A synoptic climatology of pollen concentrations during the six warmest months in Sydney,Australia

This paper takes an air mass approach to investigating the influence of weather on pollen concentrations in the atmosphere in Sydney, Australia, by producing a synoptic classification of pollen concentrations measured in the Sydney Basin. This synoptic classification has been produced using multivariate statistical techniques including principal component analysis and cluster analysis, to assign days into meteorologically homogenous categories. Surface and upper air meteorological data for warm months (October-March) over a 10-year period were used as input into the statistical analyses. Eleven synoptic categories were found in Sydney during the warm months. Pollen concentrations for the total pollen load and five individual families measured over a 3.5-year period have been investigated for each of the synoptic categories. High pollen concentrations during the warm months in Sydney are found to be influenced by the presence of a region of low surface pressure located to the south of the continent, bringing fast dry westerly gradient winds to Sydney. It is envisaged that these results will be important from a pollen forecast and associated public health perspective.     

Vertical differences in Phragmites australis culm anatomy along a water depth gradient

We reported on quantitative anatomical comparisons of reed culms grown under a wide range of water depth (from −10 to +230 cm). The study focused mainly on the above water parts of ramets, but also provided an insight into the submerged internodes. Investigated anatomical features were: radial thickness of the internode wall and that of each tissue constituting it (epidermis and subepidermal tissues, aerenchyma channels, cortical sclerenchyma and parenchyma); areas of aerenchyma channels and the summed transversal area of them; areas of the innermost vascular bundles involving the bundle sheath sclerenchyma, phloem and metaxylem vessels; the cross-sectional area of the pith cavity and that of the internode wall. After a 2–3% decrease below the uppermost internode, the thickness of internode tissues, except for cortical sclerenchyma, continuously increased downwards. Quantitative differences between the ramets grown at different water depths were observed only from the lower aerial internodes. Parenchyma taking part considerably in the mechanical stability of culms with its large extension and thick cell walls was more-layered and thicker (with the maximum thicknesses of approximately 1200 and 1000 μm) in ramets from 180–200 than from 20–30 cm water depth. Areas of the innermost vascular bundles increased downwards and decreased after a maximum value appearing in lower internodes of ramets grown in deeper than shallower water. Aerenchyma channels appeared farther up from the water surface in culms in shallower than deeper water: the top ends were found about 50 cm higher in culms from 20–30 than from 180–200 cm water depth. Along the transect at right angles to the shore, the radial thickness and area of aerenchyma channels were higher in ramets grown in medium water depth—the summed transversal area of them was greater than 4 mm² in internodes at the water surface, while plants from the two ends of the water depth gradient had smaller aerenchyma channels (with approximately 1 mm² total areas). In contrast, pith cavity area at the water surface continuously increased – up to 60 mm² – from shallower to deeper water. Therefore, oxygen transport in ramets grown at the open water fringe of stands may occur mostly in the pith cavity.     

Characterization and Distribution of the Selected Metals in the Scalp Hair of Cancer Patients in Comparison with Normal Donors

Eighteen metals were estimated in the scalp hair samples from cancer patients (n = 111) and normal donors (n = 113). Nitric acid–perchloric acid wet digestion procedure was used for the quantification of the selected metals by flame atomic absorption spectrophotometry. In the scalp hair of cancer patients, highest average levels were found for Ca (861 μg/g), followed by Na (672 μg/g), Zn (411 μg/g), Mg (348 μg/g), Fe (154 μg/g), Sr (129 μg/g), and K (116 μg/g), whereas in comparison, the dominant metals in the scalp hair of normal donors were Ca (568 μg/g), Zn (177 μg/g), Mg (154 μg/g), Fe (110 μg/g), and Na (103 μg/g). The concentrations of Ca, Cd, Co, Cr, Fe, K, Mg, Mn, Na, Ni, Pb, Sb, Sr, and Zn were notably higher in the hair of cancer patients as compared with normal donors, which may lead to a number of physiological disorders. Strong positive correlations were found in Mn–Pb (0.83), Cd–Cr (0.82), Cd–Li (0.57), Fe–Pb (0.56), and Fe–Mn (0.55) in the hair of cancer patients whereas Na–Cd, Li–Cr, Li–Co, Co–Cd, Li–Cd, Na–Co, Na–Li, Ca–Mg and Na–Cr exhibited strong relationships (r > 0.50) in the hair of normal donors. Principal Component Analysis (PCA) of the data revealed seven PCs, both for cancer patients and normal donors, but with significantly different loadings. Cluster Analysis (CA) was also used to support the PCA results. The study evidenced significantly different pattern of metal distribution in the hair of cancer patients in comparison with normal donors. The role of trace metals in carcinogenesis was also discussed.     

