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Статті в журналах з теми "DNA fingerprinting of fungi":
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Soll, David R. "The Ins and Outs of DNA Fingerprinting the Infectious Fungi." Clinical Microbiology Reviews 13, no. 2 (April 1, 2000): 332–70. http://dx.doi.org/10.1128/cmr.13.2.332.
SUMMARY DNA fingerprinting methods have evolved as major tools in fungal epidemiology. However, no single method has emerged as the method of choice, and some methods perform better than others at different levels of resolution. In this review, requirements for an effective DNA fingerprinting method are proposed and procedures are described for testing the efficacy of a method. In light of the proposed requirements, the most common methods now being used to DNA fingerprint the infectious fungi are described and assessed. These methods include restriction fragment length polymorphisms (RFLP), RFLP with hybridization probes, randomly amplified polymorphic DNA and other PCR-based methods, electrophoretic karyotyping, and sequencing-based methods. Procedures for computing similarity coefficients, generating phylogenetic trees, and testing the stability of clusters are then described. To facilitate the analysis of DNA fingerprinting data, computer-assisted methods are described. Finally, the problems inherent in the collection of test and control isolates are considered, and DNA fingerprinting studies of strain maintenance during persistent or recurrent infections, microevolution in infecting strains, and the origin of nosocomial infections are assessed in light of the preceding discussion of the ins and outs of DNA fingerprinting. The intent of this review is to generate an awareness of the need to verify the efficacy of each DNA fingerprinting method for the level of genetic relatedness necessary to answer the epidemiological question posed, to use quantitative methods to analyze DNA fingerprint data, to use computer-assisted DNA fingerprint analysis systems to analyze data, and to file data in a form that can be used in the future for retrospective and comparative studies.
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DeScenzo, R. A. "Use of (CAT)5as a DNA Fingerprinting Probe for Fungi." Phytopathology 84, no. 5 (1994): 534. http://dx.doi.org/10.1094/phyto-84-534.
Meyer, Wieland, Anke Koch, Claudia Niemann, Birgit Beyermann, J�rg T. Epplen, and Thomas B�rner. "Differentiation of species and strains among filamentous fungi by DNA fingerprinting." Current Genetics 19, no. 3 (March 1991): 239–42. http://dx.doi.org/10.1007/bf00336493.
Lockhart, S. R., C. Pujol, S. Joly, and D. R. Soll. "Development and use of complex probes for DNA fingerprinting the infectious fungi." Medical Mycology 39, no. 1 (January 2001): 1–8. http://dx.doi.org/10.1080/mmy.39.1.1.8.
WATANABE, M., K. LEE, K. GOTO, S. KUMAGAI, Y. SUGITA-KONISHI, and Y. HARA-KUDO. "Rapid and Effective DNA Extraction Method with Bead Grinding for a Large Amount of Fungal DNA." Journal of Food Protection 73, no. 6 (June 1, 2010): 1077–84. http://dx.doi.org/10.4315/0362-028x-73.6.1077.
To identify a rapid method for extracting a large amount of DNA from fungi associated with food hygiene, extraction methods were compared using fungal pellets formed rapidly in liquid media. Combinations of physical and chemical methods or commercial kits were evaluated with 3 species of yeast, 10 species of ascomycetous molds, and 4 species of zygomycetous molds. Bead grinding was the physical method, followed by chemical methods involving sodium dodecyl sulfate (SDS), cetyl trimethyl ammonium bromide (CTAB), and benzyl chloride and two commercial kits. Quantity was calculated by UV absorbance at 260 nm, quality was determined by the ratio of UV absorbance at 260 and 280 nm, and gene amplifications and electrophoresis profiles of whole genomes were analyzed. Bead grinding with the SDS method was the most effective for DNA extraction for yeasts and ascomycetous molds, and bead grinding with the CTAB method was most effective with zygomycetous molds. For both groups of molds, bead grinding with the CTAB method was the best approach for DNA extraction. Because this combination also is relatively effective for yeasts, it can be used to extract a large amount of DNA from a wide range of fungi. The DNA extraction methods are useful for developing gene indexes to identify fungi with molecular techniques, such as DNA fingerprinting.
