Comparative analysis of three chemometric techniques for the spectroradiometric assessment of canopy chlorophyll content in winter wheat

Hyperspectral data sets contain useful information for characterizing vegetation canopies not previously available from multi-spectral data sources. However, to make full use of the information content one has to find ways for coping with the strong multi-collinearity in the data. The redundancy directly results from the fact that only a few variables effectively control the vegetation signature. This low dimensionality strongly contrasts with the often more than 100 spectral channels provided by modern spectroradiometers and through imaging spectroscopy. With this study we evaluated three different chemometric techniques specifically designed to deal with redundant (and small) data sets. In addition, a widely used 2-band vegetation index was chosen (NDVI) as a baseline approach. A multi-site and multi-date field campaign was conducted to acquire the necessary reference observations. On small subplots the total canopy chlorophyll content was measured and the corresponding canopy signature (450-2500 nm) was recorded (n_obs = 42). Using this data set we investigated the predictive power and noise sensitivity of stepwise multiple linear regression (SMLR) and two ‘full spectrum’ methods: principal component regression (PCR) and partial least squares regression (PLSR). The NDVI was fitted to the canopy chlorophyll content using an exponential relation. For all techniques, a jackknife approach was used to obtain cross-validated statistics. The PLSR clearly outperformed all other techniques. PLSR gave a cross-validated RMSE of 51 mg m⁻² for canopy chlorophyll contents ranging between 38 and 475 mg m⁻² (0.99 ≤ LAI ≤ 8.74 m² m⁻²). The lowest accuracy was achieved using PCR (RMSE_cv = 82 mg m⁻² and ). The NDVI, even using chlorophyll optimized band settings, could not reach the accuracy of PLSR. Regarding the sensitivity to artificially created (white) noise, PCR showed some advantages, whereas SMLR was the most sensitive chemometric technique. For relatively small, highly multi-collinear data sets the use of partial least square regression is recommended. PLSR makes full use of the rich spectral information while being relatively insensitive to sensor noise. PLSR provides a regression model where the entire spectral information is taken - in a weighted form - into account. This method seems therefore much better adapted to deal with potentially confounding factors compared to any 2-band vegetation index which can only avoid the most harmful factor of variation.     

Integrating landscape ecology and conservation physiology

The need to understand how anthropogenic landscape alteration affects fauna populations has never been more pressing. The importance of developing an understanding of the processes behind local extinction is widely acknowledged, but inference from spatial patterns of fauna distribution continues to dominate. However, this approach is limited in its ability to generate strong predictions about future distributions and local extinctions, especially when population-level responses to landscape alteration are subject to long time lags. We review the potential for indices of physiological stress and condition to contribute to understanding of how landscape pattern affects species persistence. Such measures can indicate habitat quality from the perspective of the individual animal, and can reveal environmental stressors before their negative consequences begin to manifest at a population level. Spatial patterns of chronic stress may therefore yield valuable insight into how landscape alteration influences species. We propose that the emerging disciplines of conservation physiology and macrophysiology have much to offer spatial ecology, and have great potential to reveal the physiological pathways through which habitat alteration affects fauna populations and their persistence in fragmented landscapes.     

Performance of enzyme-linked immunosorbent assays for detection of antibodies against T. congolense and T. vivax in goats

Indirect ELISAs using denatured antigen preparations of Trypanosoma (T.) congolense (TcAGd) and T. vivax (TvAGd) for detection of anti-trypanosome antibodies in bovine serum (I-TAB ELISAs), were adapted for serodiagnosis in goats. The diagnostic proficiency, the cross-reactivity with sera from heterologous trypanosome infections and the operational performance of the assays were evaluated on experimentally trypanosome-infected goats. The I-TAB ELISA (TcAGd) detected antibodies in all T. congolense infected goats (100% overall sensitivity) from 2 to 4 weeks post-infection (p.i.) until the end of the experiments. Specificity tested on 92 uninfected goats was 96.7%. Extensive cross-reactions of I-TAB ELISA (TcAGd) with sera from T. vivax or T. brucei infected goats were observed. The I-TAB ELISA (TvAGd) detected antibodies in 5 of the 6 T. vivax infected goats, specificity tested on uninfected goats was 100%. Cross-reactivity with sera from T. congolense or T. brucei infected goats remained limited. Infecting species identification based on the highest percent positivity (PP) in both systems, correctly identified all T. congolense infections, but misidentified in 2/19 occasions a T. vivax infection as a T. congolense infection. In the absence of T. brucei specific antigen coated plates, T. brucei infections were identified in, respectively, 7/9 and 2/9 occasions as T. congolense or T. vivax infections. Acceptable inter-plate repeatability was observed. The implications of results and technical requirements for ongoing applied research are discussed.     

