Genome-wide association studies for tick resistance in Bos taurus × Bos indicus crossbred cattle: A deeper look into this intricate mechanism

Otto, Pamela Itajara; Guimarães, Simone Eliza Facioni; Verardo, Lucas Lima; Azevedo, Ana Luisa Sousa; Vandenplas, Jérémie; Soares, A. C. C.; Sevillano, Claudia A.; Veroneze, Renata; Pires, Maria de Fátima Ávila; Freitas, Célio de; Prata, Márcia Cristina de Azevedo; Furlong, John; Verneque, R.S.; Martins, Marta Fonseca; Panetto, J. C. do C.; Carvalho, Wanessa A.; Gobo, Diego Ortunio Rosa; Silva, Marcos Vinícius Gualberto Barbosa da; Machado, M. A.

doi:10.3168/jds.2017-14223

Cited by 31 publications

(28 citation statements)

References 72 publications

(87 reference statements)

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“…Heterosis effects has immense importance in the performance of crossbreeds in many production systems (Schiermiester et al, 2015;Otto et al, 2018;Prastowo et al, 2021). Although the genetic basis of heterosis is still a subject of investigation, its effect is difficult to quantify.…”

Section: Discussionmentioning

confidence: 99%

Estimation of genetic parameters for weaning and yearling weights in a composite population used to form the Purunã breed

Otto¹,

Santos²,

Perotto³

et al. 2021

Revista Brasileira De Zootecnia

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We aimed to evaluate the effects of sex and the linear and quadratic components of age of dam at calving, as well as apply a mixed model including maternal effect for the genetic evaluation of weaning (WW) and yearling (YW) weights. The phenotypic database was composed by Charolais, Caracu, Aberdeen Angus, and Canchim purebred and crossbred animals. Single-trait analyses were performed using models that included the maternal effect for WW and YW traits, and a model ignoring this effect on YW (YWNM). The Deviance Information Criterion (DIC), model posterior probabilities (MPP), accuracy of breeding values (ACC), and Spearman's rank correlation were applied to compare the models including and ignoring the maternal effect on YW. Sex and age of dam at calving had significant effects on WW and YW. The direct heritability estimates were 0.21±0.03 and 0.05±0.02, and the maternal heritabilities were 0.11±0.02 and 0.02±0.01 for WW and YW, respectively. The heritabilities estimated for YW may have been influenced by the several genetic groups in the population and by used conventional animal model, which may not have been the better fit model to evaluate YW in this population. The DIC, MPP, and ACC values indicated that YW outperformed the YWNM model, but the rank correlation and percentages of individuals selected in common suggested that the best animals would be selected independently of the model chosen.

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Section: Discussionmentioning

confidence: 99%

Estimation of genetic parameters for weaning and yearling weights in a composite population used to form the Purunã breed

Otto¹,

Santos²,

Perotto³

et al. 2021

Revista Brasileira De Zootecnia

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“…In particular, several SNPs in this gene are associated with yearling weight in a tropical composite breed (BovineHD0500013787 on BTA5:47,724,746 explaining 5.35% of the genetic variance and with a − log(P) = 13.7) and with reproductive traits, scrotum circumference and puberty and post-partum anoestrus interval (BovineHD0500013788 on BTA5:47,727,773, explaining 2.50% and 3.87% of genetic variance, respectively, p-value < 10 −7 ) [66,67]. Furthermore, HELB is co-expressed with MYO5A [98,99], which was recently shown to be associated with tick resistance in Bos taurus × Bos indicus crossbred cattle [100]. We also showed that some SNPs are present only in the genome of cattle with indicine ancestry or introgression, including African cattle (indicine as well as taurine) and European 'drought' resistance breeds such as Red Anatolian, or Italian breeds, Marchigiana, Chianina and Piedmontese.…”

