Abstract
It was the human genomic and mitochondrial DNA which was used in DNA fingerprinting in forensic case studies. However, many of the time, the human DNA is not available for analysis due to many reasons, so additional biomarker may be of immense help for forensic scientists. The microbiome analysis appears to hold that promise, and several research publications are suggestive of the use of microbial fingerprint to link an individual with the object. The microbiome which is basically microbes harbouring humans is analysed using DNA tools. In microbiome analysis, the samples are subjected to DNA extraction, amplification, parallel sequencing of the 16S rRNA region and analysis. Many studies showed that the individual person has a unique microbial fingerprint which makes them distinct in the population. The microbial population could be studied to understand the geographic location, post-mortem interval application, nature of transmission and cause of death including the establishing individual identity.
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References
Alberts B, Bray D, Lewis J, Roff M, Roberts K, Watson JD (1994) Molecular biology of cell. Garland Publishing, New York
Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59:143–169
Atlas RM (1984) Diversity of microbial communities. Adv Microbial Ecol 7:1–47
Barns SM, Fundyga RE, Jeffries MW, Pace NR (1994) Remarkable archael diversity detected in Yellowstone National Park hot spring environment. Proc Natl Acad Sci 91:1609–1613
Bizzarro S, Loos BG, Laine ML, Crielaard W, Zaura E (2013) Subgingival microbiome in smokers and non-smokers in periodontitis: an exploratory study using traditional targeted techniques and a next-generation sequencing. J Clin Periodontol 40:483–492. https://doi.org/10.1111/jcpe.12087
Blaser MJ (2010) Harnessing the power of the human microbiome. Proc Natl Acad Sci 107(14):6125–6126
Casarin RCV, Barbagallo A, Meulman T, Santos VR, Sallum EA, Nociti FH, Duarte PM, Casati MZ, Gonçalves RB (2013) Subgingival biodiversity in subjects with uncontrolled type-2 diabetes and chronic periodontitis. J Periodontal Res 48:30–36. https://doi.org/10.1111/j.1600-0765.2012.01498.x
Clarke TH et al (2017) Integrating the microbiome as a resource in the forensics toolkit. Forensic Sci Int Genet 30:141–147
Costello EK et al (2009) Bacterial community variation in human body habitats across space and time. Science 326:1694–1697
Dassarma S, Fleischmann EF (1995) Archea: a laboratory manual – halophiles. Cold Springer Harbour Laboratory Press, New York, pp 269–272
David LA, Maurice CF, Carmody RN, Gootenberg DB, Button JE, Wolfe BE, Ling AV, Devlin AS, Varma Y, Fischbach MA, Biddinger SB, Dutton RJ, Turnbaugh PJ (2014) Diet rapidly and reproducibly alters the human gut microbiome. Nature 505:559–563. https://doi.org/10.1038/nature12820
Elwood HJ, Olsen GJ, Sogin ML (1985) The small subunit rRNA gene sequences from the hypotrichous ciliates Oxytricha nova and Stylonychia pustulata. Mol Biol Evol 2:399
Fierer N, Hamady M, Lauber CL, Knight R (2008) The influence of sex, handedness, and washing on the diversity of hand surface bacteria. Proc Natl Acad Sci U S A 105:17994–17999
Fuhrman JA (2009) Microbial community structure and its functional implications. Nature 459(7244):193–199
Gao Z, Tseng CH, Pei ZH, Blaser MJ (2007) Molecular analysis of human forearm superficial skin bacterial biota. Proc Natl Acad Sci U S A 104:2927–2932
Gillis PBM, De Leg J (1992) The genus Aquaspirillum. In: Balows A, truper HG, Dworkin M, Harder W, Schleifer KH (eds) The prokaryotes: a handbook on the biology of bacterial ecophysiology, isolation, identification, applications. Springer-Verlag, New York, pp 2569–2582
Glenn TC (2011) Field guide to next-generation DNA sequencers. Mol Ecol Resour 11(5):759–769
Grice EA, et al.; NISC Comparative Sequencing Program (2009) Topographical and temporal diversity of the human skin microbiome. Science 324:1190–1192
Gunn A, Pitt SJ (2012) Review paper microbes as forensic indicators. Trop Biomed 29:311–330
Hagstrem A, Pommier T, Fohwer F, Simu K, Stolle W, Svensson D, Zweifel UL (2002) Use of 16S rDNA for delineation of marine bacterioplankton species. Appl Environ Microbiol 68:3628–3633
Hewitt KM, Gerba CP, Maxwell SL, Kelley ST (2012) Office space bacterial abundance and diversity in three metropolitan areas. PLoS One 7:e37849. https://doi.org/10.1371/journal.pone.0037849
Hugenholtz P, Pitulle C, Hershberger KL, Pace NR (1998) Novel division level bacterial diversity in a Yellowstone hot spring. J Bacteriol 180:366–376
Human Microbiome Project Consortium (2012) Structure, function and diversity of the healthy human microbiome. Nature 486(7402):207–214
Kolganova TV, Kuznetsov BB, Tourova TP (2002) Designing and testing oligonucleotide primers for amplification and sequencing of Archaeal 16S rRNA genes. Mikrobiologiya 71:283–286
Kort R, Caspers M, van de Graaf A, van Egmond W, Keijser B, Roeselers G (2014) Shaping the oral microbiota through intimate kissing. Microbiome 2:41. https://doi.org/10.1186/2049-2618-2-41
