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Article Reference Quality-control tests for OC4, OC5 and NIR-red satellite chlorophyll-a algorithms applied to coastal waters
Reliable satellite estimates of chlorophyll-a concentration (Chl-a) are needed in coastal waters for applications such as eutrophication monitoring. However, because of the optical complexity of coastal waters, retrieving accurate Chl-a is still challenging. Many algorithms exist and give quite different performance for different optical conditions but there is no clear definition of the limits of applicability of each algorithm and no clear basis for deciding which algorithm to apply to any given image pixel (reflectance spectrum). Poor quality satellite Chl-a data can easily reach end-users. To remedy this and provide a clear decision on when a specific Chl-a algorithm can be used, we propose simple quality control tests, based on MERIS water leaving reflectance (ρw) bands, to determine on a pixel-by-pixel basis if any of three popular and complementary algorithms can be used. The algorithms being tested are: 1. the OC4 blue-green band ratio algorithm which was designed for open ocean waters; 2. the OC5 algorithm which is based on look-up tables and corrects OC4 overestimation in moderately turbid waters and 3. a near infrared-red (NIR-red) band ratio algorithm designed for eutrophic waters. Using a dataset of 348 in situ Chl-a / MERIS matchups, the conditions for reliable performance of each of the selected algorithms are determined. The approach proposed here looks for the best compromise between the minimization of the relative difference between In situ measurements and satellite estimations and the number of pixels processed. Conditions for a reliable application of OC4 and OC5 depend on ρw412/ρw443 and ρw560, used as proxies of coloured dissolved organic matter and suspended particulate matter (SPM), as compared to ρw560/ρw490, used as a proxy for Chl-a. Conditions for reliable application of the NIR-red band ratio algorithm depend on Chl-a and SPM. These conditions are translated into pixel-based quality control (QC) tests with appropriately chosen thresholds. Results show that by removing data which do not pass QC, the performance of the three selected algorithms is significantly improved. After combining these algorithms, 70\% of the dataset could be processed with a median absolute percent difference of 30.5\%. The QC tests and algorithm merging methodology were then tested on four MERIS images of European waters. The OC5 algorithm was found to be suitable for most pixels, except in very turbid and eutrophic waters along the coasts where the NIR-red band ratio algorithm helps to fill the gap. Finally, a test was performed on an OLCI-S3A image. Although some validations of water reflectance are still needed for the OLCI sensors, results show similar behavior to the MERIS applications which suggests that when applied to OLCI data the present methodology will help to accurately estimate Chl-a in coastal waters for the next decade.
Located in Library / RBINS Staff Publications 2022
Article Reference Quantiative clay mineralogy as provencance indicator for recent muds in the southern North Sea
Located in Library / RBINS Staff Publications 2018
Article Reference Quantification of Cable Bacteria in Marine Sediments via qPCR
Cable bacteria (Deltaproteobacteria, Desulfobulbaceae) are long filamentous sulfur-oxidizing bacteria that generate long-distance electric currents running through the bacterial filaments. This way, they couple the oxidation of sulfide in deeper sediment layers to the reduction of oxygen or nitrate near the sediment-water interface. Cable bacteria are found in a wide range of aquatic sediments, but an accurate procedure to assess their abundance is lacking. We developed a qPCR approach that quantifies cable bacteria in relation to other bacteria within the family Desulfobulbaceae. Primer sets targeting cable bacteria, Desulfobulbaceae and the total bacterial community were applied in qPCR with DNA extracted from marine sediment incubations. Amplicon sequencing of the 16S rRNA gene V4 region confirmed that cable bacteria were accurately enumerated by qPCR, and suggested novel diversity of cable bacteria. The conjoint quantification of current densities and cell densities revealed that individual filaments carry a mean current of ~110 pA and have a cell specific oxygen consumption rate of 69 fmol O2 cell-1 day-1. Overall, the qPCR method enables a better quantitative assessment of cable bacteria abundance, providing new metabolic insights at filament and cell level, and improving our understanding of the microbial ecology of electrogenic sediments.