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Chiang, Yu-Chung, Chang-Hung Chou, Shong Huang, and Tzen-Yuh Chiang. "Possible consequences of fungal contamination on the RAPD fingerprinting in Miscanthus (Poaceae)." Australian Journal of Botany 51, no. 2 (2003): 197. http://dx.doi.org/10.1071/bt02021.
Fungal contamination has been frequently reported in higher plants. In Miscanthus species, a wide range of fungal flora has also been recorded previously, including an investigation based on nrITS amplification. In order to understand the effects of the fungal genomes on the random amplified polymorphic DNA (RAPD) fingerprinting, callus specimens were obtained from the tissue culture of shoot apices of Miscanthus. RAPD fingerprinting with 60 oligoprimers was conducted with genomic DNA extracted from leaf tissue collected in the field and from the greenhouse, as well as callus derived from the same individuals. Extra bands were detected in the RAPD fingerprints amplified with 44 primers (84.6%) from the genomic DNA of both the field and greenhouse leaf tissue of most Miscanthus taxa examined, except for M. sinensis var. condensatus. Positive PCR amplification of organelle DNA non-coding spacers with both leaf and callus DNA ruled out the possibility that such DNA fingerprinting discrepancies were due to loss of organelles in the callus after consecutive subcultures. Among the 44 primers, one yielded no amplified fragments from the callus DNA, indicating that the amplified DNA fragments from leaf-tissue DNA were likely to be derived from fungi. The contaminating fungal DNA not only caused the overestimation of genetic diversity in the host plants, but also interfered with the phylogenetic inference. Systematic inconsistency occurred between the UPGMA dendrograms of leaf and callus DNA fingerprints. The detection of contaminating fungal DNA suggested that precautions are required for PCR-based fingerprinting when field materials are used for DNA resources. A method for quick screening of the contaminating fungal DNA with universal primers for the nrITS (internal transcribed spacer) region is suggested.
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Becerra-LopezLavalle, L. Augusto, Jennifer A. Saleeba, and Bruce R. Lyon. "Molecular identification of fungi isolated from stem tissue of Upland cotton (Gossypium hirsutum)." Australian Journal of Botany 53, no. 6 (2005): 571. http://dx.doi.org/10.1071/bt04092.
Molecular techniques such as restriction fragment length polymorphism (RFLP) analysis, random amplification of polymorphic DNA (RAPD) fingerprinting, and DNA sequencing and database comparison, were employed to identify fungi isolated from field-grown cotton plants (Gossypium hirsutum L.). DNA fragments of between 510 and 590 bp, representing the two rDNA (rDNA) internal transcribed spacers (ITS1 and ITS2) and the intervening 5.8S rRNA gene, were amplified from the fungi with eukaryotic consensus primers. Subsequent digestion with the restriction endonucleases AluI, CfoI, HaeIII, HinfI and HpaII enabled the allotment of all 57 isolates to 13 different groups. Restriction analysis was supported by RAPD–PCR analysis of multiple isolates and rDNA sequencing of representative fungi from each group. Sequence alignment and comparison with rDNA sequences of other fungi available in GenBank allowed for putative identification of three different taxa of Fusarium, two taxa each of Cladosporium, Diaporthe and Nectria, and one taxon each of Alternaria, Ampelomyces, Bartalinia, Phaeosphaeria and Rhizoctonia. Many of the stem-colonising fungi identified in this study are either pathogenic on cotton or have elsewhere been found to act as biocontrol agents.
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Oh, S., D. P. Kamdem, D. E. Keathley, and K. H. Han. "Detection and Species Identification of Wood-Decaying Fungi by Hybridization of Immobilized Sequence-Specific Oligonucleotide Probes with PCR-Amplified Fungal Ribosomal DNA Internal Transcribed Spacers." Holzforschung 57, no. 4 (June 26, 2003): 346–52. http://dx.doi.org/10.1515/hf.2003.052.
