1
|
Sultana S, Azlan A, Mohd Desa MN, Mahyudin NA, Anburaj A. A review of CRISPR-Cas and PCR-based methods for the detection of animal species in the food chain-current challenges and future prospects. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2024; 41:213-227. [PMID: 38284970 DOI: 10.1080/19440049.2024.2304577] [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: 10/26/2023] [Accepted: 01/08/2024] [Indexed: 01/30/2024]
Abstract
Regular testing and systematic investigation play a vital role to ensure product safety. Until now, the existing food authentication techniques have been based on proteins, lipids, and nucleic acid-based assays. Among various deoxyribonucleic acid (DNA)-based methods, the recently developed Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) based bio-sensing is an innovative and fast-expanding technology. The CRISPR/Cas-9 is known as Clustered Regularly Interspaced Short Palindromic Repeats due to the flexibility and simplicity of the CRISPR/Cas9 site-specific editing tool has been applied in many biological research areas such as Gene therapy, cell line development, discovering mechanisms of disease, and drug discovery. Nowadays, the CRISPR-Cas system has also been introduced into food authentication via detecting DNA barcodes of poultry and livestock both in processed and unprocessed food samples. This review documents various DNA based approaches, in an accessible format. Future CRISPR technologies are forecast while challenges are outlined.
Collapse
Affiliation(s)
- Sharmin Sultana
- Laboratory of Halal Science Research, Halal Products Research Institute, Universiti Putra Malaysia, Serdang, Malaysia
| | - Azrina Azlan
- Laboratory of Halal Science Research, Halal Products Research Institute, Universiti Putra Malaysia, Serdang, Malaysia
- Department of Nutrition, Faculty of Medicine & Health Sciences, Universiti Putra Malaysia, Serdang, Malaysia
- Research Centre of Excellence for Nutrition and Non-Communicable Diseases, Faculty of Medicine and Health Sciences, Universiti Putra Malaysia, Serdang, Malaysia
| | | | - Nor Ainy Mahyudin
- Laboratory of Halal Science Research, Halal Products Research Institute, Universiti Putra Malaysia, Serdang, Malaysia
| | - Amaladoss Anburaj
- Centre for Aquaculture and Veterinary Science (CAVS), School of Applied Science, Temasek Polytechnic, Singapore, Singapore
| |
Collapse
|
2
|
Sultana S, Azlan A, Desa MNM, Mahyudin NA. Multiplex platforms in biosensor based analytical approaches: Opportunities and challenges for the speciation of animal species in food chain. Food Control 2023. [DOI: 10.1016/j.foodcont.2023.109727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/08/2023]
|
3
|
Windarsih A, Warmiko HD, Indrianingsih AW, Rohman A, Ulumuddin YI. Untargeted metabolomics and proteomics approach using liquid chromatography-Orbitrap high resolution mass spectrometry to detect pork adulteration in Pangasius hypopthalmus meat. Food Chem 2022; 386:132856. [PMID: 35367799 DOI: 10.1016/j.foodchem.2022.132856] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Revised: 03/04/2022] [Accepted: 03/27/2022] [Indexed: 11/18/2022]
Abstract
Pangasius hypopthalmus is well known as a good source of protein. However, Pangasius hypopthalmus meat (PHM) can be adulterated with pork for economic concern, thus, analytical methods for authentication are required. Untargeted metabolomics and proteomics using liquid chromatography-high resolution mass spectrometry (LC-HRMS) and chemometrics of principal component analysis (PCA) and partial least square-discriminant analysis (PLS-DA) was successfully used to differentiate authentic and adulterated PHM with the good of fitness (R > 0.95) and good of predictivity (Q > 0.5). Metabolites of PC(o-18:0/18:2(9Z,12Z)) was found to be a potential marker for pork whereas DMPC (dimyristoylphosphatidylcholine) was a potential marker for PHM. Meanwhile, pork peptide marker of myoglobin (HPGDFGADAQGAMSK) and β-hemoglobin (FFESFGDLSNADAVMGNPK) could be identified. Both metabolomics and proteomics using LC-HRMS could detect pork at the lowest concentration level (0.5% w/w). In conclusion, untargeted metabolomics and proteomics using LC-HRMS in combination with chemometrics could be used as powerful methods to detect pork adulteration in fish meat.
