Evaluation of TaqMan PCR assay for detecting Salmonella in raw meat and shrimp.

We evaluated the TaqMan Salmonella amplification/detection kit from PE Applied Biosystems, which uses a polymerase chain reaction (PCR) assay for rapid detection of Salmonella in food samples. This system uses the 5' nuclease activity of Taq DNA polymerase, which digests an internal fluorogenic probe to monitor the amplification of the target gene. The system's sensitivity and specificity were evaluated using 42 serotypes of 68 Salmonella strains isolated from fecal samples from patients in Tokyo, Japan, and 39 non-Salmonella strains in 22 genera. There were no false-negative or false-positive results. This PCR assay can detect 3 CFU per PCR tube of Salmonella in pure culture (120 CFU/ml of TSB culture). PCR signals were attenuated with artificially contaminated shrimp, but a similar detection limit was obtained. TaqMan's performance was tested with 100 meat and chicken samples purchased from stores in Tokyo. Overall, two of the DNA extraction protocols (the Chelex and EnviroAmp methods) worked equally well, with some exceptions. Of the 100 samples analyzed, 10 were positive for Salmonella with both conventional culture methods and the kit and 89 were negative with both. One sample was negative by the culture method but positive by the kit assay. These results indicate that TaqMan is a reliable and rapid method for Salmonella analysis in the food industry. With this system, food samples can be analyzed for Salmonella in less than 20 h.     

乳制品中沙门氏菌分子检测方法的验证研究

目的验证沙门氏菌、非沙门菌及阳性核酸模板对MICROFAST?沙门氏菌核酸检测试剂盒(PCR-探针法)的特异性和稳定性,同时比对试剂盒法与GB 4789.4—2016培养法定性检测结果的一致性。方法用实验室保存的30株沙门氏菌和15株非沙门氏菌菌株验证MICROFAST?沙门氏菌核酸检测试剂盒(PCR-探针法)的特异性。通过人工添加不同浓度沙门氏菌对30个乳制品样本,采用国家标准法和试剂盒法同时检验,探究方法的一致性。选择制备好的5份阳性核酸模板,每个模板分别使用3个批次的试剂盒进行检测,对实验结果进行重复性和显著性分析,确定不同试剂盒批次间是否存在显著性差异。结果 30株沙门氏菌菌株和15株非沙门氏菌菌株的特异性检测结果表明,MICROFAST?沙门氏菌核酸检测试剂盒(PCR-探针法)对沙门氏菌的特异性符合预期。人工添加的阳性样本检测结果表明,在乳制品样本范围内,试剂盒的假阳性率与假阴性率为0。3个批次的试剂盒对5份阳性模板检测结果之间没有显著性差异,变异系数CV均小于1%。结论该试剂盒方法与国家标准法相比,具有操作简单、快速等优势,适合乳制品加工过程微生物快速检测。     

Rapid, specific detection of Salmonella Enteritidis in pooled eggs by real-time PCR

An assay was developed for the specific detection of Salmonella Enteritidis in eggs with the use of an application of the fluorogenic 5' nuclease assay (TaqMan). In this assay, a segment of the gene sefA specific to Salmonella group D strains such as Salmonella Enteritidis was used. The amplification of the target gene products was monitored in real-time by incorporating a fluorescent dye-labeled gene-specific probe in the PCR reaction. This method correctly detected and distinguished Salmonella Enteritidis from nearly 50 of non-group D Salmonella and other non-Salmonella strains. Detection of the sefA gene was linear for DNA extracted from approximately 10(2) to 10(9) CFU/ml in phosphate-buffered saline and 10(3) to 10(8) CFU/ml in raw egg. In two trials, when applied to detection of Salmonella Enteritidis in homogenized egg pools and compared with conventional culture methods, the newly developed PCR method yielded a 100% correlation with results obtained by a conventional culture method. However, the PCR method required only 2 days, compared to the 5 days required by the culture method. The sensitivity of this assay was approximately less than 1 CFU/600 g of egg pool. The real-time PCR assay proved to be a rapid, highly sensitive test for detection and quantification of low concentrations of Salmonella Enteritidis in egg samples.     