SummaryWe developed an effective detection method for wood-decaying fungi by hybridization of immobilized Sequence-Specific Oligonucleotide Probes with florescent-labeled PCR-amplified fungal rDNA internal transcribed spacer sequences. This method takes advantage of both the sequence specificity of Southern blot hybridization and the sensitivity of the previously reported PCR-based fungal species identification methods. Bothin vitrocultured fungal strains and naturally decaying wood samples were used to demonstrate that this method is robust and practical for detection of incipient wood-decaying fungi. It can be a useful tool for microbial ecology, plant pathology, protection of wood products in service, preservation efforts for high-value furniture and wood-based art and DNA fingerprinting for tracking the source of contamination of wood decay fungi.
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Gadkar, Vijay, Alok Adholeya, and T. Satyanarayana. "Randomly amplified polymorphic DNA using the M13 core sequence of the vesicular–arbuscular mycorrhizal fungi Gigaspora margarita and Gigaspora gigantea." Canadian Journal of Microbiology 43, no. 8 (August 1, 1997): 795–98. http://dx.doi.org/10.1139/m97-115.
Vesicular–arbuscular mycorrhizal (VAM) fungi are obligate symbionts, and a primary benefit provided to the host is the alleviation of stress. The recalcitrance of these fungi to grow in pure culture has spurred researchers to develop an alternative form of cultivation, namely the root organ culture (ROC). This synthetic form of production is new and efforts were made to use randomly amplified polymorphic DNA with the M13 minisatellite sequence as the polymerase chain reaction primer to look into polymorphism, if any, in the spores of Gigaspora margarita produced both in vitro and in situ (soil). The fingerprint patterns obtained from in vitro and in situ spores were similar. Extramatrical structures, such as auxiliary cells, were also examined by DNA fingerprinting. Their amplification pattern did not vary from the mother or daughter spores. A few interesting observations were made. For instance, the mother spore, which seemed hollow and inactive after germination, nevertheless contained nuclei after 4 months under in vitro conditions and generated a fingerprint pattern. The fingerprint pattern for Gigaspora margarita was different from that of Gigaspora gigantea, indicating that the minisatellite sequence could be exploited for identifying VAM fungi. ROC appears to be a truly representative system, in the sense that it mimics the essential features of the complex rhizosphere, allowing the fungi to complete their life cycle without any induced genetic changes per se. Key words : root organ culture, arbuscular mycorrhiza, M13 minisatellite sequence, randomly amplified polymorphic DNA.
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Witfeld, Frederick, Dominik Begerow, and Marco Alexandre Guerreiro. "Improved strategies to efficiently isolate thermophilic, thermotolerant, and heat-resistant fungi from compost and soil." Mycological Progress 20, no. 3 (March 2021): 325–39. http://dx.doi.org/10.1007/s11557-021-01674-z.
AbstractThermophilic, thermotolerant and heat-resistant fungi developed different physiological traits, enabling them to sustain or even flourish under elevated temperatures, which are life-hostile for most other eukaryotes. With the growing demand of heat-stable molecules in biotechnology and industry, the awareness of heat-adapted fungi as a promising source of respective enzymes and biomolecules is still increasing. The aim of this study was to test two different strategies for the efficient isolation and identification of distinctly heat-adapted fungi from easily accessible substrates and locations. Eight compost piles and ten soil sites were sampled in combination with different culture-dependent approaches to describe suitable strategies for the isolation and selection of thermophilous fungi. Additionally, an approach with a heat-shock treatment, but without elevated temperature incubation led to the isolation of heat-resistant mesophilic species. The cultures were identified based on morphology, DNA barcodes, and microsatellite fingerprinting. In total, 191 obtained isolates were assigned to 31 fungal species, from which half are truly thermophilic or thermotolerant, while the other half are heat-resistant fungi. A numerous amount of heat-adapted fungi was isolated from both compost and soil samples, indicating the suitability of the used approaches and that the richness and availability of those organisms in such environments are substantially high.
Kasiamdari, Rina Sri. "Interactions between arbuscular mycorrhizal fungi and other root-infecting fungi." Title page, contents and abstract only, 2001. http://web4.library.adelaide.edu.au/theses/09PH/09phk1887.pdf.
Roring, Solvig Mary Margaret. "DNA fingerprinting of Mycobacterium bovis." Thesis, Queen's University Belfast, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.287426.
Zhu, Jiahui. "DNA fingerprinting in Oryza sativa L." Thesis, University of East Anglia, 1996. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.338095.
