Volume 8, Issue 1, February Issue - 2020, Pages:1-8
|Authors: Mayada R. Farag, Khlood M. El Bohi, Samah R. Khalil, Mahmoud Alagawany, Muhammad A. Arain, Khan Sharun, Ruchi Tiwari, Kuldeep Dhama|
|Abstract: Identification of animal species based on biological samples such as blood, hair, bone, muscle and others is an important practice in forensic analysis of DNA, but need a standard analytical method particularly when the DNA is low or mixed. The mitochondrial genome contains several forensically informative nucleotide sequences (FINS) that can be utilized for both intra-species and inter-species differentiation. Mitochondrial DNA (mtDNA) has several advantages than nuclear genomes due to greater abundance in the samples and high number of copies in each cell. Therefore, amplification and sequencing of mtDNA genes could constitute relatively sensitive procedures in species identification even if the tested samples are old or degraded. Cytochrome b (Cyt b) gene is among the most important mitochondrial genes which have been used in forensic species identification. The polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis and sequencing of the mitochondrial cyt b gene could be used as a robust tool in identification of different animal species including domestic, wild and fish species and for determination of meat origin in processed food products due to the presence of species specific mutation sites. The mitochondrial cytochrome-b sequence based species identification has wide forensic and judicial applications.|
Abdel-Rahman SM, El-Saadani MA, Ashry KM, Haggag AS (2009) Detection of adulteration and identification of cats, dogs, donkeys and horses meat using species specific PCR and PCR-RFLP techniques. Australian Journal of Basic and Applied Sciences 3: 1716-1719.
Abo-Hadeed AH, Mervat HG, Mayada RF (2011) Species identification of some non-domestic animals using PCR-RFLP analysis of cytochrome b gene. Zagazig Veterinary Journal 39: 37-46.
Ahmed MMM, Abdel-Rahman SM, El-Hanafy AA (2007) application of species specific polymerase chain reaction and cytochrome b gene for different meat species authentication. Biotechnology 6: 426-430.
Aina GQ, Erwanto Y, Hossain M, Johan MR, Ali MdE, Rohman A (2019) The employment of q-PCR using specific primer targeting on mitochondrial cytochrome-b gene for identification of wild boar meat in meatball samples. Journal of Advanced Veterinary and Animal Research 6: 300-7.
Akasaki T, Yanagimoro T, Yamakami K, Tomonaga H, Sato S (2006) species identification and PCR-RFLP analysis of cytochrome b gene in cod fish (Order Gadiformes) products. Journal of Food Science 71: 190-195.
Andrejevic M, Markovic, MK, Bursac B, Mihajlovic M, Keckarevic D (2019) Identification of a broad spectrum of mammalian and avian species using the short fragment of the mitochondrially encoded cytochrome b gene. Forensic Science, Medicine and Pathology 15:169–177.
Aranishi F, Okimoto T, Izumi S (2005) Identification of gadoid species (Pisces, Gadidae) by PCR-RFLP analysis. Journal of Applied Genetics 46: 69-73.
Awad A, Khalil SR, Abd-Elhakim YM (2015) Molecular phylogeny of some avian species using Cytochrome b gene sequence analysis. Iranian Journal of Veterinary Research 16: 218-222.
Bataille M, Crainic K, Leterreux M, Durigon M, de Mazancourt P (1999) Multiplex amplification of mitochondrial DNA for human and species identification in forensic evaluation. Forensic Science International 99:165-70.
Bellagamba F, Moretti VM, Comincini S, Valfre F (2001) Identification ofspecies in animal feeds us by polymerase chain reaction–restriction fragment lengthpolymorphism analysis of mitochondrial DNA. Journal of Agriculture and Food Chemistry 49: 3775– 3781
Bellis C, Ashton KJ, Freney L, Blair B, Griffiths LR (2003) A molecular genetic approach for forensic animal species identification. Journal of Forensic Science International 134:99-108.
