A framework for the development of STR genotyping in domestic animal species: characterization and population study of 12 canine X-chromosome loci
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A framework for the development of STR genotyping in domestic animal species : characterization and population study of 12 canine X-chromosome loci. / van Asch, Barbara; Pinheiro, Raquel; Pereira, Rui; Alves, Cíntia; Pereira, Vania; Pereira, Filipe; Gusmão, Leonor; Amorim, António.
I: Electrophoresis, Bind 31, Nr. 2, 01.2010, s. 303-8.Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
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TY - JOUR
T1 - A framework for the development of STR genotyping in domestic animal species
T2 - characterization and population study of 12 canine X-chromosome loci
AU - van Asch, Barbara
AU - Pinheiro, Raquel
AU - Pereira, Rui
AU - Alves, Cíntia
AU - Pereira, Vania
AU - Pereira, Filipe
AU - Gusmão, Leonor
AU - Amorim, António
PY - 2010/1
Y1 - 2010/1
N2 - This study reports the methodology used to search, select and characterize STR loci on the canine X chromosome using publicly available genome resources and following the current guidelines for human and non-human forensic testing. After several rounds of selection, 12 X-STR markers were optimized for simultaneous co-amplification in a single PCR, and genetic profiles were determined in a sample of 103 unrelated dogs. Mendelian inheritance was verified and mutation rates were assessed using family groups. Alleles that varied in size were sequenced to create a standardized nomenclature proposal based on the number of repeats. All loci conformed to Hardy-Weinberg expectations. The resulting panel showed high forensic efficiency, presenting high values of power of discrimination (in males and females) and mean exclusion chance, both in trios involving female offspring and in duos composed of dam and male offspring. Its use may complement the information obtained by autosomal STR analysis and contribute to the resolution of complex cases of kinship in dogs. The presented methodology for the de novo construction of an STR multiplex may also provide a helpful framework for analogous work in other animal species. As an increasing number of reference genomes become available, convenient tools for individual identification and parentage testing based on STR loci selected from autosomes or sex chromosomes' sequences may be created following this strategy.
AB - This study reports the methodology used to search, select and characterize STR loci on the canine X chromosome using publicly available genome resources and following the current guidelines for human and non-human forensic testing. After several rounds of selection, 12 X-STR markers were optimized for simultaneous co-amplification in a single PCR, and genetic profiles were determined in a sample of 103 unrelated dogs. Mendelian inheritance was verified and mutation rates were assessed using family groups. Alleles that varied in size were sequenced to create a standardized nomenclature proposal based on the number of repeats. All loci conformed to Hardy-Weinberg expectations. The resulting panel showed high forensic efficiency, presenting high values of power of discrimination (in males and females) and mean exclusion chance, both in trios involving female offspring and in duos composed of dam and male offspring. Its use may complement the information obtained by autosomal STR analysis and contribute to the resolution of complex cases of kinship in dogs. The presented methodology for the de novo construction of an STR multiplex may also provide a helpful framework for analogous work in other animal species. As an increasing number of reference genomes become available, convenient tools for individual identification and parentage testing based on STR loci selected from autosomes or sex chromosomes' sequences may be created following this strategy.
KW - Animals
KW - Chromosome Mapping
KW - Dogs
KW - Female
KW - Gene Frequency
KW - Genetic Loci
KW - Genetic Variation
KW - Genomic Instability
KW - Genotype
KW - Linkage Disequilibrium
KW - Male
KW - Microsatellite Repeats
KW - Polymerase Chain Reaction
KW - X Chromosome
U2 - 10.1002/elps.200900389
DO - 10.1002/elps.200900389
M3 - Journal article
C2 - 20024924
VL - 31
SP - 303
EP - 308
JO - Electrophoresis
JF - Electrophoresis
SN - 0173-0835
IS - 2
ER -
ID: 46232627