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Genetic data of 9 STR loci from Henan Province (central China)
Forensic Science International 169 (2007) 244–246 www.elsevier.com/locate/forsciint
Announcement of Population Data
Genetic data of 9 STR loci from Henan Province (central China) Xudong Zheng a,*, Zhaoshu Zeng a, Xiansheng Meng b, Zhide Xiang b, Yunliang Zhu a, Hongtao Yan a a
Department of Forensic Medicine, Medical School of Zhengzhou University, Zhengzhou 450052, Henan, PR China b Department of Forensic Medicine, Police Station of Zhengzhou, Zhengzhou 450004, Henan, PR China Received 30 December 2005; received in revised form 21 March 2006; accepted 21 March 2006 Available online 24 May 2006
Abstract Allele frequencies of the nine short tandem repeats (STR) loci D8S1179, D21S11, D18S51, D5S818, D3S1358, D7S820, vWA, FGA (AmpFlSTR Profiler PlusTM) were determined in a population sample of unrelated individuals living in central China. # 2006 Elsevier Ireland Ltd. All rights reserved. Keywords: Short tandem repeats (STRs); Population data; Central Chinese population; AmpFlSTR Profiler PlusTM PCR amplification kit
Population: Blood samples of 392 unrelated healthy individuals living in central China were collected after informed consent. Extraction: A Chelex method was used for extracting genomic DNA [1]. PCR: 0.5–2 ng target DNA following manufacturer’s protocols (AmpFlSTR1 Profiler PlusTM PCR amplification kits, PE Applied Biosystems). Typing: ABI 3100 Genetic Analyzer and reference commercial ladders (PE Applied Biosystems). Results: See Table 1. Analysis of data: Genetic data were analyzed using Powerstats Software V12 [2]. The Hardy–Weinberg equilibrium was examined by Fisher exact test [3]. Quality control: Use of the control DNA and allelic ladders provided by the manufacturer of the kit. Access to the data: Via e-mail from corresponding author. Other remarks: Possible deviations from Hardy–Weinberg equilibrium was tested by the exact test (a 5% significance level is taken). Only a departure from H–W equilibrium was observed in vWA. The observed heterozygosity (HE) ranges from 0.855 (VWA) to 0.732 (D3S1358). The power of discrimination (PD) varies between 0.962 (FGA) and 0.875 (D3S1358). The probability of excluding paternity (PE) varies between 0.704 (VWA) and 0.480 (D3S1358).
* Corresponding author. Tel.: +86 371 6665 8173 E-mail address: [email protected] (X. Zheng). 0379-0738/$ – see front matter # 2006 Elsevier Ireland Ltd. All rights reserved. doi:10.1016/j.forsciint.2006.03.013
An allele frequency distribution comparative analysis was done using the SAS system between our data and the data from eastern Chinese [4], western Chinese [5], Luoba ethnic population in Tibet [6], Macau Chinese [7], Korean population [8] and Malays in Malaysia [9] according to Hou’s method [10]. No significant differences were found between eastern Chinese (n = 100) and our samples, or between western Chinese (n = 260) and our samples, or between Macau Chinese (n = 87) and our samples. But significant differences were found between the Luoba ethnic group in Tibet (n = 83) and our samples at all loci except D7S820 ( p < 0.05). Significant
Fig. 1. The map of Henan and China. The whole figure shows the map of China. A filled region in the central part of the map shows the position of Henan, where the blood samples were collected.
