Genome-wide copy number variation (CNV) detection in Nelore cattle reveals highly frequent variants in genome regions harboring QTLs affecting production traits.

Background: Copy number variations (CNVs) have been shown to account for substantial portions of observed genomic variation and have been associated with qualitative and quantitative traits and the onset of disease in a number of species. Information from high-resolution studies to detect, characterize and estimate population-specific variant frequencies will facilitate the incorporation of CNVs in genomic studies to identify genes affecting traits of importance. Results: Genome-wide CNVs were detected in high-density single nucleotide polymorphism (SNP) genotyping data from 1,717 Nelore (Bos indicus) cattle, and in NGS data from eight key ancestral bulls. A total of 68,007 and 12,786 distinct CNVs were observed, respectively. Cross-comparisons of results obtained for the eight resequenced animals revealed that 92 % of the CNVs were observed in both datasets, while 62 % of all detected CNVs were observed to overlap with previously validated cattle copy number variant regions (CNVRs). Observed CNVs were used for obtaining breed-specific CNV frequencies and identification of CNVRs, which were subsequently used for gene annotation. A total of 688 of the detected CNVRs were observed to overlap with 286 non-redundant QTLs associated with important production traits in cattle. All of 34 CNVs previously reported to be associated with milk production traits in Holsteins were also observed in Nelore cattle. Comparisons of estimated frequencies of these CNVs in the two breeds revealed 14, 13, 6 and 14 regions in high (>20 %), low (<20 %) and divergent (NEL > HOL, NEL < HOL) frequencies, respectively. Conclusions: Obtained results significantly enriched the bovine CNV map and enabled the identification of variants that are potentially associated with traits under selection in Nelore cattle, particularly in genome regions harboring QTLs affecting production traits.

A single nucleotide polymorphism in NEUROD1 is associated with production traits in nelore beef cattle.

Feed efficiency and carcass characteristics are late-measured traits. The detection of molecular markers associated with them can help breeding programs to select animals early in life, and to predict breeding values with high accuracy. The objective of this study was to identify polymorphisms in the functional and positional candidate gene NEUROD1 (neurogenic differentiation 1), and investigate their associations with production traits in reference families of Nelore cattle. A total of 585 steers were used, from 34 sires chosen to represent the variability of this breed. By sequencing 14 animals with extreme residual feed intake (RFI) values, seven single nucleotide polymorphisms (SNPs) in NEUROD1 were identified. The investigation of marker effects on the target traits RFI, backfat thickness (BFT), ribeye area (REA), average body weight (ABW), and metabolic body weight (MBW) was performed with a mixed model using the restricted maximum likelihood method. SNP1062, which changes cytosine for guanine, had no significant association with RFI or REA. However, we found an additive effect on ABW (P ≤ 0.05) and MBW (P ≤ 0.05), with an estimated allele substitution effect of -1.59 and -0.93 kg0.75, respectively. A dominant effect of this SNP for BFT was also found (P ≤ 0.010). Our results are the first that identify NEUROD1 as a candidate that affects BFT, ABW, and MBW. Once confirmed, the inclusion of this SNP in dense panels may improve the accuracy of genomic selection for these traits in Nelore beef cattle as this SNP is not currently represented on SNP chips.

Genes diferencialmente expressos no músculo Longissimus dorsi de novilhos nelore divergentes para eficiência bruta.

2016

Variation in myogenic differentiation 1 mRNA abundance is associated with beef tenderness in Nelore cattle.

The myogenic differentiation 1 gene (MYOD1) has a key role in skeletal muscle differentiation and composition through its regulation of the expression of several muscle-specific genes. We first used a general linear mixed model approach to evaluate the association of MYOD1 expression levels on individual beef tenderness phenotypes. MYOD1 mRNA levels measured by quantitative polymerase chain reactions in 136 Nelore steers were significantly associated (P ? 0.01) with Warner?Bratzler shear force, measured on the longissimus dorsi muscle after 7 and 14 days of beef aging. Transcript abundance for the muscle regulatory gene MYOD1 was lower in animals with more tender beef. We also performed a coexpression network analysis using whole transcriptome sequence data generated from 30 samples of longissimus muscle tissue to identify genes that are potentially regulated by MYOD1. The effect of MYOD1 gene expression on beef tenderness may emerge from its function as an activator of muscle-specific gene transcription such as for the serum response factor (C-fos serum response element-binding transcription factor) gene (SRF), which determines muscle tissue development, composition, growth and maturation.

