Skip to main content
Erschienen in: International Journal of Legal Medicine 6/2014

01.11.2014 | Original Article

Identification of human DNA in forensic evidence by loop-mediated isothermal amplification combined with a colorimetric gold nanoparticle hybridization probe

verfasst von: Khanistha Watthanapanpituck, Wansika Kiatpathomchai, Eric Chu, Nathinee Panvisavas

Erschienen in: International Journal of Legal Medicine | Ausgabe 6/2014

Einloggen, um Zugang zu erhalten

Abstract

A DNA test based on loop-mediated isothermal amplification (LAMP) and colorimetric gold nanoparticle (AuNP) hybridization probe to detect the presence of human DNA in forensic evidence was developed. The LAMP primer set targeted eight regions of the human cytochrome b, and its specificity was verified against the DNA of 11 animal species, which included animals closely related to humans, such as chimpanzee and orangutan. By using the AuNP probe, sequence-specific LAMP product could be detected and the test result could be visualized through the change in color. The limit of detection was demonstrated with reproducibility to be as low as 718 fg of genomic DNA, which is equivalent to approximately 100 plasmid DNA copies containing the cytochrome b DNA target region. A simple DNA extraction method for the commonly found forensic biological samples was also devised to streamline the test process. This LAMP-AuNP human DNA test showed to be a robust, specific, and cost-effective tool for the forensic identification of human specimens without requiring sophisticated laboratory instruments.
Literatur
1.
Zurück zum Zitat Bataille M, Crainic K, Leterreux M, Durigon M, Pd M (1999) Multiplex amplification of mitochondrial DNA for human and species identification in forensic evaluation. Forensic Sci Int 99:165–170PubMedCrossRef Bataille M, Crainic K, Leterreux M, Durigon M, Pd M (1999) Multiplex amplification of mitochondrial DNA for human and species identification in forensic evaluation. Forensic Sci Int 99:165–170PubMedCrossRef
2.
Zurück zum Zitat Parson W, Pegoraro K, Niederstätter H, Föger M, Steinlechner M (2000) Species identification by means of the cytochrome b gene. Int J Legal Med 114:23–28PubMedCrossRef Parson W, Pegoraro K, Niederstätter H, Föger M, Steinlechner M (2000) Species identification by means of the cytochrome b gene. Int J Legal Med 114:23–28PubMedCrossRef
3.
Zurück zum Zitat Matsuda H, Seo Y, Kakizaki E, Kozawa S, Muraoka E, Yukawa N (2004) Identification of DNA of human origin based on amplification of human-specific mitochondrial cytochrome b region. Forensic Sci Int 152:109–114CrossRef Matsuda H, Seo Y, Kakizaki E, Kozawa S, Muraoka E, Yukawa N (2004) Identification of DNA of human origin based on amplification of human-specific mitochondrial cytochrome b region. Forensic Sci Int 152:109–114CrossRef
4.
Zurück zum Zitat Tozzo P, Ponzano E, Novelli E, Onisto M, Caenazzo L (2011) Discrimination between human and animal DNA: application of a duplex polymerase chain reaction to forensic identification. Am J Forensic Med Pathol 32:180–182PubMedCrossRef Tozzo P, Ponzano E, Novelli E, Onisto M, Caenazzo L (2011) Discrimination between human and animal DNA: application of a duplex polymerase chain reaction to forensic identification. Am J Forensic Med Pathol 32:180–182PubMedCrossRef
5.
Zurück zum Zitat Notomi T, Okayama H, Masubuchi H, Yonekawa T, Watanabe K, Amino N, Hase T (2000) Loop-mediated isothermal amplification of DNA. Nucleic Acids Res 28:i–viiCrossRef Notomi T, Okayama H, Masubuchi H, Yonekawa T, Watanabe K, Amino N, Hase T (2000) Loop-mediated isothermal amplification of DNA. Nucleic Acids Res 28:i–viiCrossRef
6.
Zurück zum Zitat Mori Y, Notomi T (2009) Loop-mediated isothermal amplification (LAMP): a rapid, accurate, and cost-effective diagnostic method for infectious diseases. J Infect Chemother 15:62–69PubMedCrossRef Mori Y, Notomi T (2009) Loop-mediated isothermal amplification (LAMP): a rapid, accurate, and cost-effective diagnostic method for infectious diseases. J Infect Chemother 15:62–69PubMedCrossRef
