The Effect of Genotype on Response in Body Composition to Variation in Dietary Protein : Energy Ratios

An experiment with 480 day-old chicks of four commercial strains was conducted to study theeffect of genotype on response in body composition to variation in dietary protein: energy ratios. Thechicks were randomly allocated into 4x2x4 factorial and fed on a commercial starter diet (250 g CP and12.5 MJ of ME /kg) from hatching to 5 d of age and divided into two groups with three replicationseach of 16 birds and given either the such starter diet (S) or a finisher diet (F) containing 190 g CP and13.0 MJ of ME /kg. The birds were reared in strain-and sex-intermingled groups in brooders and followoncages until they reached the target body weight of 600-650 g (females) or 650-700 g (males) andtransferred to single cages and fed S or F diet until 1200-1300 g (females) or 1300-1400 g (males). Thelighting program was 23 h light for the first two days, and reduced to 18 h/d for the remainder of theexperiment. There were considerable variations in relative growth performance, FCR, carcass fat andabdominal fat due to genotypes and dietary regimen. Although birds tend to response in similar waywhen dealing with the excesses and insufficient supply, the nutrient requirements in relation to theprotein: energy ratios should be designed according to genetic background.The accumulation of fatduring the growing period was primarily due to the genetic variation whereas beyond this age, variationin abdominal fat was due principally to dietary effects

An Evaluation of the Efg Growth Model in Its Capacity to Predict Amino Acid Requirements in Broilers

An experiment imposing the multi continuous phase feeding was carried out to evaluate the EFG(Emman, Fisher and Gous) Growth Model in its capacity to predict amino acid requirements in broilers.Birds were fed using blended summit (247.91g/kg CP, 3200 kcal of ME /kg) and dilution (166.26 g/kgCP, 3200 kcal of ME g/kg ) diets and offered to 2-4 or 8 phases. Two hundred male day-old broilerchicks of two commercial strains (A=Ingham and B = Steggles) were used. The predicted responseswere greater than the observed both gain (g/d) and feed intake (g/d). The discrepancy between theobserved and predicted gain in the strain A and B birds, showed a different pattern, with a markeddifference during the early growing period, with a degree of convergence in the late growing period forthe strain A but the reverse picture for the strain B. This shows that strain characterization is notaccurate due to an inadequate definition of the genotypes by the model. Non agreement betweenpredicted and determined gain and feed intakes provided little benefit in moving towards a morefrequent change in diet to accommodate predicted growth-related changes in amino acid requirements

Trust economics feasibility study

We believe that enterprises and other organisations currently lack sophisticated methods and tools to determine if and how IT changes should be introduced in an organisation, such that objective, measurable goals are met. This is especially true when dealing with security-related IT decisions. We report on a feasibility study, Trust Economics, conducted to demonstrate that such methodology can be developed. Assuming a deep understanding of the IT involved, the main components of our trust economics approach are: (i) assess the economic or financial impact of IT security solutions; (ii) determine how humans interact with or respond to IT security solutions; (iii) based on above, use probabilistic and stochastic modelling tools to analyse the consequences of IT security decisions. In the feasibility study we apply the trust economics methodology to address how enterprises should protect themselves against accidental or malicious misuse of USB memory sticks, an acute problem in many industries

Investigation of ultrafast demagnetization and cubic optical nonlinearity of Ni in the polar geometry

Copyright © 2004 American Institute of PhysicsFemtosecond optical pump-probe experiments were performed upon a Ni(720 Å)/Si(100) sample in the polar geometry with the pump beam close to normal incidence. A signal due to the ultrafast demagnetization effect was observed when the pump pulse was linearly polarized. When the pump was elliptically polarized, additional peaks were observed at zero time delay, resulting from the specular inverse Faraday effect (SIFE) and the specular optical Kerr effect (SOKE). By comparing measurements made with different pump helicities, the SIFE and SOKE peaks and the demagnetization signal were found to superpose in a linear fashion. From the dependence of the peak height upon the pump polarization, values of χxxyy=(1−3i)×10−10 rad cm3 erg−1 and χxyyx=(−9+2i)×10−12 rad cm3 erg−1 were deduced for the nonvanishing components of the local cubic susceptibility tensor. For applied fields less than the saturation value, the sudden reduction of the thin film demagnetizing field leads to an imbalance of the torques acting upon the magnetization, causing it to precess