The effect of pre-enrichment protocol on the sensitivity and specificity of PCR for detection of naturally contaminated Salmonella in raw poultry compared to conventional culture

Salmonella spp. are the leading cause of foodborne illness worldwide. Conventional culture techniques for the detection of Salmonella spp. are labor intensive and time consuming. Several rapid detection methods have been developed over the past few years. However, standard methods for sample handling and preparation have not been established and limited data are available on the sensitivity and specificity of these methods for detection of Salmonella in naturally contaminated retail meat. Using culture as the gold standard for Salmonella detection in naturally contaminated raw poultry products, the sensitivity and specificity of a polymerase chain reaction (PCR) detection method was determined under varying enrichment protocols. Chicken meat samples (ground, boneless/skinless breast meat, and bone-in breast meat with skin) from retail grocery stores were pre-enriched in buffered peptone water (BPW) and Salmonella specific primers ST 11 and ST 15 were used to amplify a 429 bp region of random fragment target specific to all Salmonella spp. There was a significant decrease (P-value<0.001) in the sensitivity of the PCR test when BPW pre-enrichment alone (85%) was used compared to the sensitivity achieved after both BPW enrichment and selective enrichment with RV and TT-H (100%). PCR failed to detect any positive samples when no pre-enrichment was conducted. A minimum of 12h pre-enrichment was required for detection of Salmonella by PCR at a limit of 100 colony forming unit (cfu)/1 ml of sample. No detectable amplification product was seen in those naturally contaminated meat samples testing negative by culture methods.     

Multiplex PCR for simultaneous detection of Salmonella spp., Listeria monocytogenes, and Escherichia coli O157:H7 in meat samples

A multiplex PCR method was developed for simultaneous detection of Salmonella spp., Listeria monocytogenes, and Escherichia coli O157:H7 in meat samples. DNA detection sensitivity for this method was 10(3) CFU/ml for each pathogen. When this protocol was used for the detection of each of the above pathogenic bacteria in spiked pork samples, 1 cell per 25 g of inoculated sample could be detected within 30 h. In the samples of naturally contaminated meat, Salmonella spp., L. monocytogenes, and E. coli O157:H7 were detected over the same time period. Excellent agreement was obtained for the results of multiplex PCR and the conventional culture method, which suggests that the multiplex PCR is a reliable and useful method for rapid screening of meat products for Salmonella spp., L. monocytogenes, and E. coli O157:H7 contamination.     

TaqMan实时荧光PCR对沙门氏菌能力验证样品的快速检测与鉴定

本研究依据GB 4789.4-2016标准对沙门氏菌ACAS-PT526能力验证样品进行常规培养法检测,同时使用TaqMan实时荧光聚合酶链反应（polymerase chain reaction,PCR）技术对预增菌培养物进行快速检测和鉴定。本研究首先以沙门氏菌特异性基因hut基因为靶基因,设计合成特异性引物和探针,提取各类食源性菌种的核酸DNA进行实时荧光PCR反应,仅沙门氏菌属出现阳性扩增,非沙门氏菌属、阴性对照和空白对照均无扩增信号,验证设计合成的引物探针具有较高的特异性。其次将能力验证样品和加标样品经预增菌、增菌、分离、纯化、生化试验和血清学鉴定,同时将预增菌培养物经实时荧光PCR测定后,18-D319和加标样品有显著的S型扩增曲线,Ct值分别为24.34和26.21,为沙门氏菌阳性,18-M906无显著荧光信号,Ct值>40.00,为沙门氏菌阴性。经API20E试剂条鉴定,18-D319为猪霍乱沙门菌亚利桑那亚种,鉴定百分率为99.90%,T值为0.97,18-M906为大肠埃希氏菌,鉴定百分率为99.80%,T值为0.94。实时荧光PCR检测结果与常规培养法检测结果一致,且更为简单快速,从预增菌到结果判定仅需12 h,结果准确度高,一批次可检测多个样品,可用于大量样品中沙门氏菌的快速筛查和对能力验证样品的检测验证。     

