TY - BOOK A1 - Alnemr, Rehab A1 - Polyvyanyy, Artem A1 - AbuJarour, Mohammed A1 - Appeltauer, Malte A1 - Hildebrandt, Dieter A1 - Thomas, Ivonne A1 - Overdick, Hagen A1 - Schöbel, Michael A1 - Uflacker, Matthias A1 - Kluth, Stephan A1 - Menzel, Michael A1 - Schmidt, Alexander A1 - Hagedorn, Benjamin A1 - Pascalau, Emilian A1 - Perscheid, Michael A1 - Vogel, Thomas A1 - Hentschel, Uwe A1 - Feinbube, Frank A1 - Kowark, Thomas A1 - Trümper, Jonas A1 - Vogel, Tobias A1 - Becker, Basil ED - Meinel, Christoph ED - Plattner, Hasso ED - Döllner, Jürgen Roland Friedrich ED - Weske, Mathias ED - Polze, Andreas ED - Hirschfeld, Robert ED - Naumann, Felix ED - Giese, Holger T1 - Proceedings of the 4th Ph.D. Retreat of the HPI Research School on Service-oriented Systems Engineering T3 - Technische Berichte des Hasso-Plattner-Instituts für Digital Engineering an der Universität Potsdam - 31 KW - Hasso-Plattner-Institut KW - Forschungskolleg KW - Klausurtagung KW - Service-oriented Systems Engineering KW - Hasso Plattner Institute KW - Research School KW - Ph.D. Retreat KW - Service-oriented Systems Engineering Y1 - 2010 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus-40838 SN - 978-3-86956-036-6 PB - Universitätsverlag Potsdam CY - Potsdam ER - TY - JOUR A1 - Alberti, Federica A1 - Gonzalez, Javier A1 - Paijmans, Johanna L. A. A1 - Basler, Nikolas A1 - Preick, Michaela A1 - Henneberger, Kirstin A1 - Trinks, Alexandra A1 - Rabeder, Gernot A1 - Conard, Nicholas J. A1 - Muenzel, Susanne C. A1 - Joger, Ulrich A1 - Fritsch, Guido A1 - Hildebrandt, Thomas A1 - Hofreiter, Michael A1 - Barlow, Axel T1 - Optimized DNA sampling of ancient bones using Computed Tomography scans JF - Molecular ecology resources N2 - The prevalence of contaminant microbial DNA in ancient bone samples represents the principal limiting factor for palaeogenomic studies, as it may comprise more than 99% of DNA molecules obtained. Efforts to exclude or reduce this contaminant fraction have been numerous but also variable in their success. Here, we present a simple but highly effective method to increase the relative proportion of endogenous molecules obtained from ancient bones. Using computed tomography (CT) scanning, we identify the densest region of a bone as optimal for sampling. This approach accurately identifies the densest internal regions of petrous bones, which are known to be a source of high-purity ancient DNA. For ancient long bones, CT scans reveal a high-density outermost layer, which has been routinely removed and discarded prior to DNA extraction. For almost all long bones investigated, we find that targeted sampling of this outermost layer provides an increase in endogenous DNA content over that obtained from softer, trabecular bone. This targeted sampling can produce as much as 50-fold increase in the proportion of endogenous DNA, providing a directly proportional reduction in sequencing costs for shotgun sequencing experiments. The observed increases in endogenous DNA proportion are not associated with any reduction in absolute endogenous molecule recovery. Although sampling the outermost layer can result in higher levels of human contamination, some bones were found to have more contamination associated with the internal bone structures. Our method is highly consistent, reproducible and applicable across a wide range of bone types, ages and species. We predict that this discovery will greatly extend the potential to study ancient populations and species in the genomics era. KW - ancient DNA KW - computer tomography KW - palaeogenomics KW - paleogenetics KW - petrous bone Y1 - 2018 U6 - https://doi.org/10.1111/1755-0998.12911 SN - 1755-098X SN - 1755-0998 VL - 18 IS - 6 SP - 1196 EP - 1208 PB - Wiley CY - Hoboken ER - TY - JOUR A1 - Frasca, Stefano A1 - von Graberg, Till A1 - Feng, Jiu-Ju A1 - Thomas, Arne A1 - Smarsly, Bernd M. A1 - Weidinger, Inez M. A1 - Scheller, Frieder W. A1 - Hildebrandt, Peter A1 - Wollenberger, Ursula T1 - Mesoporous indium tin oxide as a novel platform for bioelectronics N2 - Stable immobilization and reversible electrochemistry of cytochrome c in a tranparent indium tin oxide film with a well-defined mesoporosity (mpITO) is demonstrated. the transparency and good conductivity, in combination with the large surface area of mpITO, allow the incorporation of a high amount of elelctroactive biomolecules and their electrochemical and spectroscopic investigation. UV/Vis and resonance Raman spectroscopy, in combination with direct protein voltammetry are employed for the characterization of cytochrome c immobilized in the mpITO and reveal no perturbant