Cell-cycle-dependent variations in FTIR micro-spectra of single proliferating HeLa cells: Principal component and artificial neural network analysis

We have previously reported spectral differences for cells at different stages of the eukaryotic cell division cycle. These differences are due to the drastic biochemical and morphological changes that occur as a consequence of cell proliferation. We correlate these changes in FTIR absorption and Raman spectra of individual cells with their biochemical age (or phase in the cell cycle), determined by immunohistochemical staining to detect the appearance (and subsequent disappearance) of cell-cycle-specific cyclins, and/or the occurrence of DNA synthesis. Once spectra were correlated with their cells' staining patterns, we used methods of multivariate statistics to analyze the changes in cellular spectra as a function of cell cycle phase.     

Automata networks as preprocessing technique of artificial neural network in estimating primary production and dominating phytoplankton levels in a reservoir: An experimental work

Artificial Neural Networks (ANN) is computational architectures that can be used for estimating primary production levels and dominating phytoplankton species in reservoirs. Automata Networks (AN) were applied as a pre-processing method with subsequent ANN model development for Demirdöven Dam Reservoir. The primary purpose of using pre-processing technique was to distinguish the suitable and appropriate constituents of the input parameters' matrix, to eliminate redundancy, to enhance prediction power and calculation efficiency. The data were collected monthly over two years. The applications have yielded following results: The correlation coefficients (r values) between predicted and observed counts were as high as 0.83, 0.87, 0.83 and 0.88 for Cyclotella ocellata, Sphaerocystis schroeteri, Staurastrum longiradiatum counts, and Chlorophyll-a (Chl-a) concentrations respectively with AN. The performance of AN based pre-processing technique was compared with the performance of a well-known pre-processing technique, namely Principle Component Analysis(PCA), experimentally. r values between the predicted and observed C. ocellata, S. schroeteri and S. longiradiatum counts, and (Chl-a) were as high as 0.80, 0.86, 0.81 and 0.86 respectively with PCA.     

Estimates of heritability and correlations of morphometric traits in Clarkia (Onagraceae)

Summary Interspecific heritability values were estimated using parent-offspring regression analyses for 11 morphological traits differentiating Clarkia nitens and C. speciosa subsp. polyantha. Estimates ranged from near 0 for anther color and germination percentage, to 0.8 for calyx length and petal tip color. Phenotypic, genetic, and environmental correlation matrices were computed to determine the extent of interspecific correlations of traits. Cluster analyses of the genetic and environmental correlation matrices each resulted in three clusters of correlated traits; however, the clusters derived from the two matrices were different. The clusters produced by analysis of the environmental correlation matrix were similar to the factors obtained from principal component analysis of the phenotypic correlation matrix. Genetic correlations may result from strong linkage due to interspecific chromosomal differences.     

Heterogeneity of muscle activation in relation to force direction: A multi-channel surface electromyography study on the triceps surae muscle

Several skeletal muscles can be divided into sub-modules, called neuromuscular compartments (NMCs), which are thought to be controlled independently and to have distinct biomechanical functions. We looked for distinct muscle activation patterns in the triceps surae muscle (TS) using surface electromyography (EMG) during voluntary contraction. Nine subjects performed isometric and isotonic plantar flexions combined with forces along pre-defined directions. Besides the forces under the ball of the foot, multi-channel surface EMG was measured with electrodes homogeneously distributed over the entire TS. Using principal component analysis, common (global) components were omitted from the EMG signals, thereby estimating muscle activity sufficiently accurate to track fine fluctuations of force during an isotonic contraction (r = 0.80 ± 0.09). A subsequent cluster analysis showed a topographical organization of co-activated parts of the muscle that was different between subjects. Low and negative correlations between the EMG activity within clusters were found, indicating a substantial heterogeneity of TS activation. The correlations between cluster time series and forces at the foot in specific directions differed substantially between clusters, showing that the differentially activated parts of the TS had specific biomechanical functions.     