Bing SU, Wang YX, Lan H, Wang W, Zjang Y (1999) phlogenetic study of complete cytochrome b genes in Musk deer (Genus Moschus) using Museum samples. Journal of Molecular Phylogenetics and Evolution 12: 241-249.
Bottero MT, Dalmasso A (2011) Animal species identification in food products: Evolution of biomolecular methods. Veterinary Journal 190:34–38.
Bravi CM, Liron JP, Mirol PM, Ripoli MV, Garcia PP, Giovambattista G (2004) A simple method for domestic animal identification in Argentina using PCR-RFLP analysis of cytochrome b gene. Journal of Legal Medicine 6:246-251
Cook CE, Wang Y, Sensabaugh G (1999) A mitochondrial control region and cytochrome b phylogeny of sike deer (Cervus nippon) and report of tandem repeats in the control region. Molecular Phylogenetics and Evolution 12: 47-56.
Erwanto Y, Abidin MZ, Rohman A, Sismindari (2011) PCR-RFLP Using BseDI enzyme for pork authentication In sausage and nugget products. Media Peternakan-Journal of Animal Science and Technology 34:14–18.
Erwanto Y, Abidin MZ, Sismindari , Rohman A (2012) Pig species identification in meatballs using polymerase chain reaction- restriction fragment length polymorphism for halal authentication. International Food Research Journal 19:901–906.
Erwanto Y, Abidin MZ, Sugiyono EYPM, Rohman A (2014) Identification of Pork Contamination in Meatballs of Indonesia Local Market Using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP) Analysis. Asian-Australasian Journal of Animal Sciences 27: 1487-1492.
Farag MR, Alagawany M, Abd El-Hack ME, Tiwari R, Dhama K (2015b). Identification of di?erent animal species in meat and meat products: trends and advances. Advances in Animal and Veterinary Sciences 3: 334-346.
Farag MR, Imam TS, Dhama K (2015a) Identification of some domestic animal species (camel, buffalo and sheep) by PCR-RFLP analysis of the mitochondrial cytochrome b gene. Advances in Animal and Veterinary Sciences 3: 136-142.
Fernandes CA, Ginja C, Pereira I, Tenreiro R, Bruford MW, Santos Reis M (2008) Species-specific mitochondrial DNA markers for identification of non-invasive samples from sympatric carnivores in the Iberian Peninsula. Conserve Genetics 9:681–90.
Garg RK, Mishra V (2018). Molecular insights into the genetic and haplotype diversity among four populations of Catla catla from Madhya Pradesh revealed through mtDNA cyto b gene sequences. Journal of Genetic Engineering and Biotechnology 16: 169–174.
Guha S, Goyal S, Kashyap VK (2006) Genomic variation in the mitochondrially encoded cytochrome b (MT-CYB) and 16S rRNA (MT-RNR2) genes: Characterization of eight endangered Pecoran species. Animal Genetics 37:262-5 ·
Gonzalez BA, Agapito AM, Novoa-Munoz F, Vianna J, Johnson WE, Marin JC (2020) Utility of genetic variation in coat color genes to distinguish wild, domestic and hybrid South American camelids for forensic and judicial applications. Forensic Science International: Genetics 45: 102226.
Hadj-Henni L, De Meulemeester T, Depaquit J, Noel P, Germain A, Helder R, Augot D (2015) Comparison of Vertebrate Cytochrome b and Prepronociceptin for Blood Meal Analyses in Culicoides. Frontiers in Veterinary Science 2: 15.
Hsieh HM, Chiang HL, Tasi LC, Lai SY, Huang NE, Linacre A, Lee JCI (2001) Cytochrome b gene for species identification of the conservation animals. Forensic Science International 122: 7-18.
Hsieh HM, Huang LH, Tsai LC, Kuo YC, Meng HH, Linarce A, Lee JC (2003) species identification of rhinoceros horns using the cytochrome b gene. Forensic Science International 136: 1-11.
Hsieh HM, Huang LH, Tsai LC, Liu CL, Kuo YC, Hsiao CT, Linarce A, Lee JC (2005) species identification of Kachuga tecta Using the Cytochrome b Gene. Journal of Forensic Science 51: 52-56.
Izeni PF, Ortí G, Sampaio I, Schneider H, Meyer A (2001) The Cytochrome b gene as a phylogenetic marker: the limits of resolution for analyzing relationships among cichlid fishes. Journal of Molecular Evolution 53:89–103.
Jain S, Brahmbhait MN, Rank DN, Joshi CG, Solank JV (2007) Use of cytochrome b gene variability in detecting meat species by multiplex PCR assay. Indian Journal of Animal Sciences 77: 880-881.
Kim MJ, Suh S M, Kim SY, Qin P, Kim HR, Kim HY (2020) Development of a Real-Time PCR Assay for the Detection of Donkey (Equus asinus) Meat in Meat Mixtures Treated under Different Processing Conditions. Foods 9: pii: E130.
Lee JC, Hsieh HM, Huang LH, Kuo YC, Wu JH, Chin SC, Lee AH, Linacrre A, Tasi LC (2009) Ivory identification by DNA profiling of cytochrome b gene. International Journal of Legal Medicine 123: 117-121.
Lopez-Oceja A, Gamarra D, Borragan S, Jimenez-Moreno S, de Pancorbo MM (2016) New cyt b gene universal primer set for forensic analysis. Forensic Science International and Genetics 23:159–65.
Lynch M, Jarrell PE (1993) A method for calibrating molecular clocks and its application to animal mitochondrial DNA. Genetics 135: 1197–1208.
Matsunaga T, Chikuni K, Tanabe R, Muroya S, Nakai H, Shibata K, Shinmura YJY (1998) Determination of mitochondrial cytochrome b gene sequence for red deer (Cervus eleaphus) and differentiation of closely related deer meats. Journal of Meat Science 49: 379-385.
Matsunaga T, Chikuni K, Tanabe R, Muroya S, Shibata K, Yamada J. Shinmura Y (1999) A quick and simple method for the identification of meat species and meat product by PCR assay. Meat Science 51: 143-8.
Moustafa GG, Abd Elhakim YM, El Sharkawy NI (2017) genetic profiling of equid hybrids using PCR-RFLP and partial sequence analysis of cytochrome b gene: forensic implication. Journal of Equine Veterinary Science 54: 37-41.
Muangkram Y, Wajjwalku W, Amano A, Sukmak M (2018) The novelprimers for mammal species identification-based mitochondrial cytochrome b sequence: implication for reserved wild animals in Thailand and endangered mammal species in Southeast Asia. Mitochondrial DNA Part A, DNA mapping, sequencing, and analysis 29:62–72.
Nagata J, Aramilev VV, Belozor A, Sugimoto T, McCullough DR (2005) Fecal genetic analysis using PCR-RFLP of cytochrome b to identify sympatric carnivores, the tiger Panthera tigris and leopard Panthera pardus, in far eastern Russia. Conservation Genetics 6: 863-865.
Naidu A, Fitak RR,Munguia-Vega A, Culver M (2012) Novel primers for complete mitochondrial cytochrome b gene sequencing in mammals. Molecular Ecology Resources 2:191–6.
Novianty E, Kartikasari LR, Lee JH, Cahyadi M (2017) Identification of pork contamination in meatball using genetic marker mitochondrial DNA cytochrome b gene by duplex-PCR. IOP Conf. Ser.: Materials Science and Engineering 193: 012-002.
Obrovska I, Steinhauserova I and Nebola M (2002) The application ofthe PCR method to the identification of meat species. Folia Veterinaria 46: 113-18.
Ogden R, Dawnay N, McEwing R (2009) Wildlife DNA forensics—bridging the gap between conservation genetics and law enforcement. Endangered Species Research 9: 179-195.
