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Inbreeding estimation from population data: models, procedures and implications

R S Spielman, J V Neel, F H Li

    Genetics
    |February 1, 1977
    PubMed
    Summary
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    Comparing population structure models, researchers found estimation methods yield similar results. However, F-statistics likely underestimate true inbreeding in founding Native American populations, suggesting higher historical levels.

    Area of Science:

    • Population Genetics
    • Human Evolution
    • Anthropology

    Background:

    • Models of population structure are crucial for understanding genetic diversity and evolutionary history.
    • F-statistics are commonly used to quantify genetic differentiation and inbreeding within populations.
    • Previous estimations of inbreeding coefficients may not accurately reflect historical population dynamics.

    Purpose of the Study:

    • To compare different estimation procedures for population structure models.
    • To evaluate the accuracy of F-statistics in estimating inbreeding coefficients for indigenous populations.
    • To infer historical levels of inbreeding in the founding populations of American Indians.

    Main Methods:

    • Comparison of four distinct estimation procedures for population structure models.

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  • Estimation of model parameters using genotypic data from nine codominant allele pairs in 47 Yanomama villages.
  • Computer simulations and historical considerations to assess inbreeding coefficient underestimation.

    • Main Results:

    • Different estimators for population structure parameters yielded largely equivalent results.
    • F-statistics, commonly equated to inbreeding coefficients, were found to significantly underestimate historical inbreeding.
    • Estimated inbreeding coefficients from genotype frequencies were substantially lower than inferred historical probabilities.

    Conclusions:

    • The equivalence of different estimation procedures simplifies population genetic analyses.
    • Current F-statistic estimates likely misrepresent the true extent of inbreeding in ancestral Native American populations.
    • Historical inbreeding intensity in highly subdivided tribal populations may have been as high as 0.5, with recent declines due to civilization.