TY  - JOUR
A1  - Altmann, Thomas
A1  - Schmid, K. J.
A1  - Sörensen, Rossleff T.
A1  - Stracke, R.
A1  - Törjek, Otto
A1  - Mitchel-Olds, T.
A1  - Weisshaar, Bernd
T1  - Large-scale identification and analysis of genome-wide single-nucleotide polymorphisms for mapping in Arabidopsis thaliana
Y1  - 2003
ER  - 
TY  - JOUR
A1  - Childs, Liam H.
A1  - Witucka-Wall, Hanna
A1  - Guenther, Torsten
A1  - Sulpice, Ronan
A1  - Korff, Maria V.
A1  - Stitt, Mark
A1  - Walther, Dirk
A1  - Schmid, Karl J.
A1  - Altmann, Thomas
T1  - Single feature polymorphism (SFP)-based selective sweep identification and association mapping of growth- related metabolic traits in Arabidopsis thaliana
N2  - Background: Natural accessions of Arabidopsis thaliana are characterized by a high level of phenotypic variation that can be used to investigate the extent and mode of selection on the primary metabolic traits. A collection of 54 A. thaliana natural accession-derived lines were subjected to deep genotyping through Single Feature Polymorphism (SFP) detection via genomic DNA hybridization to Arabidopsis Tiling 1.0 Arrays for the detection of selective sweeps, and identification of associations between sweep regions and growth-related metabolic traits. Results: A total of 1,072,557 high-quality SFPs were detected and indications for 3,943 deletions and 1,007 duplications were obtained. A significantly lower than expected SFP frequency was observed in protein-, rRNA-, and tRNA-coding regions and in non- repetitive intergenic regions, while pseudogenes, transposons, and non-coding RNA genes are enriched with SFPs. Gene families involved in plant defence or in signalling were identified as highly polymorphic, while several other families including transcription factors are depleted of SFPs. 198 significant associations between metabolic genes and 9 metabolic and growth-related phenotypic traits were detected with annotation hinting at the nature of the relationship. Five significant selective sweep regions were also detected of which one associated significantly with a metabolic trait. Conclusions: We generated a high density polymorphism map for 54 A. thaliana accessions that highlights the variability of resistance genes across geographic ranges and used it to identify selective sweeps and associations between metabolic genes and metabolic phenotypes. Several associations show a clear biological relationship, while many remain requiring further investigation.
Y1  - 2010
UR  - http://www.biomedcentral.com/1471-2164/
U6  - https://doi.org/10.1186/1471-2164-11-188
SN  - 1471-2164
ER  - 
TY  - JOUR
A1  - Rühlmann, Madlen
A1  - Büchele, Dominique
A1  - Ostermann, Markus
A1  - Bald, Ilko
A1  - Schmid, Thomas
T1  - Challenges in the quantification of nutrients in soils using laser-induced breakdown spectroscopy
BT  - a case study with calcium
JF  - Spectrochimica Acta Part B: Atomic Spectroscopy
N2  - The quantification of the elemental content in soils with laser-induced breakdown spectroscopy (LIBS) is challenging because of matrix effects strongly influencing the plasma formation and LIBS signal. Furthermore, soil heterogeneity at the micrometre scale can affect the accuracy of analytical results. In this paper, the impact of univariate and multivariate data evaluation approaches on the quantification of nutrients in soil is discussed. Exemplarily, results for calcium are shown, which reflect trends also observed for other elements like magnesium, silicon and iron. For the calibration models, 16 certified reference soils were used. With univariate and multivariate approaches, the calcium mass fractions in 60 soils from different testing grounds in Germany were calculated. The latter approach consisted of a principal component analysis (PCA) of adequately pre-treated data for classification and identification of outliers, followed by partial least squares regression (PLSR) for quantification. For validation, the soils were also characterised with inductively coupled plasma optical emission spectroscopy (ICP OES) and X-ray fluorescence (XRF) analysis. Deviations between the LIBS quantification results and the reference analytical results are discussed.
KW  - Laser-induced breakdown spectroscopy (LIBS)
KW  - Soil
KW  - Multivariate data analysis
KW  - Principal component analysis (PCA)
KW  - Partial least squares regression (PLSR)
Y1  - 2018
U6  - https://doi.org/10.1016/j.sab.2018.05.003
SN  - 0584-8547
VL  - 146
SP  - 115
EP  - 121
PB  - Elsevier
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Schmid, Karl J.
