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Usefulness of Mini-STRs in Analyzing Degraded DNA Samples and Their Forensic Relevance

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Forensic DNA Typing: Principles, Applications and Advancements

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Abstract

The ground of individual identification has always been an integral part of forensic caseworks. DNA analysis from a range of biological material serves as a basis of human identity testing. The adaptation of recently developed techniques has reached a new level of recognition to deal with a variety of biological materials encountered in different forensic situations. The selection of markers has linked different nations with the help of globally maintained DNA databases. Often, incidental state of affairs results in poor quality or quantity of the samples which in return requires special techniques or modifications to obtain some desirable results. This chapter primarily focuses on the employment, development and validation of mini-STR markers which efficiently work with a massive amount of compromised samples. An assessment of appropriate caseworks analysis has been provided which improves the typing results to a great extent from the compromised samples.

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References

  • Alaeddini R, Walsh SJ, Abbas A (2010) Forensic implications of genetic analyses from degraded DNA—a review. Forensic Sci Int Genet 4:148–157

    Article  CAS  PubMed  Google Scholar 

  • Andrade L, Bento AM, Serra A, Carvalho M, Gamero JJ, Oliveira C, Batista L, Lopes V, Balsa F, Corte-Real F, Anjos MJ (2008) AmpFISTR® Minifiler™ PCR amplification kit: the new miniSTR multiplex kit. FSI Genet Supp Ser 1:89–91

    Google Scholar 

  • Asamura H, Sakai H, Kobayashi K, Ota M, Fukushima H (2006) MiniX-STR multiplex system population study in Japan and application to degraded DNA analysis. Int J Legal Med 120:174–181

    Article  CAS  PubMed  Google Scholar 

  • Asamura H, Fujimori S, Ota M, Fukushima H (2007a) MiniSTR multiplex systems based on non-CODIS loci for analysis of degraded DNA samples. Forensic Sci Int 173:7–15

    Article  CAS  PubMed  Google Scholar 

  • Asamura H, Sakai H, Ota M, Fukushima H (2007b) MiniY-STR quadruplex systems with short amplicon lengths for analysis of degraded DNA samples. Forensic Sci Int Genet 1:56–61

    Article  CAS  PubMed  Google Scholar 

  • Bar W, Kratzer A, Machler M, Schmid W (1988) Postmortem stability of DNA. Forensic Sci Int 39(1):59–70

    Article  CAS  PubMed  Google Scholar 

  • Bender K, Farfan MJ, Schneider PM (2004) Preparation of degraded human DNA under controlled conditions. Forensic Sci Int 139:135–140

    Article  CAS  PubMed  Google Scholar 

  • Benschop C, Haned H, Sijen T (2013) Consensus and pool profiles to assist in the analysis and interpretation of complex low template DNA mixtures. Int J Legal Med 127(1):11–23

    Article  PubMed  Google Scholar 

  • Butler JM (2005) Forensic DNA typing: biology, technology, and genetics of STR markers, 2nd edn. Elsevier Academic Press, Burlington. ISBN: 0-12-147952-8

    Google Scholar 

  • Butler JM (2011) Advanced topics in forensic DNA typing: methodology, 1st edn. Academic Press, San Diego. eBook ISBN: 9780123878236. Hardcover ISBN: 9780123745132

    Google Scholar 

  • Butler JM, Shen Y, McCord BR (2003) The development of reduced size STR amplicons as tools for analysis of degraded DNA. J Forensic Sci 48(5):1054–1064

    Article  CAS  PubMed  Google Scholar 

  • Butler JM, Hill CR, Decker AE, Kline MC, Vallone PM (2008) Characterization of new autosomal STR loci. FSI Genet Suppl Ser 1:95–96

    Google Scholar 

  • Chung DT, Drabek J, Opel KL, Butler JM, McCord BR (2004) A study on the effects of degradation and template concentration on the amplification efficiency of the STR Miniplex primer sets. J Forensic Sci 49(4):733–740

    Article  CAS  PubMed  Google Scholar 

  • Chung U, Shin KJ, Park MJ, Kim NY, Yang WI, Cho SH, Lee HY (2007) Population data of nine miniSTR loci in Koreans. Forensic Sci Int 168:e51–e53

    Article  CAS  PubMed  Google Scholar 

  • Clayton TM, Whitaker JP, Sparkes R, Gill P (1998) Analysis and interpretation of mixed forensic stains using DNA STR profiling. Forensic Sci Int 91:55–70

