The Computation of Inbreeding Coefficients

Cruden, Dorothy

doi:10.1093/oxfordjournals.jhered.a106039

Cited by 59 publications

(31 citation statements)

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“…Analysis II (MAR) used the new program (MTDFARM) to incorporate markerbased relationships. For analysis III (IBD), the additive relationship matrix from identity by descent was first calculated by using the tabular method (Cruden, 1949;Emik and Terrill, 1949), with founder animals as well as those with records, and then MTDFARM was utilized to obtain the inverse of the additive relationship matrix. Analyses I and III must yield identical results (Henderson, 1975;Quaas, 1976) because they are equivalent models.…”

Section: Statistical Analysesmentioning

confidence: 99%

Technical note: Use of marker-based relationships with multiple-trait derivative-free restricted maximal likelihood

Zhang

Todhunter

Buckler

et al. 2007

Journal of Animal Science

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ABSTRACT:The widespread use of the set of multiple-trait derivative-free REML programs for prediction of breeding values and estimation of variance components has led to significant improvement in traits of economic importance. The initial version of this software package, however, was generally limited to pedigree-based relationships. With continued advances in genomic research and the increased availability of genotyping, relationships based on molecular markers are

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Section: Statistical Analysesmentioning

confidence: 99%

Technical note: Use of marker-based relationships with multiple-trait derivative-free restricted maximal likelihood

Zhang

Todhunter

Buckler

et al. 2007

Journal of Animal Science

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“…Pedigree records provided by Canadian Livestock Records Corporation and Holstein Canada were edited before computing the additive relationship coefficients for individual animals (Cruden 1949;Emik and Terrill 1949;Van Vleck 1993). Animals showing the least relationship with each other were chosen for sampling.…”

Section: Animalsmentioning

confidence: 99%

Genetic diversity among Canadienne, Brown Swiss, Holstein and Jersey cattle based on mitochondrial D-loop sequence variation

Hansen

Shrestha²,

Parker³

et al. 2003

Can. J. Anim. Sci.

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[39][40][41][42][43][44]. Polymorphisms creating 36 unique haplotypes were observed within breeds at 55 sites in the displacement loop (Dloop) region of the mitochondrial DNA (mtDNA) consisting of 814 bp. The majority (56%) of the differences observed were the result of nucleotide substitution events with 19 transitions, 12 transversions, 11 deletions, 12 insertions and 1 inversion. In all cases, the insertions and deletions were of a single nucleotide. Canadienne cattle were found to have 60% unique haplotypes within the population compared to 89% in Brown Swiss, 90% in Holstein and 100% in Jersey cattle, possibly reflecting the narrow genetic base in the Canadienne breed. The degree of sequence divergence in the D-loop region of mtDNA was based on samples from 20 Canadienne, 9 Brown Swiss, 10 Holstein and 10 Jersey cattle and a phylogenetic analysis showed that these cattle (Bos taurus) were not evolutionarily distinct. All four breeds grouped together when a strict consensus tree was generated. Intra-breed variability proved to be high for the Canadienne, Holstein and Jersey breeds (57-73%) but not the Brown Swiss breed (29%). The Canadienne and Brown Swiss (45%), and Brown Swiss and Holstein (43%) showed the lowest degree of inter-breed variability. The greatest variability among the four breeds was between Canadienne and Jersey (80%) cattle. These findings question the validity of phenotypic assessment of genetic diversity, such as Canadienne cattle being described as "Black Jersey". Les auteurs ont dénombré 36 haplotypes uniques attribuables au polymorphisme intra-racial à 55 endroits de la boucle D de l'ADN mitochondrial (ADNmt), sur laquelle on retrouve 814 paires de bases. La plupart des variations (56 %) observées résul-tent de la substitution de nucléotides, en l'occurrence une transition (19 cas), une transversion (12 cas), une suppression (11 cas), une insertion (12 cas) ou une inversion (1 cas). Les insertions et les suppressions n'affectent toujours qu'un nucléotide. La race Canadienne présente 60 % d'haplotypes uniques au sein de sa population, contre 89 % pour les Suisse brune, 90 % pour les Holstein et 100 % pour les Jersey, ce qui illustre peut-être son étroite base génétique. Le degré de divergence des séquences sur la boucle D de l'ADNmt a été établi au moyen des échantillons prélevés de 20 sujets Canadienne, 9 Suisse brune, 10 Holstein et 10 Jersey. Une analyse phylogéné-tique révèle que les animaux (Bos taurus) ne sont pas distincts sur le plan de l'évolution. En effet, les quatre races se retrouvent ensemble quand on produit un arbre de consensus strict. Il existe bien une forte variation intra-raciale pour les sujets Canadienne, Holstein et Jersey (de 57 à 73 %), mais pas pour ceux de la race Suisse brune (29 %). Les sujets Canadienne et Suisse brune (45 %) ainsi que Suisse brune et Holstein (43 %) présentent le plus faible degré de variation inter-raciale. Des quatre races, ce sont les races Canadienne et Jersey qui montrent la plus grande variabilité entre elles (80 %). Ces résultats ...