Section: Discussionmentioning

confidence: 99%

Selection signatures in tropical cattle are enriched for promoter and coding regions and reveal missense mutations in the damage response gene HELB

et al. 2020

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Background: Distinct domestication events, adaptation to different climatic zones, and divergent selection in productive traits have shaped the genomic differences between taurine and indicine cattle. In this study, we assessed the impact of artificial selection and environmental adaptation by comparing whole-genome sequences from European taurine and Asian indicine breeds and from African cattle. Next, we studied the impact of divergent selection by exploiting predicted and experimental functional annotation of the bovine genome. Results: We identified selective sweeps in beef cattle taurine and indicine populations, including a 430-kb selective sweep on indicine cattle chromosome 5 that is located between 47,670,001 and 48,100,000 bp and spans five genes, i.e. HELB, IRAK3, ENSBTAG00000026993, GRIP1 and part of HMGA2. Regions under selection in indicine cattle display significant enrichment for promoters and coding genes. At the nucleotide level, sites that show a strong divergence in allele frequency between European taurine and Asian indicine are enriched for the same functional categories. We identified nine single nucleotide polymorphisms (SNPs) in coding regions that are fixed for different alleles between subspecies, eight of which were located within the DNA helicase B (HELB) gene. By mining information from the 1000 Bull Genomes Project, we found that HELB carries mutations that are specific to indicine cattle but also found in taurine cattle, which are known to have been subject to indicine introgression from breeds, such as N'Dama, Anatolian Red, Marchigiana, Chianina, and Piedmontese. Based on in-house genome sequences, we proved that mutations in HELB segregate independently of the copy number variation HMGA2-CNV, which is located in the same region. Conclusions: Major genomic sequence differences between Bos taurus and Bos indicus are enriched for promoter and coding regions. We identified a 430-kb selective sweep in Asian indicine cattle located on chromosome 5, which carries SNPs that are fixed in indicine populations and located in the coding sequences of the HELB gene. HELB is involved in the response to DNA damage including exposure to ultraviolet light and is associated with reproductive traits and yearling weight in tropical cattle. Thus, HELB likely contributed to the adaptation of tropical cattle to their harsh environment.

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“…Variation in natural resistance is a consequence of the animals' ability to respond immunologically to tick infestation. Different estimates of heritability for the tick count in cattle are reported in the literature, ranging from 0.12 (aYRES et al, 2014) to 0.54 (oTTo et al, 2018).…”

Section: Feltes Et Almentioning

confidence: 99%

Genetic and environmental factors that affect tick infestation in Nelore x Angus crossbreed cattle

et al. 2021

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This study evaluated the effects of seasons and latitude on tick counting and determined the best model to estimate genetic parameters for tick count and hair coat. Records of animals naturally exposed to ticks on farms in several Brazilian states and in Paraguay were used. The ANOVA was used to verify the effects of seasons and latitude on the tick count trait. Spring was the season with the highest average, followed by summer and autumn, which showed no differences between them. The winter presented the lowest average values. Latitude -11° had the highest mean value followed by latitude -18°. The Bayesian approach was used to evaluate tick count and hair coat and to identify a suitable model for estimating genetic parameters for use in genetic evaluations. The data were analyzed using an animal model with four different specifications for “fixed” purposes. The inference was based on a Markov chain Monte Carlo (MCMC). The criteria for selection of the Bayesian model indicated that the M1 model, which considered the breed composition in the contemporary group, was superior to the other models, both for tick count and hair coat. Heritability estimates for tick count and hair coat obtained using the M1 model were 0.14 and 0.22, respectively. The rank correlations between the models for tick count and hair coat were estimated and reordering was verified for tick count. The estimated genetic correlation between tick count and hair coat traits was negative (-0.12). These findings suggest that different genes regulate tick count and hair coat.

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Genome-wide association studies for tick resistance in Bos taurus × Bos indicus crossbred cattle: A deeper look into this intricate mechanism

Cited by 31 publications

References 72 publications

Estimation of genetic parameters for weaning and yearling weights in a composite population used to form the Purunã breed

Estimation of genetic parameters for weaning and yearling weights in a composite population used to form the Purunã breed

Selection signatures in tropical cattle are enriched for promoter and coding regions and reveal missense mutations in the damage response gene HELB

Genetic and environmental factors that affect tick infestation in Nelore x Angus crossbreed cattle

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