    Article  CAS  PubMed  Google Scholar 

  • Coble MD, Butler JM (2005) Characterization of new MiniSTR loci to aid analysis of degraded DNA. J Forensic Sci 50(1):43–53

    Article  CAS  PubMed  Google Scholar 

  • Collins PJ, Hennessy LK, Leibelt CS, Roby RK, Reeder DJ, Foxall PA (2004) Developmental validation of a single-tube amplification of the 13 CODIS STR loci, D2S1338, D19S433, and amelogenin: the AmpFℓSTR® Identifiler PCR amplification kit. J Forensic Sci 49(6):1265–1277

    Article  CAS  PubMed  Google Scholar 

  • Constantinescu CM, Barbarii LE, Iancu CB, Constantinescu A, Neagu E, Iancu D, Girbea G (2012) Challenging DNA samples solved with MiniSTR analysis. Rom J Leg Med 20:51–56

    Article  Google Scholar 

  • Decorte R, Liu CF, Vanderheyden N, Cassiman JJ (2008) Development of a novel miniSTR multiplex assay for typing degraded DNA samples. FSI Genet Suppl Ser 1:112–114

    Google Scholar 

  • Dhanardhono T, Wulandri N, Bhima SKL, Ahmad HJ, Widodo PT (2013) DNA profiling of disaster victim identification in Trenggalek shipwreck case. FSI Genet Supp Ser 4:e5–e6

    Google Scholar 

  • Dixon LA, Dobbins AE, Pulker HK, Butler JM, Vallone PM, Coble MD, Parson W, Berger B, Grubwieser P, Mogensen HS, Morling N, Nielsen K, Sanchez JJ, Petkovski E, Carracedo A, Sanchez-Diz P, Ramos-Luis E, Brion M, Irwin JA, Just RS, Loreille O, Parsons TJ, Syndercombe-Court D, Schmitter H, Stradmann-Bellinghausen B, Bender K, Gill P (2006) Analysis of artificially degraded DNA using STRs and SNPs—results of a collaborative European (EDNAP) exercise. Forensic Sci Int 164:33–44

    Article  CAS  PubMed  Google Scholar 

  • Dogra D, Shrivastava P, Chaudhary R, Gupta U, Jain T (2015) Population genetics for autosomal STR loci in Sikh population of central India. Hereditary Genet 4(1):1–8

    Google Scholar 

  • Edelmann J, Lessig R, Klintschar M, Szibor R (2004) Advantages of X-chromosomal microsatellites in deficiency paternity testing: presentation of cases. Int Congr Ser 1261:257–259

    Article  CAS  Google Scholar 

  • Fondevila M, Phillips C, Naveran N, Cerezo M, Rodriguez A, Calvo R, Fernandez LM, Carracedo A, Lareu MV (2008a) Challenging DNA: assessment of a range of genotyping approaches for highly degraded forensic samples. FSI Genet Suppl Ser 1:26–28

    Google Scholar 

  • Fondevila M, Phillips C, Naveran N, Fernandez L, Cerezo M, Salas A, Carracedo A, Lareu MV (2008b) Case report: identification of skeletal remains using short-amplicon marker analysis of severely degraded DNA extracted from a decomposed and charred femur. Forensic Sci Int Genet 2:212–218

    Article  CAS  PubMed  Google Scholar 

  • Gill P, Urquhart A, Millican E, Oldroyd N, Watson S, Sparkes R, Kimpton CP (1996) A new method of STR interpretation using inferential logic-development of a criminal intelligence database. Int J Legal Med 109:14–22

    Article  CAS  PubMed  Google Scholar 

  • Gill P, Whitaker J, Flaxman C, Brown N, Buckleton J (2000) An investigation of the rigor of interpretation rules for STRs derived from less than 100pg of DNA. Forensic Sci Int 112(1):17–40

    Article  CAS  PubMed  Google Scholar 

  • Gomes C, Magalhaes M, Alves C, Amorim A, Pinto N, Gusmao L (2012) Comparative evaluation of alternative batteries of genetic markers to complement autosomal STRs in kinship investigations: autosomal indels vs. X-chromosome STRs. Int J Legal Med 126(6):917–921

    Article  PubMed  Google Scholar 

  • Goodwin W, Ballard D, Simpson K, Thacker C, Syndercombe Court D, Gow J (2004) Case study: paternity testing—when 21 loci are not enough. In: Doutremepuich C, Morling N (eds) Progress in forensic genetics, vol 10. Int Cong Ser. 1261, Amsterdam, pp 460–462

