Equivalence of variance components between standard and recursive genetic models using LDL' transformations
CONCLUSIONS: The LDL' or block-LDL' transformations applied to the variance component estimates achieved from a multiple trait mixed model enabled inference across multiple sets of recursive models, with the sole prerequisite of being likelihood equivalent. Furthermore, the aforementioned transformations simplify the handling of missing data when conducting inference within the realm of recursive models.PMID:38698321 | DOI:10.1186/s12711-024-00901-x (Source: Genet Sel Evol)
Source: Genet Sel Evol - May 2, 2024 Category: Genetics & Stem Cells Authors: Luis Varona David L ópez-Carbonell Houssemeddine Srihi Carlos Herv ás-Rivero Óscar González-Recio Juan Altarriba Source Type: research
Genetic legacy and adaptive signatures: investigating the history, diversity, and selection signatures in Rendena cattle resilient to eighteenth century rinderpest epidemics
CONCLUSIONS: The Rendena breed, while sharing a common origin with Brown Swiss, has developed distinct traits that enable it to thrive in the Alpine environment and make it highly valued by local farmers. Preserving these adaptive features is essential, not only for maintaining genetic diversity and enhancing the ability of this traditional animal husbandry to adapt to changing environments, but also for guaranteeing the resilience and sustainability of both this livestock system and the livelihoods within the Rendena valley.PMID:38698323 | DOI:10.1186/s12711-024-00900-y (Source: Genet Sel Evol)
Source: Genet Sel Evol - May 2, 2024 Category: Genetics & Stem Cells Authors: Elisa Somenzi Erika Partel Mario Barbato Ana Mar ía Chero Osorio Licia Colli Niccol ò Franceschi Roberto Mantovani Fabio Pilla Matteo Komjanc Alessandro Achilli Heidi Christine Hauffe Paolo Ajmone Marsan Source Type: research
Estimating genomic relationships of metafounders across and within breeds using maximum likelihood, pseudo-expectation-maximization maximum likelihood and increase of relationships
CONCLUSIONS: We derived ML, pseudo-EM and pseudo-EM+ Δ F methods to estimate Γ in many realistic settings. Estimates are accurate in real and simulated data and have a low computational cost.PMID:38698347 | DOI:10.1186/s12711-024-00892-9 (Source: Genet Sel Evol)
Source: Genet Sel Evol - May 2, 2024 Category: Genetics & Stem Cells Authors: Andres Legarra Matias Bermann Quanshun Mei Ole F Christensen Source Type: research
Redefining and interpreting genomic relationships of metafounders
Genet Sel Evol. 2024 May 2;56(1):34. doi: 10.1186/s12711-024-00891-w.ABSTRACTMetafounders are a useful concept to characterize relationships within and across populations, and to help genetic evaluations because they help modelling the means and variances of unknown base population animals. Current definitions of metafounder relationships are sensitive to the choice of reference alleles and have not been compared to their counterparts in population genetics-namely, heterozygosities, FST coefficients, and genetic distances. We redefine the relationships across populations with an arbitrary base of a maximum heterozygosity p...