Collapse
Affiliation(s)
- Anjar Windarsih
- Research Center for Food Technology and Processing (PRTPP), National Research and Innovation Agency (BRIN), Yogyakarta 55861, Indonesia.
| | - Hendy Dwi Warmiko
- PT. Genecraft Labs, Thermo Scientific Division, Jakarta 11620, Indonesia
| | - Anastasia Wheni Indrianingsih
- Research Center for Food Technology and Processing (PRTPP), National Research and Innovation Agency (BRIN), Yogyakarta 55861, Indonesia
| | - Abdul Rohman
- Center of Excellence Institute for Halal Industry and Systems (IHIS), Universitas Gadjah Mada, Yogyakarta 55281, Indonesia; Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
| | - Yaya Ihya Ulumuddin
- Research Center for Oceanography, National Research and Innovation Agency (BRIN), Jakarta 14430, Indonesia
| |
Collapse
|
4
|
A new tool for quality control to monitor contamination of six non-halal meats in food industry by multiplex high-resolution melting analysis (HRMA). NFS JOURNAL 2021. [DOI: 10.1016/j.nfs.2021.09.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
|
5
|
Uddin SMK, Hossain MAM, Chowdhury ZZ, Johan MR. Detection and discrimination of seven highly consumed meat species simultaneously in food products using heptaplex PCR-RFLP assay. J Food Compost Anal 2021. [DOI: 10.1016/j.jfca.2021.103938] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
|
6
|
Uddin SMK, Hossain MAM, Chowdhury ZZ, Johan MRB. Short targeting multiplex PCR assay to detect and discriminate beef, buffalo, chicken, duck, goat, sheep and pork DNA in food products. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2021; 38:1273-1288. [PMID: 34077338 DOI: 10.1080/19440049.2021.1925748] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
Food fraud is a global problem raising increased concerns during the past decades and food authenticity is now a burning issue. Beef, buffalo, chicken, duck, goat, sheep, and pork are heavily consumed meats bearing nutritional, economic and cultural/religious importance and are often found to be adulterated in raw and processed states. To authenticate these species, we developed and validated a highly specific multiplex (heptaplex) PCR assay targeting short length amplicons (73-263 bp) using seven pairs of species-specific primer sets targeting mitochondrial cytochrome b (cytb) and NADH dehydrogenase subunit 5 (ND5) genes. Specificity checking (in silico and in vitro) against 25 non-target species revealed no cross-species amplification. The developed multiplex assay was validated with various adulterated and heat-treated (boiled, microwaved and autoclaved) meatball products and were found to show high sensitivity and stability under all processing conditions. The assay was sensitive enough to detect 0.01-0.005 ng of DNA from raw meat and 0.5% (w/w) adulterated meat in mixed matrices. A market survey revealed mislabelling of 95% beef and 15% chicken products while pork products were found pure. Given some advantageous features including short sizes of amplicons, exceptional stability and superior sensitivity, the developed assay could be conveniently used for discriminatory detection of target species with a variety of raw meat as well as processed meat products undergoing extreme processing treatments.
Collapse
Affiliation(s)
- Syed Muhammad Kamal Uddin
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - M A Motalib Hossain
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Zaira Zaman Chowdhury
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Mohd Rafie Bin Johan
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| |
Collapse
|
7
|
Wimbles R, Melling LM, Cain B, Davies N, Doherty J, Johnson B, Shaw KJ. On-site genetic analysis for species identification using lab-on-a-chip. Ecol Evol 2021; 11:1535-1543. [PMID: 33613987 PMCID: PMC7882957 DOI: 10.1002/ece3.7053] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Revised: 10/22/2020] [Accepted: 11/02/2020] [Indexed: 12/17/2022] Open
Abstract
This paper presents a microfluidic device capable of performing genetic analysis on dung samples to identify White Rhinoceros (Ceratotherium simum). The development of a microfluidic device, which can be used in the field, offers a portable and cost-effective solution for DNA analysis and species identification to aid conservation efforts. Optimization of the DNA extraction processes produced equivalent yields compared to conventional kit-based methods within just 5 minutes. The use of a color-changing loop-mediated isothermal amplification reaction for simultaneous detection of the cytochrome B sequence of C. simum enabled positive results to be obtained within as little as 30 minutes. Field testing was performed at Knowsley Safari to demonstrate real-world applicability of the microfluidic device for testing of biological samples.
