Minimum levels and dynamics of carbon reserves in temperate trees at severe carbon limitation

Non-structural carbohydrates (NSC, i.e. free sugars and starch) are regarded as freely available carbon (C) reserves in plants. They are often quantified to estimate the C supply status of plants, especially of tall forest trees. However, it is still unclear, whether high NSC concentrations indicate a sufficient C supply and, respectively, if low NSC concentrations indicate an insufficient C supply. Furthermore, the temporal dynamics of NSC in trees under long-term (year-long) C-limitation are still unknown, despite the possibility that NSC concentrations are subject to acclimation. Additionally, it is still unclear, to what extent a sufficient C supply can improve the fitness of trees. I conducted multiple experiments on young trees to (i) identify the minimum tissue concentrations of NSC in tree organs at lethal C-starvation following complete darkness, (ii) investigate the long-term effects of C-limitation (under 6% light) on growth, gas exchange and C storage of different tree species to identify possible trade¬-offs between biomass production and storage, and to (iii) assess the significance of the presence of NSC pools for the survival of trees under environmental stress, like drought. At lethal C-starvation, I observed minimum NSC tissue concentrations lower than 20% compared to control concentrations, which I never observed at non-lethal C-limitation. In contrast, I observed higher NSC concentrations (at least 30% compared to controls) during three years of non-lethal C-limitation. No photosynthetic acclimation was observed after years of shading, while NSC generally increased under shade. Manipulation of NSC during drought was not efficient enough to show the effect of stored NSC on drought survival. This thesis showed, that measurements of substantial NSC concentrations in potentially C-limited tree seedlings or saplings do not exclude the presence of non-lethal C-limitation, while they clearly exclude lethal C-starvation. Thus, lethal C-starvation can be predicted more easily from NSC measurements, than non-lethal C-limitation. These findings improve the predictive value of NSC concentrations, and hopefully help to prevent erroneous assessments about the C-relations of trees

On Connectivity in Random Graph Models with Limited Dependencies

For any positive edge density $p$, a random graph in the Erd\H{o}s-Renyi $G_{n,p}$ model is connected with non-zero probability, since all edges are mutually independent. We consider random graph models in which edges that do not share endpoints are independent while incident edges may be dependent and ask: what is the minimum probability $\rho(n)$, such that for any distribution $\mathcal{G}$ (in this model) on graphs with $n$ vertices in which each potential edge has a marginal probability of being present at least $\rho(n)$, a graph drawn from $\mathcal{G}$ is connected with non-zero probability? As it turns out, the condition ``edges that do not share endpoints are independent'' needs to be clarified and the answer to the question above is sensitive to the specification. In fact, we formalize this intuitive description into a strict hierarchy of five independence conditions, which we show to have at least three different behaviors for the threshold $\rho(n)$. For each condition, we provide upper and lower bounds for $\rho(n)$. In the strongest condition, the coloring model (which includes, e.g., random geometric graphs), we show that $\rho(n)\rightarrow 2-\phi\approx 0.38$ for $n\rightarrow\infty$, proving a conjecture by Badakhshian, Falgas-Ravry, and Sharifzadeh. This separates the coloring models from the weaker independence conditions we consider, as there we prove that $\rho(n)>0.5-o(n)$. In stark contrast to the coloring model, for our weakest independence condition -- pairwise independence of non-adjacent edges -- we show that $\rho(n)$ lies within $O(1/n^2)$ of the threshold $1-2/n$ for completely arbitrary distributions.Comment: 35 pages, 6 figures. [v2] adds related work and is intended as a full version accompanying the version to appear at RANDOM'2

High carbon storage in carbon-limited trees

The concentrations of nonstructural carbohydrates (NSCs) in plant tissues are commonly used as an indicator of total plant carbon (C) supply; but some evidence suggests the possibility for high NSC concentrations during periods of C limitation. Despite this uncertainty, NSC dynamics have not been investigated experimentally under long-term C limitation. We exposed saplings of 10 temperate tree species differing in shade tolerance to 6% of ambient sunlight for 3 yr to induce C limitation, and also defoliated one species, Carpinus betulus, in the third season. Growth and NSC concentrations were monitored to determine C allocation. Shade strongly reduced growth, but after an initial two-fold decrease, NSC concentrations of shaded saplings recovered to the level of unshaded saplings by the third season. NSC concentrations were generally more depleted under shade after leaf flush, and following herbivore attacks. Only under shade did artificial defoliation lead to mortality and depleted NSC concentrations in surviving individuals. We conclude that, irrespective of shade tolerance, C storage is maintained under prolonged shading, and thus high NSC concentrations can occur during C limitation. Yet, our results also suggest that decreased NSC concentrations are indicative of C limitation, and that additional leaf loss can lead to lethal C shortage in deep shade