Source: Genet Sel Evol - May 2, 2024 Category: Genetics & Stem Cells Authors: Andres Legarra Matias Bermann Quanshun Mei Ole F Christensen Source Type: research
Genomic prediction of blood biomarkers of metabolic disorders in Holstein cattle using parametric and nonparametric models
CONCLUSIONS: Our results indicate that the Stack approach was more accurate in predicting metabolic disturbances than GBLUP, BayesB, ENET, and GBM and seemed to be competitive for predicting complex phenotypes with various degrees of mode of inheritance, i.e. additive and non-additive effects. Selecting markers based on GBM improved accuracy of GBLUP.PMID:38684971 | PMC:PMC11057143 | DOI:10.1186/s12711-024-00903-9 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 29, 2024 Category: Genetics & Stem Cells Authors: Lucio F M Mota Diana Giannuzzi Sara Pegolo Enrico Sturaro Daniel Gianola Riccardo Negrini Erminio Trevisi Paolo Ajmone Marsan Alessio Cecchinato Source Type: research
Genomic prediction of blood biomarkers of metabolic disorders in Holstein cattle using parametric and nonparametric models
CONCLUSIONS: Our results indicate that the Stack approach was more accurate in predicting metabolic disturbances than GBLUP, BayesB, ENET, and GBM and seemed to be competitive for predicting complex phenotypes with various degrees of mode of inheritance, i.e. additive and non-additive effects. Selecting markers based on GBM improved accuracy of GBLUP.PMID:38684971 | PMC:PMC11057143 | DOI:10.1186/s12711-024-00903-9 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 29, 2024 Category: Genetics & Stem Cells Authors: Lucio F M Mota Diana Giannuzzi Sara Pegolo Enrico Sturaro Daniel Gianola Riccardo Negrini Erminio Trevisi Paolo Ajmone Marsan Alessio Cecchinato Source Type: research
Genomic prediction of blood biomarkers of metabolic disorders in Holstein cattle using parametric and nonparametric models
CONCLUSIONS: Our results indicate that the Stack approach was more accurate in predicting metabolic disturbances than GBLUP, BayesB, ENET, and GBM and seemed to be competitive for predicting complex phenotypes with various degrees of mode of inheritance, i.e. additive and non-additive effects. Selecting markers based on GBM improved accuracy of GBLUP.PMID:38684971 | DOI:10.1186/s12711-024-00903-9 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 29, 2024 Category: Genetics & Stem Cells Authors: Lucio F M Mota Diana Giannuzzi Sara Pegolo Enrico Sturaro Daniel Gianola Riccardo Negrini Erminio Trevisi Paolo Ajmone Marsan Alessio Cecchinato Source Type: research
Uncertainty in the mating strategy of honeybees causes bias and unreliability in the estimates of genetic parameters
CONCLUSIONS: Knowing only the dam of the DPQ(s) used in each mating may lead to erroneous assumptions on how DPQs were used and severely bias the estimates of genetic parameters and trends. Thus, we recommend keeping track of DPQs in the pedigree, and not only of the dams of DPQ(s). Records from DPQ colonies with queens open-mated to a heterogeneous drone population can be integrated by adding non-genetic effects to the statistical evaluation model.PMID:38632535 | PMC:PMC11022492 | DOI:10.1186/s12711-024-00898-3 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 17, 2024 Category: Genetics & Stem Cells Authors: Tristan Kistler Evert W Brascamp Benjamin Basso Piter Bijma Florence Phocas Source Type: research
Uncertainty in the mating strategy of honeybees causes bias and unreliability in the estimates of genetic parameters
CONCLUSIONS: Knowing only the dam of the DPQ(s) used in each mating may lead to erroneous assumptions on how DPQs were used and severely bias the estimates of genetic parameters and trends. Thus, we recommend keeping track of DPQs in the pedigree, and not only of the dams of DPQ(s). Records from DPQ colonies with queens open-mated to a heterogeneous drone population can be integrated by adding non-genetic effects to the statistical evaluation model.PMID:38632535 | PMC:PMC11022492 | DOI:10.1186/s12711-024-00898-3 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 17, 2024 Category: Genetics & Stem Cells Authors: Tristan Kistler Evert W Brascamp Benjamin Basso Piter Bijma Florence Phocas Source Type: research
Uncertainty in the mating strategy of honeybees causes bias and unreliability in the estimates of genetic parameters