肉及肉制品中沙门氏菌活细胞的PCR检测研究

将荧光染料叠氮溴化丙锭(propidium monoazide,PMA)与普通聚合酶链式反应(polymerase chain reaction,PCR)结合,通过对PMA的曝光时间、浓度进行优化,确定PMA-PCR区别死活细胞的最佳条件,并制作活细胞定量标准曲线,建立肉及肉制品中沙门氏菌活细胞的PMA-PCR检测方法。结果表明：使插入死细胞DNA中的PMA活化并且光解溶液中游离PMA的最佳曝光时间为15min;不抑制沙门氏菌活细胞DNA扩增的最大PMA质量浓度为10μg/mL;完全抑制热致死细胞DNA扩增的最小PMA质量浓度为4μg/mL。经PMA处理,含有不同比例的沙门氏菌热致死细胞和活细胞的混合液中活的沙门氏菌能够通过PCR被选择性的检测,最小检测限为20CFU/PCR。而且,经研究发现在20～2×105CFU/PCR范围内,电泳条带相对荧光强度与活细胞数的对数具有线性关系。采集30份肉及肉制品样品,利用PMA-PCR方法检测出两份生肉样品中存在沙门氏菌,经过6h的富集培养后的活菌浓度分别为2.5×103CFU/mL和3.4×103CFU/mL。     

食品中沙门菌PCR检测方法的建立

为建立食品中快速检测沙门菌的PCR方法。选取沙门菌属侵袭性抗原保守基因invA基因上的靶序列设计一对引物,选择最适Mg 浓度和退火温度,建立最适PCR反应体系,用2%琼脂糖,5μl反应产物(包括EB),100V,40min进行电泳,显像。用该引物对已经传统方法鉴定的22种77株沙门菌和24种24株非沙门菌进行特异性检测,并对人工污染的食品进行检测条件的研究。Mg 浓度和退火温度对该反应体系的影响较小,稳定性较好;经传统方法鉴定的22种77株沙门菌和24种24株非沙门菌验证了该检验方法具有很好的特异性;该检测方法可以在19h内检出含有沙门菌102CFUg的食品(火腿肠、鸡蛋、散装肉馅)。与传统方法比较,该方法快速、敏感、特异,能在较短的时间内对大量样品同时进行检测,适用于食品中沙门菌的快速、敏感、特异检测。     

IQ-Check Salmonella II Kit方法对食品中沙门氏菌检测的评价

通过对标准菌株和人工污染沙门氏菌的食品样品进行检测,评价IQ-Check Salmonella Ⅱ试剂盒方法。该研究采用试剂盒方法对50株不同血清型的沙门氏菌和50株非沙门氏菌进行检测,分析该方法的灵敏性和特异性;通过对人工污染沙门氏菌食品样品(包括液体奶、婴幼儿配方乳粉、肉及肉类制品)的检测,评价试剂盒方法与GB 4789.4-2016方法的一致性。实验结果表明:当菌浓度在10³ CFU/mL及以上,试剂盒方法对50株沙门氏菌实现全部检出,其对不同血清型沙门氏菌检出限的平均值为6.98×10² CFU/mL。试剂盒方法对50株非沙门检测结果均为阴性,说明试剂盒特异性较好。试剂盒方法与GB方法对人工污染沙门氏菌的食品样品阳性检出率分别为98.77%(161/163)和96.32%(157/163);相对准确度为:96%、99%、97%,总体准确度为97.33%;相对灵敏度为:96.22%、100%、100%,总体灵敏度为98.73%;相对特异性为:95.74%、98.15%、92.86%,总体特异性为95.80%。参照ISO 16140进行方法一致性分析,结果表明两方法在统计学上无显著性差异。该研究表明该试剂盒方法具有高灵敏性和特异性强的特点,在人工染菌食品样品检测中与GB方法呈高度一致性,值得在食品沙门氏菌快速检测中推广应用。     

Application of quantitative real-time PCR in the detection of prion-protein gene species-specific DNA sequences in animal meals and feedstuffs

