Table 1 Precision of Pedigree F in predicting GWIBD within each generation of the empirical and the random-mating zebra finch pedigree

From: Meiotic recombination shapes precision of pedigree- and marker-based estimates of inbreeding

Generation

N individuals

Empirical pedigree

Random-mating pedigree

  

Mean Pedigree F

s.d. of Pedigree F

% Individuals with Pedigree F=0

Precision of Pedigree F (r2 (95% QR))

Expected Pedigree F

Mean Pedigree F

s.d. of Pedigree F

% Individuals with Pedigree F=0

Precision of Pedigree F (r2 (95% QR))

1

231

0

0

100%

—

0

0

0

100%

—

2

309

0

0

100%

—

0.0051

0.0049

0.0242

96.12%

—

3

526

0.0019

0.0128

97.15%

0.76 (0.55–0.90)

0.0078

0.0081

0.0280

89.73%

0.74 (0.64–0.83)

4

153

0.088

0.110

39.87%

0.83 (0.77–0.88)

0.016

0.011

0.020

57.52%

0.55 (0.34–0.73)

5

710

0.019

0.043

57.89%

0.75 (0.68–0.82)

0.012

0.011

0.022

50.00%

0.58 (0.48–0.67)

6

635

0.068

0.045

1.89%

0.48 (0.40–0.55)

0.014

0.015

0.024

7.87%

0.54 (0.44–0.63)

7

681

0.12

0.067

0%

0.56 (0.49–0.63)

0.018

0.016

0.021

0%

0.46 (0.34–0.57)

All

3245

0.047

0.067

47.30%

0.76 (0.73–0.78)

0.011

0.011

0.023

46.01%

0.59 (0.55–0.64)

  1. Abbreviations: GWIBD, genome-wide identical by descent; QR, quantile range.
  2. Precision of Pedigree F was calculated using the zebra finch linkage map and 1000 simulation runs on both pedigrees. In the first three generations of the empirical pedigree, close inbreeding was avoided, the fourth generation contains offspring of full-sib matings and in the last three generations six selection lines were bred that increased the inbreeding coefficient. In the random-mating pedigree, parents were randomly assigned to each individual while keeping the total number of individuals and parents constant.
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