Collapse
Affiliation(s)
- Ryan Wimbles
- Department of Natural SciencesManchester Metropolitan UniversityManchesterUK
| | - Louise M. Melling
- Department of Natural SciencesManchester Metropolitan UniversityManchesterUK
| | - Bradley Cain
- Department of Natural SciencesManchester Metropolitan UniversityManchesterUK
| | | | | | | | - Kirsty J. Shaw
- Department of Natural SciencesManchester Metropolitan UniversityManchesterUK
| |
Collapse
|
8
|
Čapla J, Zajác P, Čurlej J, Belej Ľ, Kročko M, Bobko M, Benešová L, Jakabová S, Vlčko T. Procedures for the identification and detection of adulteration of fish and meat products. POTRAVINARSTVO 2020. [DOI: 10.5219/1474] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The addition or exchange of cheaper fish species instead of more expensive fish species is a known form of fraud in the food industry. This can take place accidentally due to the lack of expertise or act as a fraud. The interest in detecting animal species in meat products is based on religious demands (halal and kosher) as well as on product adulterations. Authentication of fish and meat products is critical in the food industry. Meat and fish adulteration, mainly for economic pursuit, is widespread and leads to serious public health risks, religious violations, and moral loss. Economically motivated adulteration of food is estimated to create damage of around € 8 to 12 billion per year. Rapid, effective, accurate, and reliable detection technologies are keys to effectively supervising meat and fish adulteration. Various analytical methods often based on protein or DNA measurements are utilized to identify fish and meat species. Although many strategies have been adopted to assure the authenticity of fish and meat and meat a fish products, such as the protected designation of origin, protected geographical indication, certificate of specific characteristics, and so on, the coverage is too small, and it is unrealistic to certify all meat products for protection from adulteration. Therefore, effective supervision is very important for ensuring the suitable development of the meat industry, and rapid, effective, accurate, and reliable detection technologies are fundamental technical support for this goal. Recently, several methods, including DNA analysis, protein analysis, and fat-based analysis, have been effectively employed for the identification of meat and fish species.
Collapse
|
9
|
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
|
10
|
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
|
11
|
Al Amin M, Mahfujur Rahman M, Razimi MSA, Chowdhury ZZ, Hussain MNM, Desa MNM. Screening of commercial meat products from supermarket chains for feline derivatives using SP-PCR-RLFP and lab-on-a-chip. J Food Compost Anal 2020; 92:103565. [PMID: 32546895 PMCID: PMC7282760 DOI: 10.1016/j.jfca.2020.103565] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Revised: 06/03/2020] [Accepted: 06/07/2020] [Indexed: 11/19/2022]
Abstract
Determination of feline meat in food products is an important issue for social, health, economic and religious concern. Hence this paper documented the application of species specific polymerase chain reaction-restriction fragment length polymorphism (SP-PCR-RFLP) assay targeting a short-fragments (69 bp) of mitochondrial cytochrome b (cytb) gene to screen feline meat in commercial meat products using lab-on-a-chip. The SP-PCR assay proved its specificity theoretically and experimentally while testing with different common animal, aquatic and plant species of DNA. The feline specific (69 bp, 43- and 26-bp) characteristic molecular DNA pattern was observed by SP-PCR and RFLP analysis. For assay performance, it was tested in three different types of commercial dummy meat products such as frankfurters, nuggets and meatballs and digested with AluI-restriction enzyme. The highest sensitivity of the assay using lab-on-a-chip was as low as 0.1 pg or 0.01 % (w/w) in commercial dummy meat products. We have also applied this assay to screen three important commercial meat products of six different brand from six supermarket chains located at three different states of Malaysia. Thus total 378 samples were tested to validate the specificity, sensitivity, stability of the assay and utilization of it for commercial meat product screening.
