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1.
Anaesth Rep ; 10(1): e12150, 2022.
Article in English | MEDLINE | ID: mdl-35265847

ABSTRACT

Headache is common in the puerperium, with a wide variety of underlying aetiologies. We describe a unique case of postpartum headache after accidental dural puncture with a Tuohy needle in a previously healthy woman during a combined spinal-epidural for labour analgesia. Initially, a post-dural puncture headache was diagnosed. Eclampsia was subsequently suspected after the development of complex partial seizures and proteinuria 5 days postpartum. After neurological examination and neuroimaging, however, the diagnoses of reversible cerebral vasoconstriction syndrome and posterior reversible encephalopathy syndrome were confirmed. We hypothesise that accidental dural puncture which resulted in post-dural puncture headache may have delayed the diagnosis of other headache aetiologies and may have acted as a trigger for the development of cerebral vasospasm syndromes. This case demonstrates the importance of a careful assessment of postpartum headaches and the need for a high degree of diagnostic suspicion in cases of refractory post-dural puncture headache. In these cases, neurological referral and neuroimaging evaluation should be considered. We highlight the importance of multidisciplinary team including anaesthetists, obstetricians and other clinicians.

2.
Conserv Physiol ; 9(1): coaa116, 2021.
Article in English | MEDLINE | ID: mdl-34676079

ABSTRACT

Declining wild populations combined with accumulating captive populations of e.g. livestock, pets, draught and zoo animals have resulted in some threatened species with substantial proportions of their populations in captivity. The interactions animals have with humans in captivity depend on handler familiarity and relationship quality and can affect animal health, growth and reproduction with consequences for the success of conservation programmes. However, assessments of how specific human-animal relationships affect a range of physiological and behavioural outcomes are rare. Here, we studied semi-captive Asian elephants with detailed records of elephant-handler (mahout) relationships and veterinary management, allowing assessment of multiple welfare indicators in relation to specific mahout-elephant relationship lengths and mahout experience. These included measures of physiological stress (faecal glucocorticoid metabolite [FGM], heterophil:lymphocyte ratio [H:L]), muscle damage (creatine kinase [CK]), immunological health (total white blood cell count [TWBC]) and behaviour (response to mahout verbal commands). We found no evidence that FGM or H:L related to aspects of the mahout-elephant relationship. Longer overall mahout experience (i.e. years of being a mahout) was linked to increased muscle damage and inflammation, but the lengths of specific mahout-elephant relationships were inversely associated with muscle damage in working-age elephants. Elephants responded more to familiar mahouts in behavioural tasks and faster to mahouts they had known for longer. In summary, our results found little evidence that the mahout-elephant relationship affects physiological stress in this population based on FGM and H:L, but mahout experience and relationships were linked to other physiological responses (CK, TWBC), and elephants require behavioural adjustment periods following mahout changes.

3.
Anim Genet ; 52(4): 505-508, 2021 Aug.
Article in English | MEDLINE | ID: mdl-34106478

ABSTRACT

The objectives of this study were to provide the buffalo research community with an updated SNP map for the Axiom Buffalo Genotyping (ABG) array with genomic positions for SNP currently unmapped and to map all cattle QTL from the CattleQTLdb onto the buffalo reference assembly. To update the ABG array map, all SNP probe sequences from the ABG array were re-aligned against the UOA_WB_1 assembly. With the new map, the number of mapped markers increased by approximately 10% and went from 106 778 to 116 708, which reduced the average marker spacing by approximately 2 kb. A comparison of results between signatures of autozygosity study using the ABG and the new map showed that, when the additional markers were used there was an increase in the autozygosity peaks and additional peaks in BBU5 and BBU11 could be identified. After sequence alignment and quality control, 64 650 (UMD3.1) and 76 530 (ARS_UCD1.2) cattle QTL were mapped onto the buffalo genome. The mapping of the bovine QTL database onto the buffalo genome should be useful for genome-wide association studies in buffalo and, given the high homology between the two species, the positions of cattle QTL on the buffalo genome can serve as a stepping stone towards a water buffalo QTL database.


