SABIIA - Sistema Aberto e Integrado de Informação em Agricultura (Sabiia)

MOKRY, F. B.; LIMA, A. O. de; MUDADU, M. A.; HIGA, R. H.; MEIRELLES, S. L. C.; REGITANO, L. C. de A..

The development of linkage disequilibrium (LD) maps is very important for understanding the nature of non-linear association between phenotypes and genes, as LD can be defined as the non-random segregation of a pair of alleles at polymorphic sites. Canchim is a composite beef cattle breed which was developed in the 1960's by the crossing of Bos indicus (3/8) x Charolais (5/8) animals. The objective in this study was to analyze the extension of LD maps from a Canchim beef cattle population.

Association of KCNJ11 gene variants with tenderness in Nelore breed.

Palavras-chave: Desequilíbrio de ligação; Gado; Linkage disequilibrium; Cattle; Zebu; Haplotypes.

Ano: 2012

URL: http://www.alice.cnptia.embrapa.br/handle/doc/946432

TIZIOTO, P. C.; SOUZA, M. M. de; MUDADU, M. de A.; THOLON, P.; MEIRELLES, S. L. C.; TULLIO, R. R.; NASSU, R. T.; ROSA, A. do N.; MEDEIROS, S. R. de; SIQUEIRA, F.; FEIJO, G. L. D.; REGITANO, L. C. de A..

The KCNJ11 (potassium inwardly-rectifying channel, subfamily J, member 11) gene is located in BTA15, near a quantitative trait loci for meat tenderness. In this study, single nucleotide polymorphisms (SNPs) were described in KCNJ11 and associated with Warner ? Bratzler shear force (WBSF) at different aging times: 1 d after slaughter (WBSF0), after 7 d (WBSF7) and 14 d (WBSF14) of aging. Fourteen steers of Nelore breed, characterized as extreme for the distribution of WBSF0 in a half-sib population of 500 progenies from 32 sires, were selected for sequencing.

Candidate genes for male and female reproductive traits in Canchim beef cattle.

Palavras-chave: KCNJ11; Gene variants; Nelore breed; Cattle; SNP; Meat.

Ano: 2012

URL: http://www.alice.cnptia.embrapa.br/handle/doc/951696

BUZANSKAS, M. E.; GROSSI, D. do A.; VENTURA, R. V.; SCHENKEL, F. S.; CHUD, T. C. S.; STAFUZZA, N. B.; ROLA, L. D.; MEIRELLES, S. L. C.; MOKRY, F. B.; MUDADU, M. de A.; HIGA, R. H.; SILVA, M. V. G. B.; ALENCAR, M. M. de; REGITANO, L. C. de A.; MUNARI, D. P..

Background: Beef cattle breeding programs in Brazil have placed greater emphasis on the genomic study of reproductive traits of males and females due to their economic importance. In this study, genome-wide associations were assessed for scrotal circumference at 210 d of age, scrotal circumference at 420 d of age, age at first calving, and age at second calving, in Canchim beef cattle. Data quality control was conducted resulting in 672,778 SNPs and 392 animals. Results: Associated SNPs were observed for scrotal circumference at 420 d of age (435 SNPs), followed by scrotal circumference at 210 d of age (12 SNPs), age at first calving (six SNPs), and age at second calving (four SNPs). We investigated whether significant SNPs were within genic or surrounding...

Descriptive analysis of haplotypes in a population of Canchim beef cattle.

Palavras-chave: Polimorfismo de nucleotídeo único; Gado de corte; Gado Canchim; Beef cattle; Genome-wide association study; Single nucleotide polymorphism; Quantitative trait loci.

Ano: 2017

URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1074373

MOKRY, F. B.; LIMA, A. O.; MUDADU, M. A.; HIGA, R. H.; MEIRELLES, S. L. C.; SILVA, M. V. B.; CARDOSO, F. F.; NICIURA, S. C. M.; ALENCAR, M. M.; REGITANO, L. C. A..

The aim in this study was to descriptively analyze haplotypes from a Canchim beef cattle population.