Collapse
Affiliation(s)
- Md Al Amin
- Global Centre for Environmental Remediation (GCER), University of Newcastle, Callaghan, NSW, 2308, Australia
| | - Md Mahfujur Rahman
- Islamic Business School, Universiti Utara Malaysia, 06010, Kedah, Malaysia
- Asian Halal Laboratory, School of Technology Management & Logistic, Universiti Utara, Malaysia, 06010, Kedah, Malaysia
- Halal Products Research Institute, Universiti Putra Malaysia, 43400, Serdang, Selangor, Malaysia
| | | | - Zaira Zaman Chowdhury
- Nanotechnology and Catalysis Research Centre (NANOCAT), Universiti Malaya, 50603, Kuala Lumpur, Malaysia
| | | | - Mohd Nasir Mohd Desa
- Halal Products Research Institute, Universiti Putra Malaysia, 43400, Serdang, Selangor, Malaysia
| |
Collapse
|
12
|
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
|
13
|
Hossain MAM, Uddin SMK, Sultana S, Bonny SQ, Khan MF, Chowdhury ZZ, Johan MR, Ali ME. Heptaplex Polymerase Chain Reaction Assay for the Simultaneous Detection of Beef, Buffalo, Chicken, Cat, Dog, Pork, and Fish in Raw and Heat-Treated Food Products. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:8268-8278. [PMID: 31283221 DOI: 10.1021/acs.jafc.9b02518] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Species authentication of meat and fish products is crucial to safeguard public health, economic investment, and religious sanctity. We developed a heptaplex polymerase chain reaction assay targeting short amplicon length (73-198 bp) for the simultaneous detection and differentiation of cow, buffalo, chicken, cat, dog, pig, and fish species in raw and processed food using species-specific primers targeting mitochondrial cytb, ND5, and 16s rRNA genes. Assay validation of adulterated and various heat-treated meatball matrices showed excellent stability and sensitivity under all processing conditions. The detection limit was 0.01-0.001 ng of DNA under pure states and 0.5% meat in meatball products. Buffalo was detected in 86.7% (13 out of 15) of tested commercial beef products, while chicken, pork, and fish products were found to be pure. The developed assay was efficient enough to detect target species simultaneously, even in highly degraded and processed food products at reduced time.
Collapse
|
14
|
Tetraplex real-time PCR with TaqMan probes for discriminatory detection of cat, rabbit, rat and squirrel DNA in food products. Eur Food Res Technol 2019. [DOI: 10.1007/s00217-019-03326-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
15
|
Ahmad Nizar NN, Hossain M, Sultana S, Ahamad MN, Johan MR, Ali ME. Quantitative duplex real-time polymerase chain reaction assay with TaqMan probe detects and quantifies Crocodylus porosus in food chain and traditional medicines. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2019; 36:825-835. [DOI: 10.1080/19440049.2019.1584407] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Nina Naquiah Ahmad Nizar
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Motalib Hossain
- 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
| | - Mohamad Nasiruddin Ahamad
- 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
- Institute of Halal Research (IHRUM), University of Malaya, Kuala Lumpur, Malaysia
| |
Collapse
|
16
|
Ahmad Nizar NN, Sultana S, Hossain MM, Johan MR, Ali ME. Double gene targeting multiplex PCR-RFLP detects Crocodylus porosus in chicken meatball and traditional medicine. INTERNATIONAL JOURNAL OF FOOD PROPERTIES 2018. [DOI: 10.1080/10942912.2018.1508164] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Nina Naquiah Ahmad Nizar
- Nanotechnology and Catalysis Research Centre, Institute of Postgraduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Sharmin Sultana
- Nanotechnology and Catalysis Research Centre, Institute of Postgraduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - M.A. Motalib Hossain
- Nanotechnology and Catalysis Research Centre, Institute of Postgraduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Mohd Rafie Johan
- Nanotechnology and Catalysis Research Centre, Institute of Postgraduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Md. Eaqub Ali
- Nanotechnology and Catalysis Research Centre, Institute of Postgraduate Studies, University of Malaya, Kuala Lumpur, Malaysia
- Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya, Kuala Lumpur, Malaysia
- University of Malaya Halal Research Centre (UMHRC), University of Malaya, Kuala Lumpur, Malaysia
| |
Collapse
|
17
|
Sultana S, Hossain MM, Naquiah NNA, Ali ME. Novel multiplex PCR-RFLP assay discriminates bovine, porcine and fish gelatin substitution in Asian pharmaceuticals capsule shells. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2018; 35:1662-1673. [DOI: 10.1080/19440049.2018.1500719] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- Sharmin Sultana
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, KualaLumpur, Malaysia
| | - M.A Motalib Hossain
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, KualaLumpur, Malaysia
| | - Nina Nizar Ahmad Naquiah
