Rapid, simple and cost-effective molecular method to differentiate the temperature sensitive (ts+) MS-H vaccine strain and wild-type Mycoplasma synoviae isolates

Mycoplasma synoviae infection in chickens and turkeys can cause respiratory disease, infectious synovitis and eggshell apex abnormality; thus it is an economically important pathogen. Control of M . synoviae infection comprises eradication, medication or vaccina- tion. The differentiation of the temperature sensitive (ts + ) MS-H vaccine strain from field iso- lates is crucial during vaccination programs. Melt-curve and agarose gel based mismatch amplification mutation assays (MAMA) are provided in the present study to distinguish between the ts + MS-H vaccine strain, its non-temperature sensitive re-isolates and wild- type M . synoviae isolates based on the single nucleotide polymorphisms at nt367 and nt629 of the obg gene. The two melt-MAMAs and the two agarose-MAMAs clearly distinguish the ts + MS-H vaccine strain genotype from its non-temperature sensitive re-isolate genotype and wild-type M . synoviae isolate genotype, and no cross-reactions with other Mycoplasma species infecting birds occur. The sensitivity of the melt-MAMAs and agarose-MAMAs was 10 3 and 10 4 copy numbers, respectively. The assays can be performed directly on clinical samples and they can be run simultaneously at the same annealing temperature. The assays can be performed in laboratories with limited facilities, using basic real-time PCR machine or conventional thermocycler coupled with agarose gel electrophoresis. The advantages of the described assays compared with previously used methods are simplicity, sufficient sensitivity, time and cost effectiveness and specificity

Q fever epidemic in Hungary, April to July 2013

We investigated a Q fever outbreak with human patients showing high fever, respiratory tract symptoms, headache and retrosternal pain in southern Hungary in the spring and summer of 2013. Seventy human cases were confirmed by analysing their serum and blood samples with micro-immunofluorescence test and real-time PCR. The source of infection was a merino sheep flock of 450 ewes, in which 44.6% (25/56) seropositivity was detected by enzyme-linked immunosorbent assay. Coxiella burnetii DNA was detected by real-time PCR in the milk of four of 20 individuals and in two thirds (41/65) of the manure samples. The multispacer sequence typing examination of C. burnetii DNA revealed sequence type 18 in one human sample and two manure samples from the sheep flock. The multilocus variable-number tandem repeat analysis pattern of the sheep and human strains were also almost identical, 4/5-9-3-3-0-5 (Ms23-Ms24-Ms27- Ms28-Ms33-Ms34). It is hypothesised that dried manure and maternal fluid contaminated with C. burnetii was dispersed by the wind from the sheep farm towards the local inhabitants. The manure was eliminated in June and the farm was disinfected in July. The outbreak ended at the end of July 2013

Locality optimized unstructured mesh algorithms on GPUs

Unstructured-mesh based numerical algorithms such as finite volume and finite element algorithms form an important class of applications for many scientific and engineering domains. The key difficulty in achieving higher performance from these applications is the indirect accesses that lead to data-races when parallelized. Current methods for handling such data-races lead to reduced parallelism and suboptimal performance. Particularly on modern many-core architectures, such as GPUs, that has increasing core/thread counts, reducing data movement and exploiting memory locality is vital for gaining good performance. In this work we present novel locality-exploiting optimizations for the efficient execution of unstructured-mesh algorithms on GPUs. Building on a two-layered coloring strategy for handling data races, we introduce novel reordering and partitioning techniques to further improve efficient execution. The new optimizations are then applied to several well established unstructured-mesh applications, investigating their performance on NVIDIA’s latest P100 and V100 GPUs. We demonstrate significant speedups (1.1–1.75×) compared to the state-of-the-art. A range of performance metrics are benchmarked including runtime, memory transactions, achieved bandwidth performance, GPU occupancy and data reuse factors and are used to understand and explain the key factors impacting performance. The optimized algorithms are implemented as an open-source software library and we illustrate its use for improving performance of existing or new unstructured-mesh applications

Determination of chlorophyll content in case of peach leaf curl disease (Taphrina deformans) with spectral analysis

One of the most important conditions of high quality fruit production is the early detection of phytopathologycal infections. Themost dangerous disease of peach (Prunus persica) is the Taphrina deformans, which causes serious damages mainly in the years where theweather condition is cool and wet. In this study, healthy and naturally diseased leaves by peach leaf curl were investigated in the laboratoryof University of Debrecen, CAAES, Institute of Water and Environmental Management. Both of hyperspectral measurement and the valuesof spectrophotometer shown the chlorophyll content of diseased leaves were lower than the healthy samples. Based on the experiments thewater status of investigated leaves established the infected leaves contained more water in their tissues

Determination of chlorophyll content in case of peach leaf curl disease (Taphrina deformans) with spectral analysis