The purpose of this project was to determine if the human skeletal remains of two distinct Native American cemeteries, found in close geographic proximity, represent the same population. These archaeological sites are similar in location and artifacts. Burial practices, however, vary between the sites. These differences may represent class distinction or a difference in the times the cemeteries were used. Radiocarbon techniques have given dates of AD 230±300 and AD 635±105 for these two sites. Several methods of DNA isolation were compared for their ability to yield PCR amplifiable DNA. DNA isolation using a combination of CTAB and phenol/chloroform/isoamyl alcohol (24:24:1) provided the best results and yielded amplifiable DNA form two individuals, Hn I (8F-410) and Hn 10 ( 27F-8-14 b). Purification of the DNA by extraction from low melting agarose gel was required prior to PCR, and PCR conditions were optimized to maximize the DNA yields. Regions of the mitochondrial DNA (mtDNA) genome of isolated DNA were amplified by PCR using primers which are specific for the HincII region of the mtDNA genome. Inability of restriction enzyme HincII to digest the amplified DNA of these two individuals suggested that they belong to the Native American mtDNA lineage C characterized by the loss of this restriction site. Department of Anthropology
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Meng, Anming. "DNA fingerprinting and minisatellite variation of swans." Thesis, University of Nottingham, 1990. http://eprints.nottingham.ac.uk/13889/.
Genetic variation in natural populations of four species of swans (Cygnus bewickii, Cygnus olor, Cygnus buccinator and Cygnus cygnus) has been investigated by examining minisatellite loci using human DNA fingerprinting probes pSPT19.6 and pSPT18.15. It has been found that swan minisatellites are highly variable. However, the degree of variation depends on the population structure and species. Bewick's Swans at Slimbridge have the highest degree of minisatellite variation, Whooper Swans at Caerlaverock come second, and then Mute Swans, and Trumpeter Swans in Montana. Comparative study of DNA fingerprints among populations and among species suggested that swan minisatellites are subject to specific as well as population differentiation, although the function of minisatellites remains an unsolved mystery. Hypervariable minisatellites of swans that are detected by DNA fingerprinting are stably inherited as codominant markers. DNA fingerprinting has been used to study mating behaviour of Mute and Whooper Swans in the wild The results showed that the Whooper swans were almost strictly monogamous and Mute Swans exhibited an adaptable reproductive system. A genomic library from Cygnus olor was constructed and dozens of minisatellites were isolated. Most of the cloned swan minisatellites were variable, some showed specific variation, and one (pcoMS6.1) detected RFLPs in PstI digests of Trumpeter Swans.
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Carter, Royston Edwin. "Development adaptations & applications of DNA fingerprinting." Thesis, University of Nottingham, 1992. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.336944.
Derksen, Linda Anne. "Agency and structure in the history of DNA profiling : the stabilization and standardization of a new technology /." Diss., Connect to a 24 p. preview or request complete full text in PDF format. Access restricted to UC IP addresses, 2003. http://wwwlib.umi.com/cr/ucsd/fullcit?p3083460.
何兆康 and Siu-hong Ho. "Isolation and characterization of Panax Ginseng repetitive DNA sequences for DNA fingerprinting." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 1998. http://hub.hku.hk/bib/B31215282.
Ho, Siu-hong. "Isolation and characterization of Panax Ginseng repetitive DNA sequences for DNA fingerprinting /." Hong Kong : University of Hong Kong, 1998. http://sunzi.lib.hku.hk/hkuto/record.jsp?B19737816.
Groft, Donald G., and University of Lethbridge Faculty of Arts and Science. "DNA fingerprinting of Alberta bull trout (Salvelinus confluentus) populations." Thesis, Lethbridge, Alta. : University of Lethbridge, Faculty of Arts and Science, 1997, 1997. http://hdl.handle.net/10133/80.