Subject(s)
Buffaloes/genetics , Genome-Wide Association Study/veterinary , Genotype , Quantitative Trait Loci , Animals , Cattle/genetics
4.
J Dairy Sci ; 104(2): 1917-1927, 2021 Feb.
Article in English | MEDLINE | ID: mdl-33272579

ABSTRACT

Characterization of autozygosity is relevant to monitor genetic diversity and manage inbreeding levels in breeding programs. Identification of autozygosity hotspots can unravel genomic regions targeted by selection for economically important traits and can help identify candidate genes for selection. In this study, we estimated the inbreeding levels of a Brazilian population of Murrah buffalo undergoing selection for milk production traits, particularly milk yield. We also studied the distribution of runs of homozygosity (ROH) islands and identified putative genes and quantitative trait loci (QTL) under selection. We genotyped 422 Murrah buffalo for 51,611 SNP; 350 of these had ROH longer than 10 Mb, indicating the occurrence of inbreeding in the last 5 generations. The mean length of the ROH per animal was 4.28 ± 1.85 Mb. Inbreeding coefficients were calculated from the genomic relationship matrix, the pedigree, and the ROH, with estimates varying between 0.242 and 0.035. Inbreeding estimates from the pedigree had a low correlation with the genomic estimates, and estimates from the genomic relationship matrix were much higher than those from the pedigree or the ROH. Signatures of selection were identified in 6 genomic regions, located on chromosomes 1, 2, 3, 5, 16, and 18, encompassing a total of 190 genes and 174 QTL. Many of the genes (e.g., APRT and ACSF3) and QTL identified are related to milk production traits, such as milk yield, milk fat yield and percentage, and milk protein yield and percentage. Other genes are associated with reproduction and immune response traits as well as morphological aspects of the buffalo species. Inbreeding levels in this population are still low but are increasing due to selection and should be managed to avoid future losses due to inbreeding depression. The proximity of genes linked to milk production traits with genes associated with reproduction and immune system traits suggests the need to include these latter genes in the breeding program to avoid negatively affecting them due to selection for production traits.


Subject(s)
Buffaloes/genetics , Genomics , Milk/metabolism , Reproduction , Animals , Brazil , Buffaloes/physiology , Female , Genotype , Homozygote , Inbreeding , Male , Pedigree , Phenotype , Quantitative Trait Loci/genetics
5.
Sci Rep ; 9(1): 17571, 2019 Nov 21.
Article in English | MEDLINE | ID: mdl-31748679

ABSTRACT

An amendment to this paper has been published and can be accessed via a link at the top of the paper.

6.
Sci Rep ; 9(1): 13715, 2019 Sep 23.
Article in English | MEDLINE | ID: mdl-31548634

ABSTRACT

New techniques to manipulate the electronic properties of few layer 2D materials, unveiling new physical phenomena as well as possibilities for new device applications have brought renewed interest to these systems. Therefore, the quest for reproducible methods for the large scale synthesis, as well as the manipulation, characterization and deeper understanding of these structures is a very active field of research. We here report the production of nitrogen doped bilayer graphene in a fast single step (2.5 minutes), at reduced temperatures (760 °C) using microwave plasma-enhanced chemical vapor deposition (MW-PECVD). Raman spectroscopy confirmed that nitrogen-doped bilayer structures were produced by this method. XPS analysis showed that we achieved control of the concentration of nitrogen dopants incorporated into the final samples. We have performed state of the art parameter-free simulations to investigate the cause of an unexpected splitting of the XPS signal as the concentration of nitrogen defects increased. We show that this splitting is due to the formation of interlayer bonds mediated by nitrogen defects on the layers of the material. The occurrence of these bonds may result in very specific electronic and mechanical properties of the bilayer structures.

7.
J Dairy Sci ; 102(6): 5279-5294, 2019 Jun.
Article in English | MEDLINE | ID: mdl-30981488

ABSTRACT

The variance of gametic diversity ( σgamete2) can be used to find individuals that more likely produce progeny with extreme breeding values. The aim of this study was to obtain this variance for individuals from routine genomic evaluations, and to apply gametic variance in a selection criterion in conjunction with breeding values to improve genetic progress. An analytical approach was developed to estimate σgamete2 by the sum of binomial variances of all individual quantitative trait loci across the genome. Simulation was used to verify the predictability of this variance in a range of scenarios. The accuracy of prediction ranged from 0.49 to 0.85, depending on the scenario and model used. Compared with sequence data, SNP data are sufficient for estimating σgamete2 Results also suggested that markers with low minor allele frequency and the covariance between markers should be included in the estimation. To incorporate σgamete2 into selective breeding programs, we proposed a new index, relative predicted transmitting ability, which better utilizes the genetic potential of individuals than traditional predicted transmitting ability. Simulation with a small genome showed an additional genetic gain of up to 16% in 10 generations, depending on the number of quantitative trait loci and selection intensity. Finally, we applied σgamete2 to the US genomic evaluations for Holstein and Jersey cattle. As expected, the DGAT1 gene had a strong effect on the estimation of σgamete2 for several production traits. However, inbreeding had a small impact on gametic variability, with greater effect for more polygenic traits. In conclusion, gametic variance, a potentially important parameter for selection programs, can be easily computed and is useful for improving genetic progress and controlling genetic diversity.