Descriptive analysis of haplotypes in a population of Canchim beef cattle.

Palavras-chave: Desequilíbrio de ligação; Gado; Cattle; Linkage disequilibrium; Single nucleotide polymorphism.

Ano: 2012

URL: http://www.alice.cnptia.embrapa.br/handle/doc/946423

MOKRY, F. B.; LIMA, A. O.; MUDADU, M. A.; HIGA, R. H.; MEIRELLES, S. L. C.; SILVA, M. V. B.; CARDOSO, F. F.; NICIURA, S. C. M.; ALENCAR, M. M.; REGITANO, L. C. A..

The aim in this study was to descriptively analyze haplotypes from a Canchim beef cattle population.

Descriptive analysis of haplotypes in a population of Canchim beef cattle.

Palavras-chave: Desequilíbrio de ligação; Gado; Cattle; Linkage disequilibrium; Single nucleotide polymorphism.

Ano: 2012

URL: http://www.alice.cnptia.embrapa.br/handle/doc/967077

MOKRY, F. B.; LIMA, A. O.; MUDADU, M. de A.; HIGA, R. H.; MEIRELLES, S. L. C.; SILVA, M. V. G. B.; CARDOSO, F. F.; NICIURA, S. C. M..

2012

Genetic parameters for carcass traits and body weight using a Bayesian approach in the Canchim cattle.

Palavras-chave: Haplotypes; Beef cattle; Race Canchim.

Ano: 2012

URL: http://www.alice.cnptia.embrapa.br/handle/doc/946401

MEIRELLES, S. L. C.; MOKRY, F. B.; ESPASANDIN, A. C.; DIAS, M. A. D.; BAENA, M. M.; REGITANO, L. C. de A..

Correlation between genetic parameters and factors such as backfat thickness (BFT), rib eye area (REA), and body weight (BW) were estimated for Canchim beef cattle raised in natural pastures of Brazil. Data from 1648 animals were analyzed using multi-trait (BFT, REA, and BW) animal models by the Bayesian approach. This model included the effects of contemporary group, age, and individual heterozygosity as covariates. In addition, direct additive genetic and random residual effects were also analyzed. Heritability estimated for BFT (0.16), REA (0.50), and BW (0.44) indicated their potential for genetic improvements and response to selection processes. Furthermore, genetic correlations between BW and the remaining traits were high (P > 0.50), suggesting...

Genome-wide association for growth traits in Canchim beef cattle.

Palavras-chave: Seleção animal; Espessura do toucinho; Composição da raça; Olho de lombo; Gado; Cattle.

Ano: 2016

URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1055105

BUZANSKAS, M. E.; GROSSI, D. A.; VENTURA, R. V.; SCHENKEL, F. S.; SARGOLZAEI, M.; MEIRELLES, S. L. C.; MOKRY, F. B.; HIGA, R. H.; MUDADU, M. A.; SILVA, M. V. G. B.; NICIURA, S. C. M.; TORRES JÚNIOR, R. A. de A.; ALENCAR, M. M.; REGITANO, L. C. A.; MUNARI, D. P..

Abstract. Studies are being conducted on the applicability of genomic data to improve the accuracy of the selection process in livestock, and genome-wide association studies (GWAS) provide valuable information to enhance the understanding on the genetics of complex traits. The aim of this study was to identify genomic regions and genes that play roles in birth weight (BW), weaning weight adjusted for 210 days of age (WW), and long-yearling weight adjusted for 420 days of age (LYW) in Canchim cattle. GWAS were performed by means of the Generalized Quasi-Likelihood Score (GQLS) method using genotypes from the BovineHD BeadChip and estimated breeding values for BW, WW, and LYW. Data consisted of 285 animals from the Canchim breed and 114 from the MA genetic...

Genome-wide association for growth traits in Canchim beef cattle.

Palavras-chave: Genome-wide association study; Gado de corte; Beef cattle.