This study describes a method for quantitative and species-specific detection of animal DNA from different species (cattle, sheep, goat, swine, and chicken) in animal feed and feed ingredients, including fish meals. A quantitative real-time PCR approach was carried out to characterize species-specific sequences based on the amplification of prion-protein sequence. Prion-protein species-specific primers and TaqMan probes were designed, and amplification protocols were optimized in order to discriminate the different species with short PCR amplicons. The real-time quantitative PCR approach was also compared to conventional species-specific PCR assays. The real-time quantitative assay allowed the detection of 10 pg of ruminant, swine, and poultry DNA extracted from meat samples processed at 130 degrees C for 40 min, 200 kPa. The origin of analyzed animal meals was characterized by the quantitative estimation of ruminant, swine, and poultry DNA. The TaqMan assay was used to quantify ruminant DNA in feedstuffs with 0.1% of meat and bone meal. In conclusion, the proposed molecular approach allowed the detection of species-specific DNA in animal meals and feedstuffs.     

沙门氏菌PCR检测方法的建立及其在蔬菜检测中的应用

为了对蔬菜中沙门氏菌进行快速检测,本论文建立了一种检测沙门氏菌的PCR方法。根据沙门氏菌特异基因设计4对引物进行PCR扩增,并通过检测不同浓度沙门氏菌菌悬液的PCR产物、测定OD600nm值与平板菌落数的对应线性关系确定沙门氏菌的检出限。结果筛选出invA基因为稳定的沙门氏菌特异性基因,此PCR技术对沙门氏菌的检出限为1550cfu/mL,对香菜的检出限为63cfu/g。通过此方法检测大连开发区180份市售蔬菜样品,6份检出沙门氏菌,检出率为3.33%,实验结果表明本文建立的沙门氏菌PCR检测方法可用于检测蔬菜中沙门氏菌的污染状况。      

实时荧光定量RT-PCR检测沙门氏菌活菌

沙门氏菌是引起食物中毒的最常见致病菌,而基于DNA水平的常规PCR(DNA-PCR)检测法虽然快速、灵敏,但在检测时无法区分死活菌,死亡的细菌会出现假阳性结果,严重影响日常检测结果的判断。提取沙门氏菌总RNA之后,采用一步法逆转录聚合酶链式反应(RT-PCR),以沙门氏菌invAmRNA为检测对象,发现只有活的沙门氏菌显阳性,死亡的沙门氏菌呈阴性。而且RT-PCR法的稳定性良好,能够准确定量活的沙门氏菌,在纯培养时,检出限可达1CFU/3mL。实验表明,建立的RT-PCR法是一种能够快速、精确检测沙门氏菌活菌的方法。     

IMS USING IN-HOUSE MONOCLONAL ANTIBODY-COATED MAGNETIC BEADS ASSOCIATED TO PCR ASSAY FOR DETECTION OF SALMONELLA TYPHIMURIUM IN RAW MEATS

An immunomagnetic separation (IMS) technique and a PCR assay were developed for use in detection of Salmonella Typhimurium in meat samples. To prevent false-negative results, an internal amplification control was developed. The polymerase chain reaction (PCR) using primers specific for an omp gene sequence of Salmonella spp has shown 100% sensitivity and specificity and a detection limit of 10⁴ cfu/mL. The IMS-PCR methods using PCR immediately after IMS and using 6 h postenrichment in brain heart infusion between IMS and PCR resulted in detection limits of 10³ cfu/mL and 1–10 cfu/mL, respectively. The lowest level of S. Typhimurium that could be detected by the IMS-PCR method in the presence of natural microbiota from inoculated meat samples was 1–10 cfu/25 g. When samples were analyzed using enrichment protocols without IMS, several false-negative results were obtained.

PRACTICAL APPLICATIONS

The immunomagnetic separation-polymerase chain reaction (IMS-PCR) method developed enabled a rapid and sensitive detection of Salmonella Typhimurium in inoculated meat samples. Monoclonal antibody (Mab)-coated magnetic beads prepared in-house were efficient in concentrating and separating the bacteria from the food matrix, thus improving detection limit and avoiding false-negatives. The internal amplification control (IAC), now mandatory in PCR assays, using the same primers of the target DNA further prevented false-negative results. Therefore, the IMS-PCR method developed in this study could be used in the future by the Brazilian food industry as a substitute for the expensive imported kits for Salmonella detection in foods. We are now developing a panel of Mabs against conserved antigens of Salmonella for use in the IMS-PCR method in order to extend its applicability for detection of other serovars.     

