Detecting genotyping errors at Schistosoma japonicum microsatellites with pedigree information.
Parasit Vectors
; 8: 452, 2015 Sep 08.
Article
en En
| MEDLINE
| ID: mdl-26350750
ABSTRACT
BACKGROUND:
Schistosomiasis japonica remains a major public health problem in China. Integrating molecular analyses, such as population genetic analyses, of the parasite into the on-going surveillance programs is helpful in exploring the factors causing the persistence and/or spread of Schistosoma japonicum. However, genotyping errors can seriously affect the results of such studies, unless accounted for in the analyses.METHODS:
We assessed the genotyping errors (missing alleles or false alleles) of seven S. japonicum microsatellites, using a pedigree data approach for schistosome miracidia, which were stored on Whatman FTA cards.RESULTS:
Among 107 schistosome miracidia successfully genotyped, resulting in a total of 715 loci calls, a total of 31 genotyping errors were observed with 25.2% of the miracidia having at least one error. The error rate per locus differed among loci, which ranged from 0 to 9.8%, with the mean error rate 4.3% over loci. With the parentage analysis software Cervus, the assignment power with these seven markers was estimated to be 89.5% for one parent and 99.9% for a parent pair. One locus was inferred to have a high number of null alleles and a second with a high mistyping rate.CONCLUSION:
To the authors' knowledge, this is the first time that S. japonicum pedigrees have been used in an assessment of genotyping errors of microsatellite markers. The observed locus-specific error rate will benefit downstream epidemiological or ecological analyses of S. japonicum with the markers.
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Base de datos:
MEDLINE
Asunto principal:
Schistosoma japonicum
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Repeticiones de Microsatélite
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Genotipo
Idioma:
En
Revista:
Parasit Vectors
Año:
2015
Tipo del documento:
Article