Forensic Characterization of Four New Bovine Tri-nucleotide Microsatellite Markers in Korean Cattle(Hanwoo)
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초록
We identified four new bovine tri-nucleotide microsatellite loci and analyzed their sequence structures and genetic parameters in 105 randomly selected Korean cattle(Hanwoo). Allele numbers of the loci B17S0808, B15S6253, B8S7996, and B17S4998 were 10, 11, 12, and 29, respectively. These alleles contained a simple or compound repeat sequences with some variations. Allele distributions of all these loci were in Hardy-Weinberg equilibrium(P>0.05). Observed heterozygosity and expected heterozygosity ranged from 0.54(B15S6253) to 0.92(B17S4998) and from 0.599(B15S6253) to 0.968(B17S4998), respectively, and two measures of heterozygosity at each locus were highly correlated. Polymorphism information content(PIC) for these 4 loci ranged from 0.551 (B15S6253) to 0.932(B17S4998), which means that all these loci are highly informative(PIC>0.5). Other genetic parameters, power of discrimination(PD) and probability of exclusion(PE) ranged from 0.783(B15S6253) to 0.984(B17S4998) and from 0.210 (B15S6253) to 0.782(B17S4998), respectively. Their combined PD and PE values were 0.9999968 and 0.98005176, respectively. Capillary electrophoresis revealed that average peak height ratio for a stutter was 13.89% at B17S0808, 26.67% at B15S6253, 9.09% at B8S7996, and 43.75% at B17S4998. Although the degree of genetic variability of the locus B15S6253 was relatively low among these four microsatellite markers, their favorable parameters and low peak height ratios for stutters indicate that these four new tri-nucleotide microsatellite loci could be useful multiplex PCR markers for the forensic and population genetic studies in cattle including Korean native breed.
Abstract
We identified four new bovine tri-nucleotide microsatellite loci and analyzed their sequence structures and genetic parameters in 105 randomly selected Korean cattle(Hanwoo). Allele numbers of the loci B17S0808, B15S6253, B8S7996, and B17S4998 were 10, 11, 12, and 29, respectively. These alleles contained a simple or compound repeat sequences with some variations. Allele distributions of all these loci were in Hardy-Weinberg equilibrium(P>0.05). Observed heterozygosity and expected heterozygosity ranged from 0.54(B15S6253) to 0.92(B17S4998) and from 0.599(B15S6253) to 0.968(B17S4998), respectively, and two measures of heterozygosity at each locus were highly correlated. Polymorphism information content(PIC) for these 4 loci ranged from 0.551 (B15S6253) to 0.932(B17S4998), which means that all these loci are highly informative(PIC>0.5). Other genetic parameters, power of discrimination(PD) and probability of exclusion(PE) ranged from 0.783(B15S6253) to 0.984(B17S4998) and from 0.210 (B15S6253) to 0.782(B17S4998), respectively. Their combined PD and PE values were 0.9999968 and 0.98005176, respectively. Capillary electrophoresis revealed that average peak height ratio for a stutter was 13.89% at B17S0808, 26.67% at B15S6253, 9.09% at B8S7996, and 43.75% at B17S4998. Although the degree of genetic variability of the locus B15S6253 was relatively low among these four microsatellite markers, their favorable parameters and low peak height ratios for stutters indicate that these four new tri-nucleotide microsatellite loci could be useful multiplex PCR markers for the forensic and population genetic studies in cattle including Korean native breed.