Subject(s)
Breeding , Cattle/genetics , Germ Cells , Selection, Genetic , Animals , Gene Frequency , Genetic Markers , Genomics/methods , Inbreeding , Male , Models, Genetic , Multifactorial Inheritance , Quantitative Trait Loci
8.
Animal ; 13(8): 1651-1657, 2019 Aug.
Article in English | MEDLINE | ID: mdl-30621802

ABSTRACT

Buffalo milk production has become of significant importance on the world scale, however, there are few studies involving biotechnological tools specifically for buffalo. To verify the effects caused by subclinical mastitis on the components of milk and to study the innate immune system in the udder of dairy buffaloes with subclinical mastitis, we evaluated the levels of expression of the lactoferrin (LTF), tumor necrosis factor alpha (TNF-α), interleukin-1 beta (IL-1ß), interleukin-8 (IL-8), and toll-like receptors 2 (TLR-2) and 4 (TLR-4) genes in buffaloes with and without subclinical mastitis. Milk samples were collected for the determination of milk components: somatic cell score (SCS), fat, protein, lactose, total solids and solids-not-fat (SNF), as well as for RNA extraction of milk cells, complementary DNA synthesis, and expression profile quantification by quantitative real-time PCR. For gene expression, the ΔΔCt was estimated using contrasts of the target genes expression adjusted for the expression of the housekeeping genes between both groups. Linear regression analysis was performed to determine the relationship between the genes studied and the milk components. Subclinical mastitis induced changes in the fat, lactose and SNF in milk of buffaloes, and the messenger RNA abundance was upregulated for TLR-2, TLR-4, TNF-α, IL-1ß and IL-8 genes in milk cells of buffaloes with subclinical mastitis, whereas the LTF gene was not differentially expressed. Results of linear regression analysis showed that TLR-2 gene expression most explains the variation in SCS, and the change in a unit of ΔCt of the TNF-α gene would result in a higher increase in SCS. The study of these immune function genes that are active in the mammary gland is important to characterize the action mechanism of the innate immunity that occurs in subclinical mastitis in dairy buffaloes and may aid the development of strategies to preserve the health of the udder.


Subject(s)
Buffaloes , Cytokines/metabolism , Mastitis/veterinary , RNA, Messenger/metabolism , Animals , Cytokines/chemistry , Cytokines/genetics , Female , Gene Expression Regulation/immunology , Immunity, Innate , Mammary Glands, Animal/metabolism , Mastitis/immunology , Mastitis/metabolism , Milk/chemistry , RNA, Messenger/genetics , Real-Time Polymerase Chain Reaction , Tumor Necrosis Factor-alpha/metabolism
9.
J Dairy Sci ; 101(11): 9987-10000, 2018 Nov.
Article in English | MEDLINE | ID: mdl-30219417

ABSTRACT

Pregnancy-associated glycoproteins (PAG) are secreted by the trophoblast and are detectable in maternal circulation around the time of attachment of the fetal placenta, as well as in blood and milk throughout gestation. The understanding of the genetic mechanisms controlling PAG levels can confer advantages for livestock breeding programs given the precocity and the ease of obtaining this phenotype from routine pregnancy diagnosis. The aim of this study was to characterize PAG levels by estimating genetic parameters and correlations with other dairy traits, and to identify genomic regions and candidate genes associated with PAG levels in milk. The PAG data consisted of pregnancy diagnoses using commercial assays from 2012 to 2017, and genotype data consisted of 54,123 SNP markers for 2,352 individuals (embryos and dams). The model included contemporary group (herd, year, and season) and embryo age as fixed effects, and random embryonic (direct) and maternal (indirect) genetic effects. Using genomic data, the estimated heritability for direct and maternal genetic effects (± standard deviations) were 0.23 ± 0.05 and 0.11 ± 0.05, respectively. The genetic correlation between these effects was almost zero (0.001 ± 0.06). A preliminary analysis revealed low correlations between milk PAG levels and other dairy traits. The genome-wide association analysis was performed using 2 approaches: single-marker and single-step using all markers. Four genomic regions with direct genetic effects were detected on Bos taurus autosome (BTA) 6, BTA7, BTA19, and BTA29 of the embryonic genome. The BTA29 locus was within the bovine PAG gene cluster, suggesting a cis-regulatory quantitative trait locus on the PAG expression. However, other associations, without an obvious link to PAG expression, could be related to the transportation of PAG and their concentration in milk. Only 1 region from the maternal genome, on BTA4, had a significant indirect effect, where WNT2 is a candidate gene related to placenta vascularization and gestation health. Collectively, our results suggest a moderate genetic control of milk PAG levels from both maternal and fetal genomes, but larger studies are needed to fully evaluate the usefulness of milk PAG in the genetic evaluation of fetal growth and cow fertility.


