Evaluation of interference to conventional and real-time PCR for detection and quantification of fungi in dust

Advances in polymerase chain reaction (PCR) have permitted accurate, rapid and quantitative identification of microorganisms in pure cultures regardless of viability or culturability. In this study, a simple sample processing method was investigated for rapid identification and quantification of fungal spores from dust samples using both conventional and real-time PCR. The proposed method was evaluated for susceptibility to interference from environmental dust samples. Stachybotrys chartarum and Aspergillus fumigatus were used as test organisms. The sensitivity of detection in pure culture was 0.1 spore DNA equivalents per PCR reaction corresponding to 20 spores ml(-1) in the sample. However, 1 spore DNA equivalent per PCR reaction corresponding to 200 spores ml(-1) in the sample was the lowest amount of spores tested without interference in dust samples spiked with spores of either fungal species. The extent of inhibition was calculated using conventional and real-time PCR reactions containing fungal spores, specific primers, specific probes (for real-time PCR) and various amounts of dust. The results indicate that the extent of inhibition by dust on PCR varies with the type and amount of dust, and number of spores. No interference in the analysis of spiked samples was detected from 0.2 mg ml(-1) of four real-life dust samples at p-value >0.05 using 2 x 10(4) spores for conventional PCR and 2 x 10(5) spores for real-time PCR. However, samples containing >0.2 mg ml(-1) real-life dust compromised the PCR assay. These results suggest the potential usefulness of a simple sample processing method in conjunction with PCR for monitoring the fungal content of aerosols collected from indoor environments.     

Quantitative measurement of streptomycetes using real-time PCR

A quantitative real-time PCR method was developed and used for determination of streptomycetes in indoor dust samples of five homes collected during three years. The specificity of the method was tested with 14 Streptomyces and ten non-streptomycetous species, revealing a high specificity for mesophilic streptomycetes. Thermophilic species and S. albus were not efficiently detected. The method gave reproducible results in replicate analyses of the same dust DNA as well as of duplicate DNA isolations. The amount of streptomycetes in house dust was lowest in winter, followed by summer, and highest in spring and fall. The greatest variation in Streptomyces-concentrations was observed in the spring and fall samples.     

Recovery of Francisella tularensis from soil samples by filtration and detection by real-time PCR and cELISA

The aim of this study was to develop a specific and highly sensitive method able to detect very low concentrations of Francisella tularensis in soil samples by real-time PCR (qPCR) with SYBR Green I. tul4 gene, which encodes the 17-kDa protein (TUL4) in F. tularensis strains, was amplified using a LightCycler (LC) device. We achieved a detection limit of 0.69 fg of genomic DNA from F. tularensis subp. holarctica live vaccine strain (LVS), corresponding to a value less than 3.4 genome equivalents per reaction. The qPCR was shown to be specific, highly sensitive and reproducible. In addition, we evaluated 2 new methods for recovering bacteria from soil based on 1-step filtration using glass fiber filters and PVDF filters. These filtration methods enabled us to recover F. tularensis efficiently from soil samples. As few as 50 CFU per 0.5 g of soil were detected by qPCR. Capture enzyme-linked immunosorbent assay (cELISA) allowed us to detect and quantify the amount of bacteria recovered from soil by an immunological method. Although qPCR was more sensitive than cELISA, we did not observe substantial differences in the amount of bacteria quantified by both methods.     

实时荧光定量PCR法快速测定水中微囊藻

以铜绿微囊藻（Microcystis aeruginosa）16S rRNA基因片段为靶序列设计一对特异性引物,采用Real-time PCR法,对铜绿微囊藻进行定性、定量检测。试验表明,仅含铜绿微囊藻DNA模板的样品有特异性扩增,扩增产物熔解曲线平稳,峰尖且窄,熔解温度为（87±1）℃。以重组质粒pMD-18T-16S为标准品,检测区间为1．1×102 copies/mL～1．1×108 copies/mL,所得标准曲线符合制备实时定量PCR标准曲线的要求,对标准品进行测定,方法检出限为11 copies/mL。用该标准曲线对实验室培养获得的铜绿微囊藻DNA样品进行定量检测,与显微镜计数结果基本一致。     

Detection and quantification of major toxigenic Microcystis genotypes in Moo-Tan reservoir and associated water treatment plant