Evaluation of an immunomagnetic separation-real-time PCR assay for the rapid detection of Salmonella in meat

The aim of this study was the comparison of an immunomagnetic separation (IMS)-real-time PCR assay for the detection of Salmonella with the cultural reference method according to and 35 of the German Law on Food and Commodities (LMBG, L 00.00.20:1998). The IMS-real-time PCR assay includes a nonselective preenrichment step, an IMS, DNA extraction, as well as DNA purification followed by hybridization probe-based real-time PCR analysis. An accurate comparability was achieved, because both methods analyzed the same preenrichment. The evaluation was carried out using both artificially and naturally contaminated meat samples. The IMS-real-time PCR assay provides a result after 12 to 13 h. Compared with the reference method and regarding artificially contaminated meat samples, the IMS-real-time PCR assay achieved a specificity of 80% (false-positive rate of 20%) and a sensitivity of 100% (false-negative rate of 0%). The relative accuracy was 94%. The detection limit of both methods was 10 CFU/25 g. The concordance index kappa, which defines the statistical accordance, was 0.85 and indicated the agreement of both methods on statistical criteria. Compared to the reference method and analyzing naturally contaminated meat samples (n = 491), the IMS-real-time PCR assay showed a specificity of 99.3% (false-positive rate of 0.7%) and a sensitivity of 83.7% (false-negative rate of 16.3%). The relative accuracy was 98%. The concordance index kappa had a value of 0.87 and highlighted the statistical agreement of both methods. In conclusion, the IMS-real-time PCR assay is suitable as specific, sensitive, and rapid screening method for the detection of Salmonella from meat.     

免疫磁捕获-荧光定量PCR快速检测食品中沙门氏菌

建立了免疫磁珠分离（Immunomagnetic separation,IMS）联合荧光定量PCR（Real-time PCR）技术准确、快速检测食品中沙门氏菌（Salmonella spp）的方法。采用亲和纯化的羊抗沙门氏菌抗体与Dynabeads M-280磁珠制备沙门氏菌免疫磁珠,优化反应条件,建立免疫磁珠分离方法。同时根据沙门氏菌特异性ttr基因,建立Real-time PCR体系,并检测其特异性及敏感性。结果显示,沙门氏菌可产生荧光信号,而其他细菌均未见明显荧光信号。利用所建立的免疫磁捕获-荧光定量PCR（IMS-real-time PCR）方法可以检测初始含菌量最低为6.5CFU/25g的食品样品,全过程需时约8h。150份实际食品样品中,IMS-real-time PCR方法检出27份阳性样品,免疫磁珠联合XLT4平板培养法检出18份阳性样品,传统国标法检出14份阳性样品。      

Combined PCR and slot blot assay for detection of Salmonella and Listeria monocytogenes

Detection of Salmonella typhimurium and Listeria monocytogenes by the polymerase chain reaction (PCR) assay coupled with slot blot detection was investigated in this study. After being extracted from diluted bacterial culture with the extraction buffer, bacterial DNA was subjected to PCR. The slot blot assay was optimized and used to detect PCR products. The lowest detection level of this method was 10(3) cfu/ml in the original culture media for both pathogens, or 5 bacterial cells in the PCR reaction. Combined with immunomagnetic separation (IMS) to separate and concentrate bacteria from samples, the detection limit could be 40 cfu/ml of bacteria from milk samples. The whole detection procedure was completed within 7 h. After multiplex PCR (amplification of DNA from two different bacteria in the same PCR tube) and slot blot, a detection level of 10(3) cfu/ml was achieved in the simultaneous detection for both pathogens, which was similar to that of individual detection for each pathogen. The combination of PCR and slot-blot seems to be highly sensitive and time-efficient, and is therefore promising for routine use in the detection of Salmonella and L. monocytogenes in food samples such as milk.     