    Google Scholar 

  • Grubwieser P, Mühlmann R, Parson W (2003) New sensitive amplification primers for the STR locus D2S1338 for degraded casework DNA. Int J Legal Med 117:185–188

    Article  CAS  PubMed  Google Scholar 

  • Grubwieser P, Mühlmann R, Berger B, Niederstätter H, Pavlic M, Parson W (2006) A new “miniSTR-multiplex” displaying reduced amplicon lengths for the analysis of degraded DNA. Int J Legal Med 120:115–120

    Article  CAS  PubMed  Google Scholar 

  • Hares DR (2015) Selection and implementation of expanded CODIS core loci in the United States. Forensic Sci Int Genet 17:33–34

    Article  CAS  PubMed  Google Scholar 

  • Heinrich A, Schwark T, Simeoni E, Wurmb-Schwark NV (2009) Genetic identifications of fire deaths. FSI Genet Suppl Ser 2:253–254

    Google Scholar 

  • Hellmann A, Rohleder U, Schmitter H, Wittig M (2001) STR typing of human telogen hairs-a new approach. Int J Legal Med 114:269–273

    Article  CAS  PubMed  Google Scholar 

  • Hill CR, Kline MC, Coble MD, Butler JM (2008) Characterization of 26 MiniSTR loci for improved analysis of degraded DNA samples. J Forensic Sci 53(1):73–80

    Article  CAS  PubMed  Google Scholar 

  • Israr M, Shahid AA, Rahman Z, Zar MS, Shahzad MS, Husnain T, Pfeifer C, Wiegand P (2014) Development and characterization of a new 12-plex ChrX miniSTR system. Int J Legal Med 128:595–598

    Article  PubMed  Google Scholar 

  • Jain T, Shrivastava P, Bansal DD, Dash HR, Trivedi VB (2016) PowerPlex Y23 system: a fast, sensitive and reliable Y-STR multiplex system for forensic and population genetic purpose. J Mol Biomark Diagn 7:287

    Article  CAS  Google Scholar 

  • Kimpton CP, Gill P, Walton A, Urquhart A, Millican ES, Adams M (1993) Automated DNA profiling employing multiplex amplification of short tandem repeat loci. PCR Methods Appl 3:13–22

    Article  CAS  PubMed  Google Scholar 

  • Kimpton CP, Fisher D, Watson S, Adams M, Urquhart A, Lygo J, Gill P (1994) Evaluation of an automated DNA profiling system employing multiplex amplification of four tetrameric STR loci. Int J Legal Med 106:302–311

    Article  CAS  PubMed  Google Scholar 

  • Krenke BE, Tereba A, Anderson SJ, Buel E, Culhane S, Finis CJ, Tomsey CS, Zachetti JM, Masibay A, Rabbach DR, Amjott EA, Sprecher CJ (2002) Validation of a 16-locus fluorescent multiplex system. J Forensic Sci 47(4):773–785

    Article  CAS  PubMed  Google Scholar 

  • Lopes V, Andrade L, Carvalho M, Serra A, Balsa F, Bento AM, Batista L, Oliveira C, Corte-Real F, Anjos MJ (2009) Mini-STRs: a powerful tool to identify genetic profiles in samples with small amounts of DNA. FSI Genet Suppl Ser 2:121–122

    Google Scholar 

  • Luce C, Montpetit S, Gangitano D, O’Donnell P (2009) Validation of the AmpFℓSTR® MiniFilerTM PCR amplification kit for use in forensic casework. J Forensic Sci 54(5):1046–1054

    Article  CAS  PubMed  Google Scholar 

  • Lygo JE, Johnson PE, Holdaway DJ, Woodroffe S, Whitaker JP, Clayton TM, Kimpton CP, Gill P (1994) The validation of short tandem repeat (STR) loci for use in forensic casework. Int J Legal Med 107(2):77–89. (abstract)

    Article  CAS  PubMed  Google Scholar 

  • Mameli A, Piras G, Delogu G (2014) The successful recovery of low copy number and degraded DNA from bones exposed to seawater suitable for generating a DNA STR profile. J Forensic Sci 59(2):470–473