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“…Cette approche utilise la méthode des ancêtres communs décrite par Cruden (1949) dans laquelle l'ordre chronologique des animaux n'est pas indiqué dans la prise des données (Cruden 1949). Les séries de calculs et de traitement de données sont regroupées sous les deux procé-dures suivantes.…”

Section: Détermination De La Consanguinitéunclassified

Facteurs génétiques et environnementaux affectant la qualité de la semence de jeunes taureaux Holstein

Diarra¹,

Paré²,

Roy³

1997

Can. J. Anim. Sci.

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Canada J1M 1Z3. Reçu le 28 août, accepté le 31 octobre 1996.Diarra, M. S., Paré, J. P. et Roy, G. 1997. Facteurs génétiques et environnementaux affectant la qualité de la semence de jeunes taureaux Holstein. Can. J. Anim. Sci. 77: 77-85. Les données sur les caractéristiques de la semence de 294 jeunes taureaux Holstein âgés de 10 à 18 mois ont été analysées. Les taureaux ont été récoltés entre 1987 et 1989 et les quatre premières bonnes récoltes ont été retenues. L'année de la première récolte, la saison de l'année de récolte et le père du taureau ont été les facteurs analysés. L'âge des taureaux à la première récolte et le coefficient de consanguinité des taureaux ont été utilisés comme covariables. L'effet du père a été très significatif sur le volume (P < 0.001), la concentration (P < 0,05) et le nombre de spermatozoïdes motiles par éjaculation. La régression intra-classe a révélé qu'une augmentation de un jour d'âge des taureaux à la récolte augmente le volume, la concentration et la motilité des éjaculations et le nombre de spermatozoïdes motiles par éjaculation. Ces augmentations sont respectivement de 0,004 mL -1 ; 0,024 × 10 8 spermatozoïdes mL -1 ; 0,034% et 0,091 × 10 8 spermatozoïdes/éjac-ulation. Une augmentation d'un pour-cent du coefficient de consanguinité (F) diminue la motilité de 0,30%, la concentration d'é-jaculation de 0,14 × 10 8 mL -1 et provoque une baisse mo. Bulls were sampled between the years 1987 and 1989 and the first four suitable ejaculates from each bull were retained for study. The season of the year, the year and the sire of each bull were used as factors and the age of the bulls and the inbreeding coefficient were used as co-factors for the analyses of variance and covariance. The sire effect was declared significant for the volume (P < 0.001), concentration (P < 0.05) and the number of motile spermatozoa per ejaculate (P < 0.001). Intraclass regression studies indicated that each increase of 1 d of age in young bulls increased the volume of the ejaculate by 0.004 mL, the concentration and the motility of the ejaculate by 0.024 × 10 8 spermatozoa mL -1 and 0.034% and the number of motile spermatozoa by 0.091 × 10 8 per ejaculate. A 1% increase in the inbreeding coefficient (F) decreased the motility of spermatozoa by 0.30% and the concentration of the ejaculate by 0.14 × 10 8 mL, resulting in a decreased total number of inseminations possible by 13.83 doses. It also increased the number of rejected samples by 0.25 and delayed sexual maturity by 3 d. Heritability estimates of semen traits varied from 0.25 and 0.79. The genetic and phenotipic correlations were respectively -0.72 and -0.47 for the correlations between volume and concentration, 0.140 and 0.07 between volume and motility and -0.22 and -0.01 between motility and concentration.

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The Computation of Inbreeding Coefficients

Cited by 59 publications

References 0 publications

Technical note: Use of marker-based relationships with multiple-trait derivative-free restricted maximal likelihood

Technical note: Use of marker-based relationships with multiple-trait derivative-free restricted maximal likelihood

Genetic diversity among Canadienne, Brown Swiss, Holstein and Jersey cattle based on mitochondrial D-loop sequence variation

Facteurs génétiques et environnementaux affectant la qualité de la semence de jeunes taureaux Holstein

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