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Jia XX, Yao ZY, Gao ZX, Fan ZC. The Role of Suspension Array Technology in Rapid Detection of Foodborne Pollutants: Applications and Future Challenges. Crit Rev Anal Chem 2021; 52:1408-1421. [PMID: 33611988 DOI: 10.1080/10408347.2021.1882833] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Food safety is an important livelihood issue, which has always been focused attention by countries and governments all over the world. As food supply chains are becoming global, food quality control is essential for consumer protection as well as for the food industry. In recent years, a great part of food analysis is carried out using new techniques for rapid detection. As the first biochip technology that has been approved by the Food and Drug Administration (FDA), there is an increasing interest in suspension array technology (SAT) for food and environmental analysis with advantages of rapidity, high accuracy, sensitivity, and throughput. Therefore, it is important for researchers to understand the development and application of this technology in food industry. Herein, we summarized the principle and composition of SAT and its application in food safety monitoring. The utility of SAT in detection of foodborne microorganisms, residues of agricultural and veterinary drugs, genetically modified food and allergens in recent years is elaborated, and the further development direction of SAT is envisaged.
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Affiliation(s)
- Xue-Xia Jia
- State Key Laboratory of Food Nutrition and Safety, China International Scientific & Technological Cooperation Base for Health Biotechnology, College of Food Engineering and Biotechnology, Tianjin University of Science & Technology, Tianjin, P. R. China.,Institute of Environmental and Operational Medicine, Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin, P. R. China
| | - Zi-Yi Yao
- Institute of Environmental and Operational Medicine, Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin, P. R. China
| | - Zhi-Xian Gao
- Institute of Environmental and Operational Medicine, Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin, P. R. China
| | - Zhen-Chuan Fan
- State Key Laboratory of Food Nutrition and Safety, China International Scientific & Technological Cooperation Base for Health Biotechnology, College of Food Engineering and Biotechnology, Tianjin University of Science & Technology, Tianjin, P. R. China
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Xu F, Min F, Wang J, Luo Y, Huang S, Chen M, Wu R, Zhang Y. Development and evaluation of a Luminex xTAG assay for sulfonamide resistance genes in Escherichia coli and Salmonella isolates. Mol Cell Probes 2019; 49:101476. [PMID: 31678631 DOI: 10.1016/j.mcp.2019.101476] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2019] [Revised: 10/22/2019] [Accepted: 10/28/2019] [Indexed: 02/04/2023]
Abstract
Clinically occurring sulfonamide resistance in gram-negative bacteria is codified by several sul genes, mostly associated with the mobilized genetic elements named integrons, and integrons are frequently found in plasmids. There are four sul genes (sul1, sul2, sul3 and sul4) that encode resistance to sulfonamides. The aim of the present study was to develop a bead-based xTAG assay for the simultaneous detection of all four sul genes and related Class 1 integrons (int1) in Escherichia coli and Salmonella isolates. The limits of detection ranged from 10 to 1000 copies/μL of input purified plasmid DNA. Forty-one bacterial isolates from clinical samples were examined using the newly developed xTAG assay and also by conventional PCR to determine the relative performance of each. The results obtained by xTAG assay showed higher detection rates and accuracy for sul genes than conventional PCR. It indicated that the xTAG-multiplex PCR is a convenient method for rapid identification of sul genes.
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Affiliation(s)
- Fengjiao Xu
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, 510640, China; Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, 510640, China.
| | - Fangui Min
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, 510640, China
| | - Jing Wang
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, 510640, China
| | - Yinzhu Luo
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, 510640, China
| | - Shuwu Huang
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, 510640, China
| | - Meiling Chen
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, 510640, China
| | - Ruike Wu
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, 510640, China
| | - Yu Zhang
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, 510640, China.
