Detection of Chlamydia trachomatis infections in women by Amplicor PCR: comparison of diagnostic performance with urine and cervical specimens

We used the Roche Amplicor PCR assay to compare urine and cervical swabs as sample material in the detection of Chlamydia trachomatis causing genital infections. The diagnostic performance of Amplicor PCR was compared with that of cell culture and the Gen-Probe PACE 2 assay with cervical specimens. If discrepant from other results, the specimens negative by PCR were diluted and reanalyzed to reveal PCR inhibitors. Of 666 patients, 39 (5.9%) were confirmed to have chlamydial infection. The respective sensitivity and specificity of Amplicor PCR were as follows: urine specimens, 82.0 and 99.7%; cervical specimens, 82.0 and 99.8%. Those for cell culture with cervical specimens were 84.6 and 100%. For the Gen-Probe PACE 2 assay, the sensitivity and specificity with cervical specimens were 79.5 and 100%, respectively. Without the effect of PCR inhibitors, the sensitivity of PCR with urine would have been 97.4%. Provided that the problems currently caused by inhibitors will be solved, the Amplicor PCR assay with urine specimens offers a tempting alternative for the diagnosis of C. trachomatis infection in women.     

Copper and zinc metabolism in aspartylglycosaminuria and Salla disease

Changes in the metabolism of copper and zinc are described in aspartylglycosaminuria (AGU) patients. AGU patients had significantly reduced serum zinc concentrations. However, hair zinc levels were normal, and hyperzincuria could not be demonstrated. The copper content in the hair of AGU patients was highly elevated. Serum copper and ceruloplasmin concentrations were within normal range. In AGU, small-molecular-weight glycoasparagine storage products accumulate in tissues and are excreted in urine in large amounts. They may interfere with the transport mechanisms of trace elements, and thus alter their distribution and availability for tissues. The changes in copper and zinc levels may contribute to the pathogenesis of some of the clinical signs of AGU and Salla disease.     

Significance of Wood Terpenoids in the Resistance of Scots Pine Provenances Against the Old House Borer, Hylotrupes bajulus, and Brown-Rot Fungus, Coniophora puteana

We tested how terpenoid (i.e., monoterpenes and resin acids) composition and concentration in wood affects resistance against wood-borers and decaying fungi. Scots pine (Pinus sylvestris) wood from nine provenances having variable terpenoid profiles was studied against the old house borer, Hylotrupes bajulus, and the decay fungus, Coniophora puteana. Provenances represented a 1200-km N-S transect from Estonia to northern Finland, but they were all cultivated for 7 years in the same nursery field, in central Finland. Mean relative growth rate (MRGR) of small H. hajulus larvae positively correlated with the total monoterpene concentration of wood, and feeding was associated with high proportion of levopimaric+palustric acid in wood. Provenance did not affect the MRGR of small or big larvae, but big larvae consumed more wood and produced more frass on the northern Ylitornio trees than on the southern Rakvere and Ruokolahti trees. Low beta-pinene and total monoterpene concentration and low beta: alpha-pinene ratio in wood were all associated with a high number of eggs. The most northern Muonio provenance was the most favored as an oviposition site, differing significantly from Saaremaa, Tenhola, and Suomussalmi. Wood from Saaremaa, Tenhola, Ruokolahti, and Suomussalmi provenance was most resistant against decay fungus, differing significantly from that of Kinnula provenance. However, decay resistance was not clearly associated with the concentrations of wood terpenoids. These results suggest that monoterpene composition of wood affects resistance against wood-boring Cerambycid beetles, but resistance against wood-decaying fungi is not as clearly associated with wood terpenoids.     

Comparing the Variation of Needle and Wood Terpenoids in Scots Pine Provenances

We determined variation in both the concentration and composition of terpenoids in needles and wood within nine Scots pine (Pinus sylvestris) provenances. Seedlings of different provenances representing a 1200-km N–S transect from Estonia to northern Finland were cultivated in Suonenjoki nursery field, central Finland, for seven years. Growth of seedlings and the number of vertical resin ducts in wood were also determined. -Pinene and 3-carene were the major monoterpenes both in the needles and wood. The total monoterpene concentration was about five times higher in the needles than in the wood. A strong positive correlation was found between proportional quantities of several terpenes of the needles and wood, particularly for 3-carene, sabinene, and terpinolene. The needles contained both labdane-type and tricyclic resin acids, whereas the wood contained only tricyclic ones. The wood had a four times higher tricyclic resin acid concentration than the needles. The highest total monoterpene concentration in the needles and in the wood occurred in the most northern Muonio provenance and in the most southern Saaremaa provenance plants, respectively. The amount of high 3-carene genotype trees decreased among the northern provenances. The wood of the most northern Muonio provenance showed the lowest total resin acid concentration, but provenance did not affect total tricyclic resin acids in the needles. Korpilahti provenance trees from central Finland had the best growth in height. In addition, Korpilahti and Ruokolahti provenance trees showed largest radial growth of stem and smallest number of vertical resin ducts. The results suggest that especially the proportional quantity of 3-carene in the needles could be used in estimating the amount of this compound in the wood and vice versa.     