Evaluation of a polymerase chain reaction-based test for detecting Salmonella spp. in food samples: Probelia Salmonella spp

A commercially available polymerase chain reaction (PCR) kit was evaluated for the detection of Salmonella spp. in food samples. The test combines PCR amplification and sandwich hybridization of the amplified DNA in microtiter plates. The sensitivity and specificity was evaluated with 52 Salmonella strains and 51 non-Salmonella strains and showed that the test was entirely reliable. The threshold sensitivity was 10(2) CFU/ml. The limit of detection of dead cells that determines the minimum detection level of dead cells in food samples was superior to 10(6) CFU/25 g, a level rarely achieved in naturally contaminated samples. After an 18-h pre-enrichment step, the test could detect viable Salmonella in artificially contaminated food samples, even for the lower contamination level (3 CFU/25 g). There was complete agreement between the PCR test and the ISO 6579 bacteriological reference method with artificially contaminated samples. Regarding the accuracy of the results obtained from 253 naturally or noncontaminated foods and from 32 artificially contaminated foods, the agreement percentage was 99.6%. The fidelity of the technique was evaluated in a collaborative study with eight European laboratories and showed a correlation of 98.4%.     

聚合酶链反应检测食品中的沙门氏菌

参考沙门氏菌侵袭性基因invA的序列,设计合成一对引物扩增其中一段序列,建立了特异性检测沙门氏菌的PCR方法。引物两端分别加了Bam HI和EcoR I切点,扩增片段大小为300bp。对收集的50个血清型123株沙门氏菌及7种23株非沙门氏菌进行PCR检测,结果仅沙门氏菌有300bp的扩增产物,显示了很强的特异性,为下一步克隆而设计的两个酶切位点对引物的特异性没有影响。经琼脂糖凝胶电泳,PCR的检出极限是10pg染色体DNA和10~2 cfu的细菌。将扩增产物经slot—blot与辣根过氧化物酶(HRP)直接标记的invA基因探针杂交,经增强型化学发光反应(ECL)及化学发光自显影(CPD)检测,可提高检测的敏感性一个数量级,同时增加了特异性。为推广应用,本文试验了8种模拟食品样品对PCR反应的影响,结果除奶酪外,其余都得到较好扩增。对120份污水及食品样品进行检测,该检测系统检出70份阳性结果,检出率高于常规分离。初步应用显示,PCR检测方法敏感、特异、简便、快速,适合于食品卫生检验和临床标本检验的现场应用。     

3种快速检测柳州螺蛳粉中热损伤沙门氏菌方法的比较分析

目的 比较实时荧光PCR法、全自动免疫分析仪法(vitek immune diagnostic assay system,VIDAS)和环介导等温扩增法(loop-mediatedisothermalamplification,LAMP)检测柳州螺蛳粉中热损伤沙门氏菌.方法 以预包装柳州螺蛳粉为样品,利用3种热损伤沙门...     

Development and evaluation of DNA and RNA real-time assays for food analysis using the hilA gene of Salmonella enterica subspecies enterica

The objective of this study was the development of DNA and RNA real-time PCR methods for detection of food-borne Salmonella sp. as rapid alternatives to the traditional cultural method (ISO 6579, 2004) in fresh meat carcasses and processed meat samples. These PCR methods were based on the hilA sequence, with primers and hybridisation probes designed against this gene target. The primers and probes were evaluated for their efficiency and dynamic range and subsequently the specificity of the assay was tested using 106 Salmonella enterica subspecies enterica strains and 30 non-salmonellae strains. An internal amplification control (IAC) was also developed for incorporation. The optimum copy number of IAC was determined to be 500 copies per reaction. A complementary enrichment protocol was adapted from the existing standard ISO 6579:2004 and consisted of enrichment in Buffered Peptone Water (BPW) 22 ± 2 h and a second selective enrichment for 6 h in Rappaport Vassiliadis with Soya (RVS). The DNA and RNA-based real-time PCR protocols, were applied to meat samples inoculated with Salmonella enterica subspecies enterica strains, including swabs from meat carcasses and minced beef samples which were heat treated or frozen. The developed methods have the potential as useful alternatives to the standard ISO 6579:2004 method for the detection of Salmonella enterica subspecies enterica on carcass swabs and raw meat using hilA as a target. The DNA assay is a useful tool for the screening of meat samples in the abattoir within 3 days of slaughter or in a food production process and the RNA-based assay has the potential to detect viable Salmonella enterica subspecies enterica in ready-to-eat products.