CONCLUSIONS: Knowing only the dam of the DPQ(s) used in each mating may lead to erroneous assumptions on how DPQs were used and severely bias the estimates of genetic parameters and trends. Thus, we recommend keeping track of DPQs in the pedigree, and not only of the dams of DPQ(s). Records from DPQ colonies with queens open-mated to a heterogeneous drone population can be integrated by adding non-genetic effects to the statistical evaluation model.PMID:38632535 | PMC:PMC11022492 | DOI:10.1186/s12711-024-00898-3 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 17, 2024 Category: Genetics & Stem Cells Authors: Tristan Kistler Evert W Brascamp Benjamin Basso Piter Bijma Florence Phocas Source Type: research
Uncertainty in the mating strategy of honeybees causes bias and unreliability in the estimates of genetic parameters
CONCLUSIONS: Knowing only the dam of the DPQ(s) used in each mating may lead to erroneous assumptions on how DPQs were used and severely bias the estimates of genetic parameters and trends. Thus, we recommend keeping track of DPQs in the pedigree, and not only of the dams of DPQ(s). Records from DPQ colonies with queens open-mated to a heterogeneous drone population can be integrated by adding non-genetic effects to the statistical evaluation model.PMID:38632535 | PMC:PMC11022492 | DOI:10.1186/s12711-024-00898-3 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 17, 2024 Category: Genetics & Stem Cells Authors: Tristan Kistler Evert W Brascamp Benjamin Basso Piter Bijma Florence Phocas Source Type: research
Uncertainty in the mating strategy of honeybees causes bias and unreliability in the estimates of genetic parameters
CONCLUSIONS: Knowing only the dam of the DPQ(s) used in each mating may lead to erroneous assumptions on how DPQs were used and severely bias the estimates of genetic parameters and trends. Thus, we recommend keeping track of DPQs in the pedigree, and not only of the dams of DPQ(s). Records from DPQ colonies with queens open-mated to a heterogeneous drone population can be integrated by adding non-genetic effects to the statistical evaluation model.PMID:38632535 | PMC:PMC11022492 | DOI:10.1186/s12711-024-00898-3 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 17, 2024 Category: Genetics & Stem Cells Authors: Tristan Kistler Evert W Brascamp Benjamin Basso Piter Bijma Florence Phocas Source Type: research
Uncertainty in the mating strategy of honeybees causes bias and unreliability in the estimates of genetic parameters
CONCLUSIONS: Knowing only the dam of the DPQ(s) used in each mating may lead to erroneous assumptions on how DPQs were used and severely bias the estimates of genetic parameters and trends. Thus, we recommend keeping track of DPQs in the pedigree, and not only of the dams of DPQ(s). Records from DPQ colonies with queens open-mated to a heterogeneous drone population can be integrated by adding non-genetic effects to the statistical evaluation model.PMID:38632535 | DOI:10.1186/s12711-024-00898-3 (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 17, 2024 Category: Genetics & Stem Cells Authors: Tristan Kistler Evert W Brascamp Benjamin Basso Piter Bijma Florence Phocas Source Type: research
Estimating genetic parameters of digital behavior traits and their relationship with production traits in purebred pigs
CONCLUSIONS: Digital phenotyping is a new and low-cost method to record behavior phenotypes, but thorough data cleaning procedures are needed. Evaluating behavioral traits at different time intervals offers a deeper insight into their changes throughout the growth periods and their relationship with production traits, which may be recorded at a less frequent basis.PMID:38627636 | PMC:PMC11022375 | DOI:10.1186/s12711-024-00902-w (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 16, 2024 Category: Genetics & Stem Cells Authors: Mary Kate Hollifield Ching-Yi Chen Eric Psota Justin Holl Daniela Lourenco Ignacy Misztal Source Type: research
Estimating genetic parameters of digital behavior traits and their relationship with production traits in purebred pigs
CONCLUSIONS: Digital phenotyping is a new and low-cost method to record behavior phenotypes, but thorough data cleaning procedures are needed. Evaluating behavioral traits at different time intervals offers a deeper insight into their changes throughout the growth periods and their relationship with production traits, which may be recorded at a less frequent basis.PMID:38627636 | DOI:10.1186/s12711-024-00902-w (Source: Genet Sel Evol)
Source: Genet Sel Evol - April 16, 2024 Category: Genetics & Stem Cells Authors: Mary Kate Hollifield Ching-Yi Chen Eric Psota Justin Holl Daniela Lourenco Ignacy Misztal Source Type: research