Bull trout (Salvelinus confluentus) populations from Alberta river drainage systems were compared using molecular techniques. Restriction fragment length polymorphisms (RFLP's) within the NDI and ND5/6 regions of the mitochondrial genome were observed. In addition, randomly amplified polymorphic DNA profiles (RAPD's) from total genomic DNA extracts were compared. Interdrainage comparisons using mtDNA revealed significant population heterogeneity among Alberta bull trout. Percent sequence divergence in mtDNA ranged from 0.14% to 0.92%. Most fish in each population were composed of a small number of common haplotypes, and the remaining fish displayed rare or locally unique haplotypes. RAPD profiles were used to calculate genetic distance values for Alberta, Canada and Montana, U.S.A. populations. Both Nei and Cavalli-Sforza distance values were used to generate neighbor-joining, FITCH and KITSCH distance trees. Two genetically distinct groups of bull trout were revealed by the RAPD analysis and the possiblity that post-glacial bull trout populations are derived from two separate refugia is suggested. xvii, 161 leaves : ill. ; 28 cm.
Epplen, Jörg T., and Thomas Lubjuhn, eds. DNA Profiling and DNA Fingerprinting. Basel: Birkhäuser Basel, 1999. http://dx.doi.org/10.1007/978-3-0348-7582-0.
Частини книг з теми "DNA fingerprinting of fungi":
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Meyer, W., E. Lieckfeldt, K. Kuhls, E. Z. Freedman, T. Börner, and T. G. Mitchell. "DNA- and PCR-fingerprinting in fungi." In DNA Fingerprinting: State of the Science, 311–20. Basel: Birkhäuser Basel, 1993. http://dx.doi.org/10.1007/978-3-0348-8583-6_28.
Gresshoff, P. M., F. Ghassemi, R. A. Brewer, and E. G. O’Neill. "DNA Amplification Fingerprinting of Mycorrhizal Fungi and Associated Plant Materials Using Arbitrary Primers." In Mycorrhiza Manual, 499–513. Berlin, Heidelberg: Springer Berlin Heidelberg, 1998. http://dx.doi.org/10.1007/978-3-642-60268-9_33.
Mitchelson, Keith R., and Salvatore Moricca. "DNA Fingerprinting Methods for Microbial Pathogens: Application to Diagnostics, Taxonomy and Plant Disease Management." In Integrated Management of Diseases Caused by Fungi, Phytoplasma and Bacteria, 333–64. Dordrecht: Springer Netherlands, 2008. http://dx.doi.org/10.1007/978-1-4020-8571-0_16.
Steiner, Ursula. "DNA Fingerprinting." In Fachenglisch für BioTAs und BTAs, 103–11. Berlin, Heidelberg: Springer Berlin Heidelberg, 2020. http://dx.doi.org/10.1007/978-3-662-60666-7_4.
Parkin, David T., and J. H. Wetton. "DNA Fingerprinting." In Molecular Techniques in Taxonomy, 145–57. Berlin, Heidelberg: Springer Berlin Heidelberg, 1991. http://dx.doi.org/10.1007/978-3-642-83962-7_10.
Carter, Royston E. "DNA Fingerprinting." In Molecular Techniques in Taxonomy, 323–28. Berlin, Heidelberg: Springer Berlin Heidelberg, 1991. http://dx.doi.org/10.1007/978-3-642-83962-7_21.
Melson, Kenneth E. "Legal and Ethical Considerations." In DNA Fingerprinting, 189–215. London: Palgrave Macmillan UK, 1990. http://dx.doi.org/10.1007/978-1-349-12040-6_10.
Kirby, Lorne T. "Case Applications." In DNA Fingerprinting, 217–59. London: Palgrave Macmillan UK, 1990. http://dx.doi.org/10.1007/978-1-349-12040-6_11.
Тези доповідей конференцій з теми "DNA fingerprinting of fungi":
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STATHOPOULOU, I. O., G. A. TSIHRINTZIS, K. KOLLIA, and A. VELEGRAKI. "CLUSTERING AND CLASSIFICATION OF ELECTROPHORESIS STRANDS FOR FUNGI FINGERPRINTING." In Proceedings of the Seventh International Workshop. WORLD SCIENTIFIC, 2006. http://dx.doi.org/10.1142/9789812773197_0040.
Lee, Michael. "DNA Fingerprinting of Crop Germplasm." In Proceedings of the 1992 Crop Production and Protection Conference. Iowa State University, Digital Press, 1993. http://dx.doi.org/10.31274/icm-180809-450.
