Genetic parameters and genomic regions associated with calving ease in primiparous Nellore heifers

Abstract

The aim of this study was to estimate genetic parameters and to identify genomic regions associated with the calving ease (CE) in precocious Nellore heifers. A total of 1,277 CE phenotypes were collected and scored into two categories: i- non assisted calving, categorized as success (1) and ii- assisted calving where heifers required any form of assistance or intervention to give birth, categorized as failure (2). A pedigree structure containing the identification of the animal's sire and dam was used, with the relationship matrix comprising a total of 6,511 animals. Genotypic data from 1,201 animals were obtained using low-density panel (Clarifide Nelore 3.1) encompassing over 29,001 single nucleotide polymorphisms (SNP) markers. A threshold sire-maternal grandsire model (S-MGS) was used to estimate the genetic parameters, which included sire, maternal grandsire and residual effects as random effects and the fixed effects of contemporary groups (farm and year of calving, sex) and birth weight of the calf as covariable (linear effect). Genomic breeding values were estimated using an animal model with the direct and maternal genetic variances which were previously obtained by means of a S-MGS threshold model. The direct and maternal heritability estimates for CE were obtained considering the covariance of direct and maternal effects fixed as zero. Regions that accounted for more than 0.5% of the additive genetic variance were used. The direct and maternal heritability estimates for CE were low (0.18) and moderate (0.39) respectively, indicating that genetic progress for this trait is feasible, and so, it would respond favorably to direct selection. Genes identified within the significant windows, such as CA8, FAM110B, TOX, ARID1A, RBM15, HSF1 and PLAG1 were found to be related with maternal and direct effects on CE. Gene enrichment analysis revealed processes that might directly influence fetal processes involved in female pregnancy and stress response. These results should help to better understand the genetic and physiological mechanisms regulating placenta development and fetal development, and this information might be useful for future genomic studies in Nellore cattle.