Subject(s)
Cattle/genetics , Glycoproteins/analysis , Milk/chemistry , Pregnancy Proteins/analysis , Pregnancy Proteins/genetics , Animals , Breeding/methods , Female , Genome-Wide Association Study/veterinary , Genotype , Glycoproteins/blood , Glycoproteins/genetics , Lactation , Phenotype , Polymorphism, Single Nucleotide/genetics , Pregnancy , Quantitative Trait Loci/genetics
10.
J Anim Sci ; 96(1): 27-34, 2018 Feb 15.
Article in English | MEDLINE | ID: mdl-29365164

ABSTRACT

When the environment on which the animals are raised is very diverse, selecting the best sires for different environments may require the use of models that account for genotype by environment interaction (G × E). The main objective of this study was to evaluate the existence of G × E for yearling weight (YW) in Nellore cattle using reaction norm models with only pedigree and pedigree combined with genomic relationships. Additionally, genomic regions associated with each environment gradient were identified. A total of 67,996 YW records were used in reaction norm models to calculate EBV and genomic EBV. The method of choice for genomic evaluations was single-step genomic BLUP (ssGBLUP). Traditional and genomic models were tested on the ability to predict future animal performance. Genetic parameters for YW were obtained with the average information restricted maximum likelihood method, with and without adding genomic information for 5,091 animals. Additive genetic variances explained by windows of 200 adjacent SNP were used to identify genomic regions associated with the environmental gradient. Estimated variance components for the intercept and the slope in traditional and genomic models were similar. In both models, the observed changes in heritabilities and genetic correlations for YW across environments indicate the occurrence of genotype by environment interactions. Both traditional and genomic models were capable of identifying the genotype by environment interaction; however, the inclusion of genomic information in reaction norm models improved the ability to predict animals' future performance by 7.9% on average. The proportion of genetic variance explained by the top SNP window was 0.77% for the regression intercept (BTA5) and 0.82% for the slope (BTA14). Single-step GBLUP seems to be a suitable model to predict genetic values for YW in different production environments.


Subject(s)
Cattle/genetics , Gene-Environment Interaction , Genetic Variation , Genomics , Models, Genetic , Animals , Body Weight/genetics , Breeding , Cattle/growth & development , Female , Genotype , Male , Pedigree , Phenotype
11.
J Dairy Sci ; 100(7): 5479-5490, 2017 Jul.
Article in English | MEDLINE | ID: mdl-28527809

ABSTRACT

Genomic selection may accelerate genetic progress in breeding programs of indicine breeds when compared with traditional selection methods. We present results of genomic predictions in Gyr (Bos indicus) dairy cattle of Brazil for milk yield (MY), fat yield (FY), protein yield (PY), and age at first calving using information from bulls and cows. Four different single nucleotide polymorphism (SNP) chips were studied. Additionally, the effect of the use of imputed data on genomic prediction accuracy was studied. A total of 474 bulls and 1,688 cows were genotyped with the Illumina BovineHD (HD; San Diego, CA) and BovineSNP50 (50K) chip, respectively. Genotypes of cows were imputed to HD using FImpute v2.2. After quality check of data, 496,606 markers remained. The HD markers present on the GeneSeek SGGP-20Ki (15,727; Lincoln, NE), 50K (22,152), and GeneSeek GGP-75Ki (65,018) were subset and used to assess the effect of lower SNP density on accuracy of prediction. Deregressed breeding values were used as pseudophenotypes for model training. Data were split into reference and validation to mimic a forward prediction scheme. The reference population consisted of animals whose birth year was ≤2004 and consisted of either only bulls (TR1) or a combination of bulls and dams (TR2), whereas the validation set consisted of younger bulls (born after 2004). Genomic BLUP was used to estimate genomic breeding values (GEBV) and reliability of GEBV (R2PEV) was based on the prediction error variance approach. Reliability of GEBV ranged from ∼0.46 (FY and PY) to 0.56 (MY) with TR1 and from 0.51 (PY) to 0.65 (MY) with TR2. When averaged across all traits, R2PEV were substantially higher (R2PEV of TR1 = 0.50 and TR2 = 0.57) compared with reliabilities of parent averages (0.35) computed from pedigree data and based on diagonals of the coefficient matrix (prediction error variance approach). Reliability was similar for all the 4 marker panels using either TR1 or TR2, except that imputed HD cow data set led to an inflation of reliability. Reliability of GEBV could be increased by enlarging the limited bull reference population with cow information. A reduced panel of ∼15K markers resulted in reliabilities similar to using HD markers. Reliability of GEBV could be increased by enlarging the limited bull reference population with cow information.