Two molecular methods, denaturing gradient gel electrophoresis (DGGE) and quantitative real-time polymerase chain reaction (qPCR) with the Universal ProbeLibrary (UPL) probe, were developed and used for the characterization and quantification of several microcystin producers in Moo-Tan Reservoir (MTR), Taiwan and its associated water treatment plant (Shih-Men Water Treatment Plant, SMWTP). Internal transcribed spacer (ITS) sequence, a highly diversified region between the 16S rRNA and 23S rRNA genes, was used to further identify the isolated strains from MTR and also used in DGGE for the detection of the specific DNA fragments and biomarkers for 11 strains observed in MTR. These ITS-DGGE biomarkers were successfully applied to monitor the community changes of potential toxigenic Microcystis sp. over a period of five years. Two highly specific primers were combined with UPL probes to measure microcystins synthesis gene (mcyB) and phycocyanin intergenic spacer region (cpcB) concentrations in water samples. The copy concentrations of UPL-mcyB and UPL-cpcB correlated well with MC-RR concentrations/water temperature and Microcystis sp. cell numbers in the water samples, respectively. For SMWTP, toxin concentrations were low, but the DGGE bands clearly demonstrated the presence of potential microcystin producers in both water treatment plants and finished water samples. It was demonstrated that toxigenic Microcystis sp. may penetrate through the treatment processes and pose a potential risk to human health in the drinking water systems.     

Determination of response of real-time SidePak AM510 monitor to secondhand smoke, other common indoor aerosols, and outdoor aerosol

The amount of light scattered by airborne particles inside an aerosol photometer will vary not only with the mass concentration, but also with particle properties such as size, shape, and composition. This study conducted controlled experiments to compare the measurements of a real-time photometer, the SidePak AM510 monitor (SidePak), with gravimetric mass. PM sources tested were outdoor aerosols, and four indoor combustion sources: cigarettes, incense, wood chips, and toasting bread. The calibration factor for rescaling the SidePak measurements to agree with gravimetric mass was similar for the cigarette and incense sources, but different for burning wood chips and toasting bread. The calibration factors for ambient urban aerosols differed substantially from day to day, due to variations in the sources and composition of outdoor PM. A field evaluation inside a casino with active smokers yielded calibration factors consistent with those obtained in the controlled experiments with cigarette smoke.     

PCR技术检测故黄河TB和HP菌污染

ＰＣＲ技术能使极微量的致病细菌的致病基因或病源微生物基因在体外快速、特异扩增百万倍,从而极易判断。我们用此技术检测故黄河（徐州市区段）ＴＢ菌和ＨＰ菌的污染情况,具有特异、灵敏、快速的特点。     

大气颗粒物中元素碳的直接测定

对原来用元素分析仪测定大气颗粒物样品中有机碳、元素碳的方法[1 ] 进行改进 ,将差减法间接测定元素碳改为一步直接测定元素碳。有机碳、元素碳的测量标准偏差的平均值分别为 0 35 %、0 34% ,提高了元素碳的测量精度 ,同时避免了误差传递 ,解决了差减法测定元素碳时出现负值的情况。     

实时荧光定量聚合酶链反应快速检测产毒铜绿微囊藻

以铜绿微囊藻(Microcystis aeruginosa)产毒株微囊藻毒素合成酶基因(mcyA)为靶序列设计了一对特异性引物,运用实时荧光定量聚合酶链反应(qPCR)方法,对铜绿微囊藻进行了定性定量检测。结果表明,仅含铜绿微囊藻脱氧核糖核酸(DNA)模板的样品有扩增,对照组小球藻(Chlorella)没有检测到扩增信号;扩增产物熔解曲线平稳,峰尖且窄,熔解温度为(83±1)℃,证明该聚合酶链反应扩增产物极为特异。以重组质粒pMD-18T-mcyA为标准品,所得标准曲线具有高度线性相关性,重复性好,符合制备实时定量聚合酶链反应标准曲线的要求。利用该方法建立的标准曲线对实验室培养获得的铜绿微囊藻DNA样品进行定量检测,与显微镜计数结果基本一致。     

Ultra-sensitive quantification of copper in food and water samples by electrochemical adsorptive stripping voltammetry