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, KualaLumpur, Malaysia
| | - Md. Eaqub Ali
- Nanotechnology and Catalysis Research Centre (NANOCAT), University of Malaya, KualaLumpur, Malaysia
- Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya, Kuala Lumpur, Malaysia
- Institute of Halal Products Research, Universiti Putra Malaysiax, University of Malaya, Selangor, Malaysia
| |
Collapse
|
18
|
Ahmad Nizar NN, Ali ME, Hossain MAM, Sultana S, Ahamad MNU. Double gene targeting PCR assay for the detection of Crocodylus porosus in commercial products. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2018; 35:1038-1051. [PMID: 29447579 DOI: 10.1080/19440049.2018.1440644] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
The demand for crocodile meat is quickly growing because of its exotic and organoleptic appeal and also the low content of cholesterol and lipids. Moreover, crocodile oil and blood have been used in alternative medicines for treating asthma and several other ailments since ancient times. Furthermore, crocodile hides have great demand in leather industries. All of these have collectively contributed to the extensive hunting, illegal trading and consequent decline of crocodiles in most parts of the world. To keep space with the growing demands, some crocodile species such as Crocodylus porosus have been raised in farms and its commercial trades have been legalised. However, demand for wild crocodiles in foods and medicines has continued in high gear. Recently, several DNA-based methods have been proposed for crocodile detection, but those assays are based on single gene and longer-sized amplicon targets that break down during extensive processing. To address this gap, here we developed and validated a highly stable double gene targeted multiplex PCR assay for the identification of C. porosus materials in commercial products. The assay involved two short sites from C. porosus atp6 (77 bp) and cytb (127 bp) genes and a universal internal control (99 bp) for eukaryotes. The PCR primers were cross-tested against 18 species and validated under pure and mixed matrices under extensive boiling, autoclaving and microwave cooking conditions. Finally, it was used to identify five crocodile-based commercial products. The lower limits of detection for atp6 and cytb genes were 0.001 ng and 0.01 ng DNA, respectively, in pure meat and 1% under mixed matrices. Some inherent features, such as 77-127 bp amplicon sizes, exceptional stability and superior sensitivity, suggested the assay could be used for the identification of C. porosus in any forensic specimen.
Collapse
Affiliation(s)
- Nina Naquiah Ahmad Nizar
- a Nanotechnology and Catalysis Research Centre (NANOCAT) , University of Malaya , Kuala Lumpur , Malaysia
| | - Md Eaqub Ali
- a Nanotechnology and Catalysis Research Centre (NANOCAT) , University of Malaya , Kuala Lumpur , Malaysia.,b Centre for Research in Biotechnology for Agriculture (CEBAR) , University of Malaya , Kuala Lumpur , Malaysia.,c Institute of Halal Research (IHRUM) , University of Malaya , Kuala Lumpur , Malaysia
| | - M A Motalib Hossain
- a Nanotechnology and Catalysis Research Centre (NANOCAT) , University of Malaya , Kuala Lumpur , Malaysia
| | - Sharmin Sultana
- a Nanotechnology and Catalysis Research Centre (NANOCAT) , University of Malaya , Kuala Lumpur , Malaysia
| | | |
Collapse
|
19
|
Ali ME, Ahamad MNU, Asing, Hossain MM, Sultana S. Multiplex polymerase chain reaction-restriction fragment length polymorphism assay discriminates of rabbit, rat and squirrel meat in frankfurter products. Food Control 2018. [DOI: 10.1016/j.foodcont.2017.07.030] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
20
|
Universal mini COI barcode for the identification of fish species in processed products. Food Res Int 2017; 105:19-28. [PMID: 29433207 DOI: 10.1016/j.foodres.2017.10.065] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2017] [Revised: 10/27/2017] [Accepted: 10/28/2017] [Indexed: 12/15/2022]
Abstract
Species substitution, the use of a low value fish in place of a high value fish, is the biggest problem in international trade and the leading cause of fraud in the fisheries arena sector. Current DNA barcoding systems have partly solved this problem but also failed in many instances to amplify PCR targets from highly processed products because of the degradation of a longer barcode marker (~650bp). In the present study, a novel mini barcode marker (295bp) was developed to discriminate fish species in raw and processed states forms. The barcode primers were cross-tested against 33 fish species and 15 other animal species and found to be universal for all the tested fish varieties. When 20 commercial fish products of five different categories were screened, all commercial fish sample yielded positive bands for the novel fish barcode. PCR product was sequenced to retrieve the species IDs that reflected 55% (11/20) of Malaysian fish products were mislabeled.