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Xu F, Chen J, Xiao C, Cong F, Ma L, Moore RJ, Huang R, Guo P. Development of a Luminex xTAG Assay for the Rapid Detection of Five Aminoglycoside Resistance Genes Both in Staphylococci and Enterococci. Microb Drug Resist 2019; 25:874-879. [DOI: 10.1089/mdr.2018.0297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Affiliation(s)
- Fengjiao Xu
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, China
| | - Jinhe Chen
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
| | - Cuiyan Xiao
- Affiliated Hospital of Guangdong Medical University, Zhanjiang, China
| | - Feng Cong
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
| | - Lei Ma
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
| | | | - Ren Huang
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, China
| | - Pengju Guo
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
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A novel multiplex xMAP assay for generic detection of avian, fish, and ruminant DNA in feed and feedstuffs. Appl Microbiol Biotechnol 2019; 103:4575-4584. [PMID: 31001745 DOI: 10.1007/s00253-019-09833-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2019] [Revised: 03/30/2019] [Accepted: 04/04/2019] [Indexed: 10/27/2022]
Abstract
The identification of animal species in feed and feedstuffs is important for detecting contamination and fraudulent replacement of animal components that might cause health and economic problems. A novel multiplex assay, based on xMAP technology and the generic detection of closely related species, was developed for the simultaneous differential detection of avian, fish, and ruminant DNA in products. Universal primers and probes specific to avian, fish, or ruminant species were designed to target a conserved mitochondrial DNA sequence in the 12S ribosomal RNA gene (rRNA). The assay specificity was validated using samples of 27 target and 10 nontarget animal species. The limits of detection of the purified DNA were determined to be 0.2 pg/μL-0.1 ng/μL by testing the meat samples of six species and four feedstuffs. The detection sensitivity of the experimental mixtures was demonstrated to be 0.01% (weight percentage). The assay's suitability for practical application was evaluated by testing feed samples; unlabeled animal ingredients were detected in 32% of the 56 samples. The assay differentially detected the three targeted categories of animal species in less than 2 h, reflecting improvements in speed and efficiency. Based on these results, this novel multiplex xMAP assay provides a reliable and highly efficient technology for the routine detection of animal species in feed and other products for which this information is needed.
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Silletti S, Morello L, Gavazzi F, Gianì S, Braglia L, Breviario D. Untargeted DNA-based methods for the authentication of wheat species and related cereals in food products. Food Chem 2019; 271:410-418. [DOI: 10.1016/j.foodchem.2018.07.178] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Revised: 07/02/2018] [Accepted: 07/25/2018] [Indexed: 11/15/2022]
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Wu M, Cong F, Zhu Y, Lian Y, Chen M, Huang R, Guo P. Multiplex Detection of Five Canine Viral Pathogens for Dogs as Laboratory Animals by the Luminex xTAG Assay. Front Microbiol 2018; 9:1783. [PMID: 30174654 PMCID: PMC6107692 DOI: 10.3389/fmicb.2018.01783] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2018] [Accepted: 07/16/2018] [Indexed: 01/07/2023] Open
Abstract
More and more dogs have been used as a disease model for medical research and drug safety evaluation. Therefore, it is important to make sure that the dogs and their living houses are special pathogen free. In this study, the development and evaluation of a Luminex xTAG assay for simultaneous detection of five canine viruses was carried out, including canine distemper virus, canine parvovirus, canine parainfluenza virus, canine adenovirus, and rabies virus. Assay specificity was accomplished by targeting conserved genomic regions for each virus. Hybridization between multiplexed PCR products and the labeled fluorescence microspheres was detected in a high throughput format using a Luminex fluorescence reader. The Luminex xTAG assay showed high sensitivity with limits of detection for the five viruses was 100 copies/μL. Specificity of the xTAG assay showed no amplification of canine coronavirus, pseudorabies virus and canine influenza virus indicating that the xTAG assay was specific. Seventy-five clinical samples were tested to evaluate the xTAG assay. The results showed 100% coincidence with the conventional PCR method. This is the first report of a specific and sensitive multiplex Luminex xTAG assay for simultaneous detection of five major canine viral pathogens. This assay will be a useful tool for quality control and environmental monitoring for dogs used as laboratory animals, may even be applied in laboratory epidemiological investigations.
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Affiliation(s)
- Miaoli Wu
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, China.,Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
| | - Feng Cong
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
| | - Yujun Zhu
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
| | - Yuexiao Lian
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, China
| | - Meili Chen
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, China
| | - Ren Huang
- Guangdong Laboratory Animals Monitoring Institute, Guangzhou, China
| | - Pengju Guo
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangzhou, China
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Development of an xTAG-multiplex PCR array for the detection of four avian respiratory viruses. Mol Cell Probes 2017; 37:1-5. [PMID: 29054443 DOI: 10.1016/j.mcp.2017.10.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2017] [Revised: 10/16/2017] [Accepted: 10/16/2017] [Indexed: 11/24/2022]
Abstract
Acute respiratory tract infections are of paramount importance in the poultry industry. We developed an xTAG bead assay for the simultaneous detection and discrimination of avian influenza virus (AIV), Newcastle disease virus (NDV), infectious bronchitis virus (IBV) and infectious laryngotracheitis virus (ILTV). The assay lacked nonspecific reactions with other common avian viruses and the limit of detection was 6.75 × 102- 3.52 × 103copies/μL. We examined 60 clinical specimens and found 18 positive for respiratory viruses. Our result demonstrated that xTAG-multiplex PCR method is a high-throughput, rapid, specific and sensitive assay for use in epidemiological studies and clinical detection of avian respiratory pathogens.
