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Microsatellite markers for identification and parentage analysis in the European wild boar (Sus scrofa).

Costa V, Pérez-González J, Santos P, Fernández-Llario P, Carranza J, Zsolnai A, Anton I, Buzgó J, Varga G, Monteiro N, Beja-Pereira A - BMC Res Notes (2012)

Bottom Line: A set of 14 previously reported microsatellites markers have been optimized and tested in three populations from Hungary, Portugal and Spain, in a total of 167 samples.The results indicate high probabilities of exclusion (0.99999), low probability of identity (2.0E(-13) - 2.5E(-9)) and a parentage assignment of 100%.Our results demonstrate that this set of markers is a useful and efficient tool for the individual identification and parentage assignment in wild boars.

View Article: PubMed Central - HTML - PubMed

Affiliation: Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto (CIBIO-UP), Rua Padre Armando Quintas 7, 4485-661 Vairão, Portugal.

ABSTRACT

Background: The wild boar (Sus scrofa) is among the most widespread mammal species throughout the old world. Presently, studies concerning microsatellites in domestic pigs and wild boars have been carried out in order to investigate domestication, social behavior and general diversity patterns among either populations or breeds. The purpose of the current study is to develop a robust set of microsatellites markers for parentage analyses and individual identification.

Findings: A set of 14 previously reported microsatellites markers have been optimized and tested in three populations from Hungary, Portugal and Spain, in a total of 167 samples. The results indicate high probabilities of exclusion (0.99999), low probability of identity (2.0E(-13) - 2.5E(-9)) and a parentage assignment of 100%.

Conclusions: Our results demonstrate that this set of markers is a useful and efficient tool for the individual identification and parentage assignment in wild boars.

Show MeSH
Graphical representation of the identity and exclusion probabilities for the combination of selected markers: (A) probability of identity (PI) and probability of identity when related individuals are included in the sample (PIsibs); (B) probability of exclusion when both parents are unknown (P1X) and its maximization (P1XM); (C) probability of exclusion when one of the parents is known (P2X) and its maximization (P2XM); and (D) probability of exclusion for two putative parents (P3X) and its maximization (P3EM); Population codes: HG – Hungary, PT – Portugal, SP - Spain.
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Figure 1: Graphical representation of the identity and exclusion probabilities for the combination of selected markers: (A) probability of identity (PI) and probability of identity when related individuals are included in the sample (PIsibs); (B) probability of exclusion when both parents are unknown (P1X) and its maximization (P1XM); (C) probability of exclusion when one of the parents is known (P2X) and its maximization (P2XM); and (D) probability of exclusion for two putative parents (P3X) and its maximization (P3EM); Population codes: HG – Hungary, PT – Portugal, SP - Spain.

Mentions: Our results confirm the effectiveness of the microsatellite panel for establishment of parentage in wild boars. The probability of identity (PI, the probability of two independent samples having the same identical genotype), using all 14 microsatellites, results in values as low as 2.0E-13, 2.5E-9 and 1.2E-11 for the Hungarian, Portuguese and Spanish populations, respectively. Although the values obtained using all the 14 loci provide low values, similar PI values are obtained by combining only five loci, in the case of the Hungarian and Spanish populations, and six loci in the case of the Portuguese populations (Figure 1). The probability of identity when related individuals are included on the samples (PISibs) is also low, attaining the minimum probabilities for the 14 loci combination of 1.0E-5, 1.6E-4 and 3.1E-5 for Hungary, Portugal and Spain, respectively. The probability of exclusion when both parents are unknown (P1X), when one of the parents is known (P2X) and when the parents are putative (P3X), the maximum probability was different for each of the three populations (Figure 1).


Microsatellite markers for identification and parentage analysis in the European wild boar (Sus scrofa).

Costa V, Pérez-González J, Santos P, Fernández-Llario P, Carranza J, Zsolnai A, Anton I, Buzgó J, Varga G, Monteiro N, Beja-Pereira A - BMC Res Notes (2012)

Graphical representation of the identity and exclusion probabilities for the combination of selected markers: (A) probability of identity (PI) and probability of identity when related individuals are included in the sample (PIsibs); (B) probability of exclusion when both parents are unknown (P1X) and its maximization (P1XM); (C) probability of exclusion when one of the parents is known (P2X) and its maximization (P2XM); and (D) probability of exclusion for two putative parents (P3X) and its maximization (P3EM); Population codes: HG – Hungary, PT – Portugal, SP - Spain.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3475110&req=5

Figure 1: Graphical representation of the identity and exclusion probabilities for the combination of selected markers: (A) probability of identity (PI) and probability of identity when related individuals are included in the sample (PIsibs); (B) probability of exclusion when both parents are unknown (P1X) and its maximization (P1XM); (C) probability of exclusion when one of the parents is known (P2X) and its maximization (P2XM); and (D) probability of exclusion for two putative parents (P3X) and its maximization (P3EM); Population codes: HG – Hungary, PT – Portugal, SP - Spain.
Mentions: Our results confirm the effectiveness of the microsatellite panel for establishment of parentage in wild boars. The probability of identity (PI, the probability of two independent samples having the same identical genotype), using all 14 microsatellites, results in values as low as 2.0E-13, 2.5E-9 and 1.2E-11 for the Hungarian, Portuguese and Spanish populations, respectively. Although the values obtained using all the 14 loci provide low values, similar PI values are obtained by combining only five loci, in the case of the Hungarian and Spanish populations, and six loci in the case of the Portuguese populations (Figure 1). The probability of identity when related individuals are included on the samples (PISibs) is also low, attaining the minimum probabilities for the 14 loci combination of 1.0E-5, 1.6E-4 and 3.1E-5 for Hungary, Portugal and Spain, respectively. The probability of exclusion when both parents are unknown (P1X), when one of the parents is known (P2X) and when the parents are putative (P3X), the maximum probability was different for each of the three populations (Figure 1).

Bottom Line: A set of 14 previously reported microsatellites markers have been optimized and tested in three populations from Hungary, Portugal and Spain, in a total of 167 samples.The results indicate high probabilities of exclusion (0.99999), low probability of identity (2.0E(-13) - 2.5E(-9)) and a parentage assignment of 100%.Our results demonstrate that this set of markers is a useful and efficient tool for the individual identification and parentage assignment in wild boars.

View Article: PubMed Central - HTML - PubMed

Affiliation: Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto (CIBIO-UP), Rua Padre Armando Quintas 7, 4485-661 Vairão, Portugal.

ABSTRACT

Background: The wild boar (Sus scrofa) is among the most widespread mammal species throughout the old world. Presently, studies concerning microsatellites in domestic pigs and wild boars have been carried out in order to investigate domestication, social behavior and general diversity patterns among either populations or breeds. The purpose of the current study is to develop a robust set of microsatellites markers for parentage analyses and individual identification.

Findings: A set of 14 previously reported microsatellites markers have been optimized and tested in three populations from Hungary, Portugal and Spain, in a total of 167 samples. The results indicate high probabilities of exclusion (0.99999), low probability of identity (2.0E(-13) - 2.5E(-9)) and a parentage assignment of 100%.

Conclusions: Our results demonstrate that this set of markers is a useful and efficient tool for the individual identification and parentage assignment in wild boars.

Show MeSH