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A multiplex assay with 52 single nucleotide polymorphisms for human identification
Author(s) -
Sanchez Juan J.,
Phillips Chris,
Børsting Claus,
Balogh Kinga,
Bogus Magdalena,
Fondevila Manuel,
Harrison Cheryl D.,
MusgraveBrown Esther,
Salas Antonio,
SyndercombeCourt Denise,
Schneider Peter M.,
Carracedo Angel,
Morling Niels
Publication year - 2006
Publication title -
electrophoresis
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.666
H-Index - 158
eISSN - 1522-2683
pISSN - 0173-0835
DOI - 10.1002/elps.200500671
Subject(s) - single nucleotide polymorphism , genetics , biology , autosome , amplicon , snp , multiplex , population , multiplex polymerase chain reaction , snp array , microsatellite , typing , allele , chromosome , polymerase chain reaction , genotype , gene , demography , sociology
A total of 52 SNPs reported to be polymorphic in European, Asian and African populations were selected. Of these, 42 were from the distal regions of each autosome (except chromosome 19). Nearly all selected SNPs were located at least 100 kb distant from known genes and commonly used STRs. We established a highly sensitive and reproducible SNP-typing method with amplification of all 52 DNA fragments in one PCR reaction followed by detection of the SNPs with two single base extension reactions analysed using CE. The amplicons ranged from 59 to 115 bp in length. Complete SNP profiles were obtained from 500 pg DNA. The 52 loci were efficiently amplified from degraded samples where previously only partial STR profiles had been obtained. A total of 700 individuals from Denmark, Greenland, Somalia, Turkey, China, Germany, Taiwan, Thailand and Japan were typed, and the allele frequencies estimated. All 52 SNPs were polymorphic in the three major population groups. The mean match probability was at least 5.0 x 10(-19) in the populations studied. Typical paternity indices ranged from 336 000 in Asians to 549 000 in Europeans. Details of the 52 SNP loci and population data generated in this work are freely available at http://www.snpforid.org.