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Genetic variability of Appaloosa horses: a study of a closed breeding population from Argentina

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Abstract

The genetic diversity and structure of 72 Appaloosa horses belonging to a closed breeding population from an ecological reserve in Buenos Aires, Argentina, was investigated using eight microsatellite markers from the International Society for Animal Genetics panel. Our data showed that this Appaloosa horse population had an elevated degree of genetic diversity (He= 0.746) and did not present a significant increase of homozygous individuals (F IS~0). However, the short tandem repeats, AHT5, ASB2, HTG10 and VHL20, were not in Hardy–Weinberg equilibrium (P-value<0.05). Genetic relationships between this population and other well known horse breeds showed that Appaloosa horses from Argentina could have had their origin in the horses of the Nez Perce’s people in Idaho while other Appaloosa horses may have had influences from Andalusian and Lusitano breeds. This closed breeding population conserves an important degree of Appaloosa genetic diversity and notwithstanding its particular breeding characteristics, represents a valuable genetic resource for conservation.

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Most cited references 11

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genepop'007: a complete re-implementation of the genepop software for Windows and Linux.

This note summarizes developments of the genepop software since its first description in 1995, and in particular those new to version 4.0: an extended input format, several estimators of neighbourhood size under isolation by distance, new estimators and confidence intervals for null allele frequency, and less important extensions to previous options. genepop now runs under Linux as well as under Windows, and can be entirely controlled by batch calls. © 2007 The Author.
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Informativeness of genetic markers for inference of ancestry.

Inference of individual ancestry is useful in various applications, such as admixture mapping and structured-association mapping. Using information-theoretic principles, we introduce a general measure, the informativeness for assignment (I(n)), applicable to any number of potential source populations, for determining the amount of information that multiallelic markers provide about individual ancestry. In a worldwide human microsatellite data set, we identify markers of highest informativeness for inference of regional ancestry and for inference of population ancestry within regions; these markers, which are listed in online-only tables in our article, can be useful both in testing for and in controlling the influence of ancestry on case-control genetic association studies. Markers that are informative in one collection of source populations are generally informative in others. Informativeness of random dinucleotides, the most informative class of microsatellites, is five to eight times that of random single-nucleotide polymorphisms (SNPs), but 2%-12% of SNPs have higher informativeness than the median for dinucleotides. Our results can aid in decisions about the type, quantity, and specific choice of markers for use in studies of ancestry.
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Distortion of allele frequency distributions provides a test for recent population bottlenecks.

We use population genetics theory and computer simulations to demonstrate that population bottlenecks cause a characteristic mode-shift distortion in the distribution of allele frequencies at selectively neutral loci. Bottlenecks cause alleles at low frequency ( .80) to detect an allele frequency distortion after a bottleneck of < or = 20 breeding individuals when 8 to 10 polymorphic microsatellite loci are analyzed.

Author and article information

Affiliations
1. Instituto de Genética Veterinaria “Ing. Fernando N Dulout”(IGEVET) –CCT La Plata –CONICET, Facultad de Ciencias Veterinarias, Universidad Nacional de La Plata, La Plata, Argentina
2. Research Fellow from Consejo Nacional de Invetigaciones Cientificas y Tecnicas (CONICET), Argentina
3. Research Fellow from Universidad Nacional de la Plata (UNLP), Argentina
Author notes
ccorbi@fcv.unlp.edu.ar
Contributors
Journal
Front. Agr. Sci. Eng.
FASE
CN10-1204/S
Frontiers of Agricultural Science and Engineering
Higher Education Press (4 Huixin Dongjie, Chaoyang District, Beijing 100029, China)
2095-7505
2014
: 1
: 3
: 175-178

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

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