참고문헌 (32)
- Beja-Pereira, A., "Genetic characterization of southwestern European bovine breeds: a historical and biogeographical reassessment with a set of 16 microsatellites", J. Hered, 94, pp.243~250 (2003)
- Benson, G., "Tandem repeats finder: a program to analyze DNA sequences", Nucleic Acids Res, 27, pp.573~580 (1999)
- Botstein, D., "Construction of a genetic linkage map in man using restriction fragment length polymorphisms", Am. J. Hum. Genet, 32, pp.314~331 (1980)
- Butler, J. M, "Forensic DNA typing:biology, technology, and genetics of STR markers", pp.660~ (2005), Elsevier Academic Press
- Cervini, M., "Genetic variability of 10 microsatellite markers in the characterization of Brazilian Nellore cattle(Bos indicus)", Genet. Mol. Biol, 29, pp.486~490 (2006)
- Chung, H. Y., "Isolation and characterization of the bovine microsatellite loci", Biochem. Genet, 44, pp.527~541 (2006)
- Cymbron, T., "Microsatellite diversity suggests different histories for Mediterranean and Northern European cattle populations", Proc. R. Soc. Lond, 272, pp.1837~1843 (2005)
- Dakin, E. E., "Microsatellite null alleles in parentage analysis", Heredity, 93, pp.504~509 (2004)
- Edwards, A., "DNA typing and genetic mapping with trimeric and tetrameric tandem repeats", Am. J. Hum. Genet, 49, pp.746~756 (1991)
- Freeman, A. R., "Admixture and diversity in West African cattle populations", Mol. Ecol, 13, pp.3477~3487 (2004)
- Freeman, A. R., "Combination of multiple microsatellite data sets to investigate genetic diversity and admixture of domestic cattle", Anim. Genet, 37, pp.1~9 (2006)
- Fries, R., "The bovine genome contains polymorphic microsatellites", Genomics, 8, pp.403~406 (1990)
- Gill, P., "Considerations from the European DNA profiling group (EDNAP) concerning STR nomenclature", Forensic Sci. Int, 87, pp.185~192 (1997)
- Guichoux, E., "Current trends in microsatellite genotyping", Mol. Ecol. Resour, 11, pp.591~611 (2011)
- Guo, S. W., "Performing the exact test of Hardy-Weinberg proportion for multiple alleles", Biometrics, 48, pp.361~372 (1992)
- Ivanova, N. V., "An inexpensive, automation-friendly protocol for recovering high-quality DNA", Mol. Ecol. Notes, 6, pp.998~1002 (2006)
- Ma, R. Z., "Isolation and characterization of 45 polymorphic microsatellites from the bovine genome", Anim. Genet, 27, pp.43~47 (1996)
- MacHugh, D. E., "Genetic structure of seven European cattle breeds assessed using 20 microsatellite markers", Anim. Genet, 29, pp.333~340 (1998)
- Radko, A., "Usefulness of a supplementary set of microsatellite DNA markers for parentage testing in cattle", Pol. J. Vet. Sci, 13, pp.313~318 (2010)
- Reed, K. M., "Development of 90 new bovine microsatellite loci", Anim. Biotech, 12, pp.69~76 (2001)
- Rousset, F., "Testing heterozygote excess and deficiency", Genetics, 140, pp.1413~1419 (1995)
- Selkoe, K. A., "Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers", Ecol. Lett, 9, pp.615~629 (2006)
- Shackell, G. H., "Evaluation of microsatellites as a potential tool for product tracing of ground beef mixtures", Meat Sci, 70, pp.337~345 (2005)
- Spolnicka, M., "Sequence analysis of a new short tandem repeat locus D17S2266E located in the human growth hormone gene cluster HumGH@", J. Forensic Sci, 53, pp.683~686 (2008)
- Sun, W., "Genetic variation in eight Chinese cattle breeds based on the analysis of microsatellite markers", Genet. Sel. Evol, 40, pp.681~692 (2008)
- Takezaki, N, "Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA", Genetics, 144, pp.389~399 (1996)
- Tautz, D., "Simple sequences are ubiquitous repetitive components of eukaryotic genomes", Nucleic Acids Res, 12, pp.4127~4138 (1984)
- Tereba, A, "Tools for Analysis of Population Statistics. Profiles in DNA 3", Promega Corporation, pp.14~16 (1999)
- Vaiman, D., "Characterization of five new bovine dinucleotide repeats", Anim. Genet, 23, pp.537~541 (1992)
- van de Goor, L. H., "A proposal for standardization in forensic bovine DNA typing: allele nomenclature of 16 cattle-specific short tandem repeat loci", Anim. Genet, 40, pp.630~636 (2009)
- van de Goor, L. H., "Population studies of 16 bovine STR loci for forensic purposes", Int. J. legal Med, 125, pp.111~119 (2011)