First polymorphisms in JY-1 gene in cattle (Bos taurus indicus) and their association with sexual precocity and growth traits

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Estudo anatômico comparativo do útero e tubas uterinas de vacas e novilhas da raça Nelore (Bos primigenius indicus)

Ao finalizarmos esta pesquisa, obtivemos dados anatômicos comparativos dos comprimentos dos cornos uterinos e tubas uterinas de vacas e novilhas da raça Nelore. Foram utilizadas para tais fins 45 amostras dos órgãos para cada grupo de animais. Os resultados mostraram que os comprimentos médios dos cornos uterinos e das tubas uterinas direitos e esquerdos das vacas não diferem estatisticamente entre si, sendo de 26,0 cm para os cornos uterinos direito e esquerdo, 17,6 cm para a tuba uterina direita e 17,7 cm para a esquerda. Os comprimentos médios dos cornos uterinos e das tubas uterinas direitos e esquerdos das novilhas não diferem estatisticamente entre si, apresentando 14,6 cm para o corno direito, 14,8 cm para o esquerdo, 15,4 cm para a tuba uterina direita e 15,2 cm para a esquerda. Há diferença estatisticamente significativa no comprimento médio dos cornos uterinos entre vacas e novilhas, com, respectivamente, 26,01 cm e 14,72 cm. Há diferença estatisticamente significativa no comprimento médio das tubas uterinas entre vacas e novilhas, com, respectivamente 17,64 cm e 15,29 cm. Nas vacas, o comprimento médio dos cornos uterinos, 26,01 cm, é maior que o comprimento médio das tubas uterinas, 17,64 cm. Nas novilhas, o comprimento médio dos cornos uterinos, 14,72 cm, é ligeiramente menor que o comprimento médio das tubas uterinas, 15,29 cm. Quando há aumento do comprimento médio dos cornos uterinos, há aumento concomitante das tubas uterinas em vacas, não acontecendo o mesmo em novilhas.

Estudo das características histológicas do útero e tubas uterinas de vacas e novilhas da raça Nelore (Bos primigenius indicus)

Nesta pesquisa obtivemos dados histológicos comparativos dos cornos uterinos e tubas uterinas de vacas e novilhas da raça Nelore. Foram utilizadas 30 amostras dos órgãos para cada grupo de animais, que foram fixados em formol tamponado a 10%, processados e incluídos rotineiramente em parafina. Os cortes histológicos de 6 mm foram corados com hematoxilina e eosina, com tricrômio de Mallory (para evidenciar fibras colágenas), Weigert (para evidenciar fibras elásticas) e com sais de Prata (para evidenciar as fibras reticulares). Os resultados mostraram que existem diferenças na histologia da parede uterina entre vacas e novilhas, sendo mais evidentes nas vacas. A freqüência das variações histológicas é maior para os dois cornos uterinos nas vacas. Não há diferença significativa entre as variações histológicas nos lados direito e esquerdo. As variações mais características estão presentes no endométrio e miométrio, sendo as mais conspícuas, encontradas no miométrio. Não há diferenças marcantes das variações histológicas das tubas uterinas entre vacas e novilhas e entre os lados direito e esquerdo e elas não apresentam nenhuma relação com as variações uterinas.

