Associations between the K232A polymorphism in the diacylglycerol-O-transferase 1 (DGAT1) gene and performance in Irish Holstein-Friesian dairy cattle

peer-reviewedSelection based on genetic polymorphisms requires accurate quantification of the effect or association of the polymorphisms with all traits of economic importance. The objective of this study was to estimate, using progeny performance data on 848 Holstein-Friesian bulls, the association between a non-conservative alanine to lysine amino acid change (K232A) in exon 8 of the diacylglycerol-O-transferase 1 (DGAT1) gene and milk production and functionality in the Irish Holstein-Friesian population. The DGAT1 gene encodes the diacylglycerol-O-transferase microsomal enzyme necessary to catalyze the final step in triglyceride synthesis. Weighted mixed model methodology, accounting for the additive genetic relationships among animals, was used to evaluate the association between performance and the K232A polymorphism. The minor allele frequency (K allele) was 0.32. One copy of the K allele was associated (P < 0.001) with 77 kg less milk yield, 4.22 kg more fat yield, 0.99 kg less protein yield, and 1.30 and 0.28 g/kg greater milk fat and protein concentration, respectively; all traits were based on predicted 305-day production across the first five lactations. The K232A polymorphism explained 4.8%, 10.3% and 1.0% of the genetic variance in milk yield, fat yield and protein yield, respectively. There was no association between the K232A polymorphism and fertility, functional survival, calving performance, carcass traits, or any conformation trait with the exception of rump width and carcass conformation. Using the current economic values for the milk production traits in the Irish total merit index, one copy of the K allele is worth €5.43 in expected profitability of progeny. Results from this study will be useful in quantifying the cost-benefit of including the K232A polymorphism in the Irish national breeding programme

Development and implementation of genomic predictions in beef cattle

peer-reviewedBeef production represents a considerable contribution to local and global economies and food security but also the environmental footprint of agricultural production systems. The development of accurate genomic evaluations in beef populations are more difficult than in dairy populations for reasons including the presence of multiple breeds, poor extent of phenotyping, lack of artificial insemination, and beef systems being generally a lower-margin business of poorer adopters of technology. Several options exist to minimize or overcome the limitations of developing accurate genomic evaluations for beef cattle

Vortex lines of the electromagnetic field

Relativistic definition of the phase of the electromagnetic field, involving two Lorentz invariants, based on the Riemann-Silberstein vector is adopted to extend our previous study [I. Bialynicki-Birula, Z. Bialynicka-Birula and C. Sliwa, Phys. Rev. A 61, 032110 (2000)] of the motion of vortex lines embedded in the solutions of wave equations from Schroedinger wave mechanics to Maxwell theory. It is shown that time evolution of vortex lines has universal features; in Maxwell theory it is very similar to that in Schroedinger wave mechanics. Connection with some early work on geometrodynamics is established. Simple examples of solutions of Maxwell equations with embedded vortex lines are given. Vortex lines in Laguerre-Gaussian beams are treated in some detail.Comment: 11 pages, 6 figures, to be published in Phys. Rev.

Imputation of ungenotyped parental genotypes in dairy and beef cattle from progeny genotypes

peer-reviewedThe objective of this study was to quantify the accuracy of imputing the genotype of parents using information on the genotype of their progeny and a family-based and population-based imputation algorithm. Two separate data sets were used, one containing both dairy and beef animals (n = 3122) with high-density genotypes (735 151 single nucleotide polymorphisms (SNPs)) and the other containing just dairy animals (n = 5489) with medium-density genotypes (51 602 SNPs). Imputation accuracy of three different genotype density panels were evaluated representing low (i.e. 6501 SNPs), medium and high density. The full genotypes of sires with genotyped half-sib progeny were masked and subsequently imputed. Genotyped half-sib progeny group sizes were altered from 4 up to 12 and the impact on imputation accuracy was quantified. Up to 157 and 258 sires were used to test the accuracy of imputation in the dairy plus beef data set and the dairy-only data set, respectively. The efficiency and accuracy of imputation was quantified as the proportion of genotypes that could not be imputed, and as both the genotype concordance rate and allele concordance rate. The median proportion of genotypes per animal that could not be imputed in the imputation process decreased as the number of genotyped half-sib progeny increased; values for the medium-density panel ranged from a median of 0.015 with a half-sib progeny group size of 4 to a median of 0.0014 to 0.0015 with a half-sib progeny group size of 8. The accuracy of imputation across different paternal half-sib progeny group sizes was similar in both data sets. Concordance rates increased considerably as the number of genotyped half-sib progeny increased from four (mean animal allele concordance rate of 0.94 in both data sets for the medium-density genotype panel) to five (mean animal allele concordance rate of 0.96 in both data sets for the medium-density genotype panel) after which it was relatively stable up to a half-sib progeny group size of eight. In the data set with dairy-only animals, sufficient sires with paternal half-sib progeny groups up to 12 were available and the withinanimal mean genotype concordance rates continued to increase up to this group size. The accuracy of imputation was worst for the low-density genotypes, especially with smaller half-sib progeny group sizes but the difference in imputation accuracy between density panels diminished as progeny group size increased; the difference between high and medium-density genotype panels was relatively small across all half-sib progeny group sizes. Where biological material or genotypes are not available on individual animals, at least five progeny can be genotyped (on either a medium or high-density genotyping platform) and the parental alleles imputed with, on average, ⩾96% accuracy