Host plant adaptation in the polyphagous whitefly, Trialeurodes vaporariorum, is associated with transcriptional plasticity and altered sensitivity to insecticides

This is the final version. Available from BMC via the DOI in this record. Background: The glasshouse whitefly, Trialeurodes vaporariorum, is a damaging crop pest and an invasive generalist capable of feeding on a broad range of host plants. As such this species has evolved mechanisms to circumvent the wide spectrum of anti-herbivore allelochemicals produced by its host range. T. vaporariorum has also demonstrated a remarkable ability to evolve resistance to many of the synthetic insecticides used for control. Results: To gain insight into the molecular mechanisms that underpin the polyphagy of T. vaporariorum and its resistance to natural and synthetic xenobiotics, we sequenced and assembled a reference genome for this species. Curation of genes putatively involved in the detoxification of natural and synthetic xenobiotics revealed a marked reduction in specific gene families between this species and another generalist whitefly, Bemisia tabaci. Transcriptome profiling of T. vaporariorum upon transfer to a range of different host plants revealed profound differences in the transcriptional response to more or less challenging hosts. Large scale changes in gene expression (> 20% of genes) were observed during adaptation to challenging hosts with a range of genes involved in gene regulation, signalling, and detoxification differentially expressed. Remarkably, these changes in gene expression were associated with significant shifts in the tolerance of host-adapted T. vaporariorum lines to natural and synthetic insecticides. Conclusions: Our findings provide further insights into the ability of polyphagous insects to extensively reprogram gene expression during host adaptation and illustrate the potential implications of this on their sensitivity to synthetic insecticides.ER

A Focused Sequent Calculus Framework for Proof Search in Pure Type Systems

Basic proof-search tactics in logic and type theory can be seen as the root-first applications of rules in an appropriate sequent calculus, preferably without the redundancies generated by permutation of rules. This paper addresses the issues of defining such sequent calculi for Pure Type Systems (PTS, which were originally presented in natural deduction style) and then organizing their rules for effective proof-search. We introduce the idea of Pure Type Sequent Calculus with meta-variables (PTSCalpha), by enriching the syntax of a permutation-free sequent calculus for propositional logic due to Herbelin, which is strongly related to natural deduction and already well adapted to proof-search. The operational semantics is adapted from Herbelin's and is defined by a system of local rewrite rules as in cut-elimination, using explicit substitutions. We prove confluence for this system. Restricting our attention to PTSC, a type system for the ground terms of this system, we obtain the Subject Reduction property and show that each PTSC is logically equivalent to its corresponding PTS, and the former is strongly normalising iff the latter is. We show how to make the logical rules of PTSC into a syntax-directed system PS for proof-search, by incorporating the conversion rules as in syntax-directed presentations of the PTS rules for type-checking. Finally, we consider how to use the explicitly scoped meta-variables of PTSCalpha to represent partial proof-terms, and use them to analyse interactive proof construction. This sets up a framework PE in which we are able to study proof-search strategies, type inhabitant enumeration and (higher-order) unification

Systematic review of allelic exchange experiments aimed at identifying mutations that confer drug resistance in Mycobacterium tuberculosis

First published online: September 20, 2013BACKGROUND: Improving our understanding of the relationship between the genotype and the drug resistance phenotype of Mycobacterium tuberculosis will aid the development of more accurate molecular diagnostics for drug-resistant tuberculosis. Studies that use direct genetic manipulation to identify the mutations that cause M. tuberculosis drug resistance are superior to associational studies in elucidating an individual mutation's contribution to the drug resistance phenotype. METHODS: We systematically reviewed the literature for publications reporting allelic exchange experiments in any of the resistance-associated M. tuberculosis genes. We included studies that introduced single point mutations using specialized linkage transduction or site-directed/in vitro mutagenesis and documented a change in the resistance phenotype. RESULTS: We summarize evidence supporting the causal relationship of 54 different mutations in eight genes (katG, inhA, kasA, embB, embC, rpoB, gyrA and gyrB) and one intergenic region (furA-katG) with resistance to isoniazid, the rifamycins, ethambutol and fluoroquinolones. We observed a significant role for the strain genomic background in modulating the resistance phenotype of 21 of these mutations and found examples of where the same drug resistance mutations caused varying levels of resistance to different members of the same drug class. CONCLUSIONS: This systematic review highlights those mutations that have been shown to causally change phenotypic resistance in M. tuberculosis and brings attention to a notable lack of allelic exchange data for several of the genes known to be associated with drug resistance.This work was supported by the Portuguese Foundation for Science and Technology (FCT) (SFRH/BD/33902/2009 to H. N.-G.), the National Institutes of Health/Fogarty International Center (1K01 TW009213 to K.R.J.), departmental funds of the pulmonary division of Massachusetts General Hospital to M. R. F. and the National Institutes of Health/NIAID (U19 A1076217 to M.B.M.)