Ano: 2014

URL: http://www.alice.cnptia.embrapa.br/handle/doc/1003481

BUZANSKAS, M. E.; GROSSI, D. A.; VENTURA, R. V.; SCHENKEL, F. S.; SARGOLZAEI, M.; MEIRELLES, S. L. C.; MOKRY, F. B.; HIGA, R. H.; MUDADU, M. de A.; SILVA, M. V. G. B.; NICIURA, S. C. M.; TORRES JUNIOR, R. A. de A.; ALENCAR, M. M. de; REGITANO, L. C. de A.; MUNARI, D. P..

bitstream/item/101136/1/PROCI-2014.00012.pdf

Genome-wide association study for backfat thickness in Canchim beef cattle using Random Forest approach.

Palavras-chave: Genome-wide; Growth trait; Race Canchim; Raça Canchim; Gado de corte.

Ano: 2014

URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/984641

MOKRY, F. B.; HIGA, R. H.; MUDADU, M. de A.; LIMA, A. O. de; MEIRELLES, S. L. C.; SILVA, M. V. G. B. da; CARDOSO, F. F.; OLIVEIRA, M. M. de; URBINATI, I.; NICIURA, S. C. M.; TULLIO, R. R.; ALENCAR, M. M. de; REGITANO, L. C. de A..

Background: Meat quality involves many traits, such as marbling, tenderness, juiciness, and backfat thickness, all of which require attention from livestock producers. Backfat thickness improvement by means of traditional selection techniques in Canchim beef cattle has been challenging due to its low heritability, and it is measured late in an animal?s life. Therefore, the implementation of new methodologies for identification of single nucleotide polymorphisms (SNPs) linked to backfat thickness are an important strategy for genetic improvement of carcass and meat quality. Results: The set of SNPs identified by the random forest approach explained as much as 50% of the deregressed estimated breeding value (dEBV) variance associated with backfat thickness,...

Genome-wide association study for backfat thickness in Canchim beef cattle using Random Forest approach.

Palavras-chave: Polimorfismo de nucleotídeo único; Gado de corte; Metabolismo lipídico; Aprendizado de máquina; Inteligência artificial; Machine learning; Tecido adiposo subcutâneo; Single nucleotide polymorphism; Beef cattle; Lipid metabolism; Artificial intelligence; Subcutaneous fat.

Ano: 2013

URL: http://www.alice.cnptia.embrapa.br/handle/doc/977539

MOKRY, F. B.; HIGA, R. H.; MUDADU, M. de A.; LIMA, A. O. de; MEIRELLES, S. L. C.; SILVA, M. V. G. B.; CARDOSO, F. F.; OLIVEIRA, M. M. de O.; URBINATI, I.; NICIURA, S. C. M.; TULLIO, R. R.; ALENCAR, M. M. de; REGITANO, L. C. de A..

Article 47.

Genome-wide association study on long-yearling scrotal circumference in Canchim cattle.

Palavras-chave: Bovino.

Ano: 2013

URL: http://www.alice.cnptia.embrapa.br/handle/doc/959917

HSF1 and HSPA6 as functional candidate genes associated with heat tolerance in Angus cattle.

BUZANSKAS, M. E.; GROSSI, D. A.; VENTURA, R. V.; CHUD, T. C. S.; URBINATI, I.; MEIRELLES, S. L. C.; MOKRY, F. B.; SCHENKEL, F. S.; REGITANO, L. C. de A.; MUNARI, D. P..

Genome-wide association studies provide valuable information for understanding the genetic control of complex traits in livestock. The goal of this study was to investigate the association of the BovineHD BeadChip SNP genotypes with estimated breeding values for long-yearling scrotal circumference adjusted to 420 days (SC420) in Canchim beef cattle. A total 435 SNPs were significantly associated with SC420 (10% chromosome-wise FDR), of which 30 were located in genes on chromosomes 5, 13, and 14, including HEY1, PLCG1, PAG1, ZFHX4, PEX2, FABP5, FABP12, MED30, and TRHR genes. These genes play a role in biological processes related to reproduction, fat deposition, and hormonal systems development. Future studies targeting these regions and genes could provide...

Tipo: Artigo em anais de congresso (ALICE)

Palavras-chave: Animal breeding; Candidate gene; Canchim breed.

