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:: Volume 11, Issue 4 (winter 2015) ::
Sci J Iran Blood Transfus Organ 2015, 11(4): 306-317 Back to browse issues page
The development of Multiplex PCR-STR system for the analysis of genetic data of the Iranian population
D. Heydari , S.H. Ghaffari , B. Chahardouli , A. Gh. , K. Alimoghaddam , A. Ghavamzadeh
Keywords: Key words : Population, Short Tandem Repeats, Forensic Sciences
Full-Text [PDF 548 kb]   (3416 Downloads)     |   Abstract (HTML)  (7674 Views)
Type of Study: Research | Subject: Hematology
Published: 2014/12/31
Full-Text:   (2970 Views)
    References :  
  1. Hearne CM, Ghosh S, Todd JA. Microsatellites for linkage analysis of genetic traits. Trend Genet 1992; 8(8): 288-94.
  2. Kim KS, Sappington TW. Microsatellite data analysis for population genetics. Methods in Mol Biol 2013; 1006: 271-95.
  3. Foissac A, Crouau-Roy B, Fauré S, Thomsen M, Cambon-Thomsen A. Microsatellites in the HLA region: an overview. Tissue Antigens 1997; 49(3 Pt 1):
 
197-214.
  1. Zhang HB, Wei SG, Yu B, Li L, Lai JH. Nine polymorphic STR loci in the HLA region in the Shaanxi Han population of China. Genet Mol Res 2012; 11(3): 2534-8.
  2. Kristt D, Stein J, Yaniv I, Klein T. Assessing quantitative chimerism longitudinally: technical considerations, clinical applications and routine feasibility. Bone Marrow Transplant 2007; 39(5): 255-
68.
  1. Beckman JS, Weber JL. Survey of human and rat microsatellites. Genomics 1992; 12(4): 627-31.
  2. Gymrek M, Golan D, Rosset S, Erlich Y. lobSTR: A short tandem repeat profiler for personal genomes. Genome Res 2012; 22(6): 1154-62.
  3. Edwards A, Civitello A, Hammond HA, Caskey CT. DNA typing and genetic mapping with trimeric and tetrameric tandem repeats. Am J Hum Genet 1991; 49(4): 746-56.
  4. Edwards A, Hammond HA, Jin L, Caskey CT, Chakraborty R. Genetic variation at five trimeric and tetrameric tandem repeat loci in four human population groups. Genomics 1992; 12(2): 241-53.
  5. Caskey CT, Pizzuti A, Fu YH, Fenwick RG Jr, Nelson DL. Triplet repeat mutations in human disease. Science 256(5058): 784-9.
  6. Mirkin SM. Expandable DNA repeats and human disease. Nature 2007; 447(7147): 932-40.
  7. Frégeau CJ, Fourney RM. DNA typing with fluorescently tagged short tandem repeats: a sensitive and accurate approach to human identification. Biotechniques 1993; 15(1): 100-19.
  8. Hammond HA, Jin L, Zhong Y, Caskey CT, Chakraborty R. Evaluation of 13 short tandem repeat loci for use in personal identification applications. Am J Hum Genet 1994; 55(1): 175-89.
  9. Butler JM. Genetics and genomics of core short tandem repeat loci used in human identity testing. J Forensic Sci 2006; 51(2): 253-76.
  10. Huang TH, Hejtmancik JF, Edwards A, Pettigrew AL, Herrera CA, Hammond HA, et al. Linkage of the gene for an X-linked mental retardation disorder to a hypervariable (AGAT)n repeat motif within the human hypoxanthine phosphoribosyltransferase (HPRT) locus (Xq26). Am J Hum Genet 1991; 49(6): 1312-9.
  11. Crawford DC, Schwartz CE, Meadows KL, Newman JL, Taft LF, Gunter C, et al. Survey of the fragile X syndrome CGG repeat and the short-tandem-repeat and single-nucleotide-polymorphism haplotypes in an African American population. Am J Hum Genet 2000; 66(2): 480-93.
  12. Kimpton CP, Gill P, Walton A, Urquhart A, Millican ES, Adams M. Automated DNA profiling employing multiplex amplification of short tandem repeat loci. PCR Methods Appl 1993; 3(1): 13-22.
  13. Martin JB. Molecular genetics of neurological diseases. Science 1993; 262(5134): 674-6.
  14. La Spada A, Ranum LP. Molecular genetic advances in neurological disease: special review issue. Hum Mol Genet 2010; 19(R1): R1-3.
  15. Antin JH, Childs R, Filipovich AH, Giralt S, Mackinnon S, Spitzer T, et al. Establishment of complete and mixed donor chimerism after allogeneic lymphohematopoietic transplantation: recommendation from a workshop at the 2001 Tandem Meetings of the International Bone Marrow Transplant Registry and the American Society of Blood and Marrow Transplantation. Biol Blood Marrow Transplant 2001;
    7(9): 473-85.
  16. Thiede C, Bornhäuser M, Oelschlägel U, Brendel C, Leo R, Daxberger H, et al. Sequential monitoring of chimerism and detection of minimal residual disease after allogeneic blood stem cell transplantation using multiplex PCR amplification of short tandem repeat-markers. Leukemia 2001; 15(2): 293-302.
  17. Miller SA, Dykes DD, Polesky HF. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res 1988; 16(3): 1215.
  18. Gaaib JN, Nassief AF, Al-Assi AH. Simple salting-out method for genomic DNA extraction from whole blood. Tikrit university Tikrit Journal of Pure Science 2011; 16(2): 9-11.
  19. Raymond M, Rousset F. GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism. J Hered 1995; 86(3): 248-9.
  20. Nakahori Y, Takenaka O, Nakagoma Y. A human X-Y homologous region encodes "amelogenin". Genomics 1991; 9(2): 264-9.
  21. Huston KA. Statistical analysis of STR data. Profiles DNA 1998; 1(3): 14-5.
  22. Jones DA. Blood samples: probability of discriminations. J Forensic Sci Soc 1972; 12(2): 355-9.
  23. Lins AM, Sprecher CJ, Puers C, Schumm JW. Multiplex sets for the amplification of polymorphic short tandem repeat loci-silver stain and fluorescent detection. Biotechniques 1996; 20(5): 882-9.
  24. Brenner C, Morris JW. Paternity index calculations in single locus hypervariable DNA probes: validation and other studies. In: Proceedings for the International Symposium on Human Identification. Madison, WI: Promega Corporation. 1989; p. 21-53.
  25. Halos SC, Fortuno ES 3rd, Ferreon AC, Chu JY, Miranda J, Harada S, et al. Allele frequency distributions of the polymorphic STR loci HUMVWA, HUMFES, HUMF13A01 and the VNTR D1S80 in a Filipino population from Metro Manila. Int J Legal Med 1998; 111(4): 224-6.
  26. Entrala C, Lorente JA., Lorente M, Alvarez CJ, Budowle B, Villanueva E. Laboratory of Genetic ldentification. Available from: http://www.aafs.org/sites/default/files/pdf/ProceedingsDallas2004.pdf.
  27. Di Nunno N, Baldassarra SL, Carbonara M, Viola L, Mangiatordi S, Di Nunno C. Distribution of D1S80 and HLA-DQA1 alleles in a Southern Italian population sample. J Forensic Sci 2000; 45(4): 944.
  28. Tzeng CH, Lyou JY, Chen YR, Hu HY, Lin JS, Yung CH, et al. Polymorphisms of twelve short tandem repeat loci in a Taiwanese population and their application in parentage testing. J Formos Med Assoc 1998; 97(11): 738-44.
  29. Kalfoglu EA. Commentary on: Cakir AH, Simşek F, Açik L, Taşdelen B. Distribution of HumTPOX, HumvWA, HumTH01 alleles in a Turkish population sample. J Forensic Sci 2001;46(5): 1257. J Forensic Sci 2002; 47(4): 922; author reply 922.
 