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Simultaneous detection of 4 prototypic rat parvoviruses using the luminex xTAG assay in laboratory animal health monitoring. J Virol Methods 2017; 248:61-65. [PMID: 28577992 DOI: 10.1016/j.jviromet.2017.05.017] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2016] [Revised: 05/25/2017] [Accepted: 05/25/2017] [Indexed: 11/23/2022]
Abstract
There are currently four rat parvoviruses including Kilham rat virus (KRV), Toolans H-1 parvovirus (H-1virus), rat parvovirus type 1a (RPV-1a) and rat minute virus (RMV). Virus detection methods are commonly based on conventional PCR - agarose gel electrophoresis or serological assay methods These methods are both time-consuming and lack specificity. In this study, we developed a bead array xTAG assay for the simultaneous detection and discrimination of four rat parvoviruses. The detection limits ranged from 100 to 1000 copies/μL of input purified plasmid DNA. We examined 50 clinical specimens and 15 facal samples by xTAG assay and conventional PCR. The results showed a high consistency except for several weak positive infections. It demonstrated that the xTAG-multiplex PCR method is specific, sensitive and suitable for high throughput platforms for rat parvovirus screening of clinical samples and contaminated biological materials.
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Breviario D. Is There any Alternative to Canonical DNA Barcoding of Multicellular Eukaryotic Species? A Case for the Tubulin Gene Family. Int J Mol Sci 2017; 18:E827. [PMID: 28406446 PMCID: PMC5412411 DOI: 10.3390/ijms18040827] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2017] [Revised: 04/05/2017] [Accepted: 04/11/2017] [Indexed: 11/16/2022] Open
Abstract
Modern taxonomy is largely relying on DNA barcoding, a nucleotide sequence-based approach that provides automated species identification using short orthologous DNA regions, mainly of organellar origin when applied to multicellular Eukaryotic species. Target DNA loci have been selected that contain a minimal amount of nucleotide sequence variation within species while diverging among species. This strategy is quite effective for the identification of vertebrates and other animal lineages but poses a problem in plants where different combinations of two or three loci are constantly used. Even so, species discrimination in such plant categories as ornamentals and herbals remain problematic as well as the confident identification of subspecies, ecotypes, and closely related or recently evolved species. All these limitations may be successfully solved by the application of a different strategy, based on the use of a multi-locus, ubiquitous, nuclear marker, that is tubulin. In fact, the tubulin-based polymorphism method can release specific genomic profiles to any plant species independently from its taxonomic group. This offers the rare possibility of an effective yet generic genomic fingerprint. In a more general context, the issue is raised about the possibility that approaches alternative to systematic DNA sequencing may still provide useful and simple solutions.
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Affiliation(s)
- Diego Breviario
- Istituto Biologia e Biotecnologia Agraria, onsiglio Nazionale delle Ricerche, 20133 Milano, Italy.
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Gavazzi F, Braglia L, Mastromauro F, Gianì S, Morello L, Breviario D. The Tubulin-Based-Polymorphism Method Provides a Simple and Effective Alternative to the Genomic Profiling of Grape. PLoS One 2016; 11:e0163335. [PMID: 27643687 PMCID: PMC5028034 DOI: 10.1371/journal.pone.0163335] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2016] [Accepted: 09/07/2016] [Indexed: 11/19/2022] Open
Abstract
The TBP (Tubulin-Based-Polymorphism) method, based on a nuclear ILP (Intron-Length-Polymorphism) molecular marker, has been used for genotyping 37 accessions of the genus Vitis inclusive of different species, rootstocks, wild and cultivated subspecies. A distinct DNA barcode made up by a different number of amplicons, was attributed to each of the different accessions. TBP data were compared with those obtained, with the use of an internationally validated set of six SSR markers. Genetic relationships among the different accessions, dendrogram distributions, correlation values and polymorphic index values (PICs) were definitively comparable when not in favor of TBP. Such an experimental consistency is based upon a genomic organization of the multiple members of the β-tubulin gene family, the targets of TBP-mediated amplification, that is conserved in Vitis as in any other plant species. The TBP amplicons can actually be used as a useful source of sequence polymorphisms for generating primer pairs capable of identifying specific cultivars in a simple assay. An example for the identification of the ‘Sangiovese’ cv. is reported. More generally, these data are discussed in terms of the actual advantages that the introduction of the TBP method in the field of grape characterization and genotyping can provide.
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Affiliation(s)
- Floriana Gavazzi
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Luca Braglia
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Francesco Mastromauro
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Silvia Gianì
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Laura Morello
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Diego Breviario
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
- * E-mail:
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