Collapse
|
21
|
Ahamad MNU, Ali ME, Hossain MAM, Asing A, Sultana S, Jahurul MHA. Multiplex PCR assay discriminates rabbit, rat and squirrel meat in food chain. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2017; 34:2043-2057. [DOI: 10.1080/19440049.2017.1359752] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Mohammad Nasir Uddin Ahamad
- Nanotechnology and Catalysis Research Center, Institute of Graduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Md. Eaqub Ali
- Nanotechnology and Catalysis Research Center, Institute of Graduate Studies, University of Malaya, Kuala Lumpur, Malaysia
- Institute of Halal Research University of Malaya, University of Malaya, Kuala Lumpur, Malaysia
- Centre for Research in Biotechnology for Agriculture, University of Malaya, Kuala Lumpur, Malaysia
| | - M. A. Motalib Hossain
- Nanotechnology and Catalysis Research Center, Institute of Graduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Asing Asing
- Nanotechnology and Catalysis Research Center, Institute of Graduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Sharmin Sultana
- Nanotechnology and Catalysis Research Center, Institute of Graduate Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - M. H. A. Jahurul
- Faculty of Food Science and Nutrition, Universiti Malaysia Sabah, Kota Kinabalu, Sabah, Malaysia
| |
Collapse
|
22
|
Hossain MM, Ali ME, Hamid SBA, Asing, Mustafa S, Desa MNM, Zaidul I. Targeting double genes in multiplex PCR for discriminating bovine, buffalo and porcine materials in food chain. Food Control 2017. [DOI: 10.1016/j.foodcont.2016.08.008] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
23
|
Asing, Ali E, Hamid SBA, Hossain M, Ahamad MNU, Hossain SMA, Naquiah N, Zaidul ISM. Duplex real-time PCR assay using SYBR Green to detect and quantify Malayan box turtle (Cuora amboinensis) materials in meatballs, burgers, frankfurters and traditional Chinese herbal jelly powder. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2016; 33:1643-1659. [DOI: 10.1080/19440049.2016.1236403] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Asing
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Eaqub Ali
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
- Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya, Kuala Lumpur, Malaysia
| | - Sharifah Bee Abd Hamid
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Motalib Hossain
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | | | - S. M. Azad Hossain
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Nina Naquiah
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - I. S. M. Zaidul
- Department of Pharmaceutical Technology, Faculty of Pharmacy, International Islamic University, Kuantan, Malaysia
| |
Collapse
|
24
|
Asing, Ali ME, Abd Hamid SB, Hossain MAM, Mustafa S, Kader MA, Zaidul ISM. Lab-on-a-Chip-Based PCR-RFLP Assay for the Detection of Malayan Box Turtle (Cuora amboinensis) in the Food Chain and Traditional Chinese Medicines. PLoS One 2016; 11:e0163436. [PMID: 27716792 PMCID: PMC5055339 DOI: 10.1371/journal.pone.0163436] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2016] [Accepted: 09/08/2016] [Indexed: 11/18/2022] Open
Abstract
The Malayan box turtle (Cuora amboinensis) (MBT) is a vulnerable and protected turtle species, but it is a lucrative item in the illegal wildlife trade because of its great appeal as an exotic food item and in traditional medicine. Although several polymerase chain reaction (PCR) assays to identify MBT by various routes have been documented, their applicability for forensic authentication remains inconclusive due to the long length of the amplicon targets, which are easily broken down by natural decomposition, environmental stresses or physiochemical treatments during food processing. To address this research gap, we developed, for the first time, a species-specific PCR-restriction fragment length polymorphism (RFLP) assay with a very short target length (120 bp) to detect MBT in the food chain; this authentication ensured better security and reliability through molecular fingerprints. The PCR-amplified product was digested with Bfa1 endonuclease, and distinctive restriction fingerprints (72, 43 and 5 bp) for MBT were found upon separation in a microfluidic chip-based automated electrophoresis system, which enhances the resolution of short oligos. The chances of any false negative identifications were eliminated through the use of a universal endogenous control for eukaryotes, and the limit of detection was 0.0001 ng DNA or 0.01% of the meat under admixed states. Finally, the optimized PCR-RFLP assay was validated for the screening of raw and processed commercial meatballs, burgers and frankfurters, which are very popular in most countries. The optimized PCR-RFLP assay was further used to screen MBT materials in 153 traditional Chinese medicines of 17 different brands and 62 of them were found MBT positive; wherein the ingredients were not declared in product labels. Overall, the novel assay demonstrated sufficient merit for use in any forensic and/or archaeological authentication of MBT, even under a state of decomposition.