of the structural of the integrity of the redox protein. The potential of this modified material as a biosensor detection of superoxide anions is also demonstrated. Y1 - 2010 UR - http://www3.interscience.wiley.com/journal/122208635/home U6 - https://doi.org/10.1002/cctc.201000047 SN - 1867-3880 ER - TY - JOUR A1 - Cywinski, Piotr J. A1 - Moro, Artur J. A1 - Ritschel, Thomas A1 - Hildebrandt, Niko A1 - Löhmannsröben, Hans-Gerd T1 - Sensitive and selective fluorescence detection of guanosine nucleotides by nanoparticles conjugated with a naphthyridine receptor JF - Analytical & bioanalytical chemistry N2 - Novel fluorescent nanosensors, based on a naphthyridine receptor, have been developed for the detection of guanosine nucleotides, and both their sensitivity and selectivity to various nucleotides were evaluated. The nanosensors were constructed from polystyrene nanoparticles functionalized by (N-(7-((3-aminophenyl) ethynyl)-1,8-naphthyridin- 2-yl) acetamide) via carbodiimide ester activation. We show that this naphthyridine nanosensor binds guanosine nucleotides preferentially over adenine, cytosine, and thymidine nucleotides. Upon interaction with nucleotides, the fluorescence of the nanosensor is gradually quenched yielding Stern-Volmer constants in the range of 2.1 to 35.9mM(-1). For all the studied quenchers, limits of detection (LOD) and tolerance levels for the nanosensors were also determined. The lowest (3 sigma) LOD was found for guanosine 3',5'-cyclic monophosphate (cGMP) and it was as low as 150 ng/ml. In addition, we demonstrated that the spatial arrangement of bound analytes on the nanosensors' surfaces is what is responsible for their selectivity to different guanosine nucleotides. We found a correlation between the changes of the fluorescence signal and the number of phosphate groups of a nucleotide. Results of molecular modeling and zeta-potential measurements confirm that the arrangement of analytes on the surface provides for the selectivity of the nanosensors. These fluorescent nanosensors have the potential to be applied in multi-analyte, array-based detection platforms, as well as in multiplexed microfluidic systems. KW - Naphthyridine receptor KW - cGMP KW - Base pairing KW - Nucleotide nanosensor KW - Fluorescence spectroscopy Y1 - 2011 U6 - https://doi.org/10.1007/s00216-010-4420-2 SN - 1618-2642 VL - 399 IS - 3 SP - 1215 EP - 1222 PB - Springer CY - Heidelberg ER - TY - JOUR A1 - Jesus, Sonia A. A1 - Schmidt, Anke A1 - Fickel, Jörns A1 - Doherr, Marcus G. A1 - Boonprasert, Khajohnpat A1 - Thitaram, Chatchote A1 - Sariya, Ladawan A1 - Ratanakron, Parntep A1 - Hildebrandt, Thomas Bernd T1 - Assessing coagulation parameters in healthy Asian Elephants (Elephas maximus) from European and thai populations JF - Animals N2 - Simple Summary Asian elephants (Elephas maximus) are considered endangered and their population is in continuous decline. Understanding their social interactions, health, and welfare status has been a topic of intense research in recent decades. Coagulation assessments have been underutilized in wildlife but can give valuable information on individual health. This study aims to increase the knowledge of the coagulation status in healthy Asian elephants from different backgrounds and age groups, using a fast point-of-care analyzer. This tool can be further used in either routine health check-ups performed by caretakers or in a clinical emergency, such as in cases of elephant endotheliotropic herpesvirus hemorrhagic disease outbreaks. We have also investigated the presence of genomic mutations in one coagulation factor-factor VII-where a disorder was previously reported in an Asian elephant. Hereby, we report new reference values for coagulation parameters, such as coagulation times and fibrinogen concentration of Asian elephants assessed in Thailand and in Europe, as well as several single point mutations found in the exons of Elephas maximus coagulation F7 gene. We found the point-of-care analyzer used in this study to be very practical and user friendly for a zoo and field environment and hope that this project will incentivize further coagulation studies in Asian elephants and in other wildlife species. The Asian elephant population is continuously declining due to several extrinsic reasons in their range countries, but also due to diseases in captive populations worldwide. One of these diseases, the elephant endotheliotropic herpesvirus (EEHV) hemorrhagic disease, is very impactful because it particularly affects Asian elephant calves. It is commonly fatal and presents as an acute and generalized