Improvement to the PhytoDOAS method for identification of coccolithophores using hyper-spectral satellite data

The goal of this study was to improve PhytoDOAS, which is a new retrieval method for quantitative identification of major phytoplankton functional types (PFTs) using hyper-spectral satellite data. PhytoDOAS is an extension of the Differential Optical Absorption Spectroscopy (DOAS, a method for detection of atmospheric trace gases), developed for remote identification of oceanic phytoplankton groups. Thus far, PhytoDOAS has been successfully exploited to identify cyanobacteria and diatoms over the global ocean from SCIAMACHY (SCanning Imaging Absorption spectroMeter for Atmospheric CHartographY) hyper-spectral data. This study aimed to improve PhytoDOAS for remote identification of coccolithophores, another functional group of phytoplankton. The main challenge for retrieving more PFTs by PhytoDOAS is to overcome the correlation effects between different PFT absorption spectra. Different PFTs are composed of different types and amounts of pigments, but also have pigments in common, e.g. chl <i>a</i>, causing correlation effects in the usual performance of the PhytoDOAS retrieval. Two ideas have been implemented to improve PhytoDOAS for the PFT retrieval of more phytoplankton groups. Firstly, using the fourth-derivative spectroscopy, the peak positions of the main pigment components in each absorption spectrum have been derived. After comparing the corresponding results of major PFTs, the optimized fit-window for the PhytoDOAS retrieval of each PFT was determined. Secondly, based on the results from derivative spectroscopy, a simultaneous fit of PhytoDOAS has been proposed and tested for a selected set of PFTs (coccolithophores, diatoms and dinoflagellates) within an optimized fit-window, proven by spectral orthogonality tests. The method was then applied to the processing of SCIAMACHY data over the year 2005. Comparisons of the PhytoDOAS coccolithophore retrievals in 2005 with other coccolithophore-related data showed similar patterns in their seasonal distributions, especially in the North Atlantic and the Arctic Sea. The seasonal patterns of the PhytoDOAS coccolithophores indicated very good agreement with the coccolithophore modeled data from the NASA Ocean Biochemical Model (NOBM), as well as with the global distributions of particulate inorganic carbon (PIC), provided by MODIS (MODerate resolution Imaging Spectroradiometer)-Aqua level-3 products. Moreover, regarding the fact that coccolithophores belong to the group of haptophytes, the PhytoDOAS seasonal coccolithophores showed good agreement with the global distribution of haptophytes, derived from synoptic pigment relationships applied to SeaWiFS chl <i>a</i>. As a case study, the simultaneous mode of PhytoDOAS has been applied to SCIAMACHY data for detecting a coccolithophore bloom which was consistent with the MODIS RGB image and the MODIS PIC map of the bloom, indicating the functionality of the method also in short-term retrievals

Corrigendum: Synergistic exploitation of hyper- and multi-spectral precursor sentinel measurements to determine phytoplankton functional types (SynSenPFT) [Front. Mar. Sci,(203),4] DOI: 10.3389/fmars.2017.00203

This is the final version. Available on open access from Frontiers Media via the DOI in this recordThe article to which this is the corrigendum is in ORE at http://hdl.handle.net/10871/38250In the original article, we neglected, but would like to acknowledge the North-German Supercomputing Alliance (HLRN) for providing HPC resources that have contributed to the research results reported in this paper. The authors apologize for this error and state that this does not change the scientific conclusions of the article in any way

Synergistic exploitation of hyper- and multi-spectral precursor sentinel measurements to determine phytoplankton functional types (SynSenPFT)

This is the final version. Available from Frontiers Media via the DOI in this record.The corrigendum to this article is in ORE at http://hdl.handle.net/10871/38256We derive the chlorophyll a concentration (Chla) for three main phytoplankton functional types (PFTs) - diatoms, coccolithophores and cyanobacteria - by combining satellite multispectral-based information, being of a high spatial and temporal resolution, with retrievals based on high resolution of PFT absorption properties derived from hyperspectral satellite measurements. The multispectral-based PFT Chla retrievals are based on a revised version of the empirical OC-PFT algorithm applied to the Ocean Color Climate Change Initiative (OC-CCI) total Chla product. The PhytoDOAS analytical algorithm is used with some modifications to derive PFT Chla from SCIAMACHY hyperspectral measurements. To combine synergistically these two PFT products (OC-PFT and PhytoDOAS), an optimal interpolation is performed for each PFT in every OC-PFT sub-pixel within a PhytoDOAS pixel, given its Chla and its a priori error statistics. The synergistic product (SynSenPFT) is presented for the period of August 2002 March 2012 and evaluated against PFT Chla data obtained from in situ marker pigment data and the NASA Ocean Biogeochemical Model simulations and satellite information on phytoplankton size. The most challenging aspects of the SynSenPFT algorithm implementation are discussed. Perspectives on SynSenPFT product improvements and prolongation of the time series over the next decades by adaptation to Sentinel multi- and hyperspectral instruments are highlighted.ESA SEOM SY-4Sci Synergy projectSFB/TR 172 (AC)3 “Arctic Amplification” subproject C03DFG-Priority Program SPP 1158 “Antarktis” PhySyn BU2913/3-1Helmholtz Climate Initiative REKLIMHelmholtz Association of German Research Centres (HGF