Collapse
Affiliation(s)
- Asing
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Md. Eaqub Ali
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
- Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya, Kuala Lumpur, Malaysia
| | - Sharifah Bee Abd Hamid
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - M. A. Motalib Hossain
- Nanotechnology and Catalysis Research Center (NANOCAT), University of Malaya, Kuala Lumpur, Malaysia
| | - Shuhaimi Mustafa
- Institute of Halal Products Research, University of Putra Malaysia, UPM Serdang, Selangor, Malaysia
| | - Md. Abdul Kader
- School of Aquaculture and Fisheries, University of Malaysia Terrenganu, Kuala Terrenganu, Terrenganu, Malaysia
| | - I. S. M. Zaidul
- Department of Pharmaceutical Technology, Faculty of Pharmacy, International Islamic University, Kuantan, Pahang, Malaysia
| |
Collapse
|
25
|
Hossain MAM, Ali ME, Abd Hamid SB, Mustafa S, Mohd Desa MN, Zaidul ISM. Double Gene Targeting Multiplex Polymerase Chain Reaction-Restriction Fragment Length Polymorphism Assay Discriminates Beef, Buffalo, and Pork Substitution in Frankfurter Products. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2016; 64:6343-6354. [PMID: 27501408 DOI: 10.1021/acs.jafc.6b02224] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Beef, buffalo, and pork adulteration in the food chain is an emerging and sensitive issue. Current molecular techniques to authenticate these species depend on polymerase chain reaction (PCR) assays involving long and single targets which break down under natural decomposition and/or processing treatments. This novel multiplex polymerase chain reaction-restriction fragment length polymorphism assay targeted two different gene sites for each of the bovine, buffalo, and porcine materials. This authentication ensured better security, first through a complementation approach because it is highly unlikely that both sites will be missing under compromised states, and second through molecular fingerprints. Mitochondrial cytochrome b and ND5 genes were targeted, and all targets (73, 90, 106, 120, 138, and 146 bp) were stable under extreme boiling and autoclaving treatments. Target specificity and authenticity were ensured through cross-amplification reaction and restriction digestion of PCR products with AluI, EciI, FatI, and CviKI-1 enzymes. A survey of Malaysian frankfurter products revealed rampant substitution of beef with buffalo but purity in porcine materials.
Collapse
Affiliation(s)
| | | | | | - Shuhaimi Mustafa
- Institute of Halal Products Research, Universiti Putra Malaysia , 43400 UPM Serdang, Selangor, Malaysia
| | - Mohd Nasir Mohd Desa
- Institute of Halal Products Research, Universiti Putra Malaysia , 43400 UPM Serdang, Selangor, Malaysia
| | - I S M Zaidul
- Deparment of Pharmaceutical Technology, Faculty of Pharmacy, International Islamic University , Kuantan 25200, Pahang, Malaysia
| |
Collapse
|
26
|
|
27
|
Razzak MA, Hamid SBA, Ali ME. A lab-on-a-chip-based multiplex platform to detect potential fraud of introducing pig, dog, cat, rat and monkey meat into the food chain. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2015; 32:1902-13. [DOI: 10.1080/19440049.2015.1087060] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
28
|
Ali ME, Al Amin M, Hamid SBA, Hossain MAM, Mustafa S. Lab-on-a-chip-based PCR-RFLP assay for the confirmed detection of short-length feline DNA in food. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2015. [DOI: 10.1080/19440049.2015.1075068] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|