1
|
Gao L, Du B, Ma Q, Ma Y, Yu W, Li T, Liu Y, Yuan G. Multiplex-PCR method application to identify duck blood and its adulterated varieties. Food Chem 2024; 444:138673. [PMID: 38330615 DOI: 10.1016/j.foodchem.2024.138673] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Revised: 12/25/2023] [Accepted: 02/02/2024] [Indexed: 02/10/2024]
Abstract
This study applied and validated the Multiplex-PCR method to identify the authenticity of duck blood and four common adulterated animal blood varieties. To this end, the genomic DNAs of duck blood and its counterfeit products were extracted using an efficient high-throughput extraction method. Specific primers were designed using the cytochrome b gene. The reaction system and conditions of a multiplex (namely, Five-plex) PCR were optimized, and the proposed methodology was verified, proving its good specificity, repeatability, and sensitivity. The Five-plex PCR system detected nine duck blood samples sold in the local market, revealing the adulteration of duck blood products. The Multiplex-PCR system can accurately and quickly detect adulterated animal blood in duck blood products, effectively finding counterfeits and identifying the authenticity of genuine duck blood products.
Collapse
Affiliation(s)
- Lijun Gao
- School of Medical Technology, Beihua University, Jilin 132013, China
| | - Bingyang Du
- Central Hospital of Jilin, Jilin 132011, China
| | - Qiuhe Ma
- School of Medical Technology, Beihua University, Jilin 132013, China
| | - Yuhe Ma
- School of Medical Technology, Beihua University, Jilin 132013, China
| | - Wenying Yu
- School of Medical Technology, Beihua University, Jilin 132013, China
| | - Tao Li
- School of Medical Technology, Beihua University, Jilin 132013, China
| | - Yue Liu
- School of Medical Technology, Beihua University, Jilin 132013, China
| | - Guangxin Yuan
- School of Pharmacy, Beihua University, Jilin 132013, China.
| |
Collapse
|
2
|
Barbara B, Michela T, Lucia M, Roberto B, Veronica C, Alessandra S, Sonia S, Raffaella B, Pavoni E, Marina Nadia L, Simone P. Mammalian and avian species quantification in homogenized foods: real time PCR and digital PCR as tools for label compliance controls. Sci Rep 2024; 14:10668. [PMID: 38724593 PMCID: PMC11082228 DOI: 10.1038/s41598-024-61009-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Accepted: 04/30/2024] [Indexed: 05/12/2024] Open
Abstract
Currently food fraud and authenticity of products composition are topics of great concern; ingredients quantification could allow to identify small amounts of contaminats or voluntary addition of improper components. Many molecular methods are available for species identification in foodstuffs but, for a better application, they should not be affected by the interference of other ingredients. The main purpose of this work was to verify the Real Time PCR and the Digital PCR (dPCR) quantification performances on baby food samples, specifically selected for their high miscibility to limit variability; chicken was selected as target to verify the performance of quantification of methods after having spiked the same quantity in different baby foods. The other aims were: (1) to verify a constant genome copies ratio existence between mammalian and avian species (2) to verify the dPCR performance, set up on housekeeping, to quantify mammalian and avian species in commercial products. Digital PCR showed fewer differences respect to Real Time PCR, at the same 15% w/w chicken spiking level. Despite the constant difference between mammalian and avian genome copies, in samples with the same spiking weight, the confidence intervals increasing towards the extreme values, made impossible to use genome copies ratio as a sort of correction factor between species. Finally, the dPCR system using the myostatin housekeeping gene to determine the chicken content seemed reliable to verify the labelling compliance in meat-based commercial products.
Collapse
Affiliation(s)
- Bertasi Barbara
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy.
| | - Tilola Michela
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy
| | - Mangeri Lucia
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy
| | - Benevenia Roberto
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy
| | - Cappa Veronica
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy
| | - Scaburri Alessandra
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy
| | - Scaramagli Sonia
- COOP ITALIA, Via del Lavoro 6/8, 40033, Casalecchio di Reno, Bologna, Italy
| | - Bergami Raffaella
- COOP ITALIA, Via del Lavoro 6/8, 40033, Casalecchio di Reno, Bologna, Italy
| | - Enrico Pavoni
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy
| | - Losio Marina Nadia
- Istituto Zooprofilattico Sperimentale della Lombardia ed Emilia Romagna, Via A. Bianchi 9, 15124, Brescia, Italy
| | - Peletto Simone
- Istituto Zooprofilattico Sperimentale del Piemonte, Liguria e Valle D'Aosta, Via Bologna 148, 10154, Turin, Italy
| |
Collapse
|
3
|
Valiant WG, Borman J, Cai K, Vallone PM. Efficient extraction of adventitious virus nucleic acid using commercially available methods. Biologicals 2024; 85:101741. [PMID: 38157678 DOI: 10.1016/j.biologicals.2023.101741] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2022] [Revised: 04/16/2023] [Accepted: 12/16/2023] [Indexed: 01/03/2024] Open
Abstract
An essential step in pharmaceutical product development is screening for contamination with adventitious agents, and there is desire to develop highly sensitive assays to detect adventitious viral nucleic acid. This study sought to examine the nucleic acid extraction efficiency of three viral candidates in relevant background matrices using four different extraction methods. Three model adventitious viruses, Minute virus of Mice, Porcine Circovirus, and Feline Leukemia Virus, were diluted within a variety of background matrices relevant to pharmaceutical production methods. Upon extraction, the nucleic acid was quantified using droplet digital PCR methods. Four nucleic acid extraction methods were assessed, including commercially available kits and manual extraction methods. Each method recovered nucleic acid post-extraction for each of the model viruses within the tested background matrices. The silica-column based method recovered a greater amount of viral nucleic acid, compared to the other methods tested. Similar trends were observed when model virus was diluted in bioreactor supernatant, which replicates industry testing conditions and provides details on which extraction methods might be used in Next Generation Sequencing and PCR methods for detecting contamination within pharmaceutical products.
Collapse
Affiliation(s)
- William G Valiant
- Biomolecular Measurement Division, Applied Genetics Group, National Institute of Standards and Technology, Gaithersburg, MD, USA
| | - Jon Borman
- Biopharmaceutical Development, Biopharmaceuticals R&D, AstraZeneca, Gaithersburg, MD, USA
| | - Kang Cai
- Biopharmaceutical Development, Biopharmaceuticals R&D, AstraZeneca, Gaithersburg, MD, USA
| | - Peter M Vallone
- Biomolecular Measurement Division, Applied Genetics Group, National Institute of Standards and Technology, Gaithersburg, MD, USA.
| |
Collapse
|
4
|
Ma XY, Shao ZL, Yu XP, Wang ZL. A Droplet Digital PCR-Based Approach for Quantitative Analysis of the Adulteration of Atlantic Salmon with Rainbow Trout. Foods 2023; 12:4309. [PMID: 38231780 DOI: 10.3390/foods12234309] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Revised: 11/26/2023] [Accepted: 11/27/2023] [Indexed: 01/19/2024] Open
Abstract
Low-cost fish species are often used to adulterate or substitute for Atlantic salmon products, posing a serious threat to market order and public health. Hence, reliable techniques are urgently needed to detect Atlantic salmon adulteration. In this study, a precise method for identifying and quantifying adulterated Atlantic salmon with rainbow trout based on droplet digital PCR (ddPCR) testing was developed. Species-specific primers and probes were designed targeting the single-copy nuclear gene myoglobin of two salmonids. A quantitative formula for calculating the mass fraction of adulterated Atlantic salmon with rainbow trout was established based on a one-step conversion strategy, in which the DNA copy number ratios were directly transformed to meat mass fractions by introducing a fixed constant (the transfer coefficient). The dynamic range of the established ddPCR method was from 1% to 90%, with a limit of detection (LOD) of 0.2% and a limit of quantification (LOQ) of 0.8% for rainbow trout in Atlantic salmon, respectively. The quantification method demonstrated an acceptable level of repeatability and reproducibility, as the values of the relative standard deviation (RSD) for the tested meat mixtures with the known fractions were all less than 5%. Thermal and freezing treatments, as well as adding food additives within the recommended dosage limits, had no significant effect on the quantification accuracy. The method was successfully applied to detect rainbow trout adulteration in commercial raw and processed Atlantic salmon products. In comparison to real-time quantitative PCR (qPCR) testing, the established ddPCR method exhibited a higher level of stability and accuracy. Overall, the ddPCR-based quantitative method exhibited high levels of accuracy, stability, sensitivity, and practicability, suitable for applications in the routine surveillance and quality assurance of salmon products.
Collapse
Affiliation(s)
- Xiao-Yu Ma
- Zhejiang Provincial Key Laboratory of Biometrology and Inspection and Quarantine, College of Life Sciences, China Jiliang University, Hangzhou 310018, China
| | - Zhu-Long Shao
- Zhejiang Provincial Key Laboratory of Biometrology and Inspection and Quarantine, College of Life Sciences, China Jiliang University, Hangzhou 310018, China
| | - Xiao-Ping Yu
- Zhejiang Provincial Key Laboratory of Biometrology and Inspection and Quarantine, College of Life Sciences, China Jiliang University, Hangzhou 310018, China
| | - Zheng-Liang Wang
- Zhejiang Provincial Key Laboratory of Biometrology and Inspection and Quarantine, College of Life Sciences, China Jiliang University, Hangzhou 310018, China
| |
Collapse
|
5
|
Casmil IC, Huang C, Blakney AK. A duplex droplet digital PCR assay for absolute quantification and characterization of long self-amplifying RNA. Sci Rep 2023; 13:19050. [PMID: 37923834 PMCID: PMC10624827 DOI: 10.1038/s41598-023-46314-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Accepted: 10/30/2023] [Indexed: 11/06/2023] Open
Abstract
Self-amplifying messenger ribonucleic acid (saRNA) provides extended expression of genes of interest by encoding an alphavirus-derived RNA replicase and thus is 2-3 times larger than conventional messenger RNA. However, quality assessment of long RNA transcripts is challenging using standard techniques. Here, we utilized a multiplex droplet digital polymerase chain reaction (ddPCR) assay to assess the quality of saRNA produced from an in vitro transcription reaction and the replication kinetics in human cell lines. Using the one-step reverse transcription ddPCR, we show that an in vitro transcription generates 50-60% full-length saRNA transcripts. However, we note that the two-step reverse transcription ddPCR assay results in a 20% decrease from results obtained using the one-step and confirmed using capillary gel electrophoresis. Additionally, we provided three formulas that differ in the level of stringency and assumptions made to calculate the fraction of intact saRNA. Using ddPCR, we also showed that subgenomic transcripts of saRNA were 19-to-108-fold higher than genomic transcripts at different hours post-transfection of mammalian cells in copies. Therefore, we demonstrate that multiplex ddPCR is well suited for quality assessment of long RNA and replication kinetics of saRNA based on absolute quantification.
