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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.
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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
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Hashem A, Hossain MAM, Marlinda AR, Mamun MA, Simarani K, Johan MR. Rapid and sensitive detection of box turtles using an electrochemical DNA biosensor based on a gold/graphene nanocomposite. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2022; 13:1458-1472. [PMID: 36570614 PMCID: PMC9749552 DOI: 10.3762/bjnano.13.120] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Accepted: 11/16/2022] [Indexed: 06/17/2023]
Abstract
The Southeast Asian box turtle, Cuora amboinensis, is an ecologically important endangered species which needs an onsite monitoring device to protect it from extinction. An electrochemical DNA biosensor was developed to detect the C. amboinensis mitochondrial cytochrome b gene based on an in silico designed probe using bioinformatics tools, and it was also validated in wet-lab experiments. As a detection platform, a screen-printed carbon electrode (SPCE) enhanced with a nanocomposite containing gold nanoparticles and graphene was used. The morphology of the nanoparticles was analysed by field-emission scanning electron microscopy and structural characteristics were analysed by using energy-dispersive X-ray, UV-vis, and Fourier-transform infrared spectroscopy. The electrochemical characteristics of the modified electrodes were studied by cyclic voltammetry, differential pulse voltammetry (DPV), and electrochemical impedance spectroscopy. The thiol-modified synthetic DNA probe was immobilised on modified SPCEs to facilitate hybridisation with the reverse complementary DNA. The turtle DNA was distinguished based on hybridisation-induced electrochemical change in the presence of methylene blue compared to their mismatches, noncomplementary, and nontarget species DNA measured by DPV. The developed biosensor exhibited a selective response towards reverse complementary DNAs and was able to discriminate turtles from other species. The modified electrode displayed good linearity for reverse complementary DNAs in the range of 1 × 10-11-5 × 10-6 M with a limit of detection of 0.85 × 10-12 M. This indicates that the proposed biosensor has the potential to be applied for the detection of real turtle species.
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Affiliation(s)
- Abu Hashem
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
- Microbial Biotechnology Division, National Institute of Biotechnology, Ganakbari, Ashulia, Savar, Dhaka-1349, Bangladesh
| | - M A Motalib Hossain
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Ab Rahman Marlinda
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Mohammad Al Mamun
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
- Department of Chemistry, Jagannath University, Dhaka-1100, Bangladesh
| | - Khanom Simarani
- Department of Microbiology, Institute of Biological Sciences, Faculty of Sciences, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Mohd Rafie Johan
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
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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]
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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
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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.
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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
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Sultana S, Hossain MAM, Azlan A, Johan MR, Chowdhury ZZ, Ali ME. TaqMan probe based multiplex quantitative PCR assay for determination of bovine, porcine and fish DNA in gelatin admixture, food products and dietary supplements. Food Chem 2020; 325:126756. [PMID: 32413685 DOI: 10.1016/j.foodchem.2020.126756] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2018] [Revised: 03/31/2020] [Accepted: 04/05/2020] [Indexed: 11/29/2022]
Abstract
Detection of animal materials in gelatin-based products is required to address religious and cultural concerns, because porcine and bovine gelatins are prohibited in Halal, Kosher and Hindus consumer goods. In this paper, multiplex quantitative polymerase chain reaction (qPCR) assay using TaqMan probe was developed to discriminate bovine, porcine and fish gelatin species in a single assay platform. The assay was specific to cattle, pigs and fish, having been tested against 14 non-target species. The limit of detection, under gelatin admixed conditions, was 0.005 ng/µL. Finally, a pilot survey was undertaken testing 35 Halal branded processed food and dietary items. Out of 35 samples, only two were found to be positive for porcine species. The authenticity of these two qPCR products was confirmed by DNA sequencing analysis, which showed 99-100% similarity with Sus scrofa (Wild boar) species.
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Affiliation(s)
- Sharmin Sultana
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - M A Motalib Hossain
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Azrina Azlan
- Department of Nutrition & Dietetics, Faculty of Medicine & Health Sciences, University Putra Malaysia, Serdang, 43400 Selangor, Malaysia
| | - Mohd Rafie Johan
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Zaira Zaman Chowdhury
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Md Eaqub Ali
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603 Kuala Lumpur, Malaysia; Centre for Research in Biotechnology for Agriculture, University of Malaya, 50603 Kuala Lumpur, Malaysia.
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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]
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Khalil I, Yehye WA, Julkapli NM, Rahmati S, Sina AAI, Basirun WJ, Johan MR. Graphene oxide and gold nanoparticle based dual platform with short DNA probe for the PCR free DNA biosensing using surface-enhanced Raman scattering. Biosens Bioelectron 2019; 131:214-223. [DOI: 10.1016/j.bios.2019.02.028] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2018] [Revised: 01/14/2019] [Accepted: 02/03/2019] [Indexed: 12/13/2022]
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Hossain MAM, Uddin SMK, Chowdhury ZZ, Sultana S, Johan MR, Rohman A, Erwanto Y, Ali ME. Universal mitochondrial 16s rRNA biomarker for mini-barcode to identify fish species in Malaysian fish products. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2019; 36:493-506. [PMID: 30865559 DOI: 10.1080/19440049.2019.1580389] [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] [Indexed: 12/30/2022]
Abstract
Mislabelling in fish products is a highly significant emerging issue in world fish trade in terms of health and economic concerns. DNA barcoding is an efficient sequencing-based tool for detecting fish species substitution but due to DNA degradation, it is in many cases difficult to amplify PCR products of the full-length barcode marker (~650 bp), especially in severely processed products. In the present study, a pair of universal primers targeting a 198 bp sequence of the mitochondrial 16s rRNA gene was designed for identification of fish species in the processed fish products commonly consumed in Malaysia. The specificity of the universal primers was tested by both in-silico studies using bioinformatics software and through cross-reaction assessment by practical PCR experiments against the DNA from 38 fish species and 22 other non-target species (animals and plants) and found to be specific for all the tested fish species. To eliminate the possibility of any false-negative detection, eukaryotic endogenous control was used during specificity evaluation. The developed primer set was validated with various heat-treated (boiled, autoclaved and microwaved) fish samples and was found to show high stability under all processing conditions. The newly developed marker successfully identified 92% of the tested commercial fish products with 96-100% sequence similarities. This study reveals a considerable degree of species mislabelling (20.8%); 5 out of 24 fish products were found to be mislabelled. The new marker developed in this work is a reliable tool to identify fish species even in highly processed products and might be useful in detecting fish species substitution thus protecting consumers' health and economic interests.