X. Zheng et al. / Forensic Science International 169 (2007) 244–246
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Table 1 Allele frequencies and statistical analysis of nine STR loci in Henan (central Chinese) population (N = 392) Allele 7 8 9 10 11 12 13 14 15 16 17 18 19 20 20.2 21 21.2 22 22.2 22.3 23 23.2 24 24.2 25 25.2 26 27 28 28.2 29 29.2 30 30.2 303 31 31.2 32 32.1 32.2 33 33.1 33.2 34 34.2 35.2 PICa PD a PEa HEa Pa
D3S1358
VWA
FGA
D8S1179
D21S11
D18S51
0.001
0.001 0.004 0.001 0.038 0.339 0.332 0.207 0.071 0.006
0.68 0.875 0.480 0.732 0.802
0.001 0.003 0.222 0.02 0.19 0.256 0.189 0.108 0.01
0.77 0.925 0.704 0.855 0.009
0.003 0.018 0.056 0.047 0.001 0.094 0.001 0.166 0.006 0.001 0.236 0.013 0.19 0.005 0.105 0.005 0.046 0.006
0.84 0.962 0.669 0.837 0.338
0.101 0.078 0.139 0.209 0.218 0.185 0.064 0.004 0.001
0.003 0.004 0.032 0.21 0.223 0.152 0.152 0.078 0.028 0.036 0.028
D5S818
D13S317
D7S820
0.028 0.001 0.073 0.176 0.35 0.226 0.137 0.008
0.001 0.278 0.135 0.136 0.253 0.156 0.031 0.01
0.001 0.151 0.063 0.152 0.352 0.239 0.04 0.004
0.74 0.914 0.491 0.739 0.134
0.77 0.926 0.615 0.809 0.590
0.73 0.907 0.568 0.783 0.505
0.014 0.027
0.009 0.004 0.001
0.81 0.950 0.659 0.832 0.819
0.051 0.009 0.264 0.005 0.293 0.013 0.004 0.091 0.077 0.028 0.001 0.111 0.005 0.001 0.041 0.001 0.004 0.001 0.79 0.942 0.587 0.793 0.306
0.83 0.958 0.674 0.839 0.555
a
PIC: polymorphic information content; PD: power of discrimination; PE: power of exclusion; HE: observed heterozigosity; P: Hardy–Weinberg equilibrium, exact test.
differences were also found between the Korean population (n = 231) and our samples at D5S818, D8S1179, D13S33317, D18S51 and D21S11 ( p < 0.05), and between Malays (n = 210) and our samples at D5S818, D7S820, D8S1179, D18S51, D21S11 and FGA ( p < 0.05). The comparison results between Luoba and central Chinese may be influenced by the small Luoba sample number reported in Ref. [6] (Fig. 1).
This paper follows the guidelines for publication of population data requested by the journal [11]. References [1] P.S. Walsh, D.A. Metzger, R. Higuchi, Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material, Biotechniques 10 (1991) 506–513.
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X. Zheng et al. / Forensic Science International 169 (2007) 244–246
[2] http://www.promega.com/geneticidtools/powerstats. [3] S.W. Guo, E.A. Thompson, Performing the exact test of Hardy–Weinberg proportion for multiple alleles, Biometrics 48 (1992) 361–372. [4] Y. Gao, Z. Zhang, Z. Wang, S. Bian, Genetic data of 15 STR forensic loci in eastern Chinese population, Forensic Sci. Int. 154 (2005) 78–80. [5] B.W. Ying, Y.G. Wei, X.M. Sun, T.T. Liu, Y.P. Hou, STR data for the AmpFlSTR profiler plus from western China, J. Forensic Sci. 50 (2005) 716–717. [6] L. Kang, S. Li, Allele frequencies of 15 STR loci of Luoba ethnic group in Tibet (Southwestern China), Forensic Sci. Int. 155 (2005) 219–221. [7] L. Gusmao, M.J. Prata, P. Sanchez-Diz, M.V. Lareu, A. Carracedo, C. Alves, N. Martins, A. Amorim, STR data for the AmpFlSTR profiler plus loci from Macau (China), Forensic Sci. Int. 123 (2001) 74–75.
[8] Y.L. Kim, J.Y. Hwang, Y.J. Kim, S. Lee, N.G. Chung, H.G. Goh, C.C. Kim, D.W. Kim, Allele frequencies of 15 STR loci using AmpF/STR Identifiler kit in a Korean population, Forensic Sci. Int. 136 (2003) 92–95. [9] L.H. Seah, N.H. Jeevan, M.I. Othman, P. Jaya, Y.S. Ooi, P.C. Wong, S.S. Kee, STR Data for the AmpFlSTR Identifiler loci in three ethnic groups (Malay, Chinese, Indian) of the Malaysian population, Forensic Sci. Int. 138 (2003) 134–137. [10] Y.P. Hou, M. Prinz, M. Staak, Comparison of different test for deviation from Hardy–Weinberg equilibrium of AMFLP population data, in: W. Bar, A. Fiori, U.R. Ross (Eds.), Advances in Forensic Haemogenetics, 5, 1994, pp. 511–513. [11] P. Lincoln, A. Carracedo, Publications of population data of human polymorphism, Forensic Sci. Int. 110 (2000) 3–5.
Announcement of Population Data
Genetic data of 9 STR loci from Henan Province (central China) Xudong Zheng a,*, Zhaoshu Zeng a, Xiansheng Meng b, Zhide Xiang b, Yunliang Zhu a, Hongtao Yan a a
Department of Forensic Medicine, Medical School of Zhengzhou University, Zhengzhou 450052, Henan, PR China b Department of Forensic Medicine, Police Station of Zhengzhou, Zhengzhou 450004, Henan, PR China Received 30 December 2005; received in revised form 21 March 2006; accepted 21 March 2006 Available online 24 May 2006
Abstract Allele frequencies of the nine short tandem repeats (STR) loci D8S1179, D21S11, D18S51, D5S818, D3S1358, D7S820, vWA, FGA (AmpFlSTR Profiler PlusTM) were determined in a population sample of unrelated individuals living in central China. # 2006 Elsevier Ireland Ltd. All rights reserved. Keywords: Short tandem repeats (STRs); Population data; Central Chinese population; AmpFlSTR Profiler PlusTM PCR amplification kit
Population: Blood samples of 392 unrelated healthy individuals living in central China were collected after informed consent. Extraction: A Chelex method was used for extracting genomic DNA [1]. PCR: 0.5–2 ng target DNA following manufacturer’s protocols (AmpFlSTR1 Profiler PlusTM PCR amplification kits, PE Applied Biosystems). Typing: ABI 3100 Genetic Analyzer and reference commercial ladders (PE Applied Biosystems). Results: See Table 1. Analysis of data: Genetic data were analyzed using Powerstats Software V12 [2]. The Hardy–Weinberg equilibrium was examined by Fisher exact test [3]. Quality control: Use of the control DNA and allelic ladders provided by the manufacturer of the kit. Access to the data: Via e-mail from corresponding author. Other remarks: Possible deviations from Hardy–Weinberg equilibrium was tested by the exact test (a 5% significance level is taken). Only a departure from H–W equilibrium was observed in vWA. The observed heterozygosity (HE) ranges from 0.855 (VWA) to 0.732 (D3S1358). The power of discrimination (PD) varies between 0.962 (FGA) and 0.875 (D3S1358). The probability of excluding paternity (PE) varies between 0.704 (VWA) and 0.480 (D3S1358).
* Corresponding author. Tel.: +86 371 6665 8173 E-mail address: [email protected] (X. Zheng). 0379-0738/$ – see front matter # 2006 Elsevier Ireland Ltd. All rights reserved. doi:10.1016/j.forsciint.2006.03.013
An allele frequency distribution comparative analysis was done using the SAS system between our data and the data from eastern Chinese [4], western Chinese [5], Luoba ethnic population in Tibet [6], Macau Chinese [7], Korean population [8] and Malays in Malaysia [9] according to Hou’s method [10]. No significant differences were found between eastern Chinese (n = 100) and our samples, or between western Chinese (n = 260) and our samples, or between Macau Chinese (n = 87) and our samples. But significant differences were found between the Luoba ethnic group in Tibet (n = 83) and our samples at all loci except D7S820 ( p < 0.05). Significant
Fig. 1. The map of Henan and China. The whole figure shows the map of China. A filled region in the central part of the map shows the position of Henan, where the blood samples were collected.
X. Zheng et al. / Forensic Science International 169 (2007) 244–246
245
Table 1 Allele frequencies and statistical analysis of nine STR loci in Henan (central Chinese) population (N = 392) Allele 7 8 9 10 11 12 13 14 15 16 17 18 19 20 20.2 21 21.2 22 22.2 22.3 23 23.2 24 24.2 25 25.2 26 27 28 28.2 29 29.2 30 30.2 303 31 31.2 32 32.1 32.2 33 33.1 33.2 34 34.2 35.2 PICa PD a PEa HEa Pa
D3S1358
VWA
FGA
D8S1179
D21S11
D18S51
0.001
0.001 0.004 0.001 0.038 0.339 0.332 0.207 0.071 0.006
0.68 0.875 0.480 0.732 0.802
0.001 0.003 0.222 0.02 0.19 0.256 0.189 0.108 0.01
0.77 0.925 0.704 0.855 0.009
0.003 0.018 0.056 0.047 0.001 0.094 0.001 0.166 0.006 0.001 0.236 0.013 0.19 0.005 0.105 0.005 0.046 0.006
0.84 0.962 0.669 0.837 0.338
0.101 0.078 0.139 0.209 0.218 0.185 0.064 0.004 0.001
0.003 0.004 0.032 0.21 0.223 0.152 0.152 0.078 0.028 0.036 0.028
D5S818
D13S317
D7S820
0.028 0.001 0.073 0.176 0.35 0.226 0.137 0.008
0.001 0.278 0.135 0.136 0.253 0.156 0.031 0.01
0.001 0.151 0.063 0.152 0.352 0.239 0.04 0.004
0.74 0.914 0.491 0.739 0.134
0.77 0.926 0.615 0.809 0.590
0.73 0.907 0.568 0.783 0.505
0.014 0.027
0.009 0.004 0.001
0.81 0.950 0.659 0.832 0.819
0.051 0.009 0.264 0.005 0.293 0.013 0.004 0.091 0.077 0.028 0.001 0.111 0.005 0.001 0.041 0.001 0.004 0.001 0.79 0.942 0.587 0.793 0.306
0.83 0.958 0.674 0.839 0.555
a
PIC: polymorphic information content; PD: power of discrimination; PE: power of exclusion; HE: observed heterozigosity; P: Hardy–Weinberg equilibrium, exact test.
differences were also found between the Korean population (n = 231) and our samples at D5S818, D8S1179, D13S33317, D18S51 and D21S11 ( p < 0.05), and between Malays (n = 210) and our samples at D5S818, D7S820, D8S1179, D18S51, D21S11 and FGA ( p < 0.05). The comparison results between Luoba and central Chinese may be influenced by the small Luoba sample number reported in Ref. [6] (Fig. 1).
This paper follows the guidelines for publication of population data requested by the journal [11]. References [1] P.S. Walsh, D.A. Metzger, R. Higuchi, Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material, Biotechniques 10 (1991) 506–513.
246
X. Zheng et al. / Forensic Science International 169 (2007) 244–246
[2] http://www.promega.com/geneticidtools/powerstats. [3] S.W. Guo, E.A. Thompson, Performing the exact test of Hardy–Weinberg proportion for multiple alleles, Biometrics 48 (1992) 361–372. [4] Y. Gao, Z. Zhang, Z. Wang, S. Bian, Genetic data of 15 STR forensic loci in eastern Chinese population, Forensic Sci. Int. 154 (2005) 78–80. [5] B.W. Ying, Y.G. Wei, X.M. Sun, T.T. Liu, Y.P. Hou, STR data for the AmpFlSTR profiler plus from western China, J. Forensic Sci. 50 (2005) 716–717. [6] L. Kang, S. Li, Allele frequencies of 15 STR loci of Luoba ethnic group in Tibet (Southwestern China), Forensic Sci. Int. 155 (2005) 219–221. [7] L. Gusmao, M.J. Prata, P. Sanchez-Diz, M.V. Lareu, A. Carracedo, C. Alves, N. Martins, A. Amorim, STR data for the AmpFlSTR profiler plus loci from Macau (China), Forensic Sci. Int. 123 (2001) 74–75.
[8] Y.L. Kim, J.Y. Hwang, Y.J. Kim, S. Lee, N.G. Chung, H.G. Goh, C.C. Kim, D.W. Kim, Allele frequencies of 15 STR loci using AmpF/STR Identifiler kit in a Korean population, Forensic Sci. Int. 136 (2003) 92–95. [9] L.H. Seah, N.H. Jeevan, M.I. Othman, P. Jaya, Y.S. Ooi, P.C. Wong, S.S. Kee, STR Data for the AmpFlSTR Identifiler loci in three ethnic groups (Malay, Chinese, Indian) of the Malaysian population, Forensic Sci. Int. 138 (2003) 134–137. [10] Y.P. Hou, M. Prinz, M. Staak, Comparison of different test for deviation from Hardy–Weinberg equilibrium of AMFLP population data, in: W. Bar, A. Fiori, U.R. Ross (Eds.), Advances in Forensic Haemogenetics, 5, 1994, pp. 511–513. [11] P. Lincoln, A. Carracedo, Publications of population data of human polymorphism, Forensic Sci. Int. 110 (2000) 3–5.