    Article  CAS  PubMed  Google Scholar 

  • Marjanović D, Durmić-Pašić A, Kovačević L, Avdić J, Džehverović M, Haverić S, Ramić J, Kalamujić B, Bilela LL, Škaro V, Projić P, Bajrović K, Drobnič K, Davoren J, Primorac D (2009) Identification of skeletal remains of communist armed forces victims during and after world war II: combined Y-chromosome short tandem repeat (STR) and MiniSTR approach. Croat Med J 50:296–304

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Martin P, Garcia O, Albarran C, Garcia P, Alonso A (2006) Application of mini-STR loci to severely degraded casework samples. Int Congr Ser 1288:522–525

    Article  CAS  Google Scholar 

  • Mulero JJ, Chang CW, Lagac RE, Wang DY, Bas JL, McMahon TP, Hennessy LK (2008) Development and validation of the AmpFℓSTR® MiniFilerTM PCR amplification kit: a MiniSTR multiplex for the analysis of degraded and/or PCR inhibited DNA. J Forensic Sci 53(4):838–852

    Article  CAS  PubMed  Google Scholar 

  • Muller K, Klein R, Miltner E, Wiegand P (2007) Improved STR typing of telogen hair root and hair shaft DNA. Electrophoresis 28:2835–2842

    Article  PubMed  CAS  Google Scholar 

  • Muller K, Klein R, Miltner E, Wiegand P (2009) Q8—a short amplicon multiplex including the German DNA database systems. Forensic Sci Int Genet 1(2):205–207

    Article  Google Scholar 

  • Nastainczyk M, Schulz S, Kleiber M, Immel UD (2009) STR analysis of degraded DNA using a miniplex. Forensic Sci Int Genet Supp Series 2:53–54

    Article  Google Scholar 

  • Nieuwerburgh FV, Hoofstat DV, Neste CV, Deforce D (2014) Retrospective study of the impact of miniSTRs on forensic DNA profiling of touch DNA samples. Sci Justice 54(5):369–372

    Article  PubMed  Google Scholar 

  • Opel KL, Chung DT, Drabek J, Tatarek NE, Jantz LM, McCord BR (2006) The application of Miniplex primer sets in the analysis of degraded DNA from human skeletal remains. J Forensic Sci 51(2):351–356

    Article  CAS  PubMed  Google Scholar 

  • Park MJ, Lee HY, Chung U, Kang SC, Jin Shin K (2007) Y-STR analysis of degraded DNA using reduced sized amplicons. Int J Legal Med 121:152–157

    Article  PubMed  Google Scholar 

  • Parsons TJ, Huel R, Davoren J, Katzmarzyk C, Milos A, Selmanovic A, Selmanovic L, Coble MD, Rizvic A (2007) A application of novel ‘mini-amplicon’ STR multiplexes to high volume casework on degraded skeletal remains. Forensic Sci Int Genet 1:175–179

    Article  PubMed  Google Scholar 

  • Phengon P, Wongwigggarn S, Panvisavas N (2008) Analysis of DNA from degraded tissue. FSI Genet Suppl Ser 1:439–441

    Google Scholar 

  • Pizzamiglio M, Marino A, Coli A, Floris T, Garofano L (2006) The use of mini-STRs on degraded DNA samples. Int Congr Ser 1288:498–500

    Article  CAS  Google Scholar 

  • Ricci U, Giovannucci Uzielli ML, Klintschar M (1999) Modified primers for D12S391 and a modified silver staining technique. Int J Legal Med 112(5):342–344

    Article  CAS  PubMed  Google Scholar 

  • Romano C, Luise ED, Martino DD, Spitaleri S, Saravo L (2006) A novel approach for genotyping of LCN-DNA recovered from highly degraded samples. Int Congr Ser 1288:577–579

    Article  CAS  Google Scholar 

  • Schneider PM, Martin PD (2001) Criminal DNA databases: the European situation. Forensic Sci Int 119:232–238

    Article  CAS  PubMed  Google Scholar 

  • Senge T, Madea B, Junge A, Rothschild MA, Schneider PM (2011) STRs, mini STRs and SNPs—a comparative study for typing degraded DNA. Legal Med 13:68–74

    Article  CAS  PubMed  Google Scholar 

  • Szibor R, Krawczak M, Hering S, Edelmann J, Kuhlisch E, Krause D (2003) Use of X-linked markers for forensic purposes. Int J Legal Med 117:67–74

