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STR data (AmpFlSTR Profiler Plus) from north Portugal
Forensic Science International 115 (2001) 119±121
Announcement of population data
STR data (AmpFlSTR Pro®ler Plus) from north Portugal AntoÂnio Amorima,b,*, Leonor GusmaÄoa, CõÂntia Alvesa a
b
IPATIMUP, R. Roberto Frias, s/n, 4200 Oporto, Portugal Faculdade de CieÃncias, Universidade do Porto, Oporto, Portugal
Received 20 February 2000; received in revised form 25 May 2000; accepted 8 June 2000
Abstract Allele frequencies for the nine STRs included in the AmpFlSTR Pro®ler Plus kit (D3S1358, VWA, FGA, D8S1179, D21S11, D18S51, D5S818, D13S317 and D7S820) were estimated from a sample of 365±427 unrelated individuals born in north Portugal. # 2001 Elsevier Science Ireland Ltd. All rights reserved. Keywords: Short tandem repeats; Population data; AmpFlSTR Pro®ler Plus; North Portugal
Population: Unrelated healthy donors from Portuguese districts located north to Douro river. DNA extraction: Chelex method. PCR: according to manufacturer's instructions (AmpFlSTR Pro®ler Plus PCR ampli®cation kit, PE Applied Biosystems). Typing: ABI377, ABI310 and reference sequenced ladders (PE Applied Biosystems). Results: See Table 1. Quality control: Pro®ciency testing of the GEPISFG WG.
Analysis of data: GENEPOP [1]; expected heterozygosity according to Nei [2]. Access to the data: http://www.ipatimup.pt/STR. Other remarks: The population genetic pro®le is typically European Caucasian, but less diverse than the US reference database reported by the kit's manufacturer. For all systems (D8S1179 excepted), the diversity indexes such as the a priori exclusion chance show lower values than the US Caucasians. Combined a priori exclusion chance of this multiplex in our sample is 0.99983 (0.99998 in the US Caucasians database).
*
Corresponding author. Tel.: 351-22-5570700; fax: 351-22-5570799. E-mail address: [email protected] (A. Amorim). 0379-0738/01/$ ± see front matter # 2001 Elsevier Science Ireland Ltd. All rights reserved. PII: S 0 3 7 9 - 0 7 3 8 ( 0 0 ) 0 0 3 2 0 - 0
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A. Amorim et al. / Forensic Science International 115 (2001) 119±121
Table 1 Allele frequencies for AmpFlSTR Pro®ler Plus loci in the population of north Portugala Allele
D3S1358
VWA
FGA
D8S1179
D21S11
D18S51
D5S818
D13S317
D7S820
6.3 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 22.2 23 23.2 24 24.2 25 26 27 28 29 29.2 29.3 30 30.2 31 31.2 32 32.2 33 33.2 34.2 35 Ho He PD CE P
N: 375 ± ± ± ± ± ± 0.001 0.003 0.103 0.289 0.241 0.193 0.159 0.008 0.003 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.776 0.786 0.920 0.554 0.509
N: 427 ± ± ± ± ± ± ± 0.001 0.103 0.128 0.253 0.234 0.202 0.068 0.008 0.002 0.001 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.813 0.810 0.936 0.600 0.897
N: 391 ± ± ± ± ± ± ± ± ± ± ± 0.001 0.017 0.059 0.123 0.190 0.169 0.011 0.173 0.004 0.142 0.001 0.064 0.034 0.006 0.003 0.003
N: 375 ± ± 0.007 0.011 0.101 0.091 0.131 0.301 0.207 0.123 0.028 0.001 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.813 0.816 0.942 0.620 0.994
N: 379 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.005 0.001 0.001 0.023 0.173 0.191 0.001 0.003 0.239 0.033 0.071 0.115 0.012 0.096 0.003 0.026 0.004 0.003 0.842 0.848 0.959 0.678 0.234
N: 366 ± ± ± ± 0.019 0.005 0.131 0.131 0.167 0.137 0.164 0.102 0.071 0.033 0.025 0.011 0.003 ± 0.001 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.885 0.876 0.971 0.731 0.069
N: 374 ± ± 0.014 0.035 0.056 0.346 0.374 0.163 0.012 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.711 0.710 0.865 0.447 0.240
N: 372 ± ± 0.134 0.063 0.054 0.335 0.254 0.108 0.052 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.790 0.785 0.924 0.569 0.052
N: 365 0.001 0.022 0.142 0.159 0.258 0.207 0.186 0.025 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.784 0.811 0.936 0.598 0.250
a
± ± ± ± ± ± ± ± ± ± 0.862 0.862 0.965 0.703 0.950
Ho: observed heterozygosity, He: expected heterozygosity, PD: power of discrimination, CE: a priori chance of exclusion, P: Hardy± Weinberg equilibrium, exact test based on more than 2000 shuf¯ings, for S.E.<0.01.
A. Amorim et al. / Forensic Science International 115 (2001) 119±121
Acknowledgements This study was supported by a grant PRAXIS XXI BPD/11812/97 (FundacËaÄo para a CieÃncia e a Tecnologia, Portugal).
121
References [1] M. Raymond, F. Rousset, GENEPOP (version 1.2): populations genetics software for exact tests and ecumenicism, J. Heredity 86 (1995) 248±249. [2] M. Nei, Estimation of average heterozygosity and genetic distance from a small number of individuals, Genetics 89 (1978) 583±590.
