Comparison of bacteria in different metabolic states by micro-Raman spectroscopy

It was shown that several metabolic states of bacteria with various characteristics such as chemical composition participate in the formation of biofilms. To study the connections and differences among different bacterial metabolic states, five species of bacteria in exponential phase, stationary phase and biofilm have been compared and investigated by micro-Raman spectroscopy. The spectral differences between different metabolic states showed that the chemical composition varied among those metabolic states. Moreover, as can be shown by the spectral differences and principal components (PCs), different species and strains of bacteria behave differently. Furthermore, a principal component analysis (PCA) combined with support vector machines (SVM) was applied to distinguish species of bacteria within the same metabolic states. Our study provides valuable data for the comparison of bacteria between different metabolic states utilizing micro-Raman spectroscopy in combination with chemometrics models

Tree species driving functional properties of mobile organic matter in throughfall and forest floor solutions of beech, spruce and pine forests

The chemical nature of mobile organic matter is a prerequisite for advancing our understanding of the C and nutrient cycling and other forest ecosystem processes. Tree species differ in leaf composition (e.g. nutrient, polyphenol content) and leaf litter quality, which in turn affects a variety of ecosystem processes. However, the composition of OM derived from living plant material via throughfall (TF) and its compositional fate traversing the forest floor (FF) is insufficiently understood. Are there tree-species specific differences in functional properties (e.g. aromaticity) of OM in TF and FF solutions collected from pine, spruce and different beech stands? And if yes- how do functional properties change with tree species and ecosystem compartment (throughfall vs. forest floor)? We addressed these questions by applying solid-state C-13 NMR spectroscopy to TF and FF solutions from European beech forests of the three DFG “Biodiversity Exploratories”, from Norway spruce sites of the Hainich-Dün-Exploratory and Scots pine stands in East-Thuringia. C-13 NMR spectroscopy revealed a homogeneous composition of TF-DOM under beech between the three Exploratories and exhibited remarkable tree-species related differences in DOM composition: Compared to spruce and pine, TF-DOM under beech showed higher intensities of aromatic and phenolic C (beech > pine > spruce) and lower ones of alkyl-C (pine ≈ spruce > beech). Consequently, beech TF exhibited higher aromaticity values and lower alkyl/O-alkyl ratios (i.e. extent of decomposition) in comparison to coniferous TF-DOM. FF-DOM under beech was very similar between the three “Biodiversity Exploratories” and surprisingly analog to FF-DOM under spruce, while under pine higher intensities of aromatic and phenolic C and alkyl-C (pine > beech ≈ spruce) and lower O-alkyl-C signals were observed. Thus, pine FF-DOM exhibited the highest values for both aromaticity (28%) and decomposition (0.87). In essence, tree-species effects became most notable for the composition and functionality of DOM in TF exhibiting consistently the highest aromatic and phenolic C signals for the beech sites. In view of the allelopathic effectiveness of phenolic compounds, the results might point to an increased allelopathic potential of beech TF, which successfully impairs competing plants and organisms and hence alter ecosystem processes and functioning. In the end, the ecological functions of DOM in ecosystems are still imperfectly understood

Global stabilization of fixed points using predictive control

We analyze the global stability properties of some methods of predictive control. We particularly focus on the optimal control function introduced by de Sousa Vieira and Lichtenberg [Phys. Rev. E54, 1200 (1996)]. We rigorously prove that it is possible to use this method for the global stabilization of a discrete system xn+1=f(xn) into a positive equilibrium for a class of maps commonly used in population dynamics. Moreover, the controlledsystem is globally stable for all values of the control parameter for which it is locally asymptotically stable. Our study highlights the difficulty of obtaining global stability results for other methods of predictive control, where higher iterations of f are used in the control scheme.Ministerio de Ciencia e InnovaciónFondo Europeo de Desarrollo Regiona

