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Ovine reference materials and assays for prion genetic testing

BACKGROUND: Genetic predisposition to scrapie in sheep is associated with several variations in the peptide sequence of the prion protein gene (PRNP). DNA-based tests for scoring PRNP codons are essential tools for eradicating scrapie and for evaluating rare alleles for increased resistance to disea...

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Autores principales: Heaton, Michael P, Leymaster, Kreg A, Kalbfleisch, Theodore S, Freking, Brad A, Smith, Timothy PL, Clawson, Michael L, Laegreid, William W
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2876147/
https://www.ncbi.nlm.nih.gov/pubmed/20433741
http://dx.doi.org/10.1186/1746-6148-6-23
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author Heaton, Michael P
Leymaster, Kreg A
Kalbfleisch, Theodore S
Freking, Brad A
Smith, Timothy PL
Clawson, Michael L
Laegreid, William W
author_facet Heaton, Michael P
Leymaster, Kreg A
Kalbfleisch, Theodore S
Freking, Brad A
Smith, Timothy PL
Clawson, Michael L
Laegreid, William W
author_sort Heaton, Michael P
collection PubMed
description BACKGROUND: Genetic predisposition to scrapie in sheep is associated with several variations in the peptide sequence of the prion protein gene (PRNP). DNA-based tests for scoring PRNP codons are essential tools for eradicating scrapie and for evaluating rare alleles for increased resistance to disease. In addition to those associated with scrapie, there are dozens more PRNP polymorphisms that may occur in various flocks. If not accounted for, these sites may cause base-pair mismatching with oligonucleotides used in DNA testing. Thus, the fidelity of scrapie genetic testing is enhanced by knowing the position and frequency of PRNP polymorphisms in targeted flocks. RESULTS: An adaptive DNA sequencing strategy was developed to determine the 771 bp PRNP coding sequence for any sheep and thereby produce a consensus sequence for targeted flocks. The strategy initially accounted for 43 known polymorphisms and facilitates the detection of unknown polymorphisms through an overlapping amplicon design. The strategy was applied to 953 sheep DNAs from multiple breeds in U.S. populations. The samples included two sets of reference sheep: one set for standardizing PRNP genetic testing and another set for discovering polymorphisms, estimating allele frequencies, and determining haplotype phase. DNA sequencing revealed 16 previously unreported polymorphisms, including a L237P variant on the F(141 )haplotype. Two mass spectrometry multiplex assays were developed to score five codons of interest in U.S. sheep: 112, 136, 141, 154, and 171. Reference tissues, DNA, trace files, and genotypes from this project are publicly available for use without restriction. CONCLUSION: Identifying ovine PRNP polymorphisms in targeted flocks is critical for designing efficient scrapie genetic testing systems. Together with reference DNA panels, this information facilitates training, certification, and development of new tests and knowledge that may expedite the eradication of sheep scrapie.
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spelling pubmed-28761472010-05-26 Ovine reference materials and assays for prion genetic testing Heaton, Michael P Leymaster, Kreg A Kalbfleisch, Theodore S Freking, Brad A Smith, Timothy PL Clawson, Michael L Laegreid, William W BMC Vet Res Methodology article BACKGROUND: Genetic predisposition to scrapie in sheep is associated with several variations in the peptide sequence of the prion protein gene (PRNP). DNA-based tests for scoring PRNP codons are essential tools for eradicating scrapie and for evaluating rare alleles for increased resistance to disease. In addition to those associated with scrapie, there are dozens more PRNP polymorphisms that may occur in various flocks. If not accounted for, these sites may cause base-pair mismatching with oligonucleotides used in DNA testing. Thus, the fidelity of scrapie genetic testing is enhanced by knowing the position and frequency of PRNP polymorphisms in targeted flocks. RESULTS: An adaptive DNA sequencing strategy was developed to determine the 771 bp PRNP coding sequence for any sheep and thereby produce a consensus sequence for targeted flocks. The strategy initially accounted for 43 known polymorphisms and facilitates the detection of unknown polymorphisms through an overlapping amplicon design. The strategy was applied to 953 sheep DNAs from multiple breeds in U.S. populations. The samples included two sets of reference sheep: one set for standardizing PRNP genetic testing and another set for discovering polymorphisms, estimating allele frequencies, and determining haplotype phase. DNA sequencing revealed 16 previously unreported polymorphisms, including a L237P variant on the F(141 )haplotype. Two mass spectrometry multiplex assays were developed to score five codons of interest in U.S. sheep: 112, 136, 141, 154, and 171. Reference tissues, DNA, trace files, and genotypes from this project are publicly available for use without restriction. CONCLUSION: Identifying ovine PRNP polymorphisms in targeted flocks is critical for designing efficient scrapie genetic testing systems. Together with reference DNA panels, this information facilitates training, certification, and development of new tests and knowledge that may expedite the eradication of sheep scrapie. BioMed Central 2010-04-30 /pmc/articles/PMC2876147/ /pubmed/20433741 http://dx.doi.org/10.1186/1746-6148-6-23 Text en Copyright ©2010 Heaton et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Methodology article
Heaton, Michael P
Leymaster, Kreg A
Kalbfleisch, Theodore S
Freking, Brad A
Smith, Timothy PL
Clawson, Michael L
Laegreid, William W
Ovine reference materials and assays for prion genetic testing
title Ovine reference materials and assays for prion genetic testing
title_full Ovine reference materials and assays for prion genetic testing
title_fullStr Ovine reference materials and assays for prion genetic testing
title_full_unstemmed Ovine reference materials and assays for prion genetic testing
title_short Ovine reference materials and assays for prion genetic testing
title_sort ovine reference materials and assays for prion genetic testing
topic Methodology article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2876147/
https://www.ncbi.nlm.nih.gov/pubmed/20433741
http://dx.doi.org/10.1186/1746-6148-6-23
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