Collapse
Affiliation(s)
- Irafasha C Casmil
- Michael Smith Laboratories, School of Biomedical Engineering, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
| | - Cynthia Huang
- Michael Smith Laboratories, School of Biomedical Engineering, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
| | - Anna K Blakney
- Michael Smith Laboratories, School of Biomedical Engineering, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada.
| |
Collapse
|
6
|
Liu Y, Lin L, Wei H, Luo Q, Yang P, Liu M, Wang Z, Zou X, Zhu H, Zha G, Sun J, Zheng Y, Lin M. Design and development of a rapid meat detection system based on RPA-CRISPR/Cas12a-LFD. Curr Res Food Sci 2023; 7:100609. [PMID: 37860145 PMCID: PMC10582345 DOI: 10.1016/j.crfs.2023.100609] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 09/12/2023] [Accepted: 10/02/2023] [Indexed: 10/21/2023] Open
Abstract
In recent years, meat adulteration safety incidents have occurred frequently, triggering widespread attention and discussion. Although there are a variety of meat quality identification methods, conventional assays require high standards for personnel and experimental conditions and are not suitable for on-site testing. Therefore, there is an urgent need for a rapid, sensitive, high specificity and high sensitivity on-site meat detection method. This study is the first to apply RPA combined with CRISPR/Cas12a technology to the field of multiple meat identification. The system developed by parameter optimization can achieve specific detection of chicken, duck, beef, pork and lamb with a minimum target sequence copy number as low as 1 × 100 copies/μL for 60 min at a constant temperature. LFD test results can be directly observed with the naked eye, with the characteristics of fast, portable and simple operation, which is extremely in line with current needs. In conclusion, the meat identification RPA-CRISPR/Cas12a-LFD system established in this study has shown promising applications in the field of meat detection, with a profound impact on meat quality, and provides a model for other food safety control programs.
Collapse
Affiliation(s)
- Yaqun Liu
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Liyun Lin
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Huagui Wei
- Shool of Laboratory Medicine, Youjiang Medical University for Nationalities, Baise, Guangxi, PR China
| | - Qiulan Luo
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Peikui Yang
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Mouquan Liu
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Zhonghe Wang
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Xianghui Zou
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Hui Zhu
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Guangcai Zha
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Junjun Sun
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
| | - Yuzhong Zheng
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
- Shool of Laboratory Medicine, Youjiang Medical University for Nationalities, Baise, Guangxi, PR China
| | - Min Lin
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, Guangdong, PR China
- Guangdong Provincial Key Laboratory of Functional Substances in Medicinal Edible Resources and Healthcare Products, Chaozhou, Guangdong, PR China
- Shool of Laboratory Medicine, Youjiang Medical University for Nationalities, Baise, Guangxi, PR China
| |
Collapse
|
7
|
Hossain MM, Zainal Abidin SAS, Bujang A, Taib MN, Sagadevan S, Johan MR, Ahmad Nizar NN. TaqMan multiplex qPCR for detecting animal species in meat and meat products: Development, recent advances and future prospects. Food Control 2023. [DOI: 10.1016/j.foodcont.2023.109761] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/03/2023]
|
8
|
Nuraeni U, Malau J, Astuti RT, Dewantoro A, Apriori D, Lusiana ED, Prasetya B. Droplet digital PCR versus real-time PCR for in-house validation of porcine detection and quantification protocol: An artificial recombinant plasmid approach. PLoS One 2023; 18:e0287712. [PMID: 37450440 PMCID: PMC10348585 DOI: 10.1371/journal.pone.0287712] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2022] [Accepted: 06/09/2023] [Indexed: 07/18/2023] Open
Abstract
Authenticity and traceability are essential for modern food and medicine inspection, and reliable techniques are important for the trade of halal foods, which reach more than 20 percent of the world market. A sensitive and accurate porcine detection method is required to develop a conformity assessment system that includes laboratory testing for porcine-free certification. This study proposes a procedure that could be incorporated into the development of a standardized control and protocol for real-time PCR (qPCR) methods and their traceability using droplet digital PCR (ddPCR). The design used a recombinant pUC57 plasmid as an amplification target to carry the 97 bp fragment of the porcine ATCB gene. The absolute quantification and linearity assessment showed high precision with R2 values of 0.9971 and 0.9998 for qPCR and ddPCR, respectively. In general, both methods showed comparable results in terms of linearity and detection limit. However, both limit of detection assessments showed high sensitivity, although ddPCR showed a slightly higher sensitivity than that of qPCR, especially at low DNA concentrations. Multiple-sample and inter-participatory testing evaluations revealed a high sensitivity, broad applicability, and robustness of the qPCR method. Therefore, we conclude that based on a recombinant plasmid analysis with a low quantity (less than five copy number), the digital PCR method produced more reliable results. These results could provide scientific information for regulatory authorities, especially those in Indonesia, to consider the development and formulation of a well-established qPCR protocol for porcine detection using expected DNA concentrations.
Collapse
Affiliation(s)
- Umi Nuraeni
- Laboratory of National Measurement Standards of Biology, The National Standard Agency of Indonesia (BSN), South Tangerang, Banten, Indonesia
| | - Jekmal Malau
- Department of Pharmacy, Faculty of Health Science, Universitas Singaperbangsa Karawang, West Java, Indonesia
| | - Retno Tri Astuti
- Department of Fisheries Product Technology, Faculty of Fisheries and Marine Science, Universitas Brawijaya, East Java, Indonesia
| | - Auraga Dewantoro
- Research Center for Genetic Engineering, The National Research and Innovation Agency of Indonesia (BRIN), Bogor, Indonesia
| | - Dini Apriori
- Laboratory of National Measurement Standards of Biology, The National Standard Agency of Indonesia (BSN), South Tangerang, Banten, Indonesia
| | - Evellin Dewi Lusiana
- Department of Aquatic Resource Management, Faculty of Fisheries and Marine Science, Universitas Brawijaya, East Java, Indonesia
| | - Bambang Prasetya
- Research Center for Testing Technology and Standards, The National Research and Innovation Agency of Indonesia (BRIN), South Tangerang, Indonesia
| |
Collapse
|
9
|
Chen Y, Tournayre O, Tian H, Lougheed SC. Assessing the breeding phenology of a threatened frog species using eDNA and automatic acoustic monitoring. PeerJ 2023; 11:e14679. [PMID: 36710869 PMCID: PMC9879156 DOI: 10.7717/peerj.14679] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Accepted: 12/13/2022] [Indexed: 01/25/2023] Open
Abstract
Background Climate change has driven shifts in breeding phenology of many amphibians, causing phenological mismatches (e.g., predator-prey interactions), and potentially population declines. Collecting data with high spatiotemporal sensitivity on hibernation emergence and breeding times can inform conservation best practices. However, monitoring the phenology of amphibians can be challenging because of their cryptic nature over much of their life cycle. Moreover, most salamanders and caecilians do not produce conspicuous breeding calls like frogs and toads do, presenting additional monitoring challenges. Methods In this study, we designed and evaluated the performance of an environmental DNA (eDNA) droplet digital PCR (ddPCR) assay as a non-invasive tool to assess the breeding phenology of a Western Chorus Frog population (Pseudacris maculata mitotype) in Eastern Ontario and compared eDNA detection patterns to hourly automatic acoustic monitoring. For two eDNA samples with strong PCR inhibition, we tested three methods to diminish the effect of inhibitors: diluting eDNA samples, adding bovine serum albumin to PCR reactions, and purifying eDNA using a commercial clean-up kit. Results We recorded the first male calling when the focal marsh was still largely frozen. Chorus frog eDNA was detected on April 6th, 6 days after acoustic monitoring revealed this first calling male, but only 2 days after males attained higher chorus activity. eDNA signals were detected at more sampling locales within the marsh and eDNA concentrations increased as more males participated in the chorus, suggesting that eDNA may be a reasonable proxy for calling assemblage size. Internal positive control revealed strong inhibition in some samples, limiting detection probability and quantification accuracy in ddPCR. We found diluting samples was the most effective in reducing inhibition and improving eDNA quantification. Conclusions Altogether, our results showed that eDNA ddPCR signals lagged behind male chorusing by a few days; thus, acoustic monitoring is preferable if the desire is to document the onset of male chorusing. However, eDNA may be an effective, non-invasive monitoring tool for amphibians that do not call and may provide a useful complement to automated acoustic recording. We found inhibition patterns were heterogeneous across time and space and we demonstrate that an internal positive control should always be included to assess inhibition for eDNA ddPCR signal interpretations.
Collapse
|
10
|
Guo M, Deng L, Liang H, Du Y, Gao W, Tian N, Bi Y, Li J, Ma T, Zhang Y, Wang H. Development and Preliminary Application of a Droplet Digital PCR Assay for Quantifying the Oncolytic Herpes Simplex Virus Type 1 in the Clinical-Grade Production. Viruses 2023; 15:178. [PMID: 36680218 PMCID: PMC9867280 DOI: 10.3390/v15010178] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Revised: 01/03/2023] [Accepted: 01/04/2023] [Indexed: 01/11/2023] Open
Abstract
Oncolytic herpes simplex virus (oHSV) is a type of virus that selectively targets and kills cancer cells, leaving normal cells unharmed. Accurate viral titer is of great importance for the production and application of oHSV products. Droplet digital PCR (ddPCR) is known for having good reproducibility, not requiring a standard curve, not being affected by inhibitors, and being precise even in the detection of low copies. In the present study, we developed a droplet digital PCR assay for the quantification of HSV-1 and applied it in the oHSV production. The established ddPCR showed good specificity, linearity, a low limit of quantification, great reproducibility, and accuracy. The quantification result was well-associated with that of plaque assay and CCID50. Amplification of the purified virus without DNA extraction by ddPCR presented similar results to that from the extracted DNA, confirming the good resistance against PCR inhibitors. With the ddPCR, viral titer could be monitored in real time during the production of oHSV; the optimal harvest time was determined for the best virus yield in each batch. The ddPCR can be used as a useful tool for the quantification of oHSV and greatly facilitate the manufacturing process of oHSV products.
