-
Pan-African phylogeny of Mus (subgenus Nannomys) reveals one of the most successful mammal radiations in Africa
-
Located in
Library
/
RBINS Staff Publications
-
High Prevalence of Rickettsia typhi and Bartonella Species in Rats and Fleas, Kisangani, Democratic Republic of the Congo
-
Located in
Library
/
RBINS Staff Publications
-
Specimen collection: An essential tool
-
Located in
Library
/
RBINS Staff Publications
-
Predicting the consequences of nutrient reduction on the eutrophication status of the North Sea.
-
In this paper the results from a workshop of the OSPAR Intersessional Correspondence Group on Eutrophication Modelling (ICG-EMO) held in Lowestoft in 2007 are presented. The aim of the workshop was to compare the results of a number of North Sea ecosystem models under different reduction scenarios. In order to achieve comparability of model results the participants were requested to use a minimum spin-up time, common boundary conditions which were derived from a wider-domain model, and a set of common forcing data, with special emphasis on a complete coverage of river nutrient loads. Based on the OSPAR requirements river loads were derived, taking into account the reductions already achieved between 1985 and 2002 for each country. First, for the year 2002, for which the Comprehensive Procedure was applied, the different horizontal distributions of net primary production are compared. Furthermore, the differences in the net primary production between the hindcast run and the 50% nutrient reduction runs are displayed. In order to compare local results, the hindcast and reduction runs are presented for selected target areas and scored against the Comprehensive Procedure assessment levels for the parameters DIN, DIP and chlorophyll. Finally, the temporal development of the assessment parameter bottom oxygen concentration from several models is compared with data from the Dutch monitoring station Terschelling 135. The conclusion from the workshop was that models are useful to support the application of the OSPAR Comprehensive Procedure. The comparative exercise formulated specifically for the workshop required models to be evaluated for pre-defined target areas previously classified as problem areas according to the first application of the Comprehensive Procedure. The responsiveness of the modelled assessment parameters varied between different models but in general the parameter showed a larger response in coastal rather than in offshore waters, which in some cases lead to the goal to achieve a non-problem status. Therefore, the application of the Comprehