Forensic species identification based on size variation of mitochondrial DNA hypervariable regions

Nakamura, Hiroaki; Muro, Tomonori; Imamura, Seiichiro; Yuasa, Isao

doi:10.1007/s00414-008-0306-7

Cited by 26 publications

(14 citation statements)

References 36 publications

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“…Investigasi perdagangan ilegal atau kejahatan terhadap satwa liar banyak mendapat manfaat dari perkembangan kemajuan teknik DNA (Ogden et al 2009). Kemajuan terbaru dalam biologi molekuler dengan metode telah dikembangkan berdasarkan perbedaan genetik antar spesies (Nakamura et al 2009). Saat ini gen COI telah digunakan sebagai standar barkode untuk semua spesies yang hidup di muka bumi (Ratnasingham & Hebert 2007) dan telah menunjukkan potensi besar dalam forensik margasatwa dengan primer universal siap pakai.…”

Section: Pendahuluanunclassified

Pelacakkan Molekuler terhadap Hasil Sitaan Karkas Trenggiling pada Perdagangan Ilegal di Indonesia Berbasis Gen Barkode

Zein¹

2020

JBI

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Illegal trade in pangolins are generally in the form of carcasses, flour, scales, embryos, blood and bones. Therefore, physical tracking and identification are difficult so molecular analysis is needed to identify the specimen precisely. Investigations in the illegal trade of wildlife have benefited greatly from the advancement of DNA forensic techniques. Here, I reconstructed phylogenetic trees from the neighbor-joining analyses based on the CO1 gene sequences from the confiscated carcasses of pangolins. The genetic distance matrix calculations with the Kimura Two-parameter model (K2P) were implemented in the pairwise distance calculation in the Mega (Molecular Evolutionary Genetics Analysis) program version 6.05. I included total 77 sequences of pangolins from confiscated and 92 sequences from GenBank (Manis javanica, Manis sp., Manis pentadactyla, Manis culionensis, Phataginus tricuspis, Phataginus tetradactyla, Smutsia temminckii, and Smutsia gigantea). The results of phylogenetic analysis revealed two clades of Asia and Africa with a genetic distance of 23.85±2.38% and all pangolin haplotypes confiscated identified as a species of Manis javanica. The genetic distance between Manis javanica and Manis culionensis was 3.9 ±0.89%, which it was a sister clade and the farthest genetic distance between Manis culionensis and Smutsia temmickii was 23.19±2.14%. The phylogenetic tree shows the monophyletic clade of pangolins species in the world. Phylogenetic relationships between haplotypes from Manis javanica were confiscated separately into two subclades, namely subclade A1 (19 haplotypes) and A2 (12 haplotypes). The genetic distance in subclade A1 averaged were 0.59±0.14% and subclade A2 were 1.01±0.24%, whereas it was 3.09 ± 0.64% between subclades A1 and A2. Total there were 31 haplotypes showing Manis javanica originating from a different habitat with a wide distribution.

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Section: Pendahuluanunclassified

Pelacakkan Molekuler terhadap Hasil Sitaan Karkas Trenggiling pada Perdagangan Ilegal di Indonesia Berbasis Gen Barkode

Zein¹

2020

JBI

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“…Veterinary and sanitary expertise determines quality of the inspected product, certificate on using this product for a variety of ends is given on the base of it. The important part of veterinary and sanitary expertise of meat products is detection of possible adulteration, that is substitute of more expensive meat by less expensive one [1][2][3][4][5][6][7][8][9][10][11][12][13][14][15][16]. The attempts to pass wild animal meat as for livestock one can happen after illegal hunting, when wild animal meat was taken by illegal means.…”

Section: Introductionmentioning

confidence: 99%

Anatomic features of horse and manchurian wapiti

et al. 2021

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Carrying out a sanitary and veterinary expertise is a mandatory requirement which is necessary for the admission of livestock products, meat in particular, to sale. When carrying veterinary and sanitary expertise we often come up the attempts of meat products adulteration, for example when livestock meat is replaced to wild one and vice versa. Most often such adulteration cases are the results of illegal hunting. The purpose of our work is study horse and Manchurian wapiti carcasses anatomic features. The main methods of meat species determine are analysis of carcass appearance, organoleptic parameters analysis, laboratory tests as well as analysis and feature examination of anatomic structure of the inspected carcass. To determine meat species we applied methods of comparative and anatomic examination, organoleptic parameters analysis of meat samples, and laboratory tests. The suggested methods of examination can be used not only for determination of the whole animal carcasses species, but for small parts of the body. It is of great importance in conducting forensic and veterinary researches, when the number of parts can be finite. Maximal efficiency can be achieved only with complex use of enumerated methods.

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“…However, only expected creatures can be investigated using this approach. There are many methods for amplifying sequences common to multiple species using universal primers, such as the amplification of mitochondrial rDNA [9, 10], cytochrome b [11, 12], cytochrome oxidase I [13, 14], myoglobin [15], or the D-loop region [16–20] and subsequent identification using the Basic Local Alignment Search Tool. Even if sequences for many species are registered in the database, the location of the sequence varies.…”

Section: Introductionmentioning

confidence: 99%

The genome profiling method can be applied for species identification of biological materials collected at crime scenes

et al. 2019

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Background Various biological materials unrelated to humans are found at crime scenes and it is often important to elucidate the origin of these materials. A genetic locus common to several species is conventionally PCR-amplified with universal primers to identify species. However, not all species can be identified using a single locus. In this study, DNA from 13 commonly handled taxa was analyzed to identify species by a genome profiling (GP) method, which involves random PCR and temperature gradient gel electrophoresis. Results In a clustering analysis, we successfully obtained a single cluster for each species. Conclusion The GP method is cost-effective and does not require advanced techniques and knowledge in molecular biology. The random sampling of the whole genome using multiple primers provides substantial genomic information. Therefore, the method is effective for classifying a wide range of species, including animals, plants, and insects, and is useful for crime scene investigations. Electronic supplementary material The online version of this article (10.1186/s12863-019-0753-9) contains supplementary material, which is available to authorized users.

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Forensic species identification based on size variation of mitochondrial DNA hypervariable regions

Cited by 26 publications

References 36 publications

Pelacakkan Molekuler terhadap Hasil Sitaan Karkas Trenggiling pada Perdagangan Ilegal di Indonesia Berbasis Gen Barkode

Pelacakkan Molekuler terhadap Hasil Sitaan Karkas Trenggiling pada Perdagangan Ilegal di Indonesia Berbasis Gen Barkode

Anatomic features of horse and manchurian wapiti

The genome profiling method can be applied for species identification of biological materials collected at crime scenes

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