Methods to estimate effective population size using pedigree data: Examples in dog, sheep, cattle and horse

Autor: Grégoire Leroy, Etienne Verrier, Eleonore Charvolin, Tristan Mary-Huard, Sophie Danvy, Coralie Danchin-Burge
Přispěvatelé: Génétique Animale et Biologie Intégrative (GABI), AgroParisTech-Institut National de la Recherche Agronomique (INRA), Mathématiques et Informatique Appliquées (MIA-Paris), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Leroy, Grégoire
Jazyk: angličtina
Rok vydání: 2013
Předmět:
Male
[SDV.SA]Life Sciences [q-bio]/Agricultural sciences
bovin
Pedigree information
Breeding
Identity by descent
Effective population size
pédigrée
Statistics
Genetics(clinical)
Inbreeding
0303 health sciences
education.field_of_study
04 agricultural and veterinary sciences
General Medicine
Breed
Pedigree
Genetic structure
Female
Animals
Inbred Strains
mouton
Population
taille de la population
Biology
Evolution
Molecular
03 medical and health sciences
Dogs
Genetics
Animals
Horses
Sex Ratio
education
Ecology
Evolution
Behavior and Systematics
030304 developmental biology
Models
Statistical
Sheep
Models
Genetic
Research
0402 animal and dairy science
Horse
Genetic Variation
040201 dairy & animal science
Genetics
Population
Evolutionary biology
modèle computationnel
chien
Animal Science and Zoology
Cattle
cheval
Zdroj: Genetics Selection Evolution
Genetics Selection Evolution, BioMed Central, 2013, 45, online (january), Non paginé. ⟨10.1186/1297-9686-45-1⟩
Genetics Selection Evolution (45), 1-10. (2013)
Genetics, Selection, Evolution : GSE
ISSN: 0999-193X
1297-9686
Popis: Chantier qualité GA; Background: Effective population sizes of 140 populations (including 60 dog breeds, 40 sheep breeds, 20 cattle breeds and 20 horse breeds) were computed using pedigree information and six different computation methods. Simple demographical information (number of breeding males and females), variance of progeny size, or evolution of identity by descent probabilities based on coancestry or inbreeding were used as well as identity by descent rate between two successive generations or individual identity by descent rate.[br/] Results: Depending on breed and method, effective population sizes ranged from 15 to 133 056, computation method and interaction between computation method and species showing a significant effect on effective population size (P < 0.0001). On average, methods based on number of breeding males and females and variance of progeny size produced larger values (4425 and 356, respectively), than those based on identity by descent probabilities (average values between 93 and 203). Since breeding practices and genetic substructure within dog breeds increased inbreeding, methods taking into account the evolution of inbreeding produced lower effective population sizes than those taking into account evolution of coancestry. The correlation level between the simplest method (number of breeding males and females, requiring no genealogical information) and the most sophisticated one ranged from 0.44 to 0.60 according to species.[br/] Conclusions: When choosing a method to compute effective population size, particular attention should be paid to the species and the specific genetic structure of the population studied.
Databáze: OpenAIRE
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