Located in Library / No RBINS Staff publications
Article Reference Quantifying the carbon benefits of ending bottom trawling
Located in Library / RBINS Staff Publications 2023
Article Reference Quercypsitta-like birds from the early Eocene of India (Aves, ?Psittaciformes)
Located in Library / RBINS Staff Publications
Article Reference Querns and mills during Roman times at the northern frontier of the Roman Empire (Belgium, Northern France, Southern Netherlands, Western Germany): unravelling geological and geographical provenances, a multidisciplinary approach
Located in Library / RBINS Staff Publications 2016
Article Reference QWIP: A Quantitative Metric for Quality Control of Aquatic Reflectance Spectral Shape Using the Apparent Visible Wavelength
The colors of the ocean and inland waters span clear blue to turbid brown, and the corresponding spectral shapes of the water-leaving signal are diverse depending on the various types and concentrations of phytoplankton, sediment, detritus and colored dissolved organic matter. Here we present a simple metric developed from a global dataset spanning blue, green and brown water types to assess the quality of a measured or derived aquatic spectrum. The Quality Water Index Polynomial (QWIP) is founded on the Apparent Visible Wavelength (AVW), a one-dimensional geophysical metric of color that is inherently correlated to spectral shape calculated as a weighted harmonic mean across visible wavelengths. The QWIP represents a polynomial relationship between the hyperspectral AVW and a Normalized Difference Index (NDI) using red and green wavelengths. The QWIP score represents the difference between a spectrum’s AVW and NDI and the QWIP polynomial. The approach is tested extensively with both raw and quality controlled field data to identify spectra that fall outside the general trends observed in aquatic optics. For example, QWIP scores less than or greater than 0.2 would fail an initial screening and be subject to additional quality control. Common outliers tend to have spectral features related to: 1) incorrect removal of surface reflected skylight or 2) optically shallow water. The approach was applied to hyperspectral imagery from the Hyperspectral Imager for the Coastal Ocean (HICO), as well as to multispectral imagery from the Visual Infrared Imaging Radiometer Suite (VIIRS) using sensor-specific extrapolations to approximate AVW. This simple approach can be rapidly implemented in ocean color processing chains to provide a level of uncertainty about a measured or retrieved spectrum and flag questionable or unusual spectra for further analysis.
Located in Library / RBINS Staff Publications 2022
Article Reference Radial porosity profiles: a new bone histological method for comparative developmental analysis of diametric limb bone growth
Located in Library / RBINS Staff Publications 2022
Inproceedings Reference Radiation of plesiadapid mammals at the end of the Paleocene evidenced by new discoveries from the Latest Paleocene of France: one more example of bush-like evolution
Plesiadapidae are usually considered to be the closest relatives to the crown-group primates, despite their disappearance at the Paleocene–Eocene Boundary (PEB) in North America, right when the first euprimates appear. In Europe, however, the family survives a few million years after the PEB, though only represented by the genus Platychoerops. Because Plesiadapis was restricted to the Paleocene and Platychoerops restricted to the Eocene, a linear evolution was implied: the genus Plesiadapis was thought to give rise to Platychoerops at the PEB due to the particular environmental conditions of that time. However, one species of Platychoerops was recently described from the late Paleocene of Berru, France, casting doubts on this hypothesis. The recently discovered locality of Petit-Pâtis (Rivecourt, Oise, France) delivered for the first time the most diagnostic tooth of Platychoerops in the Paleocene, its long and derived I1. This discovery confirms the presence of the genus Platychoerops in the Paleocene and attests a quick diversification, bush-like radiation of the family into three genera, before the PEB. The locality of Petit-Pâtis also delivered specimens referable to a new species morphologically intermediate between Plesiadapis tricuspidens and Platychoerops antiquus, with a critical I1 very similar to P. tricuspidens but closer to P. antiquus by its more molarized and proportionally larger p4; this latter derived character is shared with Platychoerops, so that the hypothesis of the North American species P. cookei being the most derived species of Plesiadapis and having given rise to Platychoerops can now be questioned, and a more geographically parsimonious hypothesis of a European origin of the European genus Platychoerops is supported. Finally, the third European genus of Plesiadapidae, Chiromyoides, is also present in Petit-Pâtis, where it is represented by a new species characterized by a smaller size than C. campanicus and the presence of relatively large accessory cuspules aside the posterocone on I1. The specimens from Petit-Pâtis also confirm the hypothesis that Platychoerops georgei from the earliest Eocene is likely a composite species based on the assemblage of a few specimens from different localities of similar estimated age, most specimens likely belonging to Plesiadapis or Platychoerops, while the holotype (a short I1) belongs either to Chiromyoides or to Plesiadapis, its preservation state making the identification difficult. Grant Information This abstract is a contribution to the project BR/121/A3/PalEurAfrica funded by the Belgian Science Policy Office.
Located in Library / RBINS Staff Publications 2016
Article Reference Radiocarbon dated sediment sequences from the Belgian coastal plain: testing the hypothesis of fluctuating or smooth late Holocene relative sea-level rise
Located in Library / RBINS Staff Publications