Spectral multichannel monitoring of radiation within a mature mixed forest

A multi-sensor system is described based on fiber optic technology and a diode array spectrometer for near-simultaneous measurement of spectral photon fluence rates (PFR) in the range of 360 nm to 1020 nm with a resolution of 0.8 nm, within a mature Norway spruce ( Picea abies [L.] Karst.) - European beech ( Fagus sylvatica L.) stand. 126 space-integrating spherical sensors, deployed in a regular grid above and within the canopy and on the forest floor, are sequentially connected to the spectrometer by means of fiber optics. About 1 s per sensor is needed to collect spectral data, store them on hard disk and move the channel multiplexer to the next fiber optic position. Data thus obtained serve to determine vertical profiles of wavelength-dependent photon extinction, especially for spectral ratios and wavebands, characterization of phenological stages, analyses of time series, and meteorological influences such as solar altitude and cloud cover. First measurements during leaf fall 2004 show a non-linear relation of the red/far-red ratio (R/FR) with relative photosynthetic PFR (PPFR (rel)). An analysis of relative PFR (PFR (rel)) quantifies the frequency of penumbral sunfleck occurrence and the fraction of incoming radiation on the forest floor. In-canopy measurements of daily means of PPFR (rel) and R/FR indicate that leaf unfolding and leaf fall can be described by a single sensor, independent of its vertical location within the canopy.     

Female rats show a bimodal preference response to the artificial sweetener sucralose

The preference of female Sprague-Dawley rats for sucralose, a non-nutritive sweetener derived from sucrose, was evaluated in 23 h two-bottle tests with water or saccharin. Overall, the rats displayed weak or no preferences for sucralose (0.25-4 g/l) over water but strong preferences for saccharin (0.5-8 g/l) over water and saccharin (1 g/l) over sucralose (0.5 g/l). The rats also preferred a saccharin + sucrose mixture to sucrose, but sucrose to a sucralose + sucrose mixture. There were marked individual differences in sucralose preferences: about half the rats preferred sucralose to water at some concentrations while most remaining rats avoided sucralose. Both subgroups preferred saccharin to sucralose. Sucralose appears to have an aversive off-taste that reduces its palatability to rats.     

Multiple gene detection by in situ RT-PCR in isolated plant cells and tissues

With the number of functional genomic approaches in plant biology increasing daily, the demand for rapid and reliable RNA localization techniques for gene characterization is being felt. We present herein a novel, liquid phase in situ RT-PCR (IS-RT-PCR) protocol using a combination of gene-specific fluorescent primers and spectral confocal microscopy to localize target RNA in epicotyl sections and xylogenic suspension cultures of Zinnia elegans. Potential sources of artefacts from fixation to gene detection were systematically eliminated using both fluorescent primers and nucleotides for 18S rRNA gene detection, resulting in a set of optimal parameters for IS-RT-PCR that may be readily adapted to any target gene. By judiciously choosing fluorescent primers with non-overlapping fluorochromes, we have shown that our technique is readily adapted to multiplex IS-RT-PCR, enabling the simultaneous localization of more than one gene within a complex tissue or heterogeneous cell population. A 6-carboxy-2',4,4',5',7,7'-hexachlorofluorescein (6-HEX)-labelled primer and a tetrachloro-6-carboxy-fluorescein (TET)-labelled primer were designed for two marker genes associated with programmed cell death in tracheary elements (TEs): an endonuclease (Zen1) and a cysteine protease (ZcP4), respectively. An additional Cyan5 (Cy5)-labelled primer was used to monitor 18SrRNA expression. As expected, the 18S signal was constitutively expressed throughout epicotyls sections and living cells in xylogenic in vitro cultures, whereas Zen1 and ZcP4 were co-localized in forming TEs both in planta and in vitro. Analogous to clustering analysis of gene expression using microarrays to elucidate common metabolic pathways and developmental processes, this novel technique is perfectly adapted to gaining a better understanding of gene function via the coordinated expression of genes in specific cell types of complex tissues and cell populations.     