    Article  CAS  PubMed  Google Scholar 

  • Takahashi M, Kato Y, Mukoyama H, Kanaya H, Kamiyama S (1997) Evaluation of five polymorphic microsatellite markers for typing DNA from decomposed human tissues—correlation between the size of the alleles and that of the template DNA. Forensic Sci Int 90:1–9

    Article  CAS  PubMed  Google Scholar 

  • Toni C, Presciuttini S, Spinetti I, Rocchi A, Domenici R (2006) Usefulness of X-chromosome markers in resolving relationships: report of a court case involving presumed half sisters. Int Congr Ser 1288:301–303

    Article  Google Scholar 

  • Tsukada K, Takayanagi K, Asamura H, Ota M, Fukushima H (2002) Multiplex short tandem repeat typing in degraded samples using newly designed primers for the TH01, TPOX, CSF1PO, and vWA loci. Legal Med 4:239–245

    Article  CAS  PubMed  Google Scholar 

  • Vullo C, Borosky A, Romanini C, Catelli L, Yamamoto T (2010) Frequency data for 12 mini STR loci in Argentina. Forensic Sci Int Genet 4:e79–e81

    Article  CAS  PubMed  Google Scholar 

  • Wang H, Ruan J, Shen C, Zhang Y, Liu W, Meng H, Yang X, Yan J, Liao S, Fan S, Jia X, Wei X (2014) Polymorphic distribution and forensic effectiveness study of eight miniSTR in Chinese Uyghur ethnic group. Mol Biol Rep 41:2371–2375

    Article  CAS  PubMed  Google Scholar 

  • Welch L, Gill P, Schneider PM, Parson W, Mogensen HS, Morling N (2011) A comparison of mini-STRs versus standard STRs-results of a collaborative European (EDNAP) exercise. Forensic Sci Int Genet 5:257–258

    Article  CAS  PubMed  Google Scholar 

  • Westen AA, Sijen T (2009) Degraded DNA sample analysis using DNA repair enzymes, mini STRs and (tri-allelic) SNPs. FSI Genet Suppl Ser 2:505–507

    Google Scholar 

  • Whitaker JP, Clayton TM, Urquhart AJ, Millican ES, Downes TJ, Kimpton CP, Gill P (1995) Short tandem repeat typing of bodies from a mass disaster: high success rate and characteristic amplification patterns in highly degraded samples. Biotechniques 18(4):670–677

    CAS  PubMed  Google Scholar 

  • Wiegand P, Kleiber M (2001) Less is more—length reduction of STR amplicons using redesigned primers. Int J Legal Med 114:285–287

    Article  CAS  PubMed  Google Scholar 

  • Yong RYY, Gan LSH, Coble MD, Yap EPH (2007) Allele frequencies of six miniSTR loci of three ethnic populations in Singapore. Forensic Sci Int 166:240–243

    Article  CAS  PubMed  Google Scholar 

  • Yoshida K, Sekiguchi K, Kasai K, Sato H, Seta S, Sensabaugh GF (1997) Evaluation of new primers for CSF1PO. Int J Legal Med 110:36–38

    Article  CAS  PubMed  Google Scholar 

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Authors and Affiliations

  1. Department of Forensic Science, Punjabi University, Patiala, Punjab, India

    Mukesh Thakar & Bhawana Joshi

  2. DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Government of Madhya Pradesh, Sagar, Madhya Pradesh, India

    Pankaj Shrivastava

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  1. Mukesh Thakar
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  2. Bhawana Joshi
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  3. Pankaj Shrivastava
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Editors and Affiliations

  1. DNA Fingerprinting Unit, Department of Home (Police), State Forensic Science Laboratory, Sagar, Madhya Pradesh, India

    Pankaj Shrivastava

  2. DNA Fingerprinting Unit, Regional Forensic Science Laboratory, Bhopal, Madhya Pradesh, India

    Hirak Ranjan Dash

  3. Department of Legal Medicine, University of Granada, Granada, Granada, Spain

    Jose A. Lorente

  4. DNA Fingerprinting Unit, State Forensic Science Laboratory, Ranchi, Jharkhand, India

    Jahangir Imam

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Thakar, M., Joshi, B., Shrivastava, P. (2020). Usefulness of Mini-STRs in Analyzing Degraded DNA Samples and Their Forensic Relevance. In: Shrivastava, P., Dash, H.R., Lorente, J.A., Imam, J. (eds) Forensic DNA Typing: Principles, Applications and Advancements . Springer, Singapore. https://doi.org/10.1007/978-981-15-6655-4_10

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