A1  - Torjek, Otto
A1  - Meyer, Rhonda C.
A1  - Schmuths, Heike
A1  - Hoffmann, Matthias H.
A1  - Altmann, Thomas
T1  - Evidence for a large-scale population structure of Arabidopsis thaliana from genome-wide single nucleotide polymorphism markers
N2  - Population-based methods for the genetic mapping of adaptive traits and the analysis of natural selection require that the population structure and demographic history of a species are taken into account. We characterized geographic patterns of genetic variation in the model plant Arabidopsis thaliana by genotyping 115 genome-wide single nucleotide polymorphism (SNP) markers in 351 accessions from the whole species range using a matrix-assisted laser desorption/ionization time-of-flight assay, and by sequencing of nine unlinked short genomic regions in a subset of 64 accessions. The observed frequency distribution of SNPs is not consistent with a constant-size neutral model of sequence polymorphism due to an excess of rare polymorphisms. There is evidence for a significant population structure as indicated by differences in genetic diversity between geographic regions. Accessions from Central Asia have a low level of polymorphism and an increased level of genome-wide linkage disequilibrium (LD) relative to accessions from the Iberian Peninsula and Central Europe. Cluster analysis with the structure program grouped Eurasian accessions into K=6 clusters. Accessions from the Iberian Peninsula and from Central Asia constitute distinct populations, whereas Central and Eastern European accessions represent admixed populations in which genomes were reshuffled by historical recombination events. These patterns likely result from a rapid postglacial recolonization of Eurasia from glacial refugial populations. Our analyses suggest that mapping populations for association or LD mapping should be chosen from regional rather than a species-wide sample or identified genetically as sets of individuals with similar average genetic distances
Y1  - 2006
UR  - http://www.springerlink.com/content/d1683r7455648841/fulltext.html
U6  - https://doi.org/10.1007/s00122-006-0212-7
ER  - 
TY  - JOUR
A1  - van Egmond-Fröhlich, Andreas
A1  - Mößle, Thomas
A1  - Ahrens-Eipper, Sabine
A1  - Schmid-Ott, Gerhard
A1  - Hüllinghorst, Rolf
A1  - Warschburger, Petra
T1  - Übermässiger Medienkonsum von Kindern und Jugendlichen : Risiken für Psyche und Körper
Y1  - 2007
UR  - http://www.aerzteblatt.de/v4/archiv/artikel.asp?src=suche&p=&id=56968
ER  - 
TY  - JOUR
A1  - Janssen, Annette B. G.
A1  - Arhonditsis, George B.
A1  - Beusen, Arthur
A1  - Bolding, Karsten
A1  - Bruce, Louise
A1  - Bruggeman, Jorn
A1  - Couture, Raoul-Marie
A1  - Downing, Andrea S.
A1  - Elliott, J. Alex
A1  - Frassl, Marieke A.
A1  - Gal, Gideon
A1  - Gerla, Daan J.
A1  - Hipsey, Matthew R.
A1  - Hu, Fenjuan
A1  - Ives, Stephen C.
A1  - Janse, Jan H.
A1  - Jeppesen, Erik
A1  - Joehnk, Klaus D.
A1  - Kneis, David
A1  - Kong, Xiangzhen
A1  - Kuiper, Jan J.
A1  - Lehmann, Moritz K.
A1  - Lemmen, Carsten
A1  - Oezkundakci, Deniz
A1  - Petzoldt, Thomas
A1  - Rinke, Karsten
A1  - Robson, Barbara J.
A1  - Sachse, Rene
A1  - Schep, Sebastiaan A.
A1  - Schmid, Martin
A1  - Scholten, Huub
A1  - Teurlincx, Sven
A1  - Trolle, Dennis
A1  - Troost, Tineke A.
A1  - Van Dam, Anne A.
A1  - Van Gerven, Luuk P. A.
A1  - Weijerman, Mariska
A1  - Wells, Scott A.
A1  - Mooij, Wolf M.