Stress and dental asymmetry in a population of Japanese children

We studied the significance of the magnitude of fluctuating dental asymmetry in 489 Japanese children by regression analysis. The search was for the predictability of asymmetry from levels of five factors assumed to be relevant parameters of prenatal stress. The five factors were derived by principal components analysis to simplify the interrelationships between birth weight, gestational age, maternal age, parity, sex, year of birth, socioeconomic status, and F, the coefficient of inbreeding. Only the regression of asymmetry on a factor representing a secular effect related to sex ratio was statistically significant; however, the relationship was too small to be biologically meaningful. The significance of individual asymmetry is thus equivocal, and this is discussed in terms of the meaning of asymmetry vis à vis overall fitness and developmental homeostasis. We conclude that experimental research will be necessary to elucidate not only the determinants of dental asymmetry but the relationship between these determinants and mortality and morbidity.     

Anthropogenic impact on water quality of Chilika lagoon RAMSAR site: a statistical approach

This paper investigated the spatio-temporal variability of water quality parameters (transparency, salinity, dissolved oxygen, nutrients viz. NH₃-N, NO₂-N, NO₃⁻-N, PO₄³-P, total nitrogen, total phosphorous and chlorophyll-a) in Chilika lagoon during 2001–2003 in order to better understand its ecological characteristics. Marked spatial and seasonal variations were detected with respect to almost all parameters studied. Northern sector of the lagoon is more affected by the anthropogenic stress from the catchments than the southern sector. Addition of nitrogen and phosphorous compounds to the lagoon mainly occurred through the drainage from agricultural lands and river run off during the early months of paddy cultivating seasons. Phytoplankton productivity of the lagoon was nitrogen limited, as suggested by nitrogen to phosphorous ratio. Processes affecting the water quality of the lagoon system included agricultural drainage, sewage intrusion, macrophyte litter fall and exchange of water between lagoon and the sea (Bay of Bengal). Further in depth study pertaining to quantification of exogenous material input and their disposal is recommended to ensure proper management of the lagoon and its resources.     

Multivariate assessment of activated sludge stability in lab-scale experiments

In wastewater research, the transfer of activated sludge from large-scale plants to lab-scale reactors induces a transient period. It is crucial to quantitatively assess the stability of activated sludge before starting any experimental procedure. Otherwise, the transient interferes with the experimental results, jeopardizing reproducibility and accuracy. This paper presents a novel multivariate technique to assess activated sludge stability based on the combination of principal component analysis (PCA) with the squared prediction error (SPE) statistic. The proposed method allows for a more accurate estimation of activated sludge stability than existing univariate methods and also eliminates the need to establish thresholds for every single variable. The procedure is validated on experimental data obtained by Van den Broeck et al. [1].     

Changes in electromyographic activity after botulinum toxin injection of the rectus femoris in patients with hemiparesis walking with a stiff-knee gait

PurposeThis study was designed to evaluate the effects of botulinum toxin type-A (BoNTA) injection of the rectus femoris (RF) muscle on the electromyographic activity of the knee flexor and extensor and on knee and hip kinematics during gait in patients with hemiparesis exhibiting a stiff-knee gait.MethodTwo gait analyses were performed on fourteen patients: before and four weeks after BoNTA injection. Spatiotemporal, kinematic and electromyographic parameters were quantified for the paretic limb.ResultsBoNTA treatment improved gait velocity, stride length and cadence with an increase of knee angular velocity at toe-off and maximal knee flexion in the swing phase. Amplitude and activation time of the RF and co-activation duration between the RF and biceps femoris were significantly decreased. The instantaneous mean frequency of RF was predominantly lower in the pre-swing phase.ConclusionsThe results clearly show that BoNTA modified the EMG amplitude and frequency of the injected muscle (RF) but not of the synergist and antagonist muscles. The reduction in RF activation frequency could be related to increased activity of slow fibers. The frequency analysis of EMG signals during gait appears to be a relevant method for the evaluation of the effects of BoNTA in the injected muscle.     