 
 
 
 
Original  Article
 
 
 
 
Sci J Iran Blood Transfus Organ 2015; 11(4): 306-317
 
 
 



 

The development of Multiplex PCR-STR system for
the analysis of genetic data of the Iranian population
 
 
Heidari D.1, Ghaffari S.H.2, Chahardouli B.2, Gharehbaghian A.3,4, Alimoghaddam K.2,
Ghavamzadeh A.2
 
1Reference Laboratory of Social Security Organization,Tehran, Iran
2Hematology, Oncology and Stem Cell Research Center of Tehran University of Medical Sciences,Tehran, Iran
3Faculty of Medical Allied Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran
4Pediatric Congenital Hematologic Disorders Research Center of Shahid Beheshti University of Medical Sciences, Tehran, Iran
 
Abstract
Background and Objectives
Amplification of STR (Short Tandem Repeat) loci has become a useful tool for human identification applications. The STR polymorphisms analyses are not only useful for paternity and forensic identity testing but also for the evaluation of chimerism and engraftment after allogeneic BMT.
 
Materials and Methods
In this descriptive study, blood samples were obtained from 100 individuals among Iranian population. In order to develop STR-PCR multiplex systems, numerous STR locus combinations and amplification conditions were evaluated; as a result, three non-overlapping triplex STR systems were developed. The first triplex (DDT) includes the co-amplification of the D4S2366, D16S539 TH01 loci; the second triplex (VFF) contains the VWA, FES/FPS, F13A01 loci; and the third triplex (DTC) contains the D13S317, TPOX, CSF1PO loci.
 
Results
The common statistical information used in paternity and forensic sciences such as heterozygosity (H), matching probability (MP), power of discrimination (PD), paternity index (PI), and power of exclusion (PE) as well as the allele frequency distribution were determined for the Iranian population using all three multiplex systems and their representative loci. For all loci, no deviations from Hardy-Weinberg expectations (HWE) were detected.
 
Conclusions
In conclusion, the STR multiplex systems developed have a high power of discrimination (PD = 0.9999999997), and the matching probability (PM) across all nine loci was estimated as 1 in 3.6 billion, which underlines the usefulness of these systems in the forensic medicine as well as for human identity.
 
Key words: Population, Short Tandem Repeats, Forensic Sciences
 
 
 
 
Received: 17 Apr 2013
Accepted:  9 Feb 2014
 
 
 

Correspondence: Heidari H., MSc of Hematology & Blood Banking. Reference Laboratory of Social Security Organization.
P.O.Box: 16177-37515, Tehran, Iran. Tel: (+9821) 66647242; Fax: (+9821) 66644499
E-mail:
Dariush_heidari@yahoo.com
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Heydari D, Ghaffari S, Chahardouli B, Gh. A, Alimoghaddam K, Ghavamzadeh A. The development of Multiplex PCR-STR system for the analysis of genetic data of the Iranian population. Sci J Iran Blood Transfus Organ 2015; 11 (4) :306-317
URL: http://bloodjournal.ir/article-1-705-en.html
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Volume 11, Issue 4 (winter 2015) Back to browse issues page
فصلنامه پژوهشی خون Scientific Journal of Iran Blood Transfus Organ
The Scientific Journal of Iranian Blood Transfusion Organization - Copyright 2006 by IBTO
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