EXPERIMENTS WITH A FAST CHOPPER SYSTEM FOR INTENSE ION BEAMS

Abstract Chopper systems are used to pulse charged particle beams. In most cases, electric deflection systems are used to generate beam pulses of defined lengths and appropriate repetition rates. At high beam intensities, the field distribution of the chopper system needs to be adapted precisely to the beam dynamics in order to avoid aberrations For the Frankfurt Neutron Source FRAN

Global-change effects on early-stage decomposition processes in tidal wetlands – implications from a global survey using standardized litter

Tidal wetlands, such as tidal marshes and mangroves, are hotspots for carbon sequestration. The preservation of organic matter (OM) is a critical process by which tidal wetlands exert influence over the global carbon cycle and at the same time gain elevation to keep pace with sea-level rise (SLR). The present study assessed the effects of temperature and relative sea level on the decomposition rate and stabilization of OM in tidal wetlands worldwide, utilizing commercially available standardized litter. While effects on decomposition rate per se were minor, we show strong negative effects of temperature and relative sea level on stabilization, as based on the fraction of labile, rapidly hydrolyzable OM that becomes stabilized during deployment. Across study sites, OM stabilization was 29 % lower in low, more frequently flooded vs. high, less frequently flooded zones. Stabilization declined by ∼ 75 % over the studied temperature gradient from 10.9 to 28.5 ∘C. Additionally, data from the Plum Island long-term ecological research site in Massachusetts, USA, show a pronounced reduction in OM stabilization by > 70 % in response to simulated coastal eutrophication, confirming the potentially high sensitivity of OM stabilization to global change. We therefore provide evidence that rising temperature, accelerated SLR, and coastal eutrophication may decrease the future capacity of tidal wetlands to sequester carbon by affecting the initial transformations of recent OM inputs to soil OM

The comorbidity and co-medication profile of patients with progressive supranuclear palsy

Background: Progressive supranuclear palsy (PSP) is usually diagnosed in elderly. Currently, little is known about comorbidities and the co-medication in these patients. Objectives: To explore the pattern of comorbidities and co-medication in PSP patients according to the known different phenotypes and in comparison with patients without neurodegenerative disease. Methods: Cross-sectional data of PSP and patients without neurodegenerative diseases (non-ND) were collected from three German multicenter observational studies (DescribePSP, ProPSP and DANCER). The prevalence of comorbidities according to WHO ICD-10 classification and the prevalence of drugs administered according to WHO ATC system were analyzed. Potential drug–drug interactions were evaluated using AiDKlinik®. Results: In total, 335 PSP and 275 non-ND patients were included in this analysis. The prevalence of diseases of the circulatory and the nervous system was higher in PSP at first level of ICD-10. Dorsopathies, diabetes mellitus, other nutritional deficiencies and polyneuropathies were more frequent in PSP at second level of ICD-10. In particular, the summed prevalence of cardiovascular and cerebrovascular diseases was higher in PSP patients. More drugs were administered in the PSP group leading to a greater percentage of patients with polypharmacy. Accordingly, the prevalence of potential drug–drug interactions was higher in PSP patients, especially severe and moderate interactions. Conclusions: PSP patients possess a characteristic profile of comorbidities, particularly diabetes and cardiovascular diseases. The eminent burden of comorbidities and resulting polypharmacy should be carefully considered when treating PSP patients

Clostridium botulinum group III: a group with dual identity shaped by plasmids, phages and mobile elements

<p>Abstract</p> <p>Background</p> <p><it>Clostridium botulinum </it>strains can be divided into four physiological groups that are sufficiently diverged to be considered as separate species. Here we present the first complete genome of a <it>C. botulinum </it>strain from physiological group III, causing animal botulism. We also compare the sequence to three new draft genomes from the same physiological group.</p> <p>Results</p> <p>The 2.77 Mb chromosome was highly conserved between the isolates and also closely related to that of <it>C. novyi</it>. However, the sequence was very different from the human <it>C. botulinum </it>group genomes. Replication-directed translocations were rare and conservation of synteny was high. The largest difference between <it>C. botulinum </it>group III isolates occurred within their surprisingly large plasmidomes and in the pattern of mobile elements insertions. Five plasmids, constituting 13.5% of the total genetic material, were present in the completed genome. Interestingly, the set of plasmids differed compared to other isolates. The largest plasmid, the botulinum-neurotoxin carrying prophage, was conserved at a level similar to that of the chromosome while the medium-sized plasmids seemed to be undergoing faster genetic drift. These plasmids also contained more mobile elements than other replicons. Several toxins and resistance genes were identified, many of which were located on the plasmids.</p> <p>Conclusions</p> <p>The completion of the genome of <it>C. botulinum </it>group III has revealed it to be a genome with dual identity. It belongs to the pathogenic species <it>C. botulinum</it>, but as a genotypic species it should also include <it>C. novyi </it>and <it>C. haemolyticum</it>. The genotypic species share a conserved chromosomal core that can be transformed into various pathogenic variants by modulation of the highly plastic plasmidome.</p