Multi-chromatic control of mammalian gene expression and signaling

The emergence and future of mammalian synthetic biology depends on technologies for orchestrating and custom tailoring complementary gene expression and signaling processes in a predictable manner. Here, we demonstrate for the first time multi-chromatic expression control in mammalian cells by differentially inducing up to three genes in a single cell culture in response to light of different wavelengths. To this end, we developed an ultraviolet B (UVB)-inducible expression system by designing a UVB-responsive split transcription factor based on the Arabidopsis thaliana UVB receptor UVR8 and the WD40 domain of COP1. The system allowed high (up to 800-fold) UVB-induced gene expression in human, monkey, hamster and mouse cells. Based on a quantitative model, we determined critical system parameters. By combining this UVB-responsive system with blue and red light-inducible gene control technology, we demonstrate multi-chromatic multi-gene control by differentially expressing three genes in a single cell culture in mammalian cells, and we apply this system for the multi-chromatic control of angiogenic signaling processes. This portfolio of optogenetic tools enables the design and implementation of synthetic biological networks showing unmatched spatiotemporal precision for future research and biomedical application

Evaluation of bicinchoninic acid as a ligand for copper(I)-catalyzed azide-alkyne bioconjugations

Dieser Beitrag ist mit Zustimmung des Rechteinhabers aufgrund einer (DFG geförderten) Allianz- bzw. Nationallizenz frei zugänglich.This publication is with permission of the rights owner freely accessible due to an Alliance licence and a national licence (funded by the DFG, German Research Foundation) respectively.The Cu(I)-catalyzed cycloaddition of terminal azides and alkynes (click chemistry) represents a highly specific reaction for the functionalization of biomolecules with chemical moieties such as dyes or polymer matrices. In this study we evaluate the use of bicinchoninic acid (BCA) as a ligand for Cu(I) under physiological reaction conditions. We demonstrate that the BCA–Cu(I)-complex represents an efficient catalyst for the conjugation of fluorophores or biotin to alkyne- or azide-functionalized proteins resulting in increased or at least equal reaction yields compared to commonly used catalysts like Cu(I) in complex with TBTA (tris[(1-benzyl-1H-1,2,3-triazol-4-yl)methyl]amine) or BPAA (bathophenanthroline disulfonic acid). The stabilization of Cu(I) with BCA represents a new strategy for achieving highly efficient bioconjugation reactions under physiological conditions in many application fields.EC/FP7/259043/EU/Computing Biomaterials/COMPBIOMATDFG, EXC 294, BIOSS Zentrum für Biologische Signalstudien - von der Analyse zur SyntheseDFG, GSC 4, Spemann Graduiertenschule für Biologie und Medizin (SGBM

A novel segmentation framework for uveal melanoma in magnetic resonance imaging based on class activation maps

An automatic and accurate eye tumor segmentation from Magnetic Resonance images (MRI) could have a great clinical contribution for the purpose of diagnosis and treatment planning of intra-ocular cancer. For instance, the characterization of uveal melanoma (UM) tumors would allow the integration of 3D information for the radiotherapy and would also support further radiomics studies. In this work, we tackle two major challenges of UM segmentation: 1) the high heterogeneity of tumor characterization in respect to location, size and appearance and, 2) the difficulty in obtaining ground-truth delineations of medical experts for training. We propose a thorough segmentation pipeline consisting of a combination of two Convolutional Neural Networks (CNN). First, we consider the class activation maps (CAM) output from a Resnet classification model and the combination of Dense Conditional Random Field (CRF) with a prior information of sclera and lens from an Active Shape Model (ASM) to automatically extract the tumor location for all MRIs. Then, these immediate results will be inputted into a 2D-Unet CNN whereby using four encoder and decoder layers to produce the tumor segmentation. A clinical data set of 1.5T T1-w and T2-w images of 28 healthy eyes and 24 UM patients is used for validation. We show experimentally in two different MRI sequences that our weakly 2D-Unet approach outperforms previous state-of-the-art methods for tumor segmentation and that it achieves equivalent accuracy as when manual labels are used for training. These results are promising for further large-scale analysis and for introducing 3D ocular tumor information in the therapy planning

A systematic review of vitamin D status in populations worldwide

Vitamin D deficiency is associated with osteoporosis and is thought to increase the risk of cancer and CVD. Despite these numerous potential health effects, data on vitamin D status at the population level and within key subgroups are limited. The aims of the present study were to examine patterns of 25-hydroxyvitamin D (25(OH)D) levels worldwide and to assess differences by age, sex and region. In a systematic literature review using the Medline and EMBASE databases, we identified 195 studies conducted in forty-four countries involving more than 168000 participants. Mean population-level 25(OH)D values varied considerably across the studies (range 4·9-136·2nmol/l), with 37·3% of the studies reporting mean values below 50nmol/l. The highest 25(OH)D values were observed in North America. Although age-related differences were observed in the Asia/Pacific and Middle East/Africa regions, they were not observed elsewhere and sex-related differences were not observed in any region. Substantial heterogeneity between the studies precluded drawing conclusions on overall vitamin D status at the population level. Exploratory analyses, however, suggested that newborns and institutionalised elderly from several regions worldwide appeared to be at a generally higher risk of exhibiting lower 25(OH)D values. Substantial details on worldwide patterns of vitamin D status at the population level and within key subgroups are needed to inform public health policy development to reduce risk for potential health consequences of an inadequate vitamin D statu