Aggregation of normal and sickle hemoglobin in high concentration phosphate buffer

Sickle cell disease is caused by a mutant form of hemoglobin, hemoglobin S, that polymerizes under hypoxic conditions. The extent and mechanism of polymerization are thus the subject of many studies of the pathophysiology of the disease and potential treatment strategies. To facilitate such studies, a model system using high concentration phosphate buffer (1.5 M-1.8 M) has been developed. To properly interpret results from studies using this model it is important to understand the similarities and differences in hemoglobin S polymerization in the model compared to polymerization under physiological conditions. In this article, we show that hemoglobin S and normal adult hemoglobin, hemoglobin A, aggregate in high concentration phosphate buffer even when the concentration of hemoglobin is below the solubility defined for polymerization. This phenomenon was not observed using 0.05 M phosphate buffer or in another model system we studied that uses dextran to enhance polymerization. We have used static light scattering, dynamic light scattering, and differential interference contrast microscopy to confirm aggregation of deoxygenated and oxygenated hemoglobins below their solubility and have shown that this aggregation is not observable using turbidity measurements, a common technique for assessing polymerization. We have also shown that the aggregation increases with increasing temperature in the range of 15 degrees -37 degrees C and that it increases as the concentration of phosphate increases. These studies contribute to the working knowledge of how to properly apply studies of hemoglobin S polymerization that are conducted using the high phosphate model.     

Measurement of EROD Activity: Caution on Spectral Properties of Standards Used

The activity of the enzyme 7-ethoxy-resorufin-O-deethylase (EROD) has been extensively used in biomonitoring studies for more than a decade. Although the analytical procedure is simple, it is often poorly characterized. In this study spectral properties of particular standard compounds used to measure EROD activity (ethoxyresorufin and resorufin, standards from Molecular Probes) were tested in order to optimize excitation and emission wavelengths to be used in the fluorimetric assay of EROD activity. The optimal excitation wavelength for the detection of resorufin was 560 nm. At this wavelength the excitation represents only 37% of its maximum level for ethoxyresorufin, while it represents 86% for resorufin. This allows discrimination between the fluorescence emitted by both standards, favoring the formed resorufin. Our results demonstrate that any analytical work using spectrofluorometry to measure EROD activity should be preceded by precise determination of the spectral characteristics of each set of standards used.     

Wavelength-dependent spectral changes accompany CN-hemin binding to human apohemoglobin

The interaction of apohemoglobin with two heme derivatives, CN-protohemin and CN-deuterohemin, was monitored at multiple Soret wavelengths (417–423 and 406–412 nm, respectively) in 0.05 M potassium phosphate buffer, pH 7.0, at 10°C and revealed, as previously reported, a multiphasic kinetic reaction. Wavelength-dependent reactions were observed for both CN-protohemin and CN-deuterohemin derivatives with the a chain (bathochromic entity) displaying faster (4- to 7-fold) rates throughout the courses of both heme-binding reactions. The basis of this spectrally heterogeneous kinetic phenomenon could be deduced from molecular modeling studies of - and -chain structures. Key differences in the number of stabilizing contacts of the two chains with the peripheral a propionyl 45(CE3); 58(E7); 61(E10) as well as the b vinyl 38(C4); 71(E15); 106(G8) groups were found. Furthermore, RMS plots comparing apo- and heme-containing subunits reveal substantial structural disparities in the C-CD-F-FG helical regions of the dimer interface.     

The distribution of ticks (Acari: Ixodidae) of domestic livestock in Portugal

This paper introduces the first countrywide faunistic study of the tick parasites on ruminants in Portugal. The aim of this study was to map accurately the distribution of the ticks Dermacentor marginatus, Rhipicephalus (Boophilus) annulatus, R. bursa, Hyalomma m. marginatum, H. lusitanicum and Ixodes ricinus in Portugal. Additional information about the abiotic preferences of these species has been obtained through the use of abiotic (temperature- and vegetation-derived) variables have been recorded from remotely sensed information at a nominal resolution of 1.1 km². A further aim was the development of predictive models of distribution using Classification and Regression Trees (CART) methodologies. Four species (R. annulatus, R. bursa, D. marginatus and H. m. marginatum) are mostly restricted to south-eastern parts of the country, under hot and dry climate conditions of Mediterranean type. H. lusitanicum has been collected almost only in the southern half of Portugal. I. ricinus has a very patchy distribution and is mainly associated with vegetation of Quercus spp., found in southern zones of the country, but it is present also in the more humid western part. A variable number of abiotic variables, mainly temperature derived, are able to describe the preferences of the tick species. It is remarkable that variables derived from maximum values of the Normalized Derived Vegetation Index (yearly or summer-derived) only apply to discriminate areas where I. ricinus has been collected. CART models are able to map the distribution of these ticks with accuracy ranging within 75.3 and 96.4% of actual positive sites.     

