Statistical models for the analysis of longitudinal traits in beef cattle under sequential selection

Toral, Fábio Luiz Buranelo; Merlo, F. A.; Raidan, Fernanda Santos Silva; Ribeiro, Virgínia Mara Pereira; Gouveia, Gabriela Canabrava; Abreu, Luíza Rodrigues Alves; Ventura, Henrique Torres

doi:10.1016/j.livsci.2019.103830

Cited by 6 publications

(10 citation statements)

References 28 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The similarity between BW heritabilities estimated with genomics (SNP-derived heritability), STM, and TTM serve as evidence for the adequacy of the low-density SNP panel (27K -Z-chip V2, Neogen, Lincoln, Nebraska, EUA) to capture the polygenetic component of the additive variance observed for BW in Nellore cattle. The heritability estimates of BW in this population were lower than the estimates found on the literature for Nellore cattle of similar ages raised in Brazil, using pedigree information only, and single and multiple trait models [42], and similar to the heritability estimated for BW at 555 days old for the same population [43]. It is important to note that selection can lead to lower genetic variability of a trait, and consequently, lower heritability [44].…”

Section: Genetic Parameters For Body Weight and Genotype X Parasite Burden Interactionmentioning

confidence: 55%

Unraveling the genetic variability of host resilience to endo and ectoparasites under natural infestation, in Nellore cattle

Gouveia

Ribeiro

Fortes

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

Background: Host resilience (HR) to parasites can affect growth in pastured raised cattle. This study is a detailed investigation of the genetic mechanisms of HR to ticks (TICK), gastrointestinal nematodes (GIN), and Eimeria spp. (EIM) under natural infestation. HR was defined as the slope coefficient of random regression models of body weight (BW) when TICK, GIN, and EIM burdens were used as environmental gradients. The BW was evaluated in five measurement events (ME): when animals were 331, 385, 443, 498, and 555 days old on average. 7307 BW records were available from 1712 animals weighted at least in one ME. Out of those, 1075 animals had valid genotypic information after quality control analysis that were used in genome-wide association studies (GWAS) and GWAS meta-analyses to identify genomic regions associated with HR. Results: Both the genetic correlations between intercept and HR to each parasite, and the genetic correlations between BW measured in animals submitted to different parasite burden indicated that there was genotype x parasite burden interaction for BW, and selection for BW under environment with controlled parasite burden might be an efficient strategy to improve both, BW and HR. Furthermore, there was no impact of age of measurement on genetic variance estimates for HR to different parasites. However, genetic correlation between HR to the same parasite measured in different ages ranged from low to moderate in magnitude, with a posteriori means (high posterior density interval with 90% of samples) varying from 0.13 (-0.05; 0.35) to 0.40 (0.15; 0.63) for TICK, from 0.11 (-0.06; 0.29) to 0.52 (0.37; 0.67) for GIN and from 0.25 (0.07; 0.43) to 0.56 (0.34; 0.77) for EIM. These results indicate the importance of age of measurement in studies on HR. Conclusions: HR to GIN and EIM can be used as a complementary tool to parasitic control management, and a multiple trait selection method that combine BW and HR to parasites should be used in parasitic endemic areas to avoid economic losses due parasitic diseases.

show abstract

Section: Genetic Parameters For Body Weight and Genotype X Parasite Burden Interactionmentioning

confidence: 55%

Unraveling the genetic variability of host resilience to endo and ectoparasites under natural infestation, in Nellore cattle

Gouveia

Ribeiro

Fortes

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

Section: Genetic Parameters For Body Weight and Genotype X Parasite Burden Interactionmentioning

confidence: 57%

Unraveling the genetic variability of host resilience to endo and ectoparasites under natural infestation, in Nellore cattle