Subject(s)
Genomics/standards , Genotyping Techniques/veterinary , Glycolipids/metabolism , Glycoproteins/metabolism , Milk/metabolism , Polymorphism, Single Nucleotide , Selective Breeding/genetics , Age Factors , Animals , Brazil , Cattle , Dairying , Female , Genetic Markers , Genotype , Genotyping Techniques/methods , Lactation , Lipid Droplets , Male , Oligonucleotide Array Sequence Analysis/veterinary , Pregnancy , Reproducibility of Results
12.
BMC Genomics ; 16: 872, 2015 Oct 28.
Article in English | MEDLINE | ID: mdl-26510479

ABSTRACT

BACKGROUND: Asian buffaloes (Bubalus bubalis) have an important socio-economic role. The majority of the population is situated in developing countries. Due to the scarce resources in these countries, very few species-specific biotechnology tools exist and a lot of cattle-derived technologies are applied to buffaloes. However, the application of cattle genomic tools to buffaloes is not straightforward and, as results suggested, despite genome sequences similarity the genetic polymorphisms are different. RESULTS: The first SNP chip genotyping platform designed specifically for buffaloes has recently become available. Herein, a genome-wide association study (GWAS) and gene network analysis carried out in buffaloes is presented. Target phenotypes were six milk production and four reproductive traits. GWAS identified SNP with significant associations and suggested candidate genes that were specific to each trait and also genes with pleiotropic effect, associated to multiple traits. CONCLUSIONS: Network predictions of interactions between these candidate genes may guide further molecular analyses in search of disruptive mutations, help select genes for functional experiments and evidence metabolism differences in comparison to cattle. The cattle SNP chip does not offer an optimal coverage of buffalo genome, thereafter the development of new buffalo-specific genetic technologies is warranted. An annotated reference genome would greatly facilitate genetic research, with potential impact to buffalo-based dairy production.


Subject(s)
Buffaloes/genetics , Animals , Dairying , Genome-Wide Association Study , Genotype , Polymorphism, Single Nucleotide/genetics
13.
J Dairy Sci ; 98(7): 4969-89, 2015 Jul.
Article in English | MEDLINE | ID: mdl-25958293

ABSTRACT

Genotype imputation is widely used as a cost-effective strategy in genomic evaluation of cattle. Key determinants of imputation accuracies, such as linkage disequilibrium patterns, marker densities, and ascertainment bias, differ between Bos indicus and Bos taurus breeds. Consequently, there is a need to investigate effectiveness of genotype imputation in indicine breeds. Thus, the objective of the study was to investigate strategies and factors affecting the accuracy of genotype imputation in Gyr (Bos indicus) dairy cattle. Four imputation scenarios were studied using 471 sires and 1,644 dams genotyped on Illumina BovineHD (HD-777K; San Diego, CA) and BovineSNP50 (50K) chips, respectively. Scenarios were based on which reference high-density single nucleotide polymorphism (SNP) panel (HDP) should be adopted [HD-777K, 50K, and GeneSeek GGP-75Ki (Lincoln, NE)]. Depending on the scenario, validation animals had their genotypes masked for one of the lower-density panels: Illumina (3K, 7K, and 50K) and GeneSeek (SGGP-20Ki and GGP-75Ki). We randomly selected 171 sires as reference and 300 as validation for all the scenarios. Additionally, all sires were used as reference and the 1,644 dams were imputed for validation. Genotypes of 98 individuals with 4 and more offspring were completely masked and imputed. Imputation algorithms FImpute and Beagle v3.3 and v4 were used. Imputation accuracies were measured using the correlation and allelic correct rate. FImpute resulted in highest accuracies, whereas Beagle 3.3 gave the least-accurate imputations. Accuracies evaluated as correlation (allelic correct rate) ranged from 0.910 (0.942) to 0.961 (0.974) using 50K as HDP and with 3K (7K) as low-density panels. With GGP-75Ki as HDP, accuracies were moderate for 3K, 7K, and 50K, but high for SGGP-20Ki. The use of HD-777K as HDP resulted in accuracies of 0.888 (3K), 0.941 (7K), 0.980 (SGGP-20Ki), 0.982 (50K), and 0.993 (GGP-75Ki). Ungenotyped individuals were imputed with an average accuracy of 0.970. The average top 5 kinship coefficients between reference and imputed individuals was a strong predictor of imputation accuracy. FImpute was faster and used less memory than Beagle v4. Beagle v4 outperformed Beagle v3.3 in accuracy and speed of computation. A genotyping strategy that uses the HD-777K SNP chip as a reference panel and SGGP-20Ki as the lower-density SNP panel should be adopted as accuracy was high and similar to that of the 50K. However, the effect of using imputed HD-777K genotypes from the SGGP-20Ki on genomic evaluation is yet to be studied.