Application of principal component analysis in clinical gait research: Identification of systematic differences between healthy and medial knee-osteoarthritic gait

For a successful completion of a movement task the motor control system has to observe a multitude of internal constraints that govern the coordination of its segments. The purpose of this study was to apply principal component (PC) analysis to detect differences in the segmental coordination between healthy subjects and patients with medial knee osteoarthritis (OA). It was hypothesized that (1) systematic differences in patterns of whole body movement would be identifiable with this method even in small sample sized groups and that (2) these differences will include compensatory movements in the OA patients in both the lower and upper body segments. Marker positions and ground reaction forces of three gait trials of 5 healthy and 5 OA participants with full body marker sets were analyzed using a principal component analysis. Group differences in the PC-scores were determined for the first 10 PC-vectors and a linear combination of those PC-vectors where differences were found defined a discriminant vector. Projecting the original trials onto this discriminant vector yielded significant group differences (t(d=8)=3.011; p=0.017) with greater upper body movement in patients with knee OA that was correlated with the medial–lateral ground reaction force. These results help to characterize the adaptation of whole-body gait patterns to knee OA in a relatively small population and may provide an improved basis for the development of interventions to modify knee load. The PC-based motion analysis offered a highly sensitive approach to identify characteristic whole body patterns of movement associated with pathological gait.     

Evolution of tryptophan biosynthetic pathway in microbial genomes: a comparative genetic study

Biosynthetic pathway evolution needs to consider the evolution of a group of genes that code for enzymes catalysing the multiple chemical reaction steps leading to the final end product. Tryptophan biosynthetic pathway has five chemical reaction steps that are highly conserved in diverse microbial genomes, though the genes of the pathway enzymes show considerable variations in arrangements, operon structure (gene fusion and splitting) and regulation. We use a combined bioinformatic and statistical analyses approach to address the question if the pathway genes from different microbial genomes, belonging to a wide range of groups, show similar evolutionary relationships within and between them. Our analyses involved detailed study of gene organization (fusion/splitting events), base composition, relative synonymous codon usage pattern of the genes, gene expressivity, amino acid usage, etc. to assess inter- and intra-genic variations, between and within the pathway genes, in diverse group of microorganisms. We describe these genetic and genomic variations in the tryptophan pathway genes in different microorganisms to show the similarities across organisms, and compare the same genes across different organisms to find the possible variability arising possibly due to horizontal gene transfers. Such studies form the basis for moving from single gene evolution to pathway evolutionary studies that are important steps towards understanding the systems biology of intracellular pathways.     

Carbon utilization profiles of bacteria colonizing the headbox water of two paper machines in a Canadian mill

Forty-one bacterial strains isolated from the headbox water of two machines in a Canadian paper mill were associated with the genera Asticcacaulis, Acidovorax, Bacillus, Exiguobacterium, Hydrogenophaga, Pseudomonas, Pseudoxanthomonas, Staphylococcus, Stenotrophomonas based on the sequence of their 16S rRNA genes. The metabolic profile of these strains were determined using Biolog EcoPlate, and the bacteria were divided into four metabolic groups. Metabolic profiles of the bacterial communities colonizing the headbox water of two paper machines was also determined weekly over a 1 year period. The only compound that was not reduced by the bacterial community was 2-hydroxybenzoic acid. Utilization frequency of the other carbon sources in the Biolog EcoPlate ranged from 3 to 100%. The metabolic profiles of the bacterial community did not vary considerably between the two paper machines. However, the metabolic profile varied among the sampling dates.     

Sperm head morphometry in ejaculates of adult marmosets (Callithrix jacchus): A model for studying sperm subpopulations and among-donor variations

In humans and other mammals, sperm morphology has been considered one of the most important predictive parameters of fertility. The objective was to determine the presence and distribution of sperm head morphometric subpopulations in a nonhuman primate model (Callithrix jacchus), using an objective computer analysis system and principal component analysis (PCA) methods to establish the relationship between the subpopulation distribution observed and among-donor variation. The PCA method revealed a stable number of principal components in all donors studied, that represented more than 85% of the cumulative variance in all cases. After cluster analysis, a variable number (from three to seven) sperm morphometric subpopulations were identified with defined sperm dimensions and shapes. There were differences in the distribution of the sperm morphometric subpopulations (P < 0.001) in all ejaculates among the four donors analyzed. In conclusion, in this study, computerized sperm analysis methods combined with PCA cluster analyses were useful to identify, classify, and characterize various head sperm morphometric subpopulations in nonhuman primates, yielding considerable biological information. In addition, because all individuals were kept in the same conditions, differences in the distribution of these subpopulations were not attributed to external or management factors. Finally, the substantial information derived from subpopulation analyses provided new and relevant biological knowledge which may have a practical use for future studies in human and nonhuman primate ejaculates, including identifying individuals more suitable for assisted reproductive technologies.     