Stress and strain state of concrete during freezing and thawing cycles

The objective of this work is to calculate the pressures, stresses, and strains induced into moist concrete during freezing and thawing. The applied theory is based on thermodynamics and the linear theory of elasticity. If no additional salts are dissolved in the pore water the inputs needed in the theory are relative humidity and temperature measured in the sample chamber and inside concrete and evaporable water amount in the pore structure. Theoretical results were compared with the test results made with two concretes cured under water or at 96% relative humidity. One of the concretes was air entrained and in the comparison concrete no air-entraining agents were used. In the test cylinders cured under water the largest tensional stresses in freezing occurred on the surface of the test cylinders both in the axial and tangential direction. The largest tensional stress was 2.2 MPa, both in air-entrained and in non air-entrained concretes. The largest tensional stresses in the warming phase took place at the end of the thawing period when the chamber temperature was around +5 °C. Then the maximum tension occurred in the middle of the concrete cylinder in the axial direction of the cylinder. This maximum tensional stress was over 2.5 MPa in the air-entrained concrete cured in the relative humidity of 96%. The thermodynamic pumping effect at the end of the thawing phase in every cycle can increase the pore water amount remarkably if free water or moisture is available on the surface of the structure or in the environment vapor. The thermodynamic pumping effect seems to be remarkably greater and more dangerous in air-entrained concretes.     

Reaction engineering studies in a polytropic fixed-bed reactor over a highly active and selective catalyst for oxidative methane coupling

The oxidative coupling of methane (OCM) was carried out in a polytropic fixed-bed reactor applying a Zr/La/Sr catalyst developed by the Neste company. Over this catalyst the OCM reaction follows a complex reaction scheme which includes primary parallel reaction steps to CO, CO₂ and C₂H₆ and consecutive reactions of ethane to ethylene or CO_x. Yield of higher hydrocarbons C₂₊ obtained with this catalyst strongly depended on reaction conditions, i.e. low partial pressures of methane and oxygen obtained by diluting the feed gas with nitrogen and high reaction temperatures promoted C₂₊ selectivity and yield. The maximum yield amounted to 21.4% (20 Vol.-% CH₄, 9 Vol.-% O₂, 71 Vol.-% N₂, T = 860°C; X_CH4 = 41.8%, S = 52.5%). This result belongs to the highest yields reported in the open literature.     

Validation of the Climate-SAF surface broadband albedo product: Comparisons with in situ observations over Greenland and the ice-covered Arctic Ocean

This paper describes a validation study performed by comparing the Climate-SAF Surface Albedo Product (SAL) to ground truth observations over Greenland and the ice-covered Arctic Ocean. We compare Advanced Very High Resolution Radiometer (AVHRR)-based albedo retrievals to data from the Greenland Climate Network (GCN) weather stations and the floating ice station Tara for polar summer 2007. The AVHRR dataset consists of 2755 overpasses. The overpasses are matched to in situ observations spatially and temporally. The SAL algorithm presented here derives the surface broadband albedo from AVHRR channels 1 and 2 using an atmospheric correction, temporal sampling of an empirical Bidirectional Reflectance Distribution Function (BRDF), and a narrow-to-broadband conversion algorithm. The satellite product contains algorithms for snow, sea ice, vegetation, bare soil, and water albedo. At the Summit and DYE-2 stations on the Greenland ice sheet, instantaneous SAL RMSE is 0.073. The heterogeneous surface conditions at satellite pixel scale over the stations near the Greenland west coast increase RMSE to > 0.12. Over Tara, the instantaneous SAL RMSE is 0.069. The BRDF sampling approach reduces RMSE over the ice sheet to 0.053, and to 0.045 over Tara. Taking into account various sources of uncertainty for both satellite retrievals and in situ observations, we conclude that SAL agrees with in situ observations within their limits of accuracy and spatial representativeness.     

Overlap-freeness in infinite partial words

We prove that there exist infinitely many infinite overlap-free binary partial words containing at least one hole. Moreover, we show that these words cannot contain more than one hole and the only hole must occur either in the first or in the second position. We define that a partial word is $k$-overlap-free if it does not contain a factor of the form $xyxyx$ where the length of $x$ is at least $k$. We prove that there exist infinitely many 2-overlap-free binary partial words containing an infinite number of holes.     

Extension of the decidability of the marked PCP to instances with unique blocks

In the Post Correspondence Problem (PCP) an instance (h,g)$(h,g)$ consists of two morphisms h$h$ and g$g$, and the problem is to determine whether or not there exists a nonempty word w$w$ such that h(w)=g(w)$h\left(w\right)=g\left(w\right)$. Here we prove that the PCP is decidable for instances with unique blocks using the decidability of the marked PCP. Also, we show that it is decidable whether an instance satisfying the uniqueness condition for continuations has an infinite solution. These results establish a new and larger class of decidable instances of the PCP, including the class of marked instances.     

BOAR: an advanced HW/SW coemulation environment for DSP system development

The BOAR emulation system is targeted to hardware/software (HW/SW) codevelopment of advanced embedded DSP and telecom systems. The challenge of the BOAR system is efficient customization of programmable hardware, and dedicated partitioning routine to target applications and structures, which allows quite high overall system performance. The system allows multiple configurations for communication between processors and field programmable gate arrays (FPGAs) making the BOAR system an efficient tool for real-time HW/SW coverification. The reprogrammable hardware of the emulation tool is based on four Xilinx 4000-series devices, two Texas TMS320C50 signal processors and one Motorola MC68302 microcontroller. With current devices the BOAR hardware provides approximately 40–70 kgates of logic capacity in DSP applications. The emulation capacity can be expanded by connecting several similar boards in chain. The system has also a versatile internal reprogrammable test environment for test bench development, performance evaluations and design debugging. The logic development environment is based on the Synopsys synthesis tools and an automatic design management software, which performs resource mapping and performance-driven design partitioning between FPGAs. The emulation hardware is currently connected to logic and software development environments via an RS-232C bus. The BOAR emulation system has been found a very efficient platform for real-life prototyping of different types of DSP algorithms and systems, and validating correct functionality of a VHDL macro library.