Collapse
Affiliation(s)
- Miaomiao Guo
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Li Deng
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Hongyang Liang
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Yuyao Du
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Wenrui Gao
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Na Tian
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Ying Bi
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Jinghua Li
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Tiancong Ma
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| | - Yuntao Zhang
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
- China National Biotec Group Company Limited, 100024 Beijing, China
| | - Hui Wang
- Beijing Institute of Biological Products Company Limited, 100176 Beijing, China
| |
Collapse
|
11
|
Aravind Kumar N, Vishnuraj MR, Vaithiyanathan S, Srinivas C, Chauhan A, Barbuddhe SB. Droplet Digital PCR Assay with Linear Regression Models for Quantification of Buffalo-Derived Materials in Different Food Matrices. FOOD ANAL METHOD 2023. [DOI: 10.1007/s12161-022-02441-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
|
12
|
Current Analytical Methods and Research Trends Are Used to Identify Domestic Pig and Wild Boar DNA in Meat and Meat Products. Genes (Basel) 2022; 13:genes13101825. [PMID: 36292710 PMCID: PMC9601671 DOI: 10.3390/genes13101825] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2022] [Revised: 10/04/2022] [Accepted: 10/05/2022] [Indexed: 11/04/2022] Open
Abstract
The pig, one of the most important livestock species, is a meaningful source of global meat production. It is necessary, however, to prove whether a food product that a discerning customer selects in a store is actually made from pork or venison, or does not contain it at all. The problem of food authenticity is widespread worldwide, and cases of meat adulteration have accelerated the development of food and the identification methods of feed species. It is worth noting that several different molecular biology techniques can identify a porcine component. However, the precise differentiation between wild boar and a domestic pig in meat products is still challenging. This paper presents the current state of knowledge concerning the species identification of the domestic pig and wild boar DNA in meat and its products.
Collapse
|
13
|
Yan S, Lan H, Wu Z, Sun Y, Tu M, Pan D. Cleavable molecular beacon-based loop-mediated isothermal amplification assay for the detection of adulterated chicken in meat. Anal Bioanal Chem 2022; 414:8081-8091. [PMID: 36152037 DOI: 10.1007/s00216-022-04342-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 09/08/2022] [Accepted: 09/09/2022] [Indexed: 11/30/2022]
Abstract
A simple, sensitive, specific and fast method based on the loop-mediated isothermal amplification (LAMP) technique and cleavable molecular beacon (CMB) was developed for chicken authentication detection. LAMP and CMB were used for DNA amplification and amplicon analysis, respectively. Targeting the mitochondrial cytochrome b gene of chickens, five primers and one CMB probe were designed, and their specificity was validated against nine other animal species. The structure of CMB and concentrations of dNTPs, MgSO4, betaine, RNase H2, primers and CMB were optimized. The CMB-LAMP assay was completed within 17 min, and its limit of detection for chicken DNA was 1.5 pg μL-1. Chicken adulteration as low as 0.5% was detected in beef, and no cross-reactivity was observed. Finally, this assay was successfully applied to 20 commercial meat products. When combined with our developed DNA extraction method (the extraction time was 1 min: lysis for 10 s, washing for 20 s and elution for 30 s), the entire process (from DNA extraction to results analysis) was able to be completed within 20 min, which is at least 10 min shorter than other LAMP-based methods. Our method showed great potential for the on-site detection of chicken adulteration in meat.
Collapse
Affiliation(s)
- Song Yan
- State Key Laboratory for Quality and Safety of Agro-products, Ningbo University, Ningbo, 315211, China.,Key Laboratory of Animal Protein Deep Processing Technology of Zhejiang Province and College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo, 315800, China
| | - Hangzhen Lan
- State Key Laboratory for Quality and Safety of Agro-products, Ningbo University, Ningbo, 315211, China. .,Key Laboratory of Animal Protein Deep Processing Technology of Zhejiang Province and College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo, 315800, China.
| | - Zhen Wu
- State Key Laboratory for Quality and Safety of Agro-products, Ningbo University, Ningbo, 315211, China.,Key Laboratory of Animal Protein Deep Processing Technology of Zhejiang Province and College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo, 315800, China
| | - Yangying Sun
- State Key Laboratory for Quality and Safety of Agro-products, Ningbo University, Ningbo, 315211, China.,Key Laboratory of Animal Protein Deep Processing Technology of Zhejiang Province and College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo, 315800, China
| | - Maolin Tu
- State Key Laboratory for Quality and Safety of Agro-products, Ningbo University, Ningbo, 315211, China.,Key Laboratory of Animal Protein Deep Processing Technology of Zhejiang Province and College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo, 315800, China
| | - Daodong Pan
- State Key Laboratory for Quality and Safety of Agro-products, Ningbo University, Ningbo, 315211, China. .,Key Laboratory of Animal Protein Deep Processing Technology of Zhejiang Province and College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo, 315800, China. .,National R&D Center for Freshwater Fish Processing, Jiangxi Normal University, Nanchang, 330022, Jiangxi, China.
| |
Collapse
|
14
|
Renkema JM, McFadden-Smith W, Chen S. Semi-Quantitative Detection of Drosophila suzukii (Diptera: Drosophilidae) From Bulk Trap Samples Using PCR Technology. JOURNAL OF ECONOMIC ENTOMOLOGY 2022; 115:990-998. [PMID: 35178553 DOI: 10.1093/jee/toab258] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2021] [Indexed: 06/14/2023]
Abstract
Drosophila suzukii (Matsumura) (Diptera: Drosophilidae) is a ubiquitous global pest of several fruit crops. Trapped adult numbers are used to monitor populations and make control decisions, but differentiating D. suzukii from other trapped Drosophila spp. is laborious. We developed a real-time PCR method for specific detection and semi-quantification of D. suzukii from trap samples. The PCR assay did not amplify DNA from 29 other Drosophilidae species tested. Drosophila suzukii was detected from ≥0.96 pg target DNA and from laboratory samples containing one D. suzukii in 2000 other Drosophila spp. flies. We tested DNA stability of one D. suzukii in 100 Drosophila spp. flies in water or ethanol at 20, 25, or 30°C for 1, 4, or 7 d. Only water at 30°C for 7 d fully impaired D. suzukii DNA detectability. Substituting mouthwash for water resulted in D. suzukii detection in all samples held for 7 d at 30°C or daily fluctuating temperatures of 33/23°C. Traps with mouthwash as a drowning liquid had D. suzukii captures equal to traps with water. A calibration curve was established using samples in mouthwash containing 1/1,000-100/1,000 D. suzukii/total Drosophila spp. flies and incubated at 25°C for 7 d. The curve had a coefficient of determination (R2) of 0.9279 between D. suzukii numbers from the PCR and the true D. suzukii numbers in samples prepared in 70% ethanol. Collecting samples in mouthwash is expected to improve detection accuracy, and the qPCR method can be a useful tool to support D. suzukii monitoring and management.
Collapse
Affiliation(s)
- Justin M Renkema
- London Research and Development Centre-Vineland Campus, Agriculture and Agri-Food Canada, Vineland Station, ON, Canada
| | - Wendy McFadden-Smith
- Vineland Resource Centre, Ontario Ministry of Agriculture Food and Rural Affairs, Vineland Station, ONCanada
| | - Shu Chen
- Agriculture and Food Laboratory, Laboratory Services Division, University of Guelph, Guelph, ON, Canada
| |
Collapse
|
15
|
Mafra I, Honrado M, Amaral JS. Animal Species Authentication in Dairy Products. Foods 2022; 11:1124. [PMID: 35454711 PMCID: PMC9027536 DOI: 10.3390/foods11081124] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Revised: 04/06/2022] [Accepted: 04/11/2022] [Indexed: 02/01/2023] Open
Abstract
Milk is one of the most important nutritious foods, widely consumed worldwide, either in its natural form or via dairy products. Currently, several economic, health and ethical issues emphasize the need for a more frequent and rigorous quality control of dairy products and the importance of detecting adulterations in these products. For this reason, several conventional and advanced techniques have been proposed, aiming at detecting and quantifying eventual adulterations, preferentially in a rapid, cost-effective, easy to implement, sensitive and specific way. They have relied mostly on electrophoretic, chromatographic and immunoenzymatic techniques. More recently, mass spectrometry, spectroscopic methods (near infrared (NIR), mid infrared (MIR), nuclear magnetic resonance (NMR) and front face fluorescence coupled to chemometrics), DNA analysis (real-time PCR, high-resolution melting analysis, next generation sequencing and droplet digital PCR) and biosensors have been advanced as innovative tools for dairy product authentication. Milk substitution from high-valued species with lower-cost bovine milk is one of the most frequent adulteration practices. Therefore, this review intends to describe the most relevant developments regarding the current and advanced analytical methodologies applied to species authentication of milk and dairy products.
Collapse
Affiliation(s)
- Isabel Mafra
- REQUIMTE-LAQV, Faculdade de Farmácia, Universidade do Porto, 4050-313 Porto, Portugal
| | - Mónica Honrado
- CIMO, Instituto Politécnico de Bragança, 5300-253 Bragança, Portugal;
| | - Joana S. Amaral
- CIMO, Instituto Politécnico de Bragança, 5300-253 Bragança, Portugal;
| |
Collapse
|
16
|
Dide-Agossou C, Rossmassler K, Reid J, Purohit J, Savic RM, Nahid P, Phillips PP, Moore CM, Walter ND. MOVER approximated CV: A tool for quantifying precision in ratiometric droplet digital PCR assays. J Pharm Biomed Anal 2022; 212:114664. [PMID: 35192991 PMCID: PMC8923918 DOI: 10.1016/j.jpba.2022.114664] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2021] [Revised: 02/08/2022] [Accepted: 02/13/2022] [Indexed: 10/19/2022]
Abstract
Droplet digital PCR is a particularly valuable tool for ratiometric assays because it provides simultaneous absolute quantification of two target sequences in a single assay. This manuscript addresses a challenge in establishing a new ratiometric droplet digital PCR assay for use in sputum, the rRNA synthesis ratio. In principle, the methods established to evaluate precision and determine the limit of quantification for a single measurand cannot be applied to a ratiometric assay. The precision of a ratio depends on precision in both the numerator and denominator. Here, we evaluated the MOVER approximated coefficient of variation as indicator of assay precision that does not require technical replicates. We estimated the MOVER approximated coefficient of variation in dilution series and routine assays and evaluated its agreement with the traditional coefficient of variation. We found that the MOVER approximated coefficient of variation was able to recapitulate the traditional coefficient of variation without the requirement for replicate assays. We also demonstrated that the MOVER approximated coefficient of variation threshold can be used to define the limit of quantification of the rRNA synthesis Ratio. In conclusion, the MOVER approximated coefficient of variation may be useful not only for the rRNA synthesis ratio but for other assays that measure ratios via droplet digital PCR.
Collapse
|
17
|
Yu N, Xing R, Wang P, Deng T, Zhang J, Zhao G, Chen Y. A novel duplex droplet digital PCR assay for simultaneous authentication and quantification of Panax notoginseng and its adulterants. Food Control 2022. [DOI: 10.1016/j.foodcont.2021.108493] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
|
18
|
Temisak S, Thangsunan P, Boonnil J, Yenchum W, Hongthong K, Oss Boll H, Yata T, Rios‐Solis L, Morris P. Accurate determination of meat mass fractions using DNA measurements for quantifying meat adulteration by digital PCR. Int J Food Sci Technol 2021. [DOI: 10.1111/ijfs.15375] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Sasithon Temisak
- Bioanalysis Group, Chemical Metrology and Biometry Department National Institute of Metrology (NIMT) Pathum Thani Thailand
| | - Pattanapong Thangsunan
- Bioanalysis Group, Chemical Metrology and Biometry Department National Institute of Metrology (NIMT) Pathum Thani Thailand
| | - Jiranun Boonnil
- Bioanalysis Group, Chemical Metrology and Biometry Department National Institute of Metrology (NIMT) Pathum Thani Thailand
| | - Watiporn Yenchum
- Bioanalysis Group, Chemical Metrology and Biometry Department National Institute of Metrology (NIMT) Pathum Thani Thailand
| | - Kanjana Hongthong
- Bioanalysis Group, Chemical Metrology and Biometry Department National Institute of Metrology (NIMT) Pathum Thani Thailand
| | - Heloísa Oss Boll
- Department of Genetics and Morphology Institute of Biological Sciences University of Brasília Brasília Federal District Brazil
- Institute for Bioengineering School of Engineering University of Edinburgh Kings Buildings Edinburgh UK
- Centre for Synthetic and Systems Biology (SynthSys) University of Edinburgh Kings Buildings Edinburgh UK
| | - Teerapong Yata
- Faculty of Veterinary Science Chulalongkorn University Bangkok Thailand
| | - Leonardo Rios‐Solis
- Institute for Bioengineering School of Engineering University of Edinburgh Kings Buildings Edinburgh UK
- Centre for Synthetic and Systems Biology (SynthSys) University of Edinburgh Kings Buildings Edinburgh UK
| | - Phattaraporn Morris
- Bioanalysis Group, Chemical Metrology and Biometry Department National Institute of Metrology (NIMT) Pathum Thani Thailand
| |
Collapse
|
19
|
Musisi E, Dide-Agossou C, Al Mubarak R, Rossmassler K, Ssesolo AW, Kaswabuli S, Byanyima P, Sanyu I, Zawedde J, Worodria W, Voskuil MI, Savic RM, Nahid P, Davis JL, Huang L, Moore CM, Walter ND. Reproducibility of the Ribosomal RNA Synthesis Ratio in Sputum and Association with Markers of Mycobacterium tuberculosis Burden. Microbiol Spectr 2021; 9:e0048121. [PMID: 34494858 PMCID: PMC8557932 DOI: 10.1128/spectrum.00481-21] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Accepted: 08/09/2021] [Indexed: 11/21/2022] Open
Abstract
There is a critical need for improved pharmacodynamic markers for use in human tuberculosis (TB) drug trials. Pharmacodynamic monitoring in TB has conventionally used culture or molecular methods to enumerate the burden of Mycobacterium tuberculosis organisms in sputum. A recently proposed assay called the rRNA synthesis (RS) ratio measures a fundamentally novel property, how drugs impact ongoing bacterial rRNA synthesis. Here, we evaluated RS ratio as a potential pharmacodynamic monitoring tool by testing pretreatment sputa from 38 Ugandan adults with drug-susceptible pulmonary TB. We quantified the RS ratio in paired pretreatment sputa and evaluated the relationship between the RS ratio and microbiologic and molecular markers of M. tuberculosis burden. We found that the RS ratio was highly repeatable and reproducible in sputum samples. The RS ratio was independent of M. tuberculosis burden, confirming that it measures a distinct new property. In contrast, markers of M. tuberculosis burden were strongly associated with each other. These results indicate that the RS ratio is repeatable and reproducible and provides a distinct type of information from markers of M. tuberculosis burden. IMPORTANCE This study takes a major next step toward practical application of a novel pharmacodynamic marker that we believe will have transformative implications for tuberculosis. This article follows our recent report in Nature Communications that an assay called the rRNA synthesis (RS) ratio indicates the treatment-shortening of drugs and regimens. Distinct from traditional measures of bacterial burden, the RS ratio measures a fundamentally novel property, how drugs impact ongoing bacterial rRNA synthesis.
Collapse
Affiliation(s)
- Emmanuel Musisi
- Infectious Disease Research Collaboration, Kampala, Uganda
- Department of Biochemistry, Makerere University, Kampala, Uganda
- Department of Medical and Biological Sciences, Infection and Global Health Division, University of St. Andrews, St. Andrews, United Kingdom
| | | | - Reem Al Mubarak
- Rocky Mountain Regional VA Medical Center, Aurora, Colorado, USA
- Division of Pulmonary Sciences and Critical Care Medicine, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA
| | - Karen Rossmassler
- Rocky Mountain Regional VA Medical Center, Aurora, Colorado, USA
- Division of Pulmonary Sciences and Critical Care Medicine, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA
| | | | | | | | - Ingvar Sanyu
- Infectious Disease Research Collaboration, Kampala, Uganda
| | | | | | - Martin I. Voskuil
- Department of Immunology and Microbiology, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA
- Consortium for Applied Microbial Metrics, Aurora, Colorado, USA
| | - Rada M. Savic
- Consortium for Applied Microbial Metrics, Aurora, Colorado, USA
- Department of Bioengineering and Therapeutic Sciences, University of California San Francisco, San Francisco, California, USA
- Division of Pulmonary and Critical Care Medicine, University of California San Francisco, San Francisco, California, USA
- Division of HIV, Infectious Diseases, and Global Medicine, University of California San Francisco, San Francisco, California, USA
| | - Payam Nahid
- Consortium for Applied Microbial Metrics, Aurora, Colorado, USA
- Division of Pulmonary and Critical Care Medicine, University of California San Francisco, San Francisco, California, USA
- Division of HIV, Infectious Diseases, and Global Medicine, University of California San Francisco, San Francisco, California, USA
- UCSF Center for Tuberculosis, San Francisco, California, USA
| | - J. Lucian Davis
- Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA
- Pulmonary, Critical Care, and Sleep Medicine Section, Yale School of Medicine, New Haven, Connecticut, USA
| | - Laurence Huang
- Division of Pulmonary and Critical Care Medicine, University of California San Francisco, San Francisco, California, USA
- Division of HIV, Infectious Diseases, and Global Medicine, University of California San Francisco, San Francisco, California, USA
- Zuckerberg San Francisco General Hospital, San Francisco, California, USA
| | - Camille M. Moore
- Division of Biostatistics and Bioinformatics, National Jewish Health, Denver, Colorado, USA
| | - Nicholas D. Walter
- Rocky Mountain Regional VA Medical Center, Aurora, Colorado, USA
- Division of Pulmonary Sciences and Critical Care Medicine, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA
- Consortium for Applied Microbial Metrics, Aurora, Colorado, USA
| |
Collapse
|
20
|
Dirong G, Nematbakhsh S, Selamat J, Chong PP, Idris LH, Nordin N, Fatchiyah F, Abdull Razis AF. Omics-Based Analytical Approaches for Assessing Chicken Species and Breeds in Food Authentication. Molecules 2021; 26:6502. [PMID: 34770913 PMCID: PMC8587031 DOI: 10.3390/molecules26216502] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Revised: 10/04/2021] [Accepted: 10/06/2021] [Indexed: 11/07/2022] Open
Abstract
Chicken is known to be the most common meat type involved in food mislabeling and adulteration. Establishing a method to authenticate chicken content precisely and identifying chicken breeds as declared in processed food is crucial for protecting consumers' rights. Categorizing the authentication method into their respective omics disciplines, such as genomics, transcriptomics, proteomics, lipidomics, metabolomics, and glycomics, and the implementation of bioinformatics or chemometrics in data analysis can assist the researcher in improving the currently available techniques. Designing a vast range of instruments and analytical methods at the molecular level is vital for overcoming the technical drawback in discriminating chicken from other species and even within its breed. This review aims to provide insight and highlight previous and current approaches suitable for countering different circumstances in chicken authentication.
Collapse
Affiliation(s)
- Goh Dirong
- Natural Medicines and Products Research Laboratory, Institute of Bioscience, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia;
| | - Sara Nematbakhsh
- Laboratory of Food Safety and Food Integrity, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia; (S.N.); (J.S.); (N.N.)
| | - Jinap Selamat
- Laboratory of Food Safety and Food Integrity, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia; (S.N.); (J.S.); (N.N.)
- Department of Food Science, Faculty of Food Science and Technology, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia
| | - Pei Pei Chong
- School of Biosciences, Faculty of Health and Medical Sciences, Taylor’s University, Subang Jaya 47500, Selangor, Malaysia;
| | - Lokman Hakim Idris
- Department of Veterinary Preclinical Sciences, Faculty of Veterinary Medicine, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia;
| | - Noordiana Nordin
- Laboratory of Food Safety and Food Integrity, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia; (S.N.); (J.S.); (N.N.)
| | - Fatchiyah Fatchiyah
- Department of Biology, Faculty of Mathematic and Natural Science, Brawijaya University, JI. Veteran, Malang 65145, Indonesia;
| | - Ahmad Faizal Abdull Razis
- Natural Medicines and Products Research Laboratory, Institute of Bioscience, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia;
- Laboratory of Food Safety and Food Integrity, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia; (S.N.); (J.S.); (N.N.)
- Department of Food Science, Faculty of Food Science and Technology, Universiti Putra Malaysia (UPM), Serdang 43400, Selangor, Malaysia
| |
Collapse
|
21
|
Ampaporn K, Phasuk Y, Duangjinda M. Droplet digital polymerase chain reaction assay for identifying and quantifying pork products. Anim Sci J 2021; 92:e13595. [PMID: 34318546 DOI: 10.1111/asj.13595] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2019] [Accepted: 06/21/2021] [Indexed: 11/29/2022]
Abstract
Halal products are growing in consumer markets worldwide, and pork meat is classified as non-halal. Manufacturers of processed foods and products must ensure that their products follow Islamic dietary law because pork is prohibited for Muslims. Droplet digital polymerase chain reaction (PCR) (ddPCR) is a novel method for identifying pig species and quantifying pork products. This experiment aimed to investigate pork species and establish the proportion of pork in meat products using the mitochondrial cytochrome b gene (CYTB). The study found that the correlation coefficient between the meat weight and DNA concentration of pork was 0.997, and the correlation coefficient between the DNA concentration and the target DNA copy number of pork was 0.998. The accuracy of the ddPCR assay was verified using a sample of a known proportion of pork, and it was revealed that this method is highly precise in quantifying pork products. Nine products contained an undeclared meat proportion (90%). The limit of detection for pork was 0.0001 ng. The analysis indicated that the ddPCR assay has high accuracy and sensitivity for quantifying pork products. Therefore, the predictive model can be used in routine laboratories for quality assurance of halal food products.
Collapse
Affiliation(s)
- Kessara Ampaporn
- Department of Animal Science, Faculty of Agriculture, Khon Kaen University, Khon Kaen, Thailand
| | - Yupin Phasuk
- Department of Animal Science, Faculty of Agriculture, Khon Kaen University, Khon Kaen, Thailand
| | - Monchai Duangjinda
- Department of Animal Science, Faculty of Agriculture, Khon Kaen University, Khon Kaen, Thailand.,Network Center for Animal Breeding and Omics Research, Faculty of Agriculture, Khon Kaen University, Khon Kaen, Thailand
| |
Collapse
|
22
|
Yu N, Ren J, Huang W, Xing R, Deng T, Chen Y. An effective analytical droplet digital PCR approach for identification and quantification of fur-bearing animal meat in raw and processed food. Food Chem 2021; 355:129525. [PMID: 33799266 DOI: 10.1016/j.foodchem.2021.129525] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2020] [Revised: 03/01/2021] [Accepted: 03/02/2021] [Indexed: 11/18/2022]
Abstract
Available nuclear gene sequences for meat detection are still rare and little applicability in the investigation of new types of meat adulteration such as fox, mink and raccoon dog was performed. In the present work, we developed a reliable qualitative and quantitative detection method for fur-bearing animal meat based on droplet digital PCR (ddPCR). Three sets of primers and probes targeted nuclear genes for fox, mink and raccoon dog were designed for ddPCR system; In addition, turkey was selected as internal reference to transform the copy numbers to the fraction of target species. Results indicated that the dynamic ranges of three fur-bearing animals were all from 1% to 90%; the limit of detection (LOD) and limit of quantification (LOQ) for three fur-bearing animals were same, with LOD 0.1% (w/w) and LOQ 1% (w/w). Moreover, we confirmed that different additives had no effect on quantification accuracy in the ddPCR assay.
Collapse
Affiliation(s)
- Ning Yu
- Chinese Academy of Inspection and Quarantine, Beijing, 100176
| | - Junan Ren
- Chinese Academy of Inspection and Quarantine, Beijing, 100176; Beijing Food & Wine Inspection and Testing 1st Station, Beijing, 101111
| | - Wensheng Huang
- Chinese Academy of Inspection and Quarantine, Beijing, 100176
| | - Ranran Xing
- Chinese Academy of Inspection and Quarantine, Beijing, 100176
| | - Tingting Deng
- Chinese Academy of Inspection and Quarantine, Beijing, 100176
| | - Ying Chen
- Chinese Academy of Inspection and Quarantine, Beijing, 100176.
| |
Collapse
|
23
|
|
24
|
Shanmughanandhan J, Shanmughanandhan D, Ragupathy S, Henry TA, Newmaster SG. Quantification of Actaea racemosa L. (black cohosh) from some of its potential adulterants using qPCR and dPCR methods. Sci Rep 2021; 11:4331. [PMID: 33619286 PMCID: PMC7900226 DOI: 10.1038/s41598-020-80465-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2020] [Accepted: 12/21/2020] [Indexed: 12/04/2022] Open
Abstract
The demand for popular natural health products (NHPs) such as Black Cohosh is increasing considerably, which in turn challenges quality assurance (QA) throughout the supply chain. To detect and quantify the target species present in a given NHP, DNA-based molecular techniques such as Real-time quantitative PCR (qPCR) and digital PCR (dPCR) are standard tools in the food and pathogen testing industries. There is a gap in the literature concerning validated quantitative PCR methods for botanicals that can be utilized for QA and good manufacturing practices. The objective of this study is to develop an efficient quantification method using qPCR and dPCR techniques for the detection and quantification of Actaea racemosa (Black cohosh) NHPs from its potential adulterants. These developed methods are validated for applicability on commercial NHPs. Species-specific hydrolysis probe assays were designed to analyze the black cohosh NHPs using qPCR and dPCR techniques. The results confirmed that the developed qPCR and dPCR methods are highly precise for identifying and quantifying black cohosh NHPs, indicating their potential applicability in future routine industrial and laboratory testing. This enables a single qPCR test to determine not only the presence of a specific botanical, but also the amount when mixed with an adulterant.
Collapse
Affiliation(s)
- Jeevitha Shanmughanandhan
- NHP Research Alliance, College of Biological Sciences, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada
| | - Dhivya Shanmughanandhan
- NHP Research Alliance, College of Biological Sciences, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada.
| | - Subramanyam Ragupathy
- NHP Research Alliance, College of Biological Sciences, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada
| | - Thomas A Henry
- NHP Research Alliance, College of Biological Sciences, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada
| | - Steven G Newmaster
- NHP Research Alliance, College of Biological Sciences, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada
| |
Collapse
|
25
|
Grammenos A, Paramithiotis S, Drosinos EH, Trafialek J. Labeling accuracy and detection of DNA sequences originating from GMOs in meat products commercially available in Greece. Lebensm Wiss Technol 2021. [DOI: 10.1016/j.lwt.2020.110420] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
26
|
Combination of Loop-Mediated Isothermal Amplification and AuNP-Oligoprobe Colourimetric Assay for Pork Authentication in Processed Meat Products. FOOD ANAL METHOD 2020. [DOI: 10.1007/s12161-020-01901-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
AbstractPork adulteration is a major concern for Muslims and Jews whose diets are restricted by religious beliefs, as well as those who are allergic to pork meat and its derivatives. Accurate pork authentication is of great importance to assist this demographic group of people in making decision on their product purchase. The aim of this study was to develop a new analytical method for pork authentication in processed meat products based on a combination of loop-mediated isothermal amplification (LAMP) and AuNP-nanoprobe colourimetric assay. The LAMP conditions were first optimised to obtain the highest yield of amplified DNA products within the shortest time. Oligoprobe-functionalised AuNPs were then hybridised with LAMP-DNA amplicons and subsequently challenged with MgSO4 at a high concentration to induce AuNP aggregation. In the presence of pork DNA, the colloidal AuNP-probe remained unchanged in its red colour, which indicates the dispersion of AuNPs. In contrast, in the absence of pork DNA, the colour was changed to colourless as a result from the aggregation of AuNPs. The LAMP-AuNP-nanoprobe assay offers a high sensitivity with a limit of detection as low as 100 pg of pork DNA. The assay is highly specific to pork content without cross-reactivity with the other meat species tested. The assay developed herein can become a simple, inexpensive, precise, and rapid analytical tool for small laboratories or the general public interested in halal food authentication.
Collapse
|
27
|
Hossain MAM, Uddin SMK, Sultana S, Wahab YA, Sagadevan S, Johan MR, Ali ME. Authentication of Halal and Kosher meat and meat products: Analytical approaches, current progresses and future prospects. Crit Rev Food Sci Nutr 2020; 62:285-310. [DOI: 10.1080/10408398.2020.1814691] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- M. A. Motalib Hossain
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Syed Muhammad Kamal Uddin
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Sharmin Sultana
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Yasmin Abdul Wahab
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Suresh Sagadevan
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Mohd Rafie Johan
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Md. Eaqub Ali
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
- Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya, Kuala Lumpur, Malaysia
| |
Collapse
|
28
|
Li YC, Liu SY, Meng FB, Liu DY, Zhang Y, Wang W, Zhang JM. Comparative review and the recent progress in detection technologies of meat product adulteration. Compr Rev Food Sci Food Saf 2020; 19:2256-2296. [PMID: 33337107 DOI: 10.1111/1541-4337.12579] [Citation(s) in RCA: 51] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2020] [Revised: 05/06/2020] [Accepted: 05/06/2020] [Indexed: 12/11/2022]
Abstract
Meat adulteration, mainly for the purpose of economic pursuit, is widespread and leads to serious public health risks, religious violations, and moral loss. Rapid, effective, accurate, and reliable detection technologies are keys to effectively supervising meat adulteration. Considering the importance and rapid advances in meat adulteration detection technologies, a comprehensive review to summarize the recent progress in this area and to suggest directions for future progress is beneficial. In this review, destructive meat adulteration technologies based on DNA, protein, and metabolite analyses and nondestructive technologies based on spectroscopy were comparatively analyzed. The advantages and disadvantages, application situations of these technologies were discussed. In the future, determining suitable indicators or markers is particularly important for destructive methods. To improve sensitivity and save time, new interdisciplinary technologies, such as biochips and biosensors, are promising for application in the future. For nondestructive techniques, convenient and effective chemometric models are crucial, and the development of portable devices based on these technologies for onsite monitoring is a future trend. Moreover, omics technologies, especially proteomics, are important methods in laboratory detection because they enable multispecies detection and unknown target screening by using mass spectrometry databases.
Collapse
Affiliation(s)
- Yun-Cheng Li
- College of Pharmacy and Biological Engineering, Chengdu University, Chengdu, China.,Key Laboratory of Meat Processing of Sichuan Province, Chengdu University, Chengdu, China
| | - Shu-Yan Liu
- College of Pharmacy and Biological Engineering, Chengdu University, Chengdu, China
| | - Fan-Bing Meng
- College of Pharmacy and Biological Engineering, Chengdu University, Chengdu, China.,Key Laboratory of Meat Processing of Sichuan Province, Chengdu University, Chengdu, China
| | - Da-Yu Liu
- College of Pharmacy and Biological Engineering, Chengdu University, Chengdu, China.,Key Laboratory of Meat Processing of Sichuan Province, Chengdu University, Chengdu, China
| | - Yin Zhang
- College of Pharmacy and Biological Engineering, Chengdu University, Chengdu, China.,Key Laboratory of Meat Processing of Sichuan Province, Chengdu University, Chengdu, China
| | - Wei Wang
- Key Laboratory of Meat Processing of Sichuan Province, Chengdu University, Chengdu, China
| | - Jia-Min Zhang
- Key Laboratory of Meat Processing of Sichuan Province, Chengdu University, Chengdu, China
| |
Collapse
|
29
|
Improving Quantitative Power in Digital PCR through Digital High-Resolution Melting. J Clin Microbiol 2020; 58:JCM.00325-20. [PMID: 32295887 DOI: 10.1128/jcm.00325-20] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2020] [Accepted: 04/05/2020] [Indexed: 12/23/2022] Open
Abstract
Applying digital PCR (dPCR) technology to challenging clinical and industrial detection tasks has become more prevalent because of its capability for absolute quantification and rare target detection. However, practices learned from quantitative PCR (qPCR) that promote assay robustness and wide-ranging utility are not readily applied in dPCR. These include internal amplification controls to account for false-negative reactions and amplicon high-resolution melt (HRM) analysis to distinguish true positives from false positives. Incorporation of internal amplification controls in dPCR is challenging because of the limited fluorescence channels available on most machines, and the application of HRM analysis is hindered by the separation of heating and imaging functions on most dPCR systems. We use a custom digital HRM platform to assess the utility of HRM-based approaches for mitigation of false positives and false negatives in dPCR. We show that detection of an exogenous internal control using dHRM analysis reduces the inclusion of false-negative partitions, changing the calculated DNA concentration up to 52%. The integration of dHRM analysis enables classification of partitions that would otherwise be considered ambiguous "rain," which accounts for up to ∼3% and ∼10% of partitions in intercalating dye and hydrolysis probe dPCR, respectively. We focused on developing an internal control method that would be compatible with broad-based microbial detection in dPCR-dHRM. Our approach can be applied to a number of DNA detection methods including microbial profiling and may advance the utility of dPCR in clinical applications where accurate quantification is imperative.
Collapse
|
30
|
A high-quality genetic reference database for European commercial fishes reveals substitution fraud of processed Atlantic cod (Gadus morhua) and common sole (Solea solea) at different steps in the Belgian supply chain. Food Chem Toxicol 2020; 141:111417. [PMID: 32437897 DOI: 10.1016/j.fct.2020.111417] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2020] [Revised: 03/28/2020] [Accepted: 05/04/2020] [Indexed: 01/24/2023]
Abstract
Seafood is an important component of the human diet. With depleting fish stocks and increasing prices, seafood is prone to fraudulent substitution. DNA barcoding has illustrated fraudulent substitution of fishes in retail and restaurants. Whether substitution also occurs in other steps of the supply chain remains largely unknown. DNA barcoding relies on public reference databases for species identification, but these can contain incorrect identifications. The creation of a high quality genetic reference database for 42 European commercially important fishes was initiated containing 145 Cytochrome c oxidase subunit I (COI) and 152 Cytochrome b (cytB) sequences. This database was used to identify substitution rates of Atlantic cod (Gadus morhua) and common sole (Solea solea) along the fish supply chain in Belgium using DNA barcoding. Three out of 132 cod samples were substituted, in catering (6%), import (5%) and fishmongers (3%). Seven out of the 41 processed sole samples were substituted, in wholesale (100%), food services (50%), retailers (20%) and catering (8%). Results show that substitution of G. morhua and S. solea is not restricted to restaurants, but occurs in other parts of the supply chain, warranting for more stringent controls along the supply chain to increase transparency and trust among consumers.
Collapse
|
31
|
Song L, Hu Z, Wang Q, Jiang J, Cao Y, Wang D, Rui S, Li L, Cai X, Wu Y, Suo Y. Quantitative species determination based on real time PCR–Can the results be expressed as weight/weight equivalents? FOOD BIOTECHNOL 2020. [DOI: 10.1080/08905436.2020.1743305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Liping Song
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Zhikai Hu
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Qinglong Wang
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Jie Jiang
- Beijing 101 High School International Department, Beijing, China
| | - Yue Cao
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Dan Wang
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Sun Rui
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Long Li
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Xuefeng Cai
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Yantao Wu
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| | - Yiping Suo
- The Center for Supervision and Inspection of Food Quality and Safty of China, Beijing, China
| |
Collapse
|
32
|
Pleskacheva M, Artamonova M, Litvinova E, Gergel M, Davydova E. Methodology for identification and quantification of chicken meat in food products. FOODS AND RAW MATERIALS 2020. [DOI: 10.21603/2308-4057-2020-1-98-106] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Introduction. The problem of food adulteration is highly relevant today. Food manufacturers are increasingly replacing expensive raw materials with cheaper poultry. We aimed to develop an effective method for identification and quantification of chicken meat and egg products in multicomponent meat systems using real-time PCR. Study objects and methods. We studied native animal tissue, namely that of chicken, pork, beef, turkey, quail, duck, horse meat, rabbit, sheep, and goat. Standard samples were taken from pure fresh chicken muscle tissue. We also used raw, boiled, and powdered chicken eggs. For a semiquantitative analysis of chicken mass in the sample, we compared the threshold cycle (Ct) of chicken DNA and the threshold cycles of calibration samples. To ensure the absence of PCR inhibition, we used an internal control sample which went through all the stages of analysis, starting with DNA extraction. Results and discussion. We developed a methodology to qualitatively determine the content of chicken tissue in the product and distinguish between the presence of egg products and contamination on the production line. The method for chicken DNA identification showed 100% specificity. This genetic material was detected in the range of 0.1% to 0.01% of chicken meat in the sample. The efficiency of the duplex PCR system for chicken DNA detection was more than 95% (3.38 on the Green slope channel and 3.45 on the Yellow slope channel). The analytical sensitivity of the primers was 40 copies/reaction. Conclusion. Our methodology is suitable for analyzing multicomponent food products, raw materials, feed, and feed additives. It can identify the content of chicken meat at a concentration of up to 1%, as well as distinguish egg impurities from contamination of various origin. PCR allows differentiation between chicken meat and egg products.
Collapse
Affiliation(s)
- Mariya Pleskacheva
- The Russian State Center for Animal Feed and Drug Standardization and Quality
| | | | | | - Mariia Gergel
- The Russian State Center for Animal Feed and Drug Standardization and Quality
| | - Ekaterina Davydova
- The Center for Strategic Planning and Management of Medical and Biological Health Risks
| |
Collapse
|
33
|
Shin W, Kim H, Oh DY, Kim DH, Han K. Quantitative evaluation of the molecular marker using droplet digital PCR. Genomics Inform 2020; 18:e4. [PMID: 32224837 PMCID: PMC7120350 DOI: 10.5808/gi.2020.18.1.e4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2019] [Accepted: 12/05/2019] [Indexed: 11/24/2022] Open
Abstract
Transposable elements (TEs) constitute approximately half of Bovine genome. They can be a powerful species-specific marker without regression mutations by the structure variation (SV) at the time of genomic evolution. In a previous study, we identified the Hanwoo-specific SV that was generated by a TE–association deletion event using traditional PCR method and Sanger sequencing validation. It could be used as a molecular marker to distinguish different cattle breeds (i.e., Hanwoo vs. Holstein). However, PCR is defective with various final copy quantifications from every sample. Thus, we applied to the droplet digital PCR (ddPCR) platform for accurate quantitative detection of the Hanwoo-specific SV. Although samples have low allele frequency variation within Hanwoo population, ddPCR could perform high sensitive detection with absolute quantification. We aimed to use ddPCR for more accurate quantification than PCR. We suggest that the ddPCR platform is applicable for the quantitative evaluation of molecular markers.
Collapse
Affiliation(s)
- Wonseok Shin
- Department of Nanobiomedical Science & BK21 PLUS NBM Global Research Center for Regenerative Medicine, Dankook University, Cheonan 31116, Korea.,Center for Bio-Medical Engineering Core Facility, Dankook University, Cheonan 31116, Korea
| | - Haneul Kim
- Department of Nanobiomedical Science & BK21 PLUS NBM Global Research Center for Regenerative Medicine, Dankook University, Cheonan 31116, Korea.,Center for Bio-Medical Engineering Core Facility, Dankook University, Cheonan 31116, Korea
| | - Dong-Yep Oh
- Livestock Research Institute, Yeongju 36052, Korea
| | - Dong Hee Kim
- Department of Anesthesiology and Pain Management, Dankook University College of Medicine, Cheonan 31116, Korea
| | - Kyudong Han
- Department of Nanobiomedical Science & BK21 PLUS NBM Global Research Center for Regenerative Medicine, Dankook University, Cheonan 31116, Korea.,Center for Bio-Medical Engineering Core Facility, Dankook University, Cheonan 31116, Korea
| |
Collapse
|
34
|
Zia Q, Alawami M, Mokhtar NFK, Nhari RMHR, Hanish I. Current analytical methods for porcine identification in meat and meat products. Food Chem 2020; 324:126664. [PMID: 32380410 DOI: 10.1016/j.foodchem.2020.126664] [Citation(s) in RCA: 51] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Revised: 03/20/2020] [Accepted: 03/20/2020] [Indexed: 12/21/2022]
Abstract
Authentication of meat products is critical in the food industry. Meat adulteration may lead to religious apprehensions, financial gain and food-toxicities such as meat allergies. Thus, empirical validation of the quality and constituents of meat is paramount. Various analytical methods often based on protein or DNA measurements are utilized to identify meat species. Protein-based methods, including electrophoretic and immunological techniques, are at times unsuitable for discriminating closely related species. Most of these methods have been replaced by more accurate and sensitive detection methods, such as DNA-based techniques. Emerging technologies like DNA barcoding and mass spectrometry are still in their infancy when it comes to their utilization in meat detection. Gold nanobiosensors have shown some promise in this regard. However, its applicability in small scale industries is distant. This article comprehensively reviews the recent developments in the field of analytical methods used for porcine identification.