Intra- and inter-provenance variability in phloem phenols of Picea abies and relationship to a bark beetle-associated fungus

One hundred Norway spruce (Picea abies (L.) Karst.) clones (three ramets per clone) were analyzed for phloem phenol composition and concentration before and 10 days after wound inoculation with sterile malt agar. Fifty clones (Experiment 1) belonged to the same provenance, whereas the remaining clones (Experiment 2) belonged to five provenances from three geographic areas. In Experiment 2, two additional ramets from the same clones were mass inoculated with Ceratocystis polonica (Siem.) C. Moreau to quantify the resistance of each clone. Tree response to wound inoculations was characterized by increased catechin concentration in both experiments, accompanied by increases in astringin and decreases in piceid in Experiment 1. In both experiments, we observed a diverse group of phenolic compounds whose concentrations increased (catechin, astringin) or did not vary (taxifolin glucoside) in response to wound inoculations, whereas concentrations of a homogeneous group of stilbene compounds decreased (piceid) or did not vary (isorhapontin, unidentified stilbene). In Experiment 2, provenances from the alpine and Hercynian-Carpatic areas differed from provenances from the Baltic area with respect to the relative importance of these two groups of compounds, further indicating that the two groupings of phenolic compounds structure the Norway spruce populations. Eighty days after mass inoculation, the percentage of healthy sapwood, which was taken as a measure of tree resistance, indicated that clones from the Baltic area were less resistant to mass inoculations than clones from the alpine and Hercynian-Carpatic areas. We conclude that the degree of resistance of Norway spruce trees to mass inoculations with a bark beetle-associated fungus can be predicted based on the diversity of constitutive phloem phenols and the ability to induce phenol synthesis in response to wounding.     

Correlations and variance among species traits explain contrasting impacts of fragmentation and habitat loss on functional diversity

Landscape Ecology - Understanding how landscape fragmentation affects functional diversity, defined as the distribution of functional traits in an assemblage, is critical for managing landscapes...     

Occurrence of High In-Stream Nitrite Levels in a Temperate Region Agricultural Watershed

This study is the first to report nitrite occurrence and variability in surface water across an agricultural watershed in the province of Quebec, Canada. Nitrite (NO₂ ^?) concentrations were monitored across a 2.4 km² watershed during 2 years. Water samples were collected at the outlet from April to November and in three contrasted stream branches (six stations) during three hydrological regimes (summer low water levels, fall recharge, and snowmelt). Our study clearly demonstrates that NO₂ ^? levels observed at the outlet are not representative of NO₂ ^? variability across the micro-watershed. Surface water collected in cropped areas presents high NO₂ ^? concentrations during summer low water levels, often exceeding guidelines for aquatic life, with NO₂ ^? means ranging from 0.022 to 0.107 mg N L^?1 and maximum value reaching 0.156 mg N L^?1. Furthermore, the two stream branches in cropped area have demonstrated significant differences in NO₂ ^? concentrations and other water quality parameters. The importance of groundwater discharge to streams in the micro-watershed Bras d’Henri may potentially generate different in-stream sources of NO₂ ^? and water quality parameters. However, further studies are essential to determine sources and processes related to in-stream NO₂ ^? peaks.     

Influence of the allelic variants encoded at the Gli-B1 locus, responsible for a major allergen of wheat, on IgE reactivity for patients suffering from food allergy to wheat

Wheat presents an important genetic diversity that could be useful to look for cultivars with reduced allergencity. omega5-Gliadins have been described as major allergens for wheat allergic patients suffering from wheat-dependent exercise-induced anaphylaxis (WDEIA) and some cases of chronic urticaria (U). Our objective was to study the influence of genetic variability at the Gli-B1 locus encoding for omega5-gliadins on the reactivity of IgE antibodies from these patients. We selected cultivars expressing 13 alleles at Gli-B1 including a wheat/rye translocation and studied the reactivity to gliadins of a rabbit antiserum specific for omega5-gliadins and of IgE from 10 patients. The antiserum and IgE from nine patients with WDEIA and U strongly detected omega5-gliadins expressed by most of the Gli-B1 alleles but showed no or faint responses to the gliadins and secalins extracted from the translocated wheat. The selection of genotypes lacking the Gli-B1 locus may reduce wheat allergenicity.