Host plant adaptation in the polyphagous whitefly, Trialeurodes vaporariorum, is associated with transcriptional plasticity and altered sensitivity to insecticides

Background: The glasshouse whitefly, Trialeurodes vaporariorum, is a damaging crop pest and an invasive generalist capable of feeding on a broad range of host plants. As such this species has evolved mechanisms to circumvent the wide spectrum of anti-herbivore allelochemicals produced by its host range. T. vaporariorum has also demonstrated a remarkable ability to evolve resistance to many of the synthetic insecticides used for control. Results: To gain insight into the molecular mechanisms that underpin the polyphagy of T. vaporariorum and its resistance to natural and synthetic xenobiotics, we sequenced and assembled a reference genome for this species. Curation of genes putatively involved in the detoxification of natural and synthetic xenobiotics revealed a marked reduction in specific gene families between this species and another generalist whitefly, Bemisia tabaci. Transcriptome profiling of T. vaporariorum upon transfer to a range of different host plants revealed profound differences in the transcriptional response to more or less challenging hosts. Large scale changes in gene expression (> 20% of genes) were observed during adaptation to challenging hosts with a range of genes involved in gene regulation, signalling, and detoxification differentially expressed.Remarkably, these changes in gene expression were associated with significant shifts in the tolerance of host-adapted T. vaporariorum lines to natural and synthetic insecticides. Conclusions: Our findings provide further insights into the ability of polyphagous insects to extensively reprogram gene expression during host adaptation and illustrate the potential implications of this on their sensitivity to synthetic insecticides

Optical excitation of a coherent transverse optical phonon in a polycrystalline Zr metal film

Copyright © 2007 The American Physical SocietyOptical pump-probe measurements of transient reflectivity were made on a sputtered polycrystalline thin film of hcp Zr. On top of a slow multiexponential decay, an oscillatory signal was observed with frequency varying from the initial value of f(0)=2.24 +/- 0.06 THz at zero time delay to a value of 2.56 +/- 0.12 THz after 2 ps, which is similar to that of a transverse optical (TO) phonon near the Gamma point of the Brillouin zone. From the data, the TO phonon relaxation time was determined to be 0.67 ps. The excitation of the coherent phonon was identified as being mediated by resonant coherent Raman scattering

High-Throughput Sequencing Enhanced Phage Display Identifies Peptides That Bind Mycobacteria

Bacterial cell wall components have been previously used as infection biomarkers detectable by antibodies. However, it is possible that the surface of the Mycobacterium tuberculosis (M. tb), the causative agent of tuberculosis (TB), also possesses molecules which might be non-antigenic. This makes the probing of biomarkers on the surface of M. tb cell wall difficult using antibodies. Here we demonstrate the use of phage display technology to identify peptides that bind to mycobacteria. We identified these clones using both random clone picking and high throughput sequencing. We demonstrate that random clone picking does not necessarily identify highly enriched clones. We further showed that the clone displaying the CPLHARLPC peptide which was identified by Illumina sequencing as the most enriched, binds better to mycobacteria than three clones selected by random picking. Using surface plasmon resonance, we showed that chemically synthesised CPLHARLPC peptide binds to a 15 KDa peptide from M.tb H37Rv whole cell lysates. These observations demonstrate that phage display technology combined with high-throughput sequencing is a powerful tool to identify peptides that can be used for investigating potential non-antigenic biomarkers for TB and other bacterial infections