Subject(s)
Cattle/genetics , Genotype , Oligonucleotide Array Sequence Analysis/veterinary , Polymorphism, Single Nucleotide , Animals , Female , Male , Oligonucleotide Array Sequence Analysis/methods
14.
Genet Mol Res ; 14(4): 18009-17, 2015 Dec 22.
Article in English | MEDLINE | ID: mdl-26782448

ABSTRACT

The objective of this study was to compare the multi-trait model using pedigree information and a model using genomic information in addition to pedigree information. We used data from 5896 lactations of 2021 buffalo cows, of which 384 were genotyped using the Illumina Infinium(®) bovine HD BeadChip, considering seven traits related to milk yield (MY305), fat (FY305), protein (PY305), and lactose (LY305), percentages of fat (%F) and protein (%P), and somatic cell score (SCS). We carried out two analyses, one using phenotype and pedigree information (matrix A) and the other using the relationship matrix based on pedigree and genomics information (a single step, matrix H). The (co)variance components were estimated using multiple-trait analysis by the Bayesian inference method. The model included the fixed effects of contemporary groups (herd-year and calving season), and the age of cow at calving as (co)variables (quadratic and linear effect). The additive genetic, permanent environmental, and residual effects were included as random effects in the model. The estimates of heritability using matrix A were 0.25, 0.22, 0.26, 0.25, 0.37, 0.42, and 0.17, while using matrix H the heritability values were 0.25, 0.24, 0.26, 0.26, 0.38, 0.47, and 0.18 for MY305, FY305, PY305, LY305, %F, %P, and SCS, respectively. The estimates of breeding values in the two analyses were similar for the traits studied, but the accuracies were greater when using matrix H (higher than 8% in the traits studied). Therefore, the use of genomic information in the analyses improved the accuracy.


Subject(s)
Buffaloes/genetics , Milk Proteins/genetics , Milk , Quantitative Trait Loci/genetics , Animals , Brazil , Breeding , Buffaloes/physiology , Cattle , Female , Genotype , Lactation/genetics , Pedigree , Phenotype
15.
Genet Mol Res ; 13(4): 10256-68, 2014 Dec 04.
Article in English | MEDLINE | ID: mdl-25501237

ABSTRACT

The aim of this study was to identify single-nucleotide polymorphisms (SNPs) in buffaloes associated with milk yield and content, in addition to somatic cell scores based on the cross-species transferability of SNPs from cattle to buffalo. A total of 15,745 SNPs were analyzed, of which 1562 showed 1% significance and 4742 with 5% significance, which were associated for all traits studied. After application of Bonferroni's correction for multiple tests of the traits analyzed, we found 2 significant SNPs placed on cattle chromosomes BTA15 and BTA20, which are homologous to buffalo chromosomes BBU16 and BBU19, respectively. In this genome association study, we found several significant SNPs affecting buffalo milk production and quality. Furthermore, the use of the high-density bovine BeadChip was suitable for genomic analysis in buffaloes. Although extensive chromosome arm homology was described between cattle and buffalo, the exact chromosomal position of SNP markers associated with these economically important traits in buffalo can be determined only through buffalo genome sequencing.


Subject(s)
Buffaloes/genetics , Genome-Wide Association Study/veterinary , Lactation , Polymorphism, Single Nucleotide , Animals , Cattle , Chromosomes, Mammalian , Female , Genetic Markers , Genotype , Quantitative Trait Loci
16.
Genet Mol Res ; 13(2): 4202-15, 2014 Jun 09.
Article in English | MEDLINE | ID: mdl-25036164

ABSTRACT

To define the best strategies for genomic association studies and genomic selection, it is necessary to determine the extent of linkage disequilibrium (LD) and the genetic structure of the study population. The current study evaluated the transference of genomic information contained in the Illumina BovineHD BeadChip from cattle to buffaloes, and assessed the extent of the LD in buffaloes. Of the 688,593 bovine single nucleotide polymorphism (SNP) that were successfully genotyped from the 384 buffalo samples, only 16,580 markers were polymorphic, and had minor allele frequencies greater than 0.05. A total of 16,580 polymorphic SNPs were identified, which were uniformly distributed throughout the autosomes, because the density and mean distance between markers were similar for all autosomes. The average minor allele frequency for the 16,580 SNPs was 0.23. The overall mean LD for pairs of adjacent markers was 0.29 and 0.71, when measured as for r2 and |D'|, respectively. The 16,580 polymorphic SNPs were matched to Bos taurus chromosome in the current bovine genome assembly (Btau 4.2), and could be utilized in association studies. In conclusion, the Illumina BovineHD BeadChip contains approximately 16,580 polymorphic markers for the water buffalo, which are broadly distributed across the genome. These data could be used in genomic association and genomic selection studies; however, it might be necessary to develop a panel with specific SNP markers for water buffaloes.