Gouveia

Ribeiro

Fortes

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

Background: Host resilience (HR) to parasites can affect growth in pastured raised cattle. This study is a detailed investigation of the genetic mechanisms of HR to ticks (TICK), gastrointestinal nematodes (GIN), and Eimeria spp. (EIM) under natural infestation. HR was defined as the slope coefficient of random regression models of body weight (BW) when TICK, GIN, and EIM burdens were used as environmental gradients. The BW was evaluated in five measurement events (ME): when animals were 331, 385, 443, 498, and 555 days old on average. 7307 BW records were available from 1712 animals weighted at least in one ME. Out of those, 1075 animals had valid genotypic information after quality control analysis that were used in genome-wide association studies (GWAS) and GWAS meta-analyses to identify genomic regions associated with HR. Results: Both the genetic correlations between intercept and HR to each parasite, and the genetic correlations between BW measured in animals submitted to different parasite burden indicated that there was genotype x parasite burden interaction for BW, and selection for BW under environment with controlled parasite burden might be an efficient strategy to improve both, BW and HR. Furthermore, there was no impact of age of measurement on genetic variance estimates for HR to different parasites. However, genetic correlation between HR to the same parasite measured in different ages ranged from low to moderate in magnitude, with a posteriori means (high posterior density interval with 90% of samples) varying from 0.13 (-0.05; 0.35) to 0.40 (0.15; 0.63) for TICK, from 0.11 (-0.06; 0.29) to 0.52 (0.37; 0.67) for GIN and from 0.25 (0.07; 0.43) to 0.56 (0.34; 0.77) for EIM. Conclusions: These results indicate the importance of age of measurement in studies on HR. HR to GIN and EIM can be used as a complementary tool to parasitic control management, and a multiple trait selection method that combine BW and HR to parasites should be used in parasitic endemic areas to avoid economic losses due parasitic diseases.

show abstract

“…Selling poor-performance animals during intermediate measurement events of official performance tests is a common practice of beef cattle stock herds, aiming to maximize financial resources for the operation or to offer better environmental conditions to the best animals. This practice was named sequential selection by Toral et al (2019) and as an example of this, the authors cited the culling of lighter weaned calves which allows reducing the stocking rate for rearing the remaining calves during the post-weaning period. Similarly, the remaining animals selected at weaning can be selected again at future ages depending on the test they are in.…”

Section: Introductionmentioning

confidence: 99%

“…This practice was named sequential selection by Toral et al. (2019) and as an example of this, the authors cited the culling of lighter weaned calves which allows reducing the stocking rate for rearing the remaining calves during the post‐weaning period. Similarly, the remaining animals selected at weaning can be selected again at future ages depending on the test they are in.…”

Section: Introductionmentioning

confidence: 99%

Candidate genes for longitudinal traits under sequential sampling in beef cattle

Ribeiro,

Gouveia,

Toral

2023

J Animal Breeding Genetics

Self Cite

View full text Add to dashboard Cite

Both the measurement age of a longitudinal trait and the common pre‐sampling procedures used in beef cattle herds may affect the identification of a functional candidate gene (FCG) that is potentially associated with a trait. To identify the FCG that takes part in the genetic control of body weight at five different ages in a beef cattle population with and without sequential sampling, the animals were weighed at different measurement events, around 330, 385, 440, 495 and 550 days old. Genetic parameters were estimated for body weight at each age using a single trait (STM) and a random regression model (RRM). In addition, two different databases were used to estimate the genetic parameters: the first (DB100) was formed by all animals that were weighed in the five measurement events, and the second (DB70) has records of the same population, considering that 70% of the heaviest animals were selected after each measurement event. For DB100, genome‐wide association studies (GWAS) were performed with 21,667 SNP markers to identify genomic windows that explained at least 1% of the genetic variance. Additionally, prioritization analyses were performed and FCGs were selected. We associated seven different FCGs with body weight at different ages. Among them, the gene DUSP10 was suggested as FCG in all five ages evaluated. Genetic parameters estimated for body weight using DB100 were similar when STM and RRM were applied. However, when DB70 was used as phenotypic data, there were differences between the two models. When the STM was applied, there were differences between the genetic parameters estimated for body weight when DB100 or DB70 were used as sources of phenotypes, but not for the estimates obtained with RRM. The importance of each gene for animal growth can change at different ages, and different genes may be more relevant to body weight at each different growth stage for beef cattle. Besides, sequential sampling can affect the GWAS results of a longitudinal trait. The age of the animal when a longitudinal trait is measured and pre‐sampling can also contribute to inconsistencies in GWAS results for body weight in beef cattle, depending on the time when that data were collected, and consequently on the identification of FCG between studies, even when models that consider a covariance structure are used.

show abstract

Statistical models for the analysis of longitudinal traits in beef cattle under sequential selection

Cited by 6 publications

References 28 publications

Unraveling the genetic variability of host resilience to endo and ectoparasites under natural infestation, in Nellore cattle

Unraveling the genetic variability of host resilience to endo and ectoparasites under natural infestation, in Nellore cattle

Unraveling the genetic variability of host resilience to endo and ectoparasites under natural infestation, in Nellore cattle

Candidate genes for longitudinal traits under sequential sampling in beef cattle

Contact Info

Product

Resources

About