A new electrochemical adsorptive stripping voltammetry method was developed for the determination of trace amounts of copper in food and water samples. The study of electrochemical behavior of Cu ion indicated that Cu(II) and Schiff base formed a complex in H₃BO₄–NaOH buffer solution (pH?=?7.25). An accumulation potential of ?100 mV (vs Ag/AgCl) was applied while the solution was stirred for 60 s. The response curve was recorded by scanning the potential, and the peak current of ?0.31 V (vs Ag/AgCl) was recorded. The peak current and concentration of copper accorded with linear relationship in the range of 0.04–120 ng mL^?1. The relative standard deviation (for 12 ng mL^?1 of copper) was 1.73 %, and the detection limit was 0.007 ng mL^?1. The possible interference of some common ions was studied. The proposed method was applied to the determination of copper in water, rice, wheat, tea, milk, and tomato with satisfactory results.     

Airborne Alternaria and Cladosporium species and relationship with meteorological conditions in Eskisehir City, Turkey

Alternaria and Cladosporium, known as the most allergenic spores were first collected by means of Durham gravimetric sampler from Eskisehir atmosphere from January 1, 2000 to December 31, 2001. The daily, monthly and annual variations in spores/cm(2) of Cladosporium and Alternaria were recorded. During this period, a total of 10.231 spores belonging to Cladosporium and Alternaria genera were recorded. Of these spores, 5,103 were identified in 2000 and 5,128 in 2001. While 63.09% of the total spores were those of Cladosporium, 36.91% were of Alternaria. Relationships between airborne fungal spore presence and meteorological conditions were statistically investigated. A Shapiro-Wilk test revealed that the airborne Cladosporium and Alternaria spores differed from a normal distribution. Thus, a Friedmann test was performed followed by a Pearson Correlation Analysis. The effects of rainfall, temperature and wind speed on Cladosporium and Alternaria numbers were non-significant according to the sites and months (p > 0.05), but the effects of relative humidity on Cladosporium and Alternaria numbers were significant (p < 0.01). Spore concentrations reached to their highest levels in May 2001.     

大气气溶胶酸度和酸化缓冲能力研究

为了掌握大气气溶胶与酸性降水的关系 ,分析和研究了中国北方和南方不同观测点可吸入颗粒物 (PM10 )的酸度 ,并利用微量酸碱滴定的方法测定了其酸化缓冲能力。结果表明大气气溶胶具有一定的酸度 ,同时对酸化的缓冲能力非常低 ,甚至可以促进降水的酸化 ,这种污染特征也是上述观测点发生酸性降水的重要原因之一。     

SEM-EDX analysis of various sizes aerosols in Delhi India

Scanning electron microscopy-energy dispersive X-ray analysis (SEM-EDX) was used to understand the differences in morphology, elemental composition and particle density of aerosols in different five size ranges to further investigate the potential sources as well as transport of pollutants from/at a much polluted and a very clean area of Delhi. Aerosol samples were obtained in five different size ranges viz. > or = 10.9, 10.9-5.4, 5.4-1.6, 1.6-0.7 and < or = 0.7 microm from a considerably very clean and a much polluted area of Delhi. It was observed that at polluted area most of the particles irrespective of size are of anthropogenic origin. At clean area, in coarse size fractions particles are of natural origin while in fine size range the presence of anthropogenic particles suggests the transport of particles from one area to the other.     

Visibility impairing aerosols in the urban atmosphere of Delhi

To study the visual air quality of Delhi, size fractionated aerosols – coarse and fine fractions of PM₁₀ – were collected and analysed for and EC at three sites with different background activities. The analysed species constitute a smaller portion of coarse fraction (39%) but a larger portion of fine fraction (69%). The sampling was performed from June 2003 to November 2003 which covers monsoon and post monsoon seasons.Aerosol data was used to describe the spatial variation of Visibility Range as a function of chemical composition of visibility impairing aerosols. During the study period, visibility was found to be poor varying between 4.7 and 13 km with an average value of 9.4 km. It is observed that visibility impairment was more due to carbonaceous aerosol followed by sulphate.     