T1  - Exploring, exploiting and evolving diversity of aquatic ecosystem models: a community perspective
JF  - Aquatic ecology : the international forum covering research in freshwater and marine environments
N2  - Here, we present a community perspective on how to explore, exploit and evolve the diversity in aquatic ecosystem models. These models play an important role in understanding the functioning of aquatic ecosystems, filling in observation gaps and developing effective strategies for water quality management. In this spirit, numerous models have been developed since the 1970s. We set off to explore model diversity by making an inventory among 42 aquatic ecosystem modellers, by categorizing the resulting set of models and by analysing them for diversity. We then focus on how to exploit model diversity by comparing and combining different aspects of existing models. Finally, we discuss how model diversity came about in the past and could evolve in the future. Throughout our study, we use analogies from biodiversity research to analyse and interpret model diversity. We recommend to make models publicly available through open-source policies, to standardize documentation and technical implementation of models, and to compare models through ensemble modelling and interdisciplinary approaches. We end with our perspective on how the field of aquatic ecosystem modelling might develop in the next 5-10 years. To strive for clarity and to improve readability for non-modellers, we include a glossary.
KW  - Water quality
KW  - Ecology
KW  - Geochemistry
KW  - Hydrology
KW  - Hydraulics
KW  - Hydrodynamics
KW  - Physical environment
KW  - Socio-economics
KW  - Model availability
KW  - Standardization
KW  - Linking
Y1  - 2015
U6  - https://doi.org/10.1007/s10452-015-9544-1
SN  - 1386-2588
SN  - 1573-5125
VL  - 49
IS  - 4
SP  - 513
EP  - 548
PB  - Springer
CY  - Dordrecht
ER  - 
TY  - JOUR
A1  - Frieler, Katja
A1  - Schauberger, Bernhard
A1  - Arneth, Almut
A1  - Balkovic, Juraj
A1  - Chryssanthacopoulos, James
A1  - Deryng, Delphine
A1  - Elliott, Joshua
A1  - Folberth, Christian
A1  - Khabarov, Nikolay
A1  - Müller, Christoph
A1  - Olin, Stefan
A1  - Pugh, Thomas A. M.
A1  - Schaphoff, Sibyll
A1  - Schewe, Jacob
A1  - Schmid, Erwin
A1  - Warszawski, Lila
A1  - Levermann, Anders
T1  - Understanding the weather signal in national crop-yield variability
JF  - Earths future
N2  - Year-to-year variations in crop yields can have major impacts on the livelihoods of subsistence farmers and may trigger significant global price fluctuations, with severe consequences for people in developing countries. Fluctuations can be induced by weather conditions, management decisions, weeds, diseases, and pests. Although an explicit quantification and deeper understanding of weather-induced crop-yield variability is essential for adaptation strategies, so far it has only been addressed by empirical models. Here, we provide conservative estimates of the fraction of reported national yield variabilities that can be attributed to weather by state-of-the-art, process-based crop model simulations. We find that observed weather variations can explain more than 50% of the variability in wheat yields in Australia, Canada, Spain, Hungary, and Romania. For maize, weather sensitivities exceed 50% in seven countries, including the United States. The explained variance exceeds 50% for rice in Japan and South Korea and for soy in Argentina. Avoiding water stress by simulating yields assuming full irrigation shows that water limitation is a major driver of the observed variations in most of these countries. Identifying the mechanisms leading to crop-yield fluctuations is not only fundamental for dampening fluctuations, but is also important in the context of the debate on the attribution of loss and damage to climate change. Since process-based crop models not only account for weather influences on crop yields, but also provide options to represent human-management measures, they could become essential tools for differentiating these drivers, and for exploring options to reduce future yield fluctuations.
Y1  - 2017
U6  - https://doi.org/10.1002/2016EF000525
SN  - 2328-4277
VL  - 5
SP  - 605
EP  - 616
PB  - Wiley
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Bernhard, Nadine
A1  - Moskwa, Lisa-Marie
A1  - Schmidt, Karsten
A1  - Oeser, Ralf Andreas
A1  - Aburto, Felipe
A1  - Bader, Maaike Y.
A1  - Baumann, Karen
A1  - von Blanckenburg, Friedhelm
A1  - Boy, Jens
A1  - van den Brink, Liesbeth
A1  - Brucker, Emanuel
A1  - Buedel, Burkhard
A1  - Canessa, Rafaella
A1  - Dippold, Michaela A.
A1  - Ehlers, Todd
A1  - Fuentes, Juan P.