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Affiliation(s)
- M A Motalib Hossain
- a Nanotechnology and Catalysis Research Center, Institute of Graduate Studies , University of Malaya , Kuala Lumpur , Malaysia
| | - Syed Muhammad Kamal Uddin
- a Nanotechnology and Catalysis Research Center, Institute of Graduate Studies , University of Malaya , Kuala Lumpur , Malaysia
| | - Zaira Zaman Chowdhury
- a Nanotechnology and Catalysis Research Center, Institute of Graduate Studies , University of Malaya , Kuala Lumpur , Malaysia
| | - Sharmin Sultana
- a Nanotechnology and Catalysis Research Center, Institute of Graduate Studies , University of Malaya , Kuala Lumpur , Malaysia
| | - Mohd Rafie Johan
- a Nanotechnology and Catalysis Research Center, Institute of Graduate Studies , University of Malaya , Kuala Lumpur , Malaysia
| | - Abdul Rohman
- b Faculty of Pharmacy , Universitas Gadjah Mada , Yogyakarta , Indonesia
| | - Yuny Erwanto
- c Department of Animal Products Technology, Faculty of Animal Science , Universitas Gadjah Mada , Yogyakarta , Indonesia
| | - Md Eaqub Ali
- a Nanotechnology and Catalysis Research Center, Institute of Graduate Studies , University of Malaya , Kuala Lumpur , Malaysia.,d Centre for Research in Biotechnology for Agriculture , University of Malaya , Kuala Lumpur , Malaysia
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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]
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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
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Hossain MM, Ali ME, Hamid SBA, Hossain SA, Asing, Nizar NNA, Uddin MN, Ali L, Asaduzzaman M, Akanda MJH. Tetraplex PCR assay involving double gene-sites discriminates beef and buffalo in Malaysian meat curry and burger products. Food Chem 2017; 224:97-104. [DOI: 10.1016/j.foodchem.2016.12.062] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2015] [Revised: 12/13/2016] [Accepted: 12/18/2016] [Indexed: 11/29/2022]
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Hossain MAM, Ali ME, Sultana S, Bonny SQ, Kader MA, Rahman MA. Quantitative Tetraplex Real-Time Polymerase Chain Reaction Assay with TaqMan Probes Discriminates Cattle, Buffalo, and Porcine Materials in Food Chain. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2017; 65:3975-3985. [PMID: 28481513 DOI: 10.1021/acs.jafc.7b00730] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Cattle, buffalo, and porcine materials are widely adulterated, and their quantification might safeguard health, religious, economic, and social sanctity. Recently, conventional polymerase chain reaction (PCR) and PCR-restriction fragment length polymorphism (RFLP) assays have been documented but they are just suitable for identification, cannot quantify adulterations. We described here a quantitative tetraplex real-time PCR assay with TaqMan Probes to quantify contributions from cattle, buffalo, and porcine materials simultaneously. Amplicon-sizes were very short (106-, 90-, and 146-bp for cattle, buffalo, and porcine) because longer targets could be broken down, bringing serious ambiguity in molecular diagnostics. False negative detection was eliminated through an endogenous control (141-bp site of eukaryotic 18S rRNA). Analysis of 27 frankfurters and 27 meatballs reflected 84-115% target recovery at 0.1-10% adulterations. Finally, a test of 36 commercial products revealed 71% beef frankfurters, 100% meatballs, and 85% burgers contained buffalo adulteration, but no porcine was found in beef products.
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Affiliation(s)
- M A Motalib Hossain
- Nanotechnology and Catalysis Research Centre (NANOCAT), Institute of Graduate Studies, University of Malaya , Kuala Lumpur 50603, Malaysia
| | - Md Eaqub Ali
- Nanotechnology and Catalysis Research Centre (NANOCAT), Institute of Graduate Studies, University of Malaya , Kuala Lumpur 50603, Malaysia
- Institute of Halal Research University Malaya (IHRUM), University of Malaya , 50603 Kuala Lumpur, Malaysia
- Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya , Kuala Lumpur 50603, Malaysia
| | - Sharmin Sultana
- Nanotechnology and Catalysis Research Centre (NANOCAT), Institute of Graduate Studies, University of Malaya , Kuala Lumpur 50603, Malaysia
| | - Sharmin Quazi Bonny
- Nanotechnology and Catalysis Research Centre (NANOCAT), Institute of Graduate Studies, University of Malaya , Kuala Lumpur 50603, Malaysia
| | - Md Abdul Kader
- School of Fisheries and Aquaculture Sciences, Universiti Malaysia Terengganu , 21030 Kuala Terengganu, Terengganu, Malaysia
| | - M Aminur Rahman
- Laboratory of Marine Biotechnology, Institute of Bioscience (IBS), Universiti Putra Malaysia , 43400 UPM Serdang, Selangor, Malaysia
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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
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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] [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.
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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.
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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
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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]
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