Monitoring trace metals in urban aerosols from Buenos Aires city. Determination by plasma-based techniques

A study was undertaken, within the framework of a 3 years national project, to assess the content of 13 elements in airborne particulate matter collected in representative zones of the metropolitan area of Buenos Aires. The sampling strategy followed consisted in collecting simultaneously 67 samples of PM10 particulate matter in 9 sampling sites covering an area of about 30 km2 during one week. The collection was performed on ash-free fibre-glass filters using high volume samplers. A combination of aqua regia and perchloric acid was used for leaching metals from filters. Key elements, namely Al, Ca, Cu, Fe, Mn, Mo, Ni, Pb, S, Sb, Sn, Zn and Zr, were determined by inductively coupled plasma-optical emission spectrometry (ICP-OES) and inductively coupled plasma-mass spectrometry (ICP-MS) at micro g g(-1) and ng g(-1) levels. Analyte concentration varied from 130 ng g(-1)(Mo) to over 30%(Ca). Multivariate statistical analysis was performed on the data set including the measured elemental compositions for the monitored period. The atmospheric concentration found for Pb confirms the decreasing levels of this element since the introduction of unleaded gasoline in 1995: 88 ng m(-3)(2001) < 220 ng m(-3)(1997) < 3900 ng m(-3)(1994). The average S concentration above 3 microg m(-3) is somehow unexpectedly high for Buenos Aires since the relatively low S content of liquid fuels and the massive usage of natural gas imply low emissions of this element from combustion activities. To the best of our knowledge, S concentrations are reported for the first time for this city.     

Particle size distribution of aerosols and associated heavy metals in kitchen environments

Mass size distributions of total suspended particulate matter (TSPM) was measured from Sep 2002 to April 2003 in indoor kitchen environments of five locations in Jawaharlal Nehru University (JNU), New Delhi, with the help of a high volume cascade impactor. Particulate matters were separated in five different size ranges, i.e. >10.9 microm, 10.9-5.4 microm, 5.4-1.6 microm, 1.6-0.7 microm and <0.7 microm. The particle size distribution at various sites appears to follow uni-modal trend corresponding to fine particles i.e. size range <0.7 microm. The contributions of fine particles are estimated to be approximately 50% of TSPM and PM10.9, while PM10.9 comprises 80% of TSPM. Good correlations were observed between various size fractions. Regression results reveal that TSPM can adequately act as a surrogate for PM10.9 and fine particles, while PM10.9 can also act as surrogate for fine particles. The concentrations of heavy metals are found to be dominantly associated with fine particles. However, the concentration of some metals and their size distribution, to some extent is also site specific (fuel type used).     

Validation of atmospheric aerosols parallel sampling in a multifold device

In this work, particulate matter was collected using an active sampling system consisting of a PM₁₀ (<10 μm) inlet coupled to a multifold device containing six channels, connected to a vacuum pump. Each channel was equipped with a filter holder fitted with adequately chosen filters. The system was fixed on a metallic structure, which was placed on the roof of the laboratory building, at the Faculty of Sciences, in Lisbon. Sampling took place under flow-controlled conditions. Aerosols were extracted from the filters with water, in defined conditions, and the water-soluble fraction was quantified by ion chromatography (IC) for the determination of inorganic anions (Cl^?, NO₃ ^? and SO₄ ^2?). Equivalent sampling through the various channels was validated. Validation was based on the metrological compatibility of the content results for the various filters. Ion masses are metrologically equivalent when their absolute difference is smaller than the respective expanded uncertainty. When this condition is verified, the studied multifold device produces equivalent samples.     

固相萃取-高效液相色谱法测定环境水体中甲萘威

甲萘威是一种广谱的氨基甲酸酯类杀虫剂,由于使用广泛,从环境进入人体的机会较多,产生毒性的机会较大.建立固相萃取.高效液相色谱法测定环境水体中甲萘威,该方法检测甲萘威的检出限为1.2μg/L,当浓度范围为0～10.0μg/ml时,回归方程相关系数为0.9999,样品加标平均回收率为86.6%,RSD小于5%,均优于传统液-液萃取.     

水中酚类化合物的高效液相色谱分离与测定

采用国产ＧＤＸ５０２树脂,在酸性（ｐＨ＝２）条件下,富集水和废水中的酚,然后用碳酸氢钠溶液淋洗树脂去除有机酸,最后用乙腈洗脱,液相色谱仪分离测定了美国环境保护局（ＥＰＡ）要求的１１种酚,其中包括我国优先监测有毒有害有机污染物黑名单中的６种酚。各组分的加标回收率大于８５％,变异系数小于１５％。当富集水样的体积为１０００ｍｌ时,各组分的最低检测浓度可达０４～１１μｇ／Ｌ。