences in HRV estimated from continuous blood pressure (BP) measurement by different methods in comparison to electrocardiogram (ECG) signals. The beat-to-beat intervals (BBI) were simultaneously extracted from the ECG and blood pressure of 9 cardiac patients (10 min, Colin system, 1000-Hz sampling frequency). For both data types, slope, peak, and correlation detection algorithms were applied. The short-term variability was calculated using concurrent 10-min BP and ECG segments. The root mean square errors in comparison to ECG slope detection were: 1.74 ms for ECG correlation detection; 5.42 ms for ECG peak detection; 5.45 ms for BP slope detection; 5.75 ms for BP correlation detection; and 11.96 ms for BP peak detection. Our results show that the variability obtained with ECG is the most reliable. Moreover, slope detection is superior to peak detection and slightly superior to correlation detection. In particular, for ECG signals with higher frequency characteristics, peak detection often exhibits more artificial variability. Besides measurement noise, respiratory modulation and pulse transit time play an important role in determining BBI. The slope detection method applied to ECG should be preferred, because it is more robust as regards morphological changes in the signals, as well as physiological properties. As the ECG is not recorded in most animal studies, distal pulse wave measurement in combination with correlation or slope detection may be considered an acceptable alternative.     

Population size influences amphibian detection probability: implications for biodiversity monitoring programs

Monitoring is an integral part of species conservation. Monitoring programs must take imperfect detection of species into account in order to be reliable. Theory suggests that detection probability may be determined by population size but this relationship has not yet been assessed empirically. Population size is particularly important because it may induce heterogeneity in detection probability and thereby cause bias in estimates of biodiversity. We used a site occupancy model to analyse data from a volunteer-based amphibian monitoring program to assess how well different variables explain variation in detection probability. An index to population size best explained detection probabilities for four out of six species (to avoid circular reasoning, we used the count of individuals at a previous site visit as an index to current population size). The relationship between the population index and detection probability was positive. Commonly used weather variables best explained detection probabilities for two out of six species. Estimates of site occupancy probabilities differed depending on whether the population index was or was not used to model detection probability. The relationship between the population index and detectability has implications for the design of monitoring and species conservation. Most importantly, because many small populations are likely to be overlooked, monitoring programs should be designed in such a way that small populations are not overlooked. The results also imply that methods cannot be standardized in such a way that detection probabilities are constant. As we have shown here, one can easily account for variation in population size in the analysis of data from long-term monitoring programs by using counts of individuals from surveys at the same site in previous years. Accounting for variation in population size is important because it can affect the results of long-term monitoring programs and ultimately the conservation of imperiled species.     

Direct detection of Listeria monocytogenes in 25 milliliters of raw milk by a two-step PCR with nested primers.

A method for direct detection of Listeria monocytogenes in 25 ml of raw milk is presented. The detection limit can be situated between 10 and 5 CFU. The detection method is based on chemical extraction of the milk components and PCR amplification with two nested pairs of primers specific for Listeria monocytogenes.     

Developing nucleic acid-based electrical detection systems

Development of nucleic acid-based detection systems is the main focus of many research groups and high technology companies. The enormous work done in this field is particularly due to the broad versatility and variety of these sensing devices. From optical to electrical systems, from label-dependent to label-free approaches, from single to multi-analyte and array formats, this wide range of possibilities makes the research field very diversified and competitive. New challenges and requirements for an ideal detector suitable for nucleic acid analysis include high sensitivity and high specificity protocol that can be completed in a relatively short time offering at the same time low detection limit. Moreover, systems that can be miniaturized and automated present a significant advantage over conventional technology, especially if detection is needed in the field. Electrical system technology for nucleic acid-based detection is an enabling mode for making miniaturized to micro- and nanometer scale bio-monitoring devices via the fusion of modern micro- and nanofabrication technology and molecular biotechnology. The electrical biosensors that rely on the conversion of the Watson-Crick base-pair recognition event into a useful electrical signal are advancing rapidly, and recently are receiving much attention as a valuable tool for microbial pathogen detection. Pathogens may pose a serious threat to humans, animal and plants, thus their detection and analysis is a significant element of public health. Although different conventional methods for detection of pathogenic microorganisms and their toxins exist and are currently being applied, improvements of molecular-based detection methodologies have changed these traditional detection techniques and introduced a new era of rapid, miniaturized and automated electrical chip detection technologies into pathogen identification sector. In this review some developments and current directions in nucleic acid-based electrical detection are discussed.     

Polymerase chain reaction-based methods of DNA methylation analysis

DNA methylation is the main epigenetic modification in humans, and changes in methylation patterns play an important role in tumorigenesis. Hypermethylation of normally unmethylated CpG islands in the promoter regions often occurs in important tumor suppressor genes, DNA repair genes, and metastasis inhibitor genes. The changes of methylation status of various gene promoters seem to be a common feature of malignant cells and these changes can occur early in the progression process. Therefore detection of aberrant promoter hypermethylation of cancer-related genes may be useful for cancer diagnosis or detection of cancer recurrence. The purpose of this review is to provide a summary of the most commonly used techniques for the study of DNA methylation. Current scientific literature involving methylation detection methods was reviewed with an emphasis on polymerase chain reaction (PCR)-based detection methods. The current methodologies may be broadly classed into PCR-based methylation assays and non-PCR-based methylation assays. The problems and advantages of the different methods for detecting aberrant methylation are discussed. As the number of genes known to be hypermethylated in cancer is growing, the detection of aberrant promoter region methylation will be a promising approach for using DNA-based markers for the early detection of human cancers. Many techniques, especially PCR-based methylation assay techniques, make it practical to use these new methylation biomarkers in early cancer diagnosis.     

柑橘黄龙病病原快速检测技术研究进展

柑橘黄龙病是一种毁灭性的病害,一旦感染若不能及时发现,就会迅速传播蔓延,殃及整个果园。在尚无有效药剂根治的情况下及时的发现,并铲除病原是十分重要的防止措施。因此,研究开发出精确、快速、方便、易操作的检测方法显得尤为重要。本文针对柑橘黄龙病在田间诊断、血清学检测、分子诊断、光谱检测等方面的快速检测技术进行了综述,并对各种检测技术进行比较分析,以期为未来柑橘黄龙病快速检测技术研究提供参考依据。     

A duplex approach for immunochemical staining and typing of proteins in Western blots

In this study, we describe a detection system for the indirect detection of vaccinia virus by DNA analysis. The system uses quartz crystal microbalance (QCM) as the detection technique and polymerase chain reaction (PCR) for amplification. Different immobilization strategies for the capture probe on the quartz chip are studied. For the QCM detection of hybridisation, the influence of the structure and length of target DNA is analyzed. For the detection of DNA from an amplification product, an efficient denaturation procedure is developed. On the basis of these investigations, vaccinia virus DNA is detected with only a low number of amplification rounds and a short analysis time. Specificity can be clearly shown. To enhance the signal strength and to have a further proof of specificity, a gold nanoparticle-tagged enhancer sequence can be used.