A non-directed approach to the differential analysis of multiple LC–MS-derived metabolic profiles

An essential element of any strategy for non-targeted metabolomics analysis of complex biological extracts is the capacity to perform comparisons between large numbers of samples. As the most widely used technologies are all based on mass spectrometry (e.g. GCMS, LCMS), this entails that we must be able to compare reliably and (semi)automatically large series of chromatographic mass spectra from which compositional differences are to be extracted in a statistically justifiable manner. In this paper we describe a novel approach for the extraction of relevant information from multiple full-scan metabolic profiles derived from LC–MS analyses. Specifically-designed software has made it possible to combine all mass peaks on the basis of retention time and m/z values only, without prior identification, to produce a data matrix output which can then be used for multivariate statistical analysis. To demonstrate the capacity of this approach, aqueous methanol extracts from potato tuber tissues of eight contrasting genotypes, harvested at two developmental stages have been used. Our results showed that it is possible to discover reproducibly discriminatory mass peaks related both to the genetic origin of the material as well as the developmental stage at which it was harvested. In addition the limitations of the approach are explored by a careful evaluation of the alignment quality.     

Modifications of EEG Related to Repeated Static Grasp Efforts Developed by the Hand in Humans

The characteristics of EEG recorded before, in the course, and after three sequential static grasp efforts developed by the right hand were analyzed in 14 healthy volunteers of both sexes, 19 to 56 years old. The grasps were 3 min long, and intervals between the sequential trials were 5 min long. The mean intensity was, as a rule, the greatest in the first trial and decreased, because of fatigue, in the second and third trials. In the course of the grasp effort, significant (P ≤ 0.05) or close to significant decreases in the spectral power were observed in all trials within the alpha2 subrange in some frontal, central, and central/temporal leads. This reaction of desynchronization of alpha2 oscillations probably reflects activation of the sensorimotor cortical zones. Within the above period, the power of alpha2 oscillations increased in the occipital leads. In a few leads of the frontal group, the powers of delta, theta1, theta2, and alpha1 oscillations increased significantly (P < 0.05) in the course of the first trial. Such reaction was not observed in the second and third trials, while the powers of delta and alpha1 ranges increased in the occipital sites (P < 0.05). The powers of delta and theta oscillations increased, as compared with the control values, after the second and third grasps. Such specific EEG modifications in sequential trials can be related to the actions of a novelty factor in the first trial and a fatigue factor in the subsequent trials. The coherence coefficient (CC) of alpha and beta oscillations for symmetric leads usually increased in the course of the grasp. This effect reached a significance level (P < 0.05) for alpha2 oscillations in central, posterotemporal, parietal, and occipital pairs. The CC for beta2 oscillations increased in both temporal lead pairs. A drop in the interhemisphere coherence was more typical of the delta and theta1 ranges. Therefore, changes in the CC values show that the structure of interhemisphere interaction undergoes modifications with the development of the grasp static efforts. Neirofiziologiya/Neurophysiology, Vol. 37, No. 4, pp. 362–371, July–August, 2005.     

Construction and application of a mass spectral and retention time index database generated from plant GC/EI-TOF-MS metabolite profiles

The non-supervised construction of a mass spectral and retention time index data base (MS/RI library) from a set of plant metabolic profiles covering major organs of potato (Solanum tuberosum), tobacco (Nicotiana tabaccum), and Arabidopsis thaliana, was demonstrated. Typically 300-500 mass spectral components with a signal to noise ratio > or =75 were obtained from GC/EI-time-of-flight (TOF)-MS metabolite profiles of methoxyaminated and trimethylsilylated extracts. Profiles from non-sample controls contained approximately 100 mass spectral components. A MS/RI library of 6205 mass spectral components was accumulated and applied to automated identification of the model compounds galactonic acid, a primary metabolite, and 3-caffeoylquinic acid, a secondary metabolite. Neither MS nor RI alone were sufficient for unequivocal identification of unknown mass spectral components. However library searches with single bait mass spectra of the respective reference substance allowed clear identification by mass spectral match and RI window. Moreover, the hit lists of mass spectral searches were demonstrated to comprise candidate components of highly similar chemical nature. The search for the model compound galactonic acid allowed identification of gluconic and gulonic acid among the top scoring mass spectral components. Equally successful was the exemplary search for 3-caffeoylquinic acid, which led to the identification of quinic acid and of the positional isomers, 4-caffeoylquinic acid, 5-caffeoylquinic acid among other still non-identified conjugates of caffeic and quinic acid. All identifications were verified by co-analysis of reference substances. Finally we applied hierarchical clustering to a complete set of pair-wise mass spectral comparisons of unknown components and reference substances with known chemical structure. We demonstrated that the resulting clustering tree depicted the chemical nature of the reference substances and that most of the nearest neighbours represented either identical components, as judged by co-elution, or conformational isomers exhibiting differential retention behaviour. Unknown components could be classified automatically by grouping with the respective branches and sub-branches of the clustering tree.