7.
Zurück zum Zitat Nagamine K, Hase T, Notomi T (2002) Accelerated reaction by loop-mediated isothermal amplification using loop primers. Mol Cell Probes 16:223–229PubMedCrossRef Nagamine K, Hase T, Notomi T (2002) Accelerated reaction by loop-mediated isothermal amplification using loop primers. Mol Cell Probes 16:223–229PubMedCrossRef
8.
Zurück zum Zitat Kaneko H, Kawana T, Fukushima E, Suzutani T (2007) Tolerance of loop-mediated isothermal amplification to a culture medium and biological substances. J Biochem Biophys Methods 70:499–501PubMedCrossRef Kaneko H, Kawana T, Fukushima E, Suzutani T (2007) Tolerance of loop-mediated isothermal amplification to a culture medium and biological substances. J Biochem Biophys Methods 70:499–501PubMedCrossRef
9.
Zurück zum Zitat Nkouawa A, Sako Y, Li T, Chen X, Wandra T, Swastika IK, Nakao M, Yanagida T, Nakaya K et al (2010) Evaluation of a loop-mediated isothermal amplification method using fecal specimens for differential detection of Taenia species from humans. J Clin Microbiol 48:3350–3352PubMedCrossRefPubMedCentral Nkouawa A, Sako Y, Li T, Chen X, Wandra T, Swastika IK, Nakao M, Yanagida T, Nakaya K et al (2010) Evaluation of a loop-mediated isothermal amplification method using fecal specimens for differential detection of Taenia species from humans. J Clin Microbiol 48:3350–3352PubMedCrossRefPubMedCentral
10.
Zurück zum Zitat Nogami H, Tsutsumi H, Komuro T, Mukoyama R (2008) Rapid and simple sex determination method from dental pulp by loop-mediated isothermal amplification. Forensic Sci Int Genet 2:349–353PubMedCrossRef Nogami H, Tsutsumi H, Komuro T, Mukoyama R (2008) Rapid and simple sex determination method from dental pulp by loop-mediated isothermal amplification. Forensic Sci Int Genet 2:349–353PubMedCrossRef
11.
Zurück zum Zitat DeLong RK, Reynolds CM, Malcolm Y, Schaeffer A, Severs T, Wanekaya A (2010) Functionalized gold nanoparticles for the binding, stabilization, and delivery of therapeutic DNA, RNA, and other biological macromolecules. Nanotechnol Sci Appl 3:53–63PubMedCrossRefPubMedCentral DeLong RK, Reynolds CM, Malcolm Y, Schaeffer A, Severs T, Wanekaya A (2010) Functionalized gold nanoparticles for the binding, stabilization, and delivery of therapeutic DNA, RNA, and other biological macromolecules. Nanotechnol Sci Appl 3:53–63PubMedCrossRefPubMedCentral
12.
Zurück zum Zitat Thaxton CS, Georganopoulou DG, Mirkin CA (2006) Gold nanoparticle probes for the detection of nucleic acid targets. Clin Chim Acta 363:120–126PubMedCrossRef Thaxton CS, Georganopoulou DG, Mirkin CA (2006) Gold nanoparticle probes for the detection of nucleic acid targets. Clin Chim Acta 363:120–126PubMedCrossRef
13.
Zurück zum Zitat Baptista P, Doria G, Henriques D, Pereira E, Franco R (2005) Colorimetric detection of eukaryotic gene expression with DNA-derivatized gold nanoparticles. J Biotechnol 119:111–117PubMedCrossRef Baptista P, Doria G, Henriques D, Pereira E, Franco R (2005) Colorimetric detection of eukaryotic gene expression with DNA-derivatized gold nanoparticles. J Biotechnol 119:111–117PubMedCrossRef
14.
Zurück zum Zitat Baptista P, Pereira E, Eaton P, Doria G, Miranda A, Gomes I, Quaresma P, Franco R (2007) Gold nanoparticles for the development of clinical diagnosis methods. Anal Bioanal Chem 391:943–950PubMedCrossRef Baptista P, Pereira E, Eaton P, Doria G, Miranda A, Gomes I, Quaresma P, Franco R (2007) Gold nanoparticles for the development of clinical diagnosis methods. Anal Bioanal Chem 391:943–950PubMedCrossRef
15.
Zurück zum Zitat Sambrooke J, Russell DW (2001) Molecular cloning: a laboratory manual, 3rd edn. Cold Spring Harbor, New York, pp 1.32–1.34 Sambrooke J, Russell DW (2001) Molecular cloning: a laboratory manual, 3rd edn. Cold Spring Harbor, New York, pp 1.32–1.34
16.