Geokinematics of Central Europe: New insights from the CERGOP-2/Environment Project

The Central European Geodynamics Project CERGOP/2, funded by the European Union from 2003to 2006 under the 5th Framework Programme, benefited from repeated measurements of thecoordinates of epoch and permanent GPS stations of the Central European GPS Reference Network(CEGRN), starting in 1994. Here we report on the results of the systematic processing of availabledata up to 2005. The analysis has yielded velocities for some 60 sites, covering a variety of CentralEuropean tectonic provinces, from the Adria indenter to the Tauern window, the Dinarides, thePannonian Basin, the Vrancea seismic zone and the Carpathian Mountains. The estimated velocitiesdefine kinematical patterns which outline, with varying spatial resolution depending on the stationdensity and history, the present day surface kinematics in Central Europe. Horizontal velocities areanalyzed after removal from the ITRF2000 estimated velocities of a rigid rotation accounting forthe mean motion of Europe: a ~2.3 mm/yr north-south oriented convergence rate between Adria andthe Southern Alps that can be considered to be the present day velocity of the Adria indenterrelative to the European foreland. An eastward extrusion zone initiates at the Tauern Window. Thelateral eastward flow towards the Pannonian Basin exhibits a gentle gradient from 1-1.5 mm/yrimmediately east of the Tauern Window to zero in the Pannonian Basin. This kinematic continuityimplies that the Pannonian plate fragment recently suggested by seismic data does not require aspecific Eulerian pole. On the southeastern boundary of the Adria microplate, we report a velocitydrop from 4-4.5 mm/yr motion near Matera to ~1 mm/yr north of the Dinarides, in the southwesternpart of the Pannonian Basin. A positive velocity gradient as one moves south from West Ukraineacross Rumania and Bulgaria is estimated to be 2 mm/yr on a scale of 600-800 km, as if the crustwere dragged by the counterclockwise rotation along the North Anatolian Fault Zone. This regimeapparently does not interfere with the Vrancea seismic zone: earthquakes there are sufficiently deep(&gt; 100 km) that the brittle deformation at depth can be considered as decoupled from the creep atthe surface. We conclude that models of the Quaternary tectonics of Central and Eastern Europeshould not neglect the long wavelength, nearly aseismic deformation affecting the upper crust in theRomanian and Bulgarian regions

Laboratory Intercomparison of Radiometers Used for Satellite Validation in the 400–900 nm Range

An intercomparison of radiance and irradiance ocean color radiometers (The Second Laboratory Comparison Exercise—LCE-2) was organized within the frame of the European Space Agency funded project Fiducial Reference Measurements for Satellite Ocean Color (FRM4SOC) May 8–13, 2017 at Tartu Observatory, Estonia. LCE-2 consisted of three sub-tasks: 1) SI-traceable radiometric calibration of all the participating radiance and irradiance radiometers at the Tartu Observatory just before the comparisons; 2) Indoor intercomparison using stable radiance and irradiance sources in controlled environment; and 3) Outdoor intercomparison of natural radiation sources over terrestrial water surface. The aim of the experiment was to provide one link in the chain of traceability from field measurements of water reflectance to the uniform SI-traceable calibration, and after calibration to verify whether different instruments measuring the same object provide results consistent within the expected uncertainty limits. This paper describes the activities and results of the first two phases of LCE-2: the SI-traceable radiometric calibration and indoor intercomparison, the results of outdoor experiment are presented in a related paper of the same journal issue. The indoor experiment of the LCE-2 has proven that uniform calibration just before the use of radiometers is highly effective. Distinct radiometers from different manufacturers operated by different scientists can yield quite close radiance and irradiance results (standard deviation s < 1%) under defined conditions. This holds when measuring stable lamp-based targets under stationary laboratory conditions with all the radiometers uniformly calibrated against the same standards just prior to the experiment. In addition, some unification of measurement and data processing must be settled. Uncertainty of radiance and irradiance measurement under these conditions largely consists of the sensor’s calibration uncertainty and of the spread of results obtained by individual sensors measuring the same object