Collapse
Affiliation(s)
- Qamar Zia
- A New Mind, Ash Shati, Al Qatif 32617-3732, Saudi Arabia.
| | - Mohammad Alawami
- A New Mind, Ash Shati, Al Qatif 32617-3732, Saudi Arabia; Depaartment of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge CB3 0AS, United Kingdom
| | | | | | - Irwan Hanish
- Halal Product Research Institute, Universiti Putra Malaysia, UPM Serdang, Selangor 43400, Malaysia; Department of Microbiology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM Serdang, Selangor 43400, Malaysia
| |
Collapse
|
35
|
Köppel R, van Velsen F, Ganeshan A, Pietsch K, Weber S, Graf C, Murmann P, Hochegger R, Licina A. Multiplex real-time PCR for the detection and quantification of DNA from chamois, roe, deer, pork and beef. Eur Food Res Technol 2020. [DOI: 10.1007/s00217-020-03468-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
|
36
|
Basanisi MG, La Bella G, Nobili G, Coppola R, Damato AM, Cafiero MA, La Salandra G. Application of the novel Droplet digital PCR technology for identification of meat species. Int J Food Sci Technol 2020. [DOI: 10.1111/ijfs.14486] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Maria Grazia Basanisi
- Istituto Zooprofilattico Sperimentale della Puglia e della Basilicata (IZS PB) Via Manfredonia, 20 71121 Foggia Italy
| | - Gianfranco La Bella
- Istituto Zooprofilattico Sperimentale della Puglia e della Basilicata (IZS PB) Via Manfredonia, 20 71121 Foggia Italy
| | - Gaia Nobili
- Istituto Zooprofilattico Sperimentale della Puglia e della Basilicata (IZS PB) Via Manfredonia, 20 71121 Foggia Italy
| | - Rosa Coppola
- Istituto Zooprofilattico Sperimentale della Puglia e della Basilicata (IZS PB) Via Manfredonia, 20 71121 Foggia Italy
| | - Annita Maria Damato
- Istituto Zooprofilattico Sperimentale della Puglia e della Basilicata (IZS PB) Via Manfredonia, 20 71121 Foggia Italy
| | - Maria Assunta Cafiero
- Istituto Zooprofilattico Sperimentale della Puglia e della Basilicata (IZS PB) Via Manfredonia, 20 71121 Foggia Italy
| | - Giovanna La Salandra
- Istituto Zooprofilattico Sperimentale della Puglia e della Basilicata (IZS PB) Via Manfredonia, 20 71121 Foggia Italy
| |
Collapse
|
37
|
Zhang Y, Wang S, Ma Y, Li H, Li Y. Identification and absolute quantification of animal blood products by peptide markers using an UPLC–MS/MS method. Eur Food Res Technol 2020. [DOI: 10.1007/s00217-019-03421-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
|
38
|
Validation of droplet digital Polymerase Chain Reaction for the detection and absolute quantification of Taenia solium eggs in spiked soil samples. Acta Trop 2019; 200:105175. [PMID: 31526776 DOI: 10.1016/j.actatropica.2019.105175] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2019] [Revised: 09/12/2019] [Accepted: 09/13/2019] [Indexed: 02/07/2023]
Abstract
To enable the detection of taeniid eggs in environmental samples, a sensitive technology is required. In this study, we validated the effectiveness of a digital droplet Polymerase Chain Reaction (ddPCR) assay for detection, identification and absolute quantification of taeniid DNA from artificially contaminated soils with varying numbers of taeniid eggs using a set of universal primers, JB3 & JB4.5. The results showed that the number of cox1 copies detected increased gradually for both species with the number of taeniid eggs added to the different soil types. The highest cox1 DNA copies recovery for Taenia solium and T. lynciscapreoli was from the sand soil with lowest recovery being observed in clay soils. Therefore, ddPCR is a promising technology for screening of taeniid eggs from soil samples collected in the environment irrespective of the soil type and the number of eggs. The potential of the ddPCR protocol to detect taeniid egg DNA in spiked soil samples has great practical application for taeniid egg screening in soils from endemic areas. However, when universal primers are used in screening environmental samples, the identity of ddPCR positive samples must be confirmed by sequencing. In addition, more validation studies using species-specific primers and field soil samples is recommended.
Collapse
|
39
|
Dantas VV, Cardoso GVF, Araújo WSC, de Oliveira ACDS, Silva ASD, da Silva JB, Pedroso SCDS, Roos TB, Moraes CMD, Lourenço LDFH. Application of a multiplex polymerase chain reaction (mPCR) assay to detect fraud by substitution of bovine meat cuts with water buffalo meat in Northern Brazil. CYTA - JOURNAL OF FOOD 2019. [DOI: 10.1080/19476337.2019.1650832] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- Vanderson Vasconcelos Dantas
- Food Technology Department, Pará State University (UEPA), Redenção, Brazil
- LAPOA/FEA (Faculty of Food Engineering), Federal University of Pará (UFPA), Belém, Brazil
| | | | | | | | - Andreia Silva da Silva
- LHQA/IMEV (Institute of Veterinary Medicine), Federal University of Pará (UFPA), Castanhal, Brazil
| | | | | | - Talita Bandeira Roos
- LHQA/IMEV (Institute of Veterinary Medicine), Federal University of Pará (UFPA), Castanhal, Brazil
| | - Carina Martins de Moraes
- LHQA/IMEV (Institute of Veterinary Medicine), Federal University of Pará (UFPA), Castanhal, Brazil
| | | |
Collapse
|
40
|
Cao W, Li Y, Chen X, Chang Y, Li L, Shi L, Bai W, Ye L. Species identification and quantification of silver pomfret using the droplet digital PCR assay. Food Chem 2019; 302:125331. [PMID: 31404867 DOI: 10.1016/j.foodchem.2019.125331] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2018] [Revised: 07/30/2019] [Accepted: 08/04/2019] [Indexed: 11/30/2022]
Abstract
Adulteration of the high-value silver pomfret (Pampus argenteus) is a serious problem worldwide, necessitating accurate identification and quantification of the species. In this study, optimisation of the digital droplet PCR (ddPCR) assay for the identification and quantification of the silver pomfret was carried out. The primer and probe concentrations, melting temperature, and PCR cycle number were optimised by combining single-factor experiments with an orthogonal experimental design. The absolute limits of detection and quantification of the ddPCR were 2copies/μl and 21 copies/μl, respectively. Its sensitivity was 0.1% for meat mixtures and 0.5% for DNA mixtures. The ddPCR was 156 times more sensitive than the real-time PCR, although both methods had similar specificities. However, the overall time needed to complete the ddPCR method was twice that of the real-time PCR. Notwithstanding, the ddPCR methodology established in this study can be a valuable tool for addressing species adulteration issues.
Collapse
Affiliation(s)
- Weiwei Cao
- Institute of Food Safety and Nutrition, Jinan University, Guangzhou 510632, Guangdong, China
| | - Yiming Li
- College of Light Industry and Food Sciences, South China University of Technology, Guangzhou 510641, Guangdong, China
| | - Xun Chen
- Institute of Food Safety and Nutrition, Jinan University, Guangzhou 510632, Guangdong, China
| | - Yanlei Chang
- Institute of Food Safety and Nutrition, Jinan University, Guangzhou 510632, Guangdong, China
| | - Lili Li
- Institute of Food Safety and Nutrition, Jinan University, Guangzhou 510632, Guangdong, China
| | - Lei Shi
- Institute of Food Safety and Nutrition, Jinan University, Guangzhou 510632, Guangdong, China
| | - Weibin Bai
- Institute of Food Safety and Nutrition, Jinan University, Guangzhou 510632, Guangdong, China
| | - Lei Ye
- Institute of Food Safety and Nutrition, Jinan University, Guangzhou 510632, Guangdong, China.
| |
Collapse
|
41
|
Haynes E, Jimenez E, Pardo MA, Helyar SJ. The future of NGS (Next Generation Sequencing) analysis in testing food authenticity. Food Control 2019. [DOI: 10.1016/j.foodcont.2019.02.010] [Citation(s) in RCA: 46] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
|
42
|
Digital PCR: a new technology for diagnosis of parasitic infections. Clin Microbiol Infect 2019; 25:1510-1516. [PMID: 31226445 DOI: 10.1016/j.cmi.2019.06.009] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Revised: 06/06/2019] [Accepted: 06/08/2019] [Indexed: 12/27/2022]
Abstract
BACKGROUND Parasitic infections are responsible for a significant burden of disease worldwide as a result of international travel and immigration. More accurate diagnostic tools are necessary in support to parasite control and elimination programmes in endemic regions as well as for rapid case detection in non-endemic areas. Digital PCR (dPCR) is a powerful technology with recent applications in parasitology. AIMS This review provides for the first time an overview of dPCR as a novel technology applied to detection of parasitic infections, and highlights the most relevant potential benefits of this assay. SOURCES Peer-reviewed literature pertinent to this review based on PubMed, Cochrane and Embase databases as well as laboratory experience of authors. CONTENT Among the 86 studies retrieved, 17 used the dPCR applied to parasites belonging to protozoa (8), helminths (8) and arthropods (1) of clinical human interest. dPCR was adopted in four studies, respectively, for Plasmodium and Schistosoma japonicum. dPCR led to clear advantages over quantitative real-time PCR in P. falciparum and spp., and in S. japonicum showing higher sensitivity; and in Cryptosporidium with higher stability to inhibitors from stool. For all parasites, dPCR allows absolute quantitation without the need of a standard curve. Various dPCR platforms were used. A few critical factors need consideration: DNA load, choice of platform and reaction optimization. IMPLICATIONS Owing to its sensitivity and quantitative characteristics, dPCR is a potential candidate to become an appealing new method among the molecular technologies for parasite detection and quantitative analysis in the future. In general, it has more applications than genomic DNA detection only, such as quantitation in mixed infections, gene expression and mutation analysis. dPCR should be considered in malaria screening and diagnosis as a complement to routine assays and in schistosomiasis elimination programmes. Standardized strategies and further studies are needed for the integration of dPCR in routine clinical laboratory.
