Assessment of population structure by single nucleotide polymorphisms (SNPs) in goat breeds

L. Pariset; I. Cappuccio; P. Ajmone Marsan; S. Dunner; G. Luikart; P. R. England; G. Obexer-Ruff; C. Peter; D. Marletta; F. Pilla; A. Valentini

doi:10.1016/j.jchromb.2006.01.011

Assessment of population structure by single nucleotide polymorphisms (SNPs) in goat breeds

L. Pariset, I. Cappuccio, P. Ajmone Marsan, S. Dunner, G. Luikart, P. R. England, G. Obexer-Ruff, C. Peter, D. Marletta, F. Pilla, A. Valentini

Flathead Lake Biological Station

Research output: Contribution to journal › Article › peer-review

20 Scopus citations

Abstract

Single nucleotide polymorphisms (SNPs) may be used in biodiversity studies and commercial tasks like traceability, paternity testing and selection for suitable genotypes. Twenty-seven SNPs were characterized and genotyped on 250 individuals belonging to eight Italian goat breeds. Multilocus genotype data were used to infer population structure and assign individuals to populations. To estimate the number of groups (K) to test in population structure analysis we used likelihood values and variance of the bootstrap samples, deriving optimal K from a drop in the likelihood and a rise in the variance plots against K.

Original language	English
Pages (from-to)	117-120
Number of pages	4
Journal	Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences
Volume	833
Issue number	1
DOIs	https://doi.org/10.1016/j.jchromb.2006.01.011
State	Published - Mar 20 2006

Funding

This work has been partially supported by the EU Econogene contract QLK5-CT-2001-02461. The content of the publication does not represent necessarily the views of the Commission or its services.

Funders	Funder number
European Commission	QLK5-CT-2001-02461

Keywords

Goat
Population structure
SNPs

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10.1016/j.jchromb.2006.01.011

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Pariset, L., Cappuccio, I., Marsan, P. A., Dunner, S., Luikart, G., England, P. R., Obexer-Ruff, G., Peter, C., Marletta, D., Pilla, F., & Valentini, A. (2006). Assessment of population structure by single nucleotide polymorphisms (SNPs) in goat breeds. Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences, 833(1), 117-120. https://doi.org/10.1016/j.jchromb.2006.01.011

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abstract = "Single nucleotide polymorphisms (SNPs) may be used in biodiversity studies and commercial tasks like traceability, paternity testing and selection for suitable genotypes. Twenty-seven SNPs were characterized and genotyped on 250 individuals belonging to eight Italian goat breeds. Multilocus genotype data were used to infer population structure and assign individuals to populations. To estimate the number of groups (K) to test in population structure analysis we used likelihood values and variance of the bootstrap samples, deriving optimal K from a drop in the likelihood and a rise in the variance plots against K.",

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note = "Funding Information: This work has been partially supported by the EU Econogene contract QLK5-CT-2001-02461. The content of the publication does not represent necessarily the views of the Commission or its services. ",

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Pariset, L, Cappuccio, I, Marsan, PA, Dunner, S, Luikart, G, England, PR, Obexer-Ruff, G, Peter, C, Marletta, D, Pilla, F & Valentini, A 2006, 'Assessment of population structure by single nucleotide polymorphisms (SNPs) in goat breeds', Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences, vol. 833, no. 1, pp. 117-120. https://doi.org/10.1016/j.jchromb.2006.01.011

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AU - Pariset, L.

AU - Cappuccio, I.

AU - Marsan, P. Ajmone

AU - Dunner, S.

AU - Luikart, G.

AU - England, P. R.

AU - Obexer-Ruff, G.

AU - Peter, C.

AU - Marletta, D.

AU - Pilla, F.

AU - Valentini, A.

N1 - Funding Information: This work has been partially supported by the EU Econogene contract QLK5-CT-2001-02461. The content of the publication does not represent necessarily the views of the Commission or its services.

PY - 2006/3/20

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N2 - Single nucleotide polymorphisms (SNPs) may be used in biodiversity studies and commercial tasks like traceability, paternity testing and selection for suitable genotypes. Twenty-seven SNPs were characterized and genotyped on 250 individuals belonging to eight Italian goat breeds. Multilocus genotype data were used to infer population structure and assign individuals to populations. To estimate the number of groups (K) to test in population structure analysis we used likelihood values and variance of the bootstrap samples, deriving optimal K from a drop in the likelihood and a rise in the variance plots against K.

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Assessment of population structure by single nucleotide polymorphisms (SNPs) in goat breeds

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