A1  - Godoy, Roberto
A1  - Jung, Patrick
A1  - Karsten, Ulf
A1  - Koester, Moritz
A1  - Kuzyakov, Yakov
A1  - Leinweber, Peter
A1  - Neidhardt, Harald
A1  - Matus, Francisco
A1  - Mueller, Carsten W.
A1  - Oelmann, Yvonne
A1  - Oses, Romulo
A1  - Osses, Pablo
A1  - Paulino, Leandro
A1  - Samolov, Elena
A1  - Schaller, Mirjam
A1  - Schmid, Manuel
A1  - Spielvogel, Sandra
A1  - Spohn, Marie
A1  - Stock, Svenja
A1  - Stroncik, Nicole
A1  - Tielboerger, Katja
A1  - Uebernickel, Kirstin
A1  - Scholten, Thomas
A1  - Seguel, Oscar
A1  - Wagner, Dirk
A1  - Kühn, Peter
T1  - Pedogenic and microbial interrelations to regional climate and local topography
BT  - New insights from a climate gradient (arid to humid) along the Coastal Cordillera of Chile
JF  - Catena : an interdisciplinary journal of soil science, hydrology, geomorphology focusing on geoecology and landscape evolution
N2  - The effects of climate and topography on soil physico-chemical and microbial parameters were studied along an extensive latitudinal climate gradient in the Coastal Cordillera of Chile (26 degrees-38 degrees S). The study sites encompass arid (Pan de Azucar), semiarid (Santa Gracia), mediterranean (La Campana) and humid (Nahuelbuta) climates and vegetation, ranging from arid desert, dominated by biological soil crusts (biocrusts), semiarid shrubland and mediterranean sclerophyllous forest, where biocrusts are present but do have a seasonal pattern to temperate-mixed forest, where biocrusts only occur as an early pioneering development stage after disturbance. All soils originate from granitic parent materials and show very strong differences in pedogenesis intensity and soil depth. Most of the investigated physical, chemical and microbiological soil properties showed distinct trends along the climate gradient. Further, abrupt changes between the arid northernmost study site and the other semi-arid to humid sites can be shown, which indicate non-linearity and thresholds along the climate gradient. Clay and total organic carbon contents (TOC) as well as Ah horizons and solum depths increased from arid to humid climates, whereas bulk density (BD), pH values and base saturation (BS) decreased. These properties demonstrate the accumulation of organic matter, clay formation and element leaching as key-pedogenic processes with increasing humidity. However, the soils in the northern arid climate do not follow this overall latitudinal trend, because texture and BD are largely controlled by aeolian input of dust and sea salts spray followed by the formation of secondary evaporate minerals. Total soil DNA concentrations and TOC increased from arid to humid sites, while areal coverage by biocrusts exhibited an opposite trend. Relative bacterial and archaeal abundances were lower in the arid site, but for the other sites the local variability exceeds the variability along the climate gradient. Differences in soil properties between topographic positions were most pronounced at the study sites with the mediterranean and humid climate, whereas microbial abundances were independent on topography across all study sites. In general, the regional climate is the strongest controlling factor for pedogenesis and microbial parameters in soils developed from the same parent material. Topographic position along individual slopes of limited length augmented this effect only under humid conditions, where water erosion likely relocated particles and elements downward. The change from alkaline to neutral soil pH between the arid and the semi-arid site coincided with qualitative differences in soil formation as well as microbial habitats. This also reflects non-linear relationships of pedogenic and microbial processes in soils depending on climate with a sharp threshold between arid and semi-arid conditions. Therefore, the soils on the transition between arid and semi-arid conditions are especially sensitive and may be well used as indicators of long and medium-term climate changes. Concluding, the unique latitudinal precipitation gradient in the Coastal Cordillera of Chile is predestined to investigate the effects of the main soil forming factor - climate - on pedogenic processes.