Efeito da ovariectomia em novilhas Nelore x Angus, Bos taurus indicus x Bos taurus taurus sobre os ganhos de peso

This study aimed to evaluate the weight gain in cross breed heifers Nelore X Angus, spayed and nonspayed, kept on pasture and confinement. The animals were allotted in two groups as follows: group I consisted of 30 nonspayed heifers with 18 months old. Group 2 was composed of 30 spayed heifers with 18 months old. The animals were allotted in pasture of Brachiaria decumbens and weighted at 39 and 75 days. Significant difference was observed between the average daily gain of the two groups - G1 and G2 (75(th) day), respectively (0.51 kg and 0.65 kg; P<0.0 1). The following day (761 day), all animals were allotted and kept on confinement during 144 days. Significant difference was observed between the average daily gain of the two groups - G I and G2 (1441 day), respectively (0.73 kg and 0.58 kg; P<0.0 1). The results of this experiment show that spayed heifers presented a higher daily gain on pasture.

Variação do ciclo estral de novilhas Bos taurus indicus (Nelore) em diferentes estações do ano

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Efeitos da suplementação energética e lipídica no perfil metabólico, desenvolvimento folicular e produção in vitro de embrióes em novilhas da raça Nelore (Bos taurus indicus)

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Estudo sobre a migração transuterina e a razão sexual de conceptos em bovinos da raça Nelore (Bos taurus indicus)

Dissertação (mestrado)—Universidade de Brasília, Faculdade de Agronomia e Medicina Veterinária, 2016.

Local immune response against larvae of Rhipicephalus (Boophilus) microplus in Bos taurus indicus and Bos taurus taurus cattle.

Bos taurus indicus cattle are less susceptible to infestation with Rhipicephalus (Boophilus) microplus than Bos taurus taurus cattle but the immunological basis of this difference is not understood. We compared the dynamics of leukocyte infiltrations (T cell subsets, B cells, major histocompatibility complex (MHC) class II-expressing cells, granulocytes) in the skin near the mouthparts of larvae of R. microplus in B. t. indicus and B. t. taurus cattle. Previously naïve cattle were infested with 50,000 larvae (B. t. indicus) or 10,000 larvae (B. t. taurus) weekly for 6 weeks. One week after the last infestation all of the animals were infested with 20,000 larvae of R. microplus. Skin punch biopsies were taken from all animals on the day before the primary infestation and from sites of larval attachment on the day after the first, second, fourth and final infestations. Infiltrations with CD3+, CD4+, CD8+ and [gamma][delta] T cells followed the same pattern in both breeds, showing relatively little change during the first four weekly infestations, followed by substantial increases at 7 weeks post-primary infestation. There was a tendency for more of all cell types except granulocytes to be observed in the skin of B. t. indicus cattle but the differences between the two breeds were consistently significant only for [gamma][delta] T cells. Granulocyte infiltrations increased more rapidly from the day after infestation and were higher in B. t. taurus cattle than in B. t. indicus. Granulocytes and MHC class II-expressing cells infiltrated the areas closest to the mouthparts of larvae. A large volume of granulocyte antigens was seen in the gut of attached, feeding larvae.

New molecular variants of hypothalamus-pituitary-gonad axis genes and their association with early puberty phenotype in Bos taurus indicus (Nellore)

Endocrine system plays a major role in the control of reproductive functions which are regulated by the hypothalamus-pituitary-gonad axis and its interactions. FSH and LH receptor genes are expressed at the gonads and GnRH receptor gene is expressed at the anterior pituitary gland. Misense mutations of the FSH, LH or GnRH receptors, activating or inactivating their functions in mammals, are potentially useful to allow the understanding of the role of this group of gonadotropins in reproductive phenotypes as early puberty and birth interval length. In the present study, polymorphisms in bovine exon 11 and 3`UTR of LHR, exon 10 and 3`UTR of FSHR and GnRHR genes were characterized with some of them resulting in changes in the aminoacidic chain. These polymorphic sites were found in a Bos taurus indicus (Nellore) female population by means of PCR-SSCP and DNA sequencing. Association between nucleotidic/aminoacidic changes and early puberty were determined by Chi-square analysis. It was found association between FSHR 3`UTR polymorphisms at position 2181, 2248 and 2249 bp and early puberty phenotype (p < 0.05). The presence of these new molecular markers might be considered in further studies to validate its correlation with early puberty or other reproduction associated phenotypes in cattle breeds. (C) 2007 Published by Elsevier B.V.