Williams, McKay D., Sheldon A. Munns, Michael A. Temple, and Michael J. Mendenhall. "RF-DNA Fingerprinting for Airport WiMax Communications Security." In 2010 4th International Conference on Network and System Security (NSS). IEEE, 2010. http://dx.doi.org/10.1109/nss.2010.21.
Chen, C. H. Winston, Kai Tang, N. I. Taranenko, S. L. Allman, and L. Y. Ch'ang. "Laser mass spectrometry for DNA fingerprinting for forensic applications." In SPIE's 1994 International Symposium on Optics, Imaging, and Instrumentation, edited by Richard J. Mammone and J. David Murley, Jr. SPIE, 1994. http://dx.doi.org/10.1117/12.191883.
Clouting, C., E. Liebana, Robert H. Davies, L. Garcia-Migura, and S. Bedford. "DNA fingerprinting of S. typhimurium from a pig longitudinal study." In Fifth International Symposium on the Epidemiology and Control of Foodborn Pathogens in Pork. Iowa State University, Digital Press, 2003. http://dx.doi.org/10.31274/safepork-180809-522.
Wilson, Aaron J., Donald R. Reising, and T. Daniel Loveless. "Integration of Matched Filtering within the RF-DNA Fingerprinting Process." In GLOBECOM 2019 - 2019 IEEE Global Communications Conference. IEEE, 2019. http://dx.doi.org/10.1109/globecom38437.2019.9014225.
Cobb, William E., Eric W. Garcia, Michael A. Temple, Rusty O. Baldwin, and Yong C. Kim. "Physical layer identification of embedded devices using RF-DNA fingerprinting." In MILCOM 2010 - 2010 IEEE Military Communications Conference. IEEE, 2010. http://dx.doi.org/10.1109/milcom.2010.5680487.
Chen, C. H. Winston, N. I. Taranenko, Y. F. Zhu, C. N. Chung, and S. L. Allman. "Laser mass spectrometry for DNA sequencing, disease diagnosis, and fingerprinting." In BiOS '97, Part of Photonics West, edited by Gerald E. Cohn and Steven A. Soper. SPIE, 1997. http://dx.doi.org/10.1117/12.274339.
Reising, Donald R., Michael A. Temple, and Mark E. Oxley. "Gabor-based RF-DNA fingerprinting for classifying 802.16e WiMAX Mobile Subscribers." In 2012 International Conference on Computing, Networking and Communications (ICNC). IEEE, 2012. http://dx.doi.org/10.1109/iccnc.2012.6167534.
Williams, McKay D., Michael A. Temple, and Donald R. Reising. "Augmenting Bit-Level Network Security Using Physical Layer RF-DNA Fingerprinting." In GLOBECOM 2010 - 2010 IEEE Global Communications Conference. IEEE, 2010. http://dx.doi.org/10.1109/glocom.2010.5683789.
Звіти організацій з теми "DNA fingerprinting of fungi":
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Echt, Craig, and Sedley Josserand. DNA fingerprinting sets for four southern pines. Asheville, NC: U.S. Department of Agriculture, Forest Service, Southern Research Station, 2018. http://dx.doi.org/10.2737/srs-rn-24.
Echt, Craig, and Sedley Josserand. DNA fingerprinting sets for four southern pines. Asheville, NC: U.S. Department of Agriculture, Forest Service, Southern Research Station, 2018. http://dx.doi.org/10.2737/srs-rn-24.
DNA profiling has revolutionized the criminal justice system over the past decades. It has even enabled the law enforcement from exonerating people who have been convicted wrongfully of crimes which they did not commit.
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Bischof, Laura. DNA fingerprinting analysis of captive Asian elephants, Elephas maximas. Portland State University Library, January 2000. http://dx.doi.org/10.15760/etd.5850.
Winston Chen, C. H., N. I. Taranenko, Y. F. Zhu, C. N. Chung, and S. L. Allman. Laser mass spectrometry for DNA sequencing, disease diagnosis, and fingerprinting. Office of Scientific and Technical Information (OSTI), March 1997. http://dx.doi.org/10.2172/446348.