Ano: 2014

URL: http://www.alice.cnptia.embrapa.br/handle/doc/993744

BAENA, M. M.; TIZIOTO, P. C.; MEIRELLES, S. L. C.; REGITANO, L. C. de A..

The purpose of this study was to access and characterize single nucleotide polymorphisms (SNP) located within the HSF1 and HSPA6 candidate genes for adaptability in Angus breed raised in subtropical climate. Samples of DNA from 20 animals representing extreme phenotypes for adaptability traits were obtained. Sequence variations in the candidate genes were described by sequencing target regions. We identified 12 SNP located in the HSF1 gene. Moreover, four of the six SNP found in the HSPA6 gene cause amino acid substitutions in protein-coding regions. We also identified a representative SNP (called tag SNP) in a region of the HSF1 gene with high linkage disequilibrium (r2 = 0.87) that may represent 11 SNP located in this gene. Minor allele frequency...

Initial analysis of copy number variations in canchim beef cattle with extreme phenotypes for ribeye area.

Palavras-chave: Molecular makers; Raça Angus; Gado de Corte; Bovino; Angus; Thermoregulation; Beef cattle.

Ano: 2018

URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1106259

GIACHETTO, P. F.; PEREIRA, F. C. P.; MOKRY, F. B.; HIGA, R. H.; MUDADU, M. A.; SILVA, M. V.; NICIURA, S. C. M.; CARDOSO, F. F.; ALENCAR, M. M.; MEIRELLES, S. L. C.; LIMA, A. O.; REGITANO, L. C. A..

Genomic structural variation, in the form of large-scale insertions and deletions, as well as inversions and translocations, are referred to as copy number variations (CNVs). Compared to single nucleotide polymorphisms (SNPs), CNVs have potentially greater effects on gene structure, dosage and regulation, being an important source of phenotypic variation. In humans, CNVs are widespread in the genome and have been shown to be associated with complex traits. In livestock species, the characterization of this genetic variation is an important step toward linking genes or genomic regions with phenotypic traits of economic importance. Studies in cattle have revealed some CNVs associated with differences in host parasite resistance and breed-specific differences...

Initial analysis of copy number variations in canchim beef cattle with extreme phenotypes for ribeye area.

Palavras-chave: Variação genética; Polimorfismo de nucleotídeo único; Bioinformática; Copy number variations; Genetic variation; Single nucleotide polymorphisms; Bioinformatics.

Ano: 2013

URL: http://www.alice.cnptia.embrapa.br/handle/doc/974748

GIACHETTO, P. F.; PEREIRA, F. C. P.; MOKRY, F. B.; HIGA, R. H.; MUDADU, M. A.; SILVA, M. V.; NICIURA, S. C. M.; CARDOSO, F. F.; ALENCAR, M. M.; MEIRELLES, S. L. C.; LIMA, A. O.; REGITANO, L. C. A..

Interação genótipo x ambiente em características avaliadas por ultrassom em bovinos da raça Canchim.

Palavras-chave: Variação genética; Polimorfismo de nucleotídeo único; Bioinformática; Copy number variations; Genetic variation; Single nucleotide polymorphisms; Bioinformatics.

Ano: 2013

URL: http://www.alice.cnptia.embrapa.br/handle/doc/980708

MOKRY, F. B.; MEIRELLES, S. L. C.; TULLIO, R. R.; ALENCAR, M. M. de; REGITANO, L. C. de A..

Foram avaliados 1.652 animais Canchim (5/8 Charolês + 3/8 zebu) e MA (filhos de touro Charolês em fêmeas ½ Canchim + ½ zebu) para área de olho de lombo (AOL) e espessura de gordura subcutânea (EGS) durante os anos de 2005 a 2010. Esses animais foram separados por sexo e por região de criação (São Paulo e Goiás) e então foi avaliado o efeito da interação genótipo-ambiente por meio de análises bi-características, utilizando-se modelo animal com efeitos fixos de grupo de contemporâneo, covariáveis lineares (idade, peso e heterozigose individual), além dos efeitos aleatórios aditivo direto e residual. A herdabilidade (h2a) para EGS em fêmeas (0,28) foi superior aos machos (0,04) e a correlação genética (0,49) indica que a característica é controlada de forma...