hemorrhagic syndrome. Therefore, having reference values of coagulation parameters, and obtaining such values for diseased animals in a very short time, is of great importance. We analyzed prothrombin time (PT), activated partial thromboplastin time (aPTT), and fibrinogen concentrations using a portable and fast point-of-care analyzer (VetScan Pro) in 127 Asian elephants from Thai camps and European captive herds. We found significantly different PT and aPTT coagulation times between elephants from the two regions, as well as clear differences in fibrinogen concentration. Nevertheless, these alterations were not expected to have biological or clinical implications. We have also sequenced the coagulation factor VII gene of 141 animals to assess the presence of a previously reported hereditary coagulation disorder in Asian elephants and to investigate the presence of other mutations. We did not find the previously reported mutation in our study population. Instead, we discovered the presence of several new single nucleotide polymorphisms, two of them being considered as deleterious by effect prediction software. KW - coagulation KW - Asian elephant KW - EEHV KW - factor VII KW - F7 gene KW - prothrombin KW - activated PTT KW - fibrinogen Y1 - 2022 U6 - https://doi.org/10.3390/ani12030361 SN - 2076-2615 VL - 12 IS - 3 PB - MDPI CY - Basel ER - TY - JOUR A1 - Müller, Eva Nora A1 - van Schaik, Loes A1 - Blume, Theresa A1 - Bronstert, Axel A1 - Carus, Jana A1 - Fleckenstein, Jan H. A1 - Fohrer, Nicola A1 - Geissler, Katja A1 - Gerke, Horst H. A1 - Gräff, Thomas A1 - Hesse, Cornelia A1 - Hildebrandt, Anke A1 - Hölker, Franz A1 - Hunke, Philip A1 - Körner, Katrin A1 - Lewandowski, Jörg A1 - Lohmann, Dirk A1 - Meinikmann, Karin A1 - Schibalski, Anett A1 - Schmalz, Britta A1 - Schröder-Esselbach, Boris A1 - Tietjen, Britta T1 - Scales, key aspects, feedbacks and challenges of ecohydrological research in Germany JF - Hydrologie und Wasserbewirtschaftung N2 - Ecohydrology analyses the interactions of biotic and abiotic aspects of our ecosystems and landscapes. It is a highly diverse discipline in terms of its thematic and methodical research foci. This article gives an overview of current German ecohydrological research approaches within plant-animal-soil-systems, meso-scale catchments and their river networks, lake systems, coastal areas and tidal rivers. It discusses their relevant spatial and temporal process scales and different types of interactions and feedback dynamics between hydrological and biotic processes and patterns. The following topics are considered key challenges: innovative analysis of the interdisciplinary scale continuum, development of dynamically coupled model systems, integrated monitoring of coupled processes at the interface and transition from basic to applied ecohydrological science to develop sustainable water and land resource management strategies under regional and global change. KW - Coastal regions KW - drylands KW - ecohydrological modelling KW - feedback KW - hyporheic zone KW - meso-scale ecosystems KW - plant-animal-soil-system KW - river networks Y1 - 2014 U6 - https://doi.org/10.5675/HyWa_2014,4_2 SN - 1439-1783 VL - 58 IS - 4 SP - 221 EP - 240 PB - Bundesanst. für Gewässerkunde CY - Koblenz ER - TY - JOUR A1 - Lange, Ilja A1 - Reiter, Sina A1 - Kniepert, Juliane A1 - Piersimoni, Fortunato A1 - Paetzel, Michael A1 - Hildebrandt, Jana A1 - Brenner, Thomas J. K. A1 - Hecht, Stefan A1 - Neher, Dieter T1 - Zinc oxide modified with benzylphosphonic acids as transparent electrodes in regular and inverted organic solar cell structures JF - Applied physics letters N2 - An approach is presented to modify the work function of solution-processed sol-gel derived zinc oxide (ZnO) over an exceptionally wide range of more than 2.3 eV. This approach relies on the formation of dense and homogeneous self-assembled monolayers based on phosphonic acids with different dipole moments. This allows us to apply ZnO as charge selective bottom electrodes in either regular or inverted solar cell structures, using poly(3-hexylthiophene): phenyl-C71-butyric acid methyl ester as the active layer. These devices compete with or even surpass the performance of the reference on indium tin oxide/poly(3,4-ethylenedioxythiophene) polystyrene sulfonate. Our findings highlight the potential of properly modified ZnO as electron or hole extracting electrodes in hybrid optoelectronic devices. (C) 2015 AIP Publishing LLC. Y1 - 2015 U6 - https://doi.org/10.1063/1.4916182 SN - 0003-6951 SN - 1077-3118 VL - 106 IS - 11 PB - American Institute of Physics CY - Melville ER -