A5063601848- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Genetics and Plant Breeding
- Effects of Environmental Stressors on Livestock
- Pulsars and Gravitational Waves Research
- Animal Nutrition and Physiology
- Gene expression and cancer classification
- Gamma-ray bursts and supernovae
- Reproductive Physiology in Livestock
- Animal Behavior and Welfare Studies
- Ruminant Nutrition and Digestive Physiology
- Cancer-related molecular mechanisms research
- Animal Genetics and Reproduction
- Astrophysical Phenomena and Observations
- Nutrition, Genetics, and Disease
- Agriculture Sustainability and Environmental Impact
- Forest ecology and management
- Plant pathogens and resistance mechanisms
- Genomics and Rare Diseases
- Milk Quality and Mastitis in Dairy Cows
- Cosmology and Gravitation Theories
- Plant Pathogens and Fungal Diseases
- COVID-19 Clinical Research Studies
- High-pressure geophysics and materials
- Wheat and Barley Genetics and Pathology
Instituto Nacional de Investigación Agropecuaria
2016-2025
Sociedad Española de Endocrinología y Nutrición
2025
Clinica Universidad de Navarra
2025
Stanford University
2024
Integrative Neuroscience Initiative on Alcoholism
2019
University of Georgia
2007-2011
Universitat Autònoma de Barcelona
2010
El Camino College
1976
The first national single-step, full-information (phenotype, pedigree, and marker genotype) genetic evaluation was developed for final score of US Holsteins. Data included scores recorded from 1955 to 2009 6,232,548 Holsteins cows. BovineSNP50 (Illumina, San Diego, CA) genotypes the Cooperative Dairy DNA Repository (Beltsville, MD) were available 6,508 bulls. Three analyses used a repeatability animal model as currently evaluation. 2 up 2004. analysis only pedigree-based relationship matrix....
A common problem for genome-wide association analysis (GWAS) is lack of power detection quantitative trait loci (QTLs) and precision fine mapping. Here, we present a statistical method, termed single-step GBLUP (ssGBLUP), which increases both without increasing genotyping costs by taking advantage phenotypes from other related unrelated subjects. The procedure achieves these goals blending traditional pedigree relationships with those derived genetic markers, conversion estimated breeding...
The incorporation of genomic coefficients into the numerator relationship matrix allows estimation breeding values using all phenotypic, pedigree and information simultaneously. In such a single-step procedure, pedigree-based relationships have to be compatible. As there are many options create relationships, is question which optimal what effects deviations from optimality are. Data litter size (total number born per litter) for 338,346 sows were analyzed. Illumina PorcineSNP60 BeadChip...
Summary Prediction of genetic merit or disease risk using marker information is becoming a common practice for selection livestock and plant species. For the successful application genome-wide marker-assisted (GWMAS), genomic predictions should be accurate unbiased. The effect on bias accuracy was studied in two simulated animal populations under weak strong with several heritabilities. values by best-linear unbiased prediction (BLUP) data either from relatives summarized pseudodata...
The purpose of this study was to compare results obtained from various methodologies for genome-wide association studies, when applied real data, in terms number and commonality regions identified their genetic variance explained, computational speed, possible pitfalls interpretations results. Methodologies include: two iteratively reweighted single-step genomic BLUP procedures (ssGWAS1 ssGWAS2), a single-marker model (CGWAS), BayesB. ssGWAS methods utilize breeding values (GEBVs) based on...
Computing the inverse of genomic relationship matrix using recursion was investigated. A traditional algorithm to invert numerator is based on observation that conditional expectation for an additive effect 1 animal given effects all other animals depends its sire and dam only, each with a coefficient 0.5. With relationships, such genotyped animals, coefficients do not have any set value. For animal, plus variance can be called recursion. If recursions are known, mixed model equations solved...
Abstract We report the observation of a coalescing compact binary with component masses 2.5–4.5 M ⊙ and 1.2–2.0 (all measurements quoted at 90% credible level). The gravitational-wave signal GW230529_181500 was observed during fourth observing run LIGO–Virgo–KAGRA detector network on 2023 May 29 by LIGO Livingston observatory. primary source has mass less than 5 99% credibility. cannot definitively determine from data alone whether either is neutron star or black hole. However, given...
We report the observation of a coalescing compact binary with component masses $2.5\text{-}4.5~M_\odot$ and $1.2\text{-}2.0~M_\odot$ (all measurements quoted at 90% credible level). The gravitational-wave signal GW230529_181500 was observed during fourth observing run LIGO-Virgo-KAGRA detector network on 2023 May 29 by LIGO Livingston Observatory. primary source has mass less than $5~M_\odot$ 99% credibility. cannot definitively determine from data alone whether either is neutron star or...