Product formation and kinetic simulations in the pH range 1-14 account for a free-radical mechanism of peroxynitrite decomposition

The yields of nitrate and nitrite from decomposition of peroxynitrite in phosphate buffer at 37 degrees C were determined in the pH range 1-14. The NO(2)(-)/NO(3)(-) yields showed a stepwise variation with pH, with inflection points at approximately pH 3.1, 5.8, 6.8, 8.0, and 11.9. Nitrite formation increased strongly above pH 7 at the expense of nitrate, but above pH 12 nitrate again became the major product (80% at pH 14). At this pH, the Arrhenius parameters were E(a)=24.1+/-0.2kcal mol(-1) and A=(4.9+/-1.3)x10(12)s(-1). The yields of NO(2)(-), NO(3)(-), and O(2) measured at pH 5.8, 7.4, and 8.5 as a function of the initial peroxynitrite concentration (50-1000 microM) were linear only at pH 5.8. In the presence of carbon dioxide, oxygen production at pH 7.5 and pH 10 was found to be linear on the CO(2) concentration. The experimental observations were satisfactorily reproduced by kinetic simulations including principal component analyses. These data strongly suggest that the chemistry of peroxynitrite is exclusively mediated by z.rad;NO(2) and HO(z.rad;) radicals in the absence, and by z.rad;NO(2) and CO(3)(z.rad;-) radicals in the presence of CO(2).     

Analysis of the multi-segmental postural movement strategies utilized in bipedal,tandem and one-leg stance as quantified by a principal component decomposition of marker coordinates

Postural control research describes ankle-, hip-, or multi-joint strategies as mechanisms to control upright posture. The objectives of this study were, first, development of an analysis technique facilitating a direct comparison of the structure of such multi-segment postural movement patterns between subjects; second, comparison of the complexity of postural movements between three stances of different difficulty levels; and third, investigation of between-subject differences in the structure of postural movements and of factors that may contribute to these differences.     

Signaling networks in Leishmania macrophages deciphered through integrated systems biology: a mathematical modeling approach

Network of signaling proteins and functional interaction between the infected cell and the leishmanial parasite, though are not well understood, may be deciphered computationally by reconstructing the immune signaling network. As we all know signaling pathways are well-known abstractions that explain the mechanisms whereby cells respond to signals, collections of pathways form networks, and interactions between pathways in a network, known as cross-talk, enables further complex signaling behaviours. In silico perturbations can help identify sensitive crosstalk points in the network which can be pharmacologically tested. In this study, we have developed a model for immune signaling cascade in leishmaniasis and based upon the interaction analysis obtained through simulation, we have developed a model network, between four signaling pathways i.e., CD14, epidermal growth factor (EGF), tumor necrotic factor (TNF) and PI3 K mediated signaling. Principal component analysis of the signaling network showed that EGF and TNF pathways can be potent pharmacological targets to curb leishmaniasis. The approach is illustrated with a proposed workable model of epidermal growth factor receptor (EGFR) that modulates the immune response. EGFR signaling represents a critical junction between inflammation related signal and potent cell regulation machinery that modulates the expression of cytokines.     

Comparison of transgenic <Emphasis Type="Italic">Gerbera hybrida</Emphasis> lines and traditional varieties shows no differences in cytotoxicity or metabolic fingerprints

Genetic modification using gene transfer (GM) is still controversial when applied to plant breeding at least in Europe. One major concern is how GM affects other genes and thus the metabolism of the plant. In this study, 225 genetically modified lines of the ornamental plant Gerbera hybrida and 42 non-GM gerbera varieties were used to investigate changes in secondary metabolism. The cytotoxicity of GM and non-GM gerbera extracts was evaluated on human cell lines derived from lung, liver, and intestinal tissues. The results indicate that the safety profile for GM gerbera lines is similar to the viability pattern for non-GM varieties-none of the extracts were toxic. In addition, metabolic fingerprints of gerbera extracts were identified using thin-layer chromatography and analysed by principal component analysis (PCA), the nearest neighbour classifier, and Fligner-Killeen test. No new compounds unique to GM lines were observed. With PCA, no separation between GM gerbera lines and varieties could be demonstrated. In the nearest neighbour classifier, 54% of the samples found the expected neighbour based on the gene constructs used for transformation. With Fligner-Killeen test, we studied if the amounts of compounds vary more in GM gerberas than in varieties. In most cases, there were no statistically significant differences between the varieties and GM lines or there was more variation among the non-GM varieties than in the GM lines. The variance of a single compound was significantly larger in transgenic gerbera lines than in varieties and of three compounds in non-GM varieties.