Zurück zum Zitat Rudbeck L, Dissing J (1998) Rapid, simple alkaline extraction of human genomic DNA from whole blood, buccal epithelial cells, semen and forensic stains for PCR. BioTechniques 25:588–592PubMed Rudbeck L, Dissing J (1998) Rapid, simple alkaline extraction of human genomic DNA from whole blood, buccal epithelial cells, semen and forensic stains for PCR. BioTechniques 25:588–592PubMed
17.
Zurück zum Zitat Israfil H, Zehr SM, Mootnick AR, Ruvolo M, Steiper ME (2011) Unresolved molecular phylogenies of gibbons and siamangs (Family: Hylobatidae) based on mitochondrial, Y-linked, and X-linked loci indicate a rapid Miocene radiation or sudden vicariance event. Mol Phylogenet Evol 58:447–455PubMedCrossRefPubMedCentral Israfil H, Zehr SM, Mootnick AR, Ruvolo M, Steiper ME (2011) Unresolved molecular phylogenies of gibbons and siamangs (Family: Hylobatidae) based on mitochondrial, Y-linked, and X-linked loci indicate a rapid Miocene radiation or sudden vicariance event. Mol Phylogenet Evol 58:447–455PubMedCrossRefPubMedCentral
18.
Zurück zum Zitat Bibb MJ, VanEtten RA, Wright CT, Walberg MW, Clayton DA (1981) Sequence and gene organization of mouse mitochondrial DNA. Cell 26:167–180PubMedCrossRef Bibb MJ, VanEtten RA, Wright CT, Walberg MW, Clayton DA (1981) Sequence and gene organization of mouse mitochondrial DNA. Cell 26:167–180PubMedCrossRef
19.
Zurück zum Zitat Kitano T, Umetsu K, Tian W, Osawa M (2007) Two universal primer sets for species identification among vertebrates. Int J Legal Med 121:423–427PubMedCrossRef Kitano T, Umetsu K, Tian W, Osawa M (2007) Two universal primer sets for species identification among vertebrates. Int J Legal Med 121:423–427PubMedCrossRef
20.
Zurück zum Zitat Satoh M, Kuroiwa T (1991) Organization of multiple nucleoids and DNA molecules in mitochondria of a human cell. Exp Cell Res 196:137–140PubMedCrossRef Satoh M, Kuroiwa T (1991) Organization of multiple nucleoids and DNA molecules in mitochondria of a human cell. Exp Cell Res 196:137–140PubMedCrossRef
21.
Zurück zum Zitat Butler JM (2009) Fundamentals of forensic DNA typing. Academic Press/Elsevier, Amsterdam Butler JM (2009) Fundamentals of forensic DNA typing. Academic Press/Elsevier, Amsterdam
22.
Zurück zum Zitat Yoshida K, Sekiguchi K, Mizuno N, Kasai K, Sakai I, Sato H, Seta S (1995) The modified method of two-step differential extraction of sperm and vaginal epithelial cell DNA from vaginal fluid mixed with semen. Forensic Sci Int 72:25–33PubMedCrossRef Yoshida K, Sekiguchi K, Mizuno N, Kasai K, Sakai I, Sato H, Seta S (1995) The modified method of two-step differential extraction of sperm and vaginal epithelial cell DNA from vaginal fluid mixed with semen. Forensic Sci Int 72:25–33PubMedCrossRef
23.
Zurück zum Zitat Andreasson H, Nilsson M, Budowle B, Lundberg H, Allen M (2006) Nuclear and mitochondrial DNA quantification of various forensic materials. Forensic Sci Int 164:56–64PubMedCrossRef Andreasson H, Nilsson M, Budowle B, Lundberg H, Allen M (2006) Nuclear and mitochondrial DNA quantification of various forensic materials. Forensic Sci Int 164:56–64PubMedCrossRef
24.
Zurück zum Zitat Nilsson M, Norlin S, Allen M (2012) Sequencing of mtDNA in shed hairs: a retrospective analysis of material from forensic cases and a pre-screening method. Open Forensic Sci J 5:13–22CrossRef Nilsson M, Norlin S, Allen M (2012) Sequencing of mtDNA in shed hairs: a retrospective analysis of material from forensic cases and a pre-screening method. Open Forensic Sci J 5:13–22CrossRef
Metadaten
Titel
Identification of human DNA in forensic evidence by loop-mediated isothermal amplification combined with a colorimetric gold nanoparticle hybridization probe
verfasst von
Khanistha Watthanapanpituck
Wansika Kiatpathomchai
Eric Chu
Nathinee Panvisavas
Publikationsdatum
01.11.2014
Verlag
Springer Berlin Heidelberg
Erschienen in
International Journal of Legal Medicine / Ausgabe 6/2014
Print ISSN: 0937-9827
Elektronische ISSN: 1437-1596
DOI
https://doi.org/10.1007/s00414-014-1018-9

Weitere Artikel der Ausgabe 6/2014

International Journal of Legal Medicine 6/2014 Zur Ausgabe

Neu im Fachgebiet Rechtsmedizin