Investigation into the effect of Si doping on the performance of SrFeO3-δ SOFC electrode materials

In this paper we report the successful incorporation of silicon into SrFeO3-δ perovskite materials for potential applications as electrode materials for solid oxide fuel cells. It is observed that Si doping leads to a change from a tetragonal cell (with partial ordering of oxygen vacancies) to a cubic one (with the oxygen vacancies disordered). Annealing experiments in 5% H2/95% N2 (up to 800 °C) also showed the stabilization of the cubic form for the Si-doped samples under reducing conditions, suggesting that they may be suitable for both cathode and anode applications. In contrast to the cubic cell of the reduced Si doped system, reduction of undoped SrFeO3-δ leads to the formation of a brownmillerite structure with ordered oxide ion vacancies. SrFe 0.90Si0.10O3-δ and SrFe 0.85Si0.15O3-δ were analysed by neutron powder diffraction, and the data confirmed the cubic cell, with no long range oxygen vacancy ordering. Mössbauer spectroscopy data were also recorded for SrFe0.90Si0.10O3-δ, and indicated the presence of only Fe3+ and Fe5+ (i.e. disproportionation of Fe4+ to Fe3+ and Fe5+) for such doped samples. Conductivity measurements showed an improvement in the conductivity on Si doping. Composite electrodes with 50% Ce0.9Gd0.1O 1.95 were therefore examined on dense Ce0.9Gd 0.1O1.95 pellets in two different atmospheres: air and 5% H2/95% N2. In both atmospheres an improvement in the area specific resistance (ASR) values is observed for the Si-doped samples. Thus the results show that silicon can be incorporated into SrFeO3-δ- based materials and can have a beneficial effect on the performance, making them potentially suitable for use as cathode and anode materials in symmetrical SOFCs. © 2013 The Royal Society of Chemistry.Peer Reviewe

Synthesis and characterization of La_0.8Sr_1.2Co_0.5M_0.5O_4-? (M=Fe, Mn)

The M4+-containing K2NiF4-type phases La0.8Sr1.2Co0.5Fe0.5O4 and La0.8Sr1.2Co0.5Mn0.5O4 have been synthesized by a sol-gel procedure and characterized by X-ray powder diffraction, thermal analysis, neutron powder diffraction and Mössbauer spectroscopy. Oxide ion vacancies are created in these materials via reduction of M4+ to M3+ and of Co3+ to Co2+. The vacancies are confined to the equatorial planes of the K2NiF4-type structure. A partial reduction of Mn3+ to Mn2+ also occurs to achieve the oxygen stoichiometry in La0.8Sr1.2Co0.5Mn0.5O3.6. La0.8Sr1.2Co0.5Fe0.5O3.65 contains Co2+ and Fe3+ ions which interact antiferromagnetically and result in noncollinear magnetic order consistent with the tetragonal symmetry. Competing ferromagnetic and antiferromagnetic interactions in La0.8Sr1.2Co0.5Fe0.5O4, La0.8Sr1.2Co0.5Mn0.5O4 and La0.8Sr1.2Co0.5Mn0.5O3.6 induce spin glass properties in these phases

Universality of Level Spacing Distributions in Classical Chaos

We suggest that random matrix theory applied to a classical action matrix can be used in classical physics to distinguish chaotic from non-chaotic behavior. We consider the 2-D stadium billiard system as well as the 2-D anharmonic and harmonic oscillator. By unfolding of the spectrum of such matrix we compute the level spacing distribution, the spectral auto-correlation and spectral rigidity. We observe Poissonian behavior in the integrable case and Wignerian behavior in the chaotic case. We present numerical evidence that the action matrix of the stadium billiard displays GOE behavior and give an explanation for it. The findings present evidence for universality of level fluctuations - known from quantum chaos - also to hold in classical physics

Fractal Noise in Quantum Ballistic and Diffusive Lattice Systems

We demonstrate fractal noise in the quantum evolution of wave packets moving either ballistically or diffusively in periodic and quasiperiodic tight-binding lattices, respectively. For the ballistic case with various initial superpositions we obtain a space-time self-affine fractal $\Psi(x,t)$ which verify the predictions by Berry for "a particle in a box", in addition to quantum revivals. For the diffusive case self-similar fractal evolution is also obtained. These universal fractal features of quantum theory might be useful in the field of quantum information, for creating efficient quantum algorithms, and can possibly be detectable in scattering from nanostructures.Comment: 9 pages, 8 postscript figure

Spectral fluctuation properties of spherical nuclei

The spectral fluctuation properties of spherical nuclei are considered by use of NNSD statistic. With employing a generalized Brody distribution included Poisson, GOE and GUE limits and also MLE technique, the chaoticity parameters are estimated for sequences prepared by all the available empirical data. The ML-based estimated values and also KLD measures propose a non regular dynamic. Also, spherical odd-mass nuclei in the mass region, exhibit a slight deviation to the GUE spectral statistics rather than the GOE.Comment: 10 pages, 2 figure