KW  - Climate
KW  - Topography
KW  - Soil texture
KW  - Total organic carbon
KW  - Carbon isotope ratio (delta C-13(TOC))
KW  - Microbial abundance
Y1  - 2018
U6  - https://doi.org/10.1016/j.catena.2018.06.018
SN  - 0341-8162
SN  - 1872-6887
VL  - 170
SP  - 335
EP  - 355
PB  - Elsevier
CY  - Amsterdam
ER  - 
TY  - GEN
A1  - Sarhan, Radwan Mohamed
A1  - Koopman, Wouter-Willem Adriaan
A1  - Schuetz, Roman
A1  - Schmid, Thomas
A1  - Liebig, Ferenc
A1  - Koetz, Joachim
A1  - Bargheer, Matias
T1  - The importance of plasmonic heating for the plasmondriven photodimerization of 4-nitrothiophenol
T2  - Postprints der Universität Potsdam Mathematisch-Naturwissenschaftliche Reihe
N2  - Metal nanoparticles form potent nanoreactors, driven by the optical generation of energetic electrons and nanoscale heat. The relative influence of these two factors on nanoscale chemistry is strongly debated. This article discusses the temperature dependence of the dimerization of 4-nitrothiophenol (4-NTP) into 4,4′-dimercaptoazobenzene (DMAB) adsorbed on gold nanoflowers by Surface-Enhanced Raman Scattering (SERS). Raman thermometry shows a significant optical heating of the particles. The ratio of the Stokes and the anti-Stokes Raman signal moreover demonstrates that the molecular temperature during the reaction rises beyond the average crystal lattice temperature of the plasmonic particles. The product bands have an even higher temperature than reactant bands, which suggests that the reaction proceeds preferentially at thermal hot spots. In addition, kinetic measurements of the reaction during external heating of the reaction environment yield a considerable rise of the reaction rate with temperature. Despite this significant heating effects, a comparison of SERS spectra recorded after heating the sample by an external heater to spectra recorded after prolonged illumination shows that the reaction is strictly photo-driven. While in both cases the temperature increase is comparable, the dimerization occurs only in the presence of light. Intensity dependent measurements at fixed temperatures confirm this finding.
T3  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 698 
KW  - enhanced raman-scattering
KW  - charge-transfer
KW  - metal
KW  - nanoparticles
KW  - catalysis
KW  - AU
KW  - 4-nitrobenzenethiol
KW  - aminothiophenol
KW  - photocatalysis
KW  - wavelength
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-427197
SN  - 1866-8372
IS  - 698
ER  - 
TY  - JOUR
A1  - Sarhan, Radwan Mohamed
A1  - Koopman, Wouter-Willem Adriaan
A1  - Schuetz, Roman
A1  - Schmid, Thomas
A1  - Liebig, Ferenc
A1  - Koetz, Joachim
A1  - Bargheer, Matias
T1  - The importance of plasmonic heating for the plasmondriven photodimerization of 4-nitrothiophenol
JF  - Scientific Reports
N2  - Metal nanoparticles form potent nanoreactors, driven by the optical generation of energetic electrons and nanoscale heat. The relative influence of these two factors on nanoscale chemistry is strongly debated. This article discusses the temperature dependence of the dimerization of 4-nitrothiophenol (4-NTP) into 4,4′-dimercaptoazobenzene (DMAB) adsorbed on gold nanoflowers by Surface-Enhanced Raman Scattering (SERS). Raman thermometry shows a significant optical heating of the particles. The ratio of the Stokes and the anti-Stokes Raman signal moreover demonstrates that the molecular temperature during the reaction rises beyond the average crystal lattice temperature of the plasmonic particles. The product bands have an even higher temperature than reactant bands, which suggests that the reaction proceeds preferentially at thermal hot spots. In addition, kinetic measurements of the reaction during external heating of the reaction environment yield a considerable rise of the reaction rate with temperature. Despite this significant heating effects, a comparison of SERS spectra recorded after heating the sample by an external heater to spectra recorded after prolonged illumination shows that the reaction is strictly photo-driven. While in both cases the temperature increase is comparable, the dimerization occurs only in the presence of light. Intensity dependent measurements at fixed temperatures confirm this finding.
KW  - enhanced raman-scattering
KW  - charge-transfer
KW  - metal
KW  - nanoparticles
KW  - catalysis
KW  - AU
KW  - 4-nitrobenzenethiol
KW  - aminothiophenol
KW  - photocatalysis
KW  - wavelength
Y1  - 2019
U6  - https://doi.org/10.1038/s41598-019-38627-2
SN  - 2045-2322
VL  - 9
PB  - Macmillan Publishers Limited
CY  - London
ER  -