Subject(s)
Buffaloes/genetics , Gene Frequency , Genome , Genomics/methods , Polymorphism, Single Nucleotide , Animals , Cattle , Chromosomes, Mammalian , Genetic Association Studies , Linkage Disequilibrium
17.
Genet Mol Res ; 12(1): 143-53, 2013 Jan 24.
Article in English | MEDLINE | ID: mdl-23408400

ABSTRACT

Random regression models have been widely used to estimate genetic parameters that influence milk production in Bos taurus breeds, and more recently in B. indicus breeds. With the aim of finding appropriate random regression model to analyze milk yield, different parametric functions were compared, applied to 20,524 test-day milk yield records of 2816 first-lactation Guzerat (B. indicus) cows in Brazilian herds. The records were analyzed by random regression models whose random effects were additive genetic, permanent environmental and residual, and whose fixed effects were contemporary group, the covariable cow age at calving (linear and quadratic effects), and the herd lactation curve. The additive genetic and permanent environmental effects were modeled by the Wilmink function, a modified Wilmink function (with the second term divided by 100), a function that combined third-order Legendre polynomials with the last term of the Wilmink function, and the Ali and Schaeffer function. The residual variances were modeled by means of 1, 4, 6, or 10 heterogeneous classes, with the exception of the last term of the Wilmink function, for which there were 1, 3, 6, or 10 classes. The models gave similar hereditability estimates, ranging from 0.20 to 0.33. Genetic correlations between adjacent records were high values (0.83-0.99), but they declined when the interval between the test-day records increased, and were negative between the first and last records. The model employing the Ali and Schaeffer function with six residual variance classes was the most suitable for fitting the data.


Subject(s)
Lactation/genetics , Milk/metabolism , Animals , Cattle , Female , Models, Genetic , Phenotype , Regression Analysis
18.
Biochem Pharmacol ; 61(2): 155-64, 2001 Jan 15.
Article in English | MEDLINE | ID: mdl-11163330

ABSTRACT

Carvedilol, a non-selective beta-adrenoreceptor blocker, has been shown to possess a high degree of cardioprotection in experimental models of myocardial damage. Reactive oxygen species have been proposed to be implicated in such situations, and antioxidants have been demonstrated to provide partial protection to the reported damage. The purpose of our study was to investigate the antioxidant effect of carvedilol and its metabolite BM-910228 by measuring the extent of lipid peroxidation in a model of severe oxidative damage induced by ADP/FeSO(4) in isolated rat heart mitochondria. Carvedilol and BM-910228 inhibited the thiobarbituric acid-reactive substance formation and oxygen consumption associated with lipid peroxidation with IC(50) values of 6 and 0.22 microM, respectively. Under the same conditions, the IC(50) values of alpha-tocopheryl succinate and Trolox were 125 and 31 microM, respectively. As expected, the presence of carvedilol and BM-910228 preserved the structural and functional integrity of mitochondria under oxidative stress conditions for the same concentration range shown to inhibit lipid peroxidation, since they prevented the collapse of the mitochondrial membrane potential (DeltaPsi) induced by ADP/FeSO(4) in respiring mitochondria. It should be stressed that neither carvedilol nor BM-910228 induced any toxic effect on mitochondrial function in the concentration range of the compounds that inhibits the peroxidation of mitochondrial membranes. In conclusion, the antioxidant properties of carvedilol may contribute to the cardioprotective effects of the compound, namely through the preservation of mitochondrial functions whose importance in myocardial dysfunction is clearly documented. Additionally, its hydroxylated analog BM-910220, with its notably superior antioxidant activity, may significantly contribute to the therapeutic effects of carvedilol.


