Assessing different metrics of pedigree and genomic inbreeding and inbreeding effect on growth, fertility, and feed efficiency traits in a closed-herd Nellore cattle population.

Autor: Bem RD; Institute of Animal Science, Sertãozinho, SP, Brazil. ricardo.bem@unesp.br.; Department of Animal Science, Faculty of Agricultural and Veterinary Sciences, Sao Paulo State University, Jaboticabal, SP, Brazil. ricardo.bem@unesp.br., Benfica LF; Department of Animal Sciences, Purdue University, 270 S. Russell Street, West Lafayette, IN, 47907, USA., Silva DA; Department of Animal Sciences, Federal University of Viçosa, Viçosa, MG, Brazil., Carrara ER; Department of Animal Sciences, Federal University of Viçosa, Viçosa, MG, Brazil., Brito LF; Department of Animal Sciences, Purdue University, 270 S. Russell Street, West Lafayette, IN, 47907, USA., Mulim HA; Department of Animal Sciences, Purdue University, 270 S. Russell Street, West Lafayette, IN, 47907, USA., Borges MS; Department of Pathology, Reproduction and One Health, Faculty of Agricultural and Veterinary Sciences, Sao Paulo State University, Jaboticabal, SP, Brazil., Cyrillo JNSG; Institute of Animal Science, Sertãozinho, SP, Brazil., Canesin RC; Institute of Animal Science, Sertãozinho, SP, Brazil., Bonilha SFM; Institute of Animal Science, Sertãozinho, SP, Brazil., Mercadante MEZ; Institute of Animal Science, Sertãozinho, SP, Brazil. mezmercadante@gmail.com.
Jazyk: angličtina
Zdroj: BMC genomics [BMC Genomics] 2024 Jul 30; Vol. 25 (1), pp. 738. Date of Electronic Publication: 2024 Jul 30.
DOI: 10.1186/s12864-024-10641-3
Abstrakt: Background: The selection of individuals based on their predicted breeding values and mating of related individuals can increase the proportion of identical-by-descent alleles. In this context, the objectives of this study were to estimate inbreeding coefficients based on alternative metrics and data sources such as pedigree (FPED), hybrid genomic relationship matrix H (FH), and ROH of different length (FROH); and calculate Pearson correlations between the different metrics in a closed Nellore cattle population selected for body weight adjusted to 378 days of age (W378). In addition to total FROH (all classes) coefficients were also estimated based on the size class of the ROH segments: FROH1 (1-2 Mb), FROH2 (2-4 Mb), FROH3 (4-8 Mb), FROH4 (8-16 Mb), and FROH5 (> 16 Mb), and for each chromosome (FROH_CHR). Furthermore, we assessed the effect of each inbreeding metric on birth weight (BW), body weights adjusted to 210 (W210) and W378, scrotal circumference (SC), and residual feed intake (RFI). We also evaluated the chromosome-specific effects of inbreeding on growth traits.
Results: The correlation between FPED and FROH was 0.60 while between FH and FROH and FH and FPED were 0.69 and 0.61, respectively. The annual rate of inbreeding was 0.16% for FPED, 0.02% for FH, and 0.16% for FROH. A 1% increase in FROH5 resulted in a reduction of up to -1.327 ± 0.495 kg in W210 and W378. Four inbreeding coefficients (FPED, FH, FROH2, and FROH5) had a significant effect on W378, with reductions of up to -3.810 ± 1.753 kg per 1% increase in FROH2. There was an unfavorable effect of FPED on RFI (0.01 ± 0.0002 kg dry matter/day) and of FROH on SC (-0.056 ± 0.022 cm). The FROH_CHR coefficients calculated for BTA3, BTA5, and BTA8 significantly affected the growth traits.
Conclusions: Inbreeding depression was observed for all traits evaluated. However, these effects were greater for the criterion used for selection of the animals (i.e., W378). The increase in the genomic inbreeding was associated with a higher inbreeding depression on the traits evaluated when compared to pedigree-based inbreeding. Genomic information should be used as a tool during mating to optimize control of inbreeding and, consequently, minimize inbreeding depression in Nellore cattle.
(© 2024. The Author(s).)
Databáze: MEDLINE
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