One of the most important conditions of high quality fruit production is the early detection of hytopathologycal infections. The most dangerous disease of peach (Prunus persica) is the Taphrina deformans, which causes serious damages mainly in the years where the weather condition is cool and wet. In this study, healthy and naturally diseased leaves by peach leaf curl were investigated in the laboratory of University of Debrecen, CAAES, Institute of Water and Environmental Management. Both of hyperspectral measurement and the values of spectrophotometer shown the chlorophyll content of diseased leaves were lower than the healthy samples. Based on the experiments the water status of investigated leaves established the infected leaves contained more water in their tissues

The effect of storage to optical properties in case of two apple fruit varieties

The keeping quality of fruits is a very important factor in storage point of view, since it could be elongated the consumption time of fruits. In many cases the storage may be necessary, e.g. in short time it is not able to market due to the rich harvest, or all fruits could sell in markets throughout the year. The keeping quality of various fruit species is greatly different; moreover it could be observed some differences between the varieties as well. In our research, we have investigated the spectral properties of the external surface and fl esh of two ripe apple varieties – Jonagored and Granny Smith – before and after storage (about 3°C and about three weeks). The hyperspectral investigation was carried out with AvaSpec-2048 Fiber Optic Spectrometer. The experimental results represented the differences between healthy and chilling injured apple fruits. Furthermore, some indices were created to given countenance to the spectral differences

The effect of storage to optical properties in case of two apple fruit varieties

The keeping quality of fruits is a very important factor in storage point of view, since it could be elongated the consumption timeof fruits. In many cases the storage may be necessary, e.g. in short time it is not able to market due to the rich harvest, or all fruits could sell inmarkets throughout the year. The keeping quality of various fruit species is greatly different; moreover it could be observed some differencesbetween the varieties as well. In our research, we have investigated the spectral properties of the external surface and fl esh of two ripe applevarieties – Jonagored and Granny Smith – before and after storage (about 3°C and about three weeks). The hyperspectral investigation wascarried out with AvaSpec-2048 Fiber Optic Spectrometer. The experimental results represented the differences between healthy and chillinginjured apple fruits. Furthermore, some indices were created to given countenance to the spectral differences

Comparison of virulence of Francisella tularensis ssp. holarctica genotypes B.12 and B.FTNF002-00

BACKGROUND: Two main genetic groups (B.12 and B.FTNF002-00) of Francisella tularensis ssp. holarctica are endemic in Europe. The B.FTNF002-00 group proved to be dominant in Western European countries, while strains of the B.12 group were isolated mainly in Northern, Central and Eastern Europe. The clinical course of tularemia in the European brown hare (Lepus europaeus) also shows distinct patterns according to the geographical area. Acute course of the disease is observed in hares in Western European countries, while signs of sub-acute or chronic infection are more frequently detected in the eastern part of the continent. The aim of the present study was to examine whether there is any difference in the virulence of the strains belonging to the B.FTNF002-00 and B.12 genetic clades. RESULTS: Experimental infection of Fischer 344 rats was performed by intra-peritoneal injection of three dilutions of a Hungarian (B.12 genotype) and an Italian (B.FTNF002-00 genotype) F. tularensis ssp. holarctica strain. Moderate difference was observed in the virulence of the two genotypes. Significant differences were observed in total weight loss values and scores of clinical signs between the two genotypes with more rats succumbing to tularemia in groups infected with the B.FTNF002-00 genotype. CONCLUSIONS: Results of the experimental infection are consistent with previous clinical observations and pathological studies suggesting that F. tularensis ssp. holarctica genotype B.FTNF002-00 has higher pathogenic potential than the B.12 genotype. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12917-017-0968-9) contains supplementary material, which is available to authorized users

Q fever epidemic in Hungary, April to July 2013

We investigated a Q fever outbreak with human patients showing high fever, respiratory tract symptoms, headache and retrosternal pain in southern Hungary in the spring and summer of 2013. Seventy human cases were confirmed by analysing their serum and blood samples with micro-immunofluorescence test and real-time PCR. The source of infection was a merino sheep flock of 450 ewes, in which 44.6% (25/56) seropositivity was detected by enzyme-linked immunosorbent assay. Coxiella burnetii DNA was detected by real-time PCR in the milk of four of 20 individuals and in two thirds (41/65) of the manure samples. The multispacer sequence typing examination of C. burnetii DNA revealed sequence type 18 in one human sample and two manure samples from the sheep flock. The multilocus variable-number tandem repeat analysis pattern of the sheep and human strains were also almost identical, 4/5-9-3-3-0-5 (Ms23-Ms24-Ms27-Ms28-Ms33-Ms34). It is hypothesised that dried manure and maternal fluid contaminated with C. burnetii was dispersed by the wind from the sheep farm towards the local inhabitants. The manure was eliminated in June and the farm was disinfected in July. The outbreak ended at the end of July 2013