Collapse
|
43
|
A Review on the Current Knowledge and Prospects for the Development of Improved Detection Methods for Soil-Transmitted Helminth Ova for the Safe Reuse of Wastewater and Mitigation of Public Health Risks. WATER 2019. [DOI: 10.3390/w11061212] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Climate change, increase in population and scarcity of freshwater have led to a global demand for wastewater reuse in irrigation. However, wastewater has to be treated in order to minimize the presence of pathogens, in particular, the ova of soil-transmitted helminthes (STHs). Limiting the transmission via removal of STH ova, accurate assessment of risks and minimizing the exposure to the public have been recommended by health regulators. The World Health Organization (WHO) guideline specifies a limit of ≤1 ova/L for safe wastewater reuse. Additionally, the Australian Guidelines for Water recycling (AGWR) recommend a hydraulic retention time of over 25 days in a lagoon or stabilization pond to ensure a 4 log reduction value of helminth ova and to mitigate soil-transmitted helminths associated risks to humans. However, the lack of fast and sensitive methods for assessing the concentration of STH ova in wastewater poses a considerable challenge for an accurate risk assessment. Consequently, it has been difficult to control soil-transmitted helminthiasis despite effective mass drug administration. This limitation can be overcome with the advent of novel techniques for the detection of helminth ova. Therefore, this review presents an assessment of the current methods to detect the viable ova of soil-transmitted helminths in wastewater. Furthermore, the review focuses on the perspectives for the emerging state-of-the-art research and developments that have the potential to replace currently available conventional and polymerase chain reaction based methods and achieve the guidelines of the WHO in order to allow the safe reuse of wastewater for non-potable applications, thereby minimizing public health risks.
Collapse
|
44
|
Korajkic A, McMinn BR, Ashbolt NJ, Sivaganesan M, Harwood VJ, Shanks OC. Extended persistence of general and cattle-associated fecal indicators in marine and freshwater environment. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 650:1292-1302. [PMID: 30308816 PMCID: PMC8982556 DOI: 10.1016/j.scitotenv.2018.09.108] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Revised: 09/06/2018] [Accepted: 09/08/2018] [Indexed: 05/26/2023]
Abstract
Fecal contamination of recreational waters with cattle manure can pose a risk to public health due to the potential presence of various zoonotic pathogens. Fecal indicator bacteria (FIB) have a long history of use in the assessment of recreational water quality, but FIB quantification provides no information about pollution sources. Microbial source tracking (MST) markers have been developed in response to a need to identify pollution sources, yet factors that influence their decay in ambient waters are often poorly understood. We investigated the influence of water type (freshwater versus marine) and select environmental parameters (indigenous microbiota, ambient sunlight) on the decay of FIB and MST markers originating from cattle manure. Experiments were conducted in situ using a submersible aquatic mesocosm containing dialysis bags filled with a mixture of cattle manure and ambient water. Culturable FIB (E. coli, enterococci) were enumerated by membrane filtration and general fecal indicator bacteria (GenBac3, Entero1a, EC23S857) and MST markers (Rum2Bac, CowM2, CowM3) were estimated by qPCR. Water type was the most significant factor influencing decay (three-way ANOVA, p: 0.006 to <0.001), although the magnitude of the effect differed among microbial targets and over time. The presence of indigenous microbiota and exposure to sunlight were significantly correlated (three-way ANOVA, p: 0.044 to <0.001) with decay of enterococci and CowM2, while E. coli, EC23S857, Rum2Bac, and CowM3 (three-way ANOVA, p: 0.044 < 0.001) were significantly impacted by sunlight or indigenous microbiota. Results indicate extended persistence of both cultivated FIB and genetic markers in marine and freshwater water types. Findings suggest that multiple environmental stressors are important determinants of FIB and MST marker persistence, but their magnitude can vary across indicators. Selective exclusion of natural aquatic microbiota and/or sunlight typically resulted in extended survival, but the effect was minor and limited to select microbial targets.
Collapse
Affiliation(s)
- Asja Korajkic
- National Exposure Research Laboratory, Office of Research and Development, 26 West Martin Luther King Drive, Cincinnati, OH 45268, United States.
| | - Brian R McMinn
- National Exposure Research Laboratory, Office of Research and Development, 26 West Martin Luther King Drive, Cincinnati, OH 45268, United States
| | - Nicholas J Ashbolt
- University of Alberta, School of Public Health, 3-57D South Academic Building, Edmonton, AB T6G 2G7, Canada
| | - Mano Sivaganesan
- National Risk Management Research Laboratory, Office of Research and Development, United States Environmental Protection Laboratory, 26 West Martin Luther King Drive, Cincinnati, OH 45268, United States
| | - Valerie J Harwood
- University of South Florida, Department of Integrative Biology, 4202 E Fowler Ave SCA 110, Tampa, FL 33620, United States
| | - Orin C Shanks
- National Risk Management Research Laboratory, Office of Research and Development, United States Environmental Protection Laboratory, 26 West Martin Luther King Drive, Cincinnati, OH 45268, United States
| |
Collapse
|
45
|
Shehata HR, Naaum AM, Chen S, Murphy T, Li J, Shannon K, Awmack D, Locas A, Hanner RH. Re-visiting the occurrence of undeclared species in sausage products sold in Canada. Food Res Int 2019; 122:593-598. [PMID: 31229118 DOI: 10.1016/j.foodres.2019.01.030] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2018] [Revised: 01/11/2019] [Accepted: 01/13/2019] [Indexed: 11/16/2022]
Abstract
Meat and poultry are major protein sources for humans worldwide. Undeclared ingredients in processed meat products, like sausage, continue to be identified in retail products all over the world. In collaboration with the Canadian Food Inspection Agency, a previous study of products purchased in Canada showed 20% mislabelling rate in sausage meats when tested for beef, pork, chicken, turkey and horse using DNA barcoding and digital PCR. In a follow-up to this study, an additional 100 "single species" sausage products were collected from Canadian retail markets, one year after our earlier study, to determine the prevalence of undeclared meat species in sausage. A new hierarchy of complementary molecular methods was applied in this study, including the testing of new target species (sheep and goat), in addition to beef, pork, chicken, turkey and horse. First, all samples were tested using DNA barcoding using universal primers, which revealed that 97% of the samples contained the declared species, presumably as the predominant species. Second, all samples were tested using ddPCR assays specifically targeting beef, pork, chicken, and turkey, which revealed that five beef samples, three chicken samples and two turkey samples contained undeclared species. Additionally, ddPCR revealed the presence of undeclared sheep in five samples. Overall, using complementary molecular methods, 14% of the samples contained additional undeclared species. It was encouraging to find a reduced rate of mislabelling compared to the previous study, though it remains clear that meat mislabelling is still an issue affecting Canadian consumers. The results from this study can be used to support decision-making processes for future inspection and monitoring activities in order to control species substitution or adulteration to protect consumers.
Collapse
Affiliation(s)
- Hanan R Shehata
- Department of Integrative Biology, University of Guelph, ON, Canada; Biodiversity Institute of Ontario, University of Guelph, Guelph, ON, Canada
| | - Amanda M Naaum
- Department of Integrative Biology, University of Guelph, ON, Canada; Biodiversity Institute of Ontario, University of Guelph, Guelph, ON, Canada
| | - Shu Chen
- Laboratory Services Division, University of Guelph, Guelph, ON, Canada
| | - Torie Murphy
- Department of Integrative Biology, University of Guelph, ON, Canada; Biodiversity Institute of Ontario, University of Guelph, Guelph, ON, Canada
| | - Jiping Li
- Laboratory Services Division, University of Guelph, Guelph, ON, Canada
| | - Kelly Shannon
- Laboratory Services Division, University of Guelph, Guelph, ON, Canada
| | - David Awmack
- Canadian Food Inspection Agency Food Safety Science Directorate, Science Branch, Ottawa, ON, Canada
| | - Annie Locas
- Canadian Food Inspection Agency Food Safety Science Directorate, Science Branch, Ottawa, ON, Canada
| | - Robert H Hanner
- Department of Integrative Biology, University of Guelph, ON, Canada; Biodiversity Institute of Ontario, University of Guelph, Guelph, ON, Canada.
| |
Collapse
|
46
|
Verrez-Bagnis V, Sotelo CG, Mendes R, Silva H, Kappel K, Schröder U. Methods for Seafood Authenticity Testing in Europe. BIOACTIVE MOLECULES IN FOOD 2019. [DOI: 10.1007/978-3-319-78030-6_69] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
|
47
|
Digital duplex versus real-time PCR for the determination of meat proportions from sausages containing pork and beef. Eur Food Res Technol 2018. [DOI: 10.1007/s00217-018-3147-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
48
|
Byrnes SA, Chang TC, Huynh T, Astashkina A, Weigl BH, Nichols KP. Simple Polydisperse Droplet Emulsion Polymerase Chain Reaction with Statistical Volumetric Correction Compared with Microfluidic Droplet Digital Polymerase Chain Reaction. Anal Chem 2018; 90:9374-9380. [DOI: 10.1021/acs.analchem.8b01988] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Samantha A. Byrnes
- Intellectual Ventures Laboratory, 14360 Southeast Eastgate Way, Bellevue, Washington 98007, United States
| | - Tim C. Chang
- Intellectual Ventures Laboratory, 14360 Southeast Eastgate Way, Bellevue, Washington 98007, United States
| | - Toan Huynh
- Intellectual Ventures Laboratory, 14360 Southeast Eastgate Way, Bellevue, Washington 98007, United States
| | - Anna Astashkina
- Intellectual Ventures Laboratory, 14360 Southeast Eastgate Way, Bellevue, Washington 98007, United States
| | - Bernhard H. Weigl
- Intellectual Ventures Laboratory, 14360 Southeast Eastgate Way, Bellevue, Washington 98007, United States
| | - Kevin P. Nichols
- Intellectual Ventures Laboratory, 14360 Southeast Eastgate Way, Bellevue, Washington 98007, United States
| |
Collapse
|
49
|
Naaum AM, Shehata HR, Chen S, Li J, Tabujara N, Awmack D, Lutze-Wallace C, Hanner R. Complementary molecular methods detect undeclared species in sausage products at retail markets in Canada. Food Control 2018. [DOI: 10.1016/j.foodcont.2017.07.040] [Citation(s) in RCA: 42] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
|
50
|
|