Summary Genomic evaluations can be calculated using a unified procedure that combines phenotypic, pedigree and genomic information. Implementation of such requires the inverse relationship matrix based on relationships. The objective this study was to investigate efficient computing options create matrices markers information as well their inverses. SNP maker simulated for panel 40 K SNPs, with number genotyped animals up 30 000. Matrix multiplication in computation by simple ‘do’ loop, two...
Predictive ability of genomic EBV when using single-step BLUP (ssGBLUP) in Angus cattle was investigated. Over 6 million records were available on birth weight (BiW) and weaning (WW), almost 3.4 postweaning gain (PWG), over 1.3 calving ease (CE). Genomic information on, at most, 51,883 animals, which included high low accuracy animals. Traditional computed by ssGBLUP indirect prediction based SNP effects derived from ssGBLUP; calculated the following reference populations: ref_2k (contains...
Genomic Best Linear Unbiased Predictor (GBLUP) assumes equal variance for all single nucleotide polymorphisms (SNP). When traits are influenced by major SNP, Bayesian methods have the advantage of SNP selection. To overcome limitation GBLUP, unequal or weights applied in a method called weighted GBLUP (WGBLUP). If only fraction animals is genotyped, single-step WGBLUP (WssGBLUP) can be used. Default WssGBLUP obtained iteratively based on effect squared (u^2) and/or heterozygosity. optimal,...
Abstract Recent use of genomic (marker-based) relationships shows that exist within and across base population (breeds or lines). However, current treatment pedigree is unable to consider populations, although such must due finite size the ancestral connections between populations. This complicates conciliation both approaches and, in particular, combining with relationships. We present a coherent theoretical framework suggest conceptual considers each as finite-sized pool gametes. generates...
Single-step genomic best linear unbiased prediction (SSGBLUP) is a comprehensive method for prediction. Point estimates of marker effects from SSGBLUP are often used genome-wide association studies (GWAS) without formal framework hypothesis testing. Our objective was to implement p-values single-marker GWAS within the single-step (SSGWAS) by deriving computational algorithms and procedures, applying these large beef cattle population.P-values were obtained based on error (co)variances single...
Multi-trait genomic prediction models are useful to allocate available resources in breeding programs by targeted phenotyping of correlated traits when predicting expensive and labor-intensive quality parameters. can be used predict or where depth could larger than traits, reducing improving accuracy. This is particularly important the context allocating resource plant programs. The objective this work was evaluate multi-trait predictive ability with different phenotypic information from...
Abstract Despite the growing number of binary black hole coalescences confidently observed through gravitational waves so far, astrophysical origin these binaries remains uncertain. Orbital eccentricity is one clearest tracers formation channels. Identifying eccentricity, however, challenging due to limited availability waveforms that include effects eccentricity. Here, we present observational results for a waveform-independent search sensitive eccentric coalescences, covering third...
Data of broiler chickens for 2 pure lines across 3 generations were used genomic evaluation. A complete population (full data set; FDS) consisted 183,784 and 164,246 broilers the lines. The genotyped subsets (SUB) 3,284 3,098 with 57,636 SNP. Genotyped animals preselected based on more than 20 traits different index applied to each line. Three analyzed: BW at 6 wk (BW6), ultrasound measurement breast meat (BM), leg score (LS) coded 1 = no yes defect. Some phenotypes missing BM. training...
Phenotypic data on BW and breast meat area were available up to 287,614 broilers. A total of 4,113 birds genotyped for 57,636 SNP. Data analyzed by a single-step genomic BLUP (ssGBLUP), which accounts all phenotypic, pedigree, information. The relationship matrix (G) in ssGBLUP was constructed using either equal (0.5; GEq) or current (GC) allele frequencies, with SNP minor frequencies (MAF) below multiple thresholds (0.1, 0.2, 0.3, 0.4) ignored. Additionally, pedigree-based (A22) available....
Summary In single‐step genomic evaluation using best linear unbiased prediction (ss GBLUP ), predictions are calculated with a relationship matrix that combines pedigree and information. For missing pedigrees, unknown selection processes, or inclusion of several populations, BLUP model can include unknown‐parent groups ( UPG ) in the animal effect. ss , equations also involve contributions from relationships. When those ignored, solutions genetic be biased. Options to eliminate reduce such...
Reliability of predictions from single-step genomic BLUP (ssGBLUP) can be calculated by matrix inversion, but that is not feasible for large data sets. Two methods approximating reliability were developed based on the decomposition a function into contributions records, pedigrees, and genotypes. Those expressed in record or daughter equivalents. The first approximation method involved inversion contains inverses relationship pedigree genotyped animals. second only diagonal elements those...