Towards a Harmonized Terminology: A Glossary for Biocide Susceptibility Testing

Disinfection is a key strategy to reduce the burden of infections. The contact of bacteria to biocides—the active substances of disinfectants—has been linked to bacterial adaptation and the development of antimicrobial resistance. Currently, there is no scientific consensus on whether the excessive use of biocides contributes to the emergence and spread of multidrug resistant bacteria. The comprehensive analysis of available data remains a challenge because neither uniform test procedures nor standardized interpretive criteria nor harmonized terms are available to describe altered bacterial susceptibility to biocides. In our review, we investigated the variety of criteria and the diversity of terms applied to interpret findings in original studies performing biocide susceptibility testing (BST) of field isolates. An additional analysis of reviews summarizing the knowledge of individual studies on altered biocide susceptibility provided insights into currently available broader concepts for data interpretation. Both approaches pointed out the urgent need for standardization. We, therefore, propose that the well-established and approved concepts for interpretation of antimicrobial susceptibility testing data should serve as a role model to evaluate biocide resistance mechanisms on a single cell level. Furthermore, we emphasize the adaptations necessary to acknowledge the specific needs for the evaluation of BST data. Our approach might help to increase scientific awareness and acceptance

Dissolved organic matter characteristics of deciduous and coniferous forests with variable management: different at the source, aligned in the soil

This dataset contains the data to the article: "Dissolved organic matter characteristics of deciduous and coniferous forests with variable management: different at the source, aligned in the soil" published in BiogeosciencesDFG/108154260/Elementkreisläufe in Grünland- und Waldökosystemen der Biodiversitätsexploratorien in Abhängigkeit von Landnutzungsintensität und damit verknüpfter Biodiversität/BECycle

The regulatory and transcriptional landscape associated with carbon utilization in a filamentous fungus.

Filamentous fungi, such as Neurospora crassa, are very efficient in deconstructing plant biomass by the secretion of an arsenal of plant cell wall-degrading enzymes, by remodeling metabolism to accommodate production of secreted enzymes, and by enabling transport and intracellular utilization of plant biomass components. Although a number of enzymes and transcriptional regulators involved in plant biomass utilization have been identified, how filamentous fungi sense and integrate nutritional information encoded in the plant cell wall into a regulatory hierarchy for optimal utilization of complex carbon sources is not understood. Here, we performed transcriptional profiling of N. crassa on 40 different carbon sources, including plant biomass, to provide data on how fungi sense simple to complex carbohydrates. From these data, we identified regulatory factors in N. crassa and characterized one (PDR-2) associated with pectin utilization and one with pectin/hemicellulose utilization (ARA-1). Using in vitro DNA affinity purification sequencing (DAP-seq), we identified direct targets of transcription factors involved in regulating genes encoding plant cell wall-degrading enzymes. In particular, our data clarified the role of the transcription factor VIB-1 in the regulation of genes encoding plant cell wall-degrading enzymes and nutrient scavenging and revealed a major role of the carbon catabolite repressor CRE-1 in regulating the expression of major facilitator transporter genes. These data contribute to a more complete understanding of cross talk between transcription factors and their target genes, which are involved in regulating nutrient sensing and plant biomass utilization on a global level

Label-free multimodal imaging of infected Galleria mellonella larvae

Non-linear imaging modalities have enabled us to obtain unique morpho-chemical insights into the tissue architecture of various biological model organisms in a label-free manner. However, these imaging techniques have so far not been applied to analyze the Galleria mellonella infection model. This study utilizes for the first time the strength of multimodal imaging techniques to explore infection-related changes in the Galleria mellonella larvae due to massive E. faecalis bacterial infection. Multimodal imaging techniques such as fluorescent lifetime imaging (FLIM), coherent anti-Stokes Raman scattering (CARS), two-photon excited fluorescence (TPEF), and second harmonic generation (SHG) were implemented in conjunction with histological HE images to analyze infection-associated tissue damage. The changes in the larvae in response to the infection, such as melanization, vacuolization, nodule formation, and hemocyte infiltration as a defense mechanism of insects against microbial pathogens, were visualized after Enterococcus faecalis was administered. Furthermore, multimodal imaging served for the analysis of implant-associated biofilm infections by visualizing biofilm adherence on medical stainless steel and ePTFE implants within the larvae. Our results suggest that infection-related changes as well as the integrity of the tissue of G. mellonella larvae can be studied with high morphological and chemical contrast in a label-free manner