Subject(s)
Adrenergic beta-Antagonists/pharmacology , Carbazoles/pharmacology , Lipid Peroxidation/drug effects , Mitochondria, Heart/drug effects , Propanolamines/pharmacology , Adenosine Diphosphate/metabolism , Animals , Carbazoles/chemistry , Carvedilol , Ferrous Compounds/metabolism , In Vitro Techniques , Mitochondria, Heart/metabolism , Propanolamines/chemistry , Rats , Rats, Wistar
19.
J Pharmacol Exp Ther ; 295(3): 1022-30, 2000 Dec.
Article in English | MEDLINE | ID: mdl-11082437

ABSTRACT

The antioxidant effects of carvedilol and its analog BM-910228 (also known as SB 211475) were studied in rat liver mitochondria as well as their action on mitochondrial bioenergetics. Carvedilol and BM-910228 inhibited ADP/Fe(2+)-initiated lipid peroxidation (measured in mitochondrial membranes as thiobarbituric acid reactive substances and oxygen consumption) with IC(50) values of 10.9 and 0. 33 microM, respectively. Under the same conditions, the IC(50) value for Trolox C was 18.8 microM. At the same concentration range showing antioxidant activity both compounds prevent the collapse of transmembranar electric potential induced by ADP/Fe(2+) on respiring mitochondria. Furthermore, both carvedilol and BM-910228 do not display toxic effects on mitochondria up to the concentration showing maximal antioxidant effects ( approximately 40 microM for carvedilol and approximately 1 microM for BM-910228). At higher concentrations of carvedilol (>40 microM), however, the phosphorylation efficiency of mitochondria is depressed as deduced from a decrease in respiratory control and in the ADP/oxygen ratio. The Brand approach was used to assess the effects of carvedilol on oxidative phosphorylation. We found that carvedilol stimulated membrane proton leak and inhibited substrate oxidation, but had no measurable effect on phosphorylation reactions. Because carvedilol exerts its antioxidant properties for nontoxic concentrations, its therapeutic interest is reinforced because it may potentially prevent mitochondrial dysfunctions associated to cell death in several pathophysiological states where excessive production of reactive oxygen species by mitochondria is well documented (e.g., ischemia/reperfusion). Additionally, its hydroxylated analog BM-910228 with notable superior antioxidant activity may significantly contribute to the known therapeutic effects of carvedilol.


Subject(s)
Antioxidants/pharmacology , Carbazoles/pharmacology , Mitochondria, Liver/drug effects , Oxidative Stress , Propanolamines/pharmacology , Adenosine Diphosphate/pharmacology , Animals , Carvedilol , Dose-Response Relationship, Drug , Lipid Peroxidation/drug effects , Male , Mitochondria, Liver/metabolism , Oxygen Consumption/drug effects , Phosphorylation , Rats , Rats, Wistar , Reactive Oxygen Species
20.
Arch Biochem Biophys ; 374(2): 279-85, 2000 Feb 15.
Article in English | MEDLINE | ID: mdl-10666308

ABSTRACT

There are several reports on the oxidation of external NADH by an exogenous NADH dehydrogenase in the outer leaflet of the inner membrane of rat heart mitochondria. Until now, however, little was known about its physiological role in cellular metabolism. The present work shows that carvedilol (¿1-[carbazolyl-(4)-oxy]-3-[2-methoxyphenoxyethyl)amino]-pro - panol-(2)¿) is a specific inhibitor of an exogenous NADH dehydrogenase in rat heart mitochondria. Carvedilol does not affect oxygen consumption linked to the oxidation of succinate and internal NADH. It is also demonstrated that the inhibition of exogenous NADH dehydrogenase by carvedilol is accompanied by the inhibition of alkalinization of the external medium. In contrast to the addition of glutamate/malate or succinate, exogenous NADH does not generate a membrane potential in rat heart mitochondria, as observed with a TPP(+) electrode. It is also demonstrated that the oxygen consumption linked to NADH oxidation is not due to permeabilized mitochondria, but to actual oxidase activity in the inner membrane. The enzyme has a K(m) for NADH of 13 microM. Carvedilol is a noncompetitive inhibitor of this external NADH dehydrogenase with a K(i) of 15 microM. Carvedilol is the first inhibitor described to this organospecific enzyme. Since this enzyme was demonstrated to play a key role in the cardiotoxicity of anticancer drugs of the anthracycline family (e.g., adriamycin), we may suggest that the administration of carvedilol to tumor patients treated with adriamycin might be of great help in the prevention of the cardioselective toxicity of this antibiotic.


Subject(s)
Carbazoles/pharmacology , Enzyme Inhibitors/pharmacology , Intracellular Membranes/physiology , Mitochondria, Heart/physiology , NADH Dehydrogenase/antagonists & inhibitors , Propanolamines/pharmacology , Animals , Carvedilol , Intracellular Membranes/drug effects , Intracellular Membranes/enzymology , Malates/pharmacology , Male , Membrane Potentials/drug effects , Membrane Potentials/physiology , Mitochondria, Heart/drug effects , Mitochondria, Heart/enzymology , Oxygen Consumption/drug effects , Rats , Rats, Wistar , Succinates/metabolism , Uncoupling Agents/pharmacology
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