Tipo: Artigo em anais de congresso (ALICE)

Palavras-chave: Área de olho de lombo; Gado de corte; Componentes de variância; Espessura de gordura subcutânea; Herdabilidade.

Ano: 2012

URL: http://www.alice.cnptia.embrapa.br/handle/doc/943102

Linkage disequilibrium and haplotype block structure in a composite beef cattle breed.

MOKRY, F. B.; BUZANSKAS, M. E.; MUDADU, M. de A.; GROSSI, D. do A.; HIGA, R. H.; VENTURA, R. V.; LIMA, A. O. de; SARGOLZAEI, M.; MEIRELLES, S. L. C.; SCHENKEL, F. S.; SILVA, M. V. G. B. da; NICIURA, S. C. M.; ALENCAR, M. M. de; MINARI, D. P.; REGITANO, L. C. de A..

Abstract. Background: The development of linkage disequilibrium (LD) maps and the characterization of haplotype block structure at the population level are useful parameters for guiding genome wide association (GWA) studies, and for understanding the nature of non-linear association between phenotypes and genes. The elucidation of haplotype block structure can reduce the information of several single nucleotide polymorphisms (SNP) into the information of a haplotype block, reducing the number of SNPs in a coherent way for consideration in GWA and genomic selection studies. Results: The maximum average LD, measured by r2 varied between 0.33 to 0.40 at a distance of < 2.5 kb, and the minimum average values of r2 varied between 0.05 to 0.07 at distances...

Linkage disequilibrium and haplotype block structure in a composite beef cattle breed.

Palavras-chave: Polimorfismo de nucleotídeo único; Genome wide association studies; Desequilíbrio de ligação; Gado de corte; Beef cattle; Single nucleotide polymorphism; Linkage disequilibrium.

Ano: 2014

URL: http://www.alice.cnptia.embrapa.br/handle/doc/1003463

MOKRY, F. B.; BUZANSKAS, M. E.; MUDADU, M. de A.; GROSSI, D. do A.; HIGA, R. H.; VENTURA, R. V.; LIMA, A. O. de; SARGOLZAEI, M.; MEIRELLES, S. L. C.; SCHENKEL, F. S.; SILVA, M. V. G. B.; NICIURA, S. C. M.; ALENCAR, M. M. de; MINARI, D. P.; REGITANO, L. C. de A..

Preliminary studies for identification of SNPs associated with ribeye area in Canchim cattle.

Palavras-chave: Beef cattle; Composite; Desequilíbrio de ligação; Genome wide association studies; Halplotype block; Linjage disequilibirium; Polimorfismo de nucleotídeo único; Beef cattle; Linkage disequilibrium; Single nucleotide polymorphism; Gado de corte.

Ano: 2014

URL: http://www.alice.cnptia.embrapa.br/handle/doc/1006604

LIMA, A. O. de; MOKRY, F. B.; TIZIOTO, P. C.; MUDADU, M. de A.; HIGA, R. H.; MEIRELLES, S. L. C.; REGITANO, L. C. de A..

A genome wide-association study (GWAS) was performed with 400 animals with extreme phenotypes for REA, using the RandomForest methodology. From this analysis, 7 SNPs in the 3,4989,224 to 3,689,224 interval of chromosome 27 (UMD 3.1) were identified as associated.

Preliminary validation study for SNPs associated to rib eye area in Canchim beef cattle.

Palavras-chave: Gado; Polimorfismo de nucleotídeo único; Genoma; Genome wide-association studies; Cattle; Single nucleotide polymorphism; Genome.

Ano: 2013

URL: http://www.alice.cnptia.embrapa.br/handle/doc/969395

MOKRY, F. B.; LIMA, A. O. de; HIGA, R. H.; MUDADU, M. de A.; MEIRELLES, S. L. C.; REGITANO, L. C. de A..

2013