Krishna P, Reddy MS, Satyanarayana T (2006) Molecular techniques for understanding the microbial community structure in Mycorrhizosphere. Microbial activity in the rhizosphere. Springer, Berlin/Heidelberg, pp 173–198
Lewin B (2000) Genes VII. Oxford University Press Inc., New York
Ley RE, Lozupone CA, Hamady M, Knight R, Gordon JI (2008) Worlds within worlds: evolution of the vertebrate gut microbiota. Nat Rev Microbiol 6:776–788
Long EO, Dawid IB (1980) Repeated genes in eukaryotes. Annu Rev Biochem 49:727–764
Luongo JC, Barberán A, Hacker-Cary R, Morgan EE, Miller SL, Fierer N (2016) Microbial analyses of airborne dust collected from dormitory rooms predict the sex of occupants. Indoor Air 27:338–344. https://doi.org/10.1111/ina.12302
Mardis ER (2008) Next-generation DNA sequencing methods. Annu Rev Genomics Hum Genet 9:387–402
Martinez-Murcia AJ, Acinas SG, Rodriguez-Valera F (1995) Evalution of prokaryotic diversity by restrictase digestion of 16S rDNA directly amplified from hypersaline environments. FEMS Microbiol Ecol 17:247–256
Metzker ML et al (2002) Molecular evidence of HIV-1 transmission in a criminal case. Proc Natl Acad Sci 99(22):14292–14297
Miller OL (1981) The nucleolus, chromosomes and visualization of genetic activity. J Cell Biol 91:15s–27s
Misic AM, Davis MF, Tyldsley AS, Hodkinson BP, Tolomeo P, Hu B, Nachamkin I, Lautenbach E, Morris DO, Grice EA (2015) The shared microbiota of humans and companion animals as evaluated from Staphylococcus carriage sites. Microbiome 3:2. https://doi.org/10.1186/s40168-014-0052-7
Moon JH, Lee JH, Lee JY (2015) Subgingival microbiome in smokers and nonsmokers in Korean chronic periodontitis patients. Mol Oral Microbiol 30:227–241. https://doi.org/10.1111/omi.12086
Muyzer G, de Waal EC, Uitterlinden AG (1993) Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl Environ Microbiol 59:695–700
Nielsen AT, Liu W-T, Filipe C, Grady L, Molin S, Stahl DA (1999) Identification of a novel group of bacteria in a sludge from a deteriorated biological phosphorus removal reactor. Appl Environ Microbiol 65:1251–1258
Pace NR, Stahl DA, DJ L, Olsen GJ (1985) Analyzing natural microbial populations by rRNA sequences. ASM News 51:4–12
Pitt SJ, Cunningham JM (2009) An introduction to biomedical science in clinical and professional practice. Wiley-Blackwell, Chichester
Prosser, J. A. 2002. Molecular functional diversity in soil micro-organisms. In Diversity and integration in mycorrhizas, S. A. Smith and F. A. Smith, Kluwer Academic Publishers, Dordrecht 9–17
Rodriguez-Valera F (2002) Approaches to prokaryotic biodiversity: a population genetics perspective. Environ Microbiol 4:628–633
Rodriguez-Valera F (2004) Environmental genomics, the big picture? FEMS Microbiol Lett 231:153–158
Schloss PD, Handelsman J (2003) Biotechnological prospects from metagenomics. Curr Opin Biotechnol 4:303–310
Song SJ, Lauber C, Costello EK, Lozupone CA, Humphrey G, Berg-Lyons D, Caporaso JG, Knights D, Clemente JC, Nakielny S, Gordon JI, Fierer N, Knight R (2013) Cohabiting family members share microbiota with one another and with their dogs. eLife 2:e00458. https://doi.org/10.7554/eLife.00458
Torsvik V, Sørheim R, Goksøyr J (1996) Total bacterial diversity in soil and sediment communities—a review. J Ind Microbiol 17(3-4):170–178
van Dijk EL et al (2014) Ten years of next-generation sequencing technology. Trends Genet 30(9):418–426
Viaud M, Pasquier A, Brygoo Y (2000) Diversity of soil fungi studied by PCR-RFLP of ITS. Mycol Res 104:1027–1032
Vitkup D et al (2001) Completeness in structural genomics. Nat Struct Mol Biol 8(6):559
Watanabe K, Kodama Y, Harayama S (2001) Design and evaluation of PCR primers to amplify 16S rDNA fragments used for community fingerprinting. J Microbiol Methods 44:253–262
Whitman WB, Coleman DC, Wiebe WJ (1998) Prokaryotes: the unseen majority. Proc Natl Acad Sci U S A 95:6578–6583
Williams SM, Robbins LG (1992) Molecular genetic analysis of drosophila rDNA arrays. Trends Gent 8:335–340
Woese CR (1987) Bacterial evolution. Microbiol Rev 51(2):221
Yatsunenko T, Rey FE, Manary MJ, Trehan I, Dominguez-Bello MG, Contreras M, Magris M, Hidalgo G, Baldassano RN, Anokhin AP, Heath AC, Warner B, Reeder J, Kuczynski J, Caporaso JG, Lozupone CA, Lauber C, Clemente JC, Knights D, Knight R, Gordon JI (2012) Human gut microbiome viewed across age and geography. Nature 486:222–227. https://doi.org/10.1038/nature11053
Yun J, Ryu S (2005) Screening for novel enzymes from metagenome and SIGEX, as a way to improve it. Microbiol Cell Fact 4:8
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Krishna, P. (2018). Implications of Microbes in Forensic DNA Fingerprinting. In: Dash, H., Shrivastava, P., Mohapatra, B., Das, S. (eds) DNA Fingerprinting: Advancements and Future Endeavors. Springer, Singapore. https://doi.org/10.1007/978-981-13-1583-1_18
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