Orbayinah S, Widada H, Hermawan A, Sudjadi S, Rohman A (2019) Application of real-time polymerase chain reaction using species specific primer targeting on mitochondrial cytochrome-b gene for analysis of pork in meatball products. Journal of Advanced Veterinary and Animal Research 6 : 260–265.
Pancorbo MMD, Casro A, Fernandez IF, Cuevas N (2004) Cytochrome b for identification of animal species in processed food. International Congress Series 1261: 592-594.
Parson W, Pegoraro K, Niederstatter H, Foger M, Steinlechner M (2000) Species identification by means of the cytochrome b gene. International Journal of Legal Medicine 114: 23–8
Pfeiffer I, Burger J, Brenig B (2004) Diagnostic polymorphisms in the mitochondrial cytochrome b gene allow discrimination between cattle, sheep, goat, roe buck and deer by PCR-RFLP. BMC Genetics 5:1-5.
Prusak B, Grzybowski T, Bednarek J (2005) Cytochrome b gene (cytb) in analysis of anonymous biological traces and its application in veterinary diagnostics and animal conservation. Animal Science Papers and Reports 23: 229-236
Prusak B, Grzybowski G, Zieba G (2004) Taxonomic position of Bison bison (Linnaeus, 1758) and Bison bonasus (Linnaeus, 1758) based on analysis of cytb gene. Animal Science Paper and Reports 22: 27–35.
Ramatla T, Mphuthi N, Gofaone K, Taioe MO, Syakalima1 M (2019) Identification of rodent species that infest poultry houses in mafikeng, north west province. South Africa International Journal of Zoology https://doi.org/10.1155/2019/1280578.
Shukla MA, Joshi BD, Kumar VP, Mehta AK, Goyal SP (2019) Investigating the genetic diversity and presence of forensically informative nucleotide sequences in Indian antelope (Antilope cervicapra) using multiple genes of the mitochondrial genome. Molecular Biology Reports 46 : 6187-6195.
Silva-Neto A, Ferreira PB, Torresb RA, Texeirac RHF, Duarted JMB, Barbosae A, Vargase RC, Garciaa JE (2016) Diagnostic Cytochrome b gene profiles for the identification of paca (Cuniculus paca) bushmeat: implications for the monitoring of illegal hunting and wildlife trade. Brazilian Journal of Biology 76:55-58.
Spychaj A, Mozdzaik EP, Pospiech E (2009) PCR methods in meat species identification as a toll for the verification of regional and traditional meat products. Acta Scientiarum Polonorum, Technologia Alimentaria 8:5–20.
Syakalima M, Munyeme M, Yasuda J (2016) Cytochrome c Oxidase Sequences of Zambian Wildlife Helps to Identify Species of Origin of Meat. 2016:6.
Tobe SS, Linacre A (2008) A method to identify a large number of mammalian species in the UK from trace samples and mixtures without the use of sequencing. Journal of Forensic Science International: Genetic supplement series 625-627.
Wolf C, Rentsch J, Hubner P (1999) PCR-RFLP analysis of mitochondrial DNA: a reliable method for species identification. Journal Agriculture of Food Chemistry 47:1350-5.
Wu Ya-Jung, Hsieh CH, Chen HM, Hwang DF (2008) identification of six common species of processed filefish using
Yacoub HA, Fathi MM, Mahmoud WM (2013) DNA barcode through cytochrome b gene information of mtDNA in native chicken strains. Mitochondrial DNA 24 : 528-537.
Yan PX, Wu P, Shi Y, Gu CM, Wang RP, CL Wang (2005) identification of Chinese alligators (Alligator sinensis) meat by diagnostic PCR of the mitochondrial cytochrome b gene. Journal of Biological Conservation 121:45-51.
Zhang, Y, Ryder OA (1998) Mitochondrial cytochrome b gene sequences of old world monkeys: With special reference on evolution of Asian colobines. Primates 39: 39–49.