Announcement of population data
STR data (AmpFlSTR Pro®ler Plus) from north Portugal AntoÂnio Amorima,b,*, Leonor GusmaÄoa, CõÂntia Alvesa a
b
IPATIMUP, R. Roberto Frias, s/n, 4200 Oporto, Portugal Faculdade de CieÃncias, Universidade do Porto, Oporto, Portugal
Received 20 February 2000; received in revised form 25 May 2000; accepted 8 June 2000
Abstract Allele frequencies for the nine STRs included in the AmpFlSTR Pro®ler Plus kit (D3S1358, VWA, FGA, D8S1179, D21S11, D18S51, D5S818, D13S317 and D7S820) were estimated from a sample of 365±427 unrelated individuals born in north Portugal. # 2001 Elsevier Science Ireland Ltd. All rights reserved. Keywords: Short tandem repeats; Population data; AmpFlSTR Pro®ler Plus; North Portugal
Population: Unrelated healthy donors from Portuguese districts located north to Douro river. DNA extraction: Chelex method. PCR: according to manufacturer's instructions (AmpFlSTR Pro®ler Plus PCR ampli®cation kit, PE Applied Biosystems). Typing: ABI377, ABI310 and reference sequenced ladders (PE Applied Biosystems). Results: See Table 1. Quality control: Pro®ciency testing of the GEPISFG WG.
Analysis of data: GENEPOP [1]; expected heterozygosity according to Nei [2]. Access to the data: http://www.ipatimup.pt/STR. Other remarks: The population genetic pro®le is typically European Caucasian, but less diverse than the US reference database reported by the kit's manufacturer. For all systems (D8S1179 excepted), the diversity indexes such as the a priori exclusion chance show lower values than the US Caucasians. Combined a priori exclusion chance of this multiplex in our sample is 0.99983 (0.99998 in the US Caucasians database).
*
Corresponding author. Tel.: 351-22-5570700; fax: 351-22-5570799. E-mail address: [email protected] (A. Amorim). 0379-0738/01/$ ± see front matter # 2001 Elsevier Science Ireland Ltd. All rights reserved. PII: S 0 3 7 9 - 0 7 3 8 ( 0 0 ) 0 0 3 2 0 - 0
120
A. Amorim et al. / Forensic Science International 115 (2001) 119±121
Table 1 Allele frequencies for AmpFlSTR Pro®ler Plus loci in the population of north Portugala Allele
D3S1358
VWA
FGA
D8S1179
D21S11
D18S51
D5S818
D13S317
D7S820
6.3 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 22.2 23 23.2 24 24.2 25 26 27 28 29 29.2 29.3 30 30.2 31 31.2 32 32.2 33 33.2 34.2 35 Ho He PD CE P
N: 375 ± ± ± ± ± ± 0.001 0.003 0.103 0.289 0.241 0.193 0.159 0.008 0.003 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.776 0.786 0.920 0.554 0.509
N: 427 ± ± ± ± ± ± ± 0.001 0.103 0.128 0.253 0.234 0.202 0.068 0.008 0.002 0.001 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.813 0.810 0.936 0.600 0.897
N: 391 ± ± ± ± ± ± ± ± ± ± ± 0.001 0.017 0.059 0.123 0.190 0.169 0.011 0.173 0.004 0.142 0.001 0.064 0.034 0.006 0.003 0.003
N: 375 ± ± 0.007 0.011 0.101 0.091 0.131 0.301 0.207 0.123 0.028 0.001 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.813 0.816 0.942 0.620 0.994
N: 379 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.005 0.001 0.001 0.023 0.173 0.191 0.001 0.003 0.239 0.033 0.071 0.115 0.012 0.096 0.003 0.026 0.004 0.003 0.842 0.848 0.959 0.678 0.234
N: 366 ± ± ± ± 0.019 0.005 0.131 0.131 0.167 0.137 0.164 0.102 0.071 0.033 0.025 0.011 0.003 ± 0.001 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.885 0.876 0.971 0.731 0.069
N: 374 ± ± 0.014 0.035 0.056 0.346 0.374 0.163 0.012 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.711 0.710 0.865 0.447 0.240
N: 372 ± ± 0.134 0.063 0.054 0.335 0.254 0.108 0.052 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.790 0.785 0.924 0.569 0.052
N: 365 0.001 0.022 0.142 0.159 0.258 0.207 0.186 0.025 ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± ± 0.784 0.811 0.936 0.598 0.250
a
± ± ± ± ± ± ± ± ± ± 0.862 0.862 0.965 0.703 0.950
Ho: observed heterozygosity, He: expected heterozygosity, PD: power of discrimination, CE: a priori chance of exclusion, P: Hardy± Weinberg equilibrium, exact test based on more than 2000 shuf¯ings, for S.E.<0.01.
A. Amorim et al. / Forensic Science International 115 (2001) 119±121
Acknowledgements This study was supported by a grant PRAXIS XXI BPD/11812/97 (FundacËaÄo para a CieÃncia e a Tecnologia, Portugal).
121
References [1] M. Raymond, F. Rousset, GENEPOP (version 1.2): populations genetics software for exact tests and ecumenicism, J. Heredity 86 (1995) 248±249. [2] M. Nei, Estimation of average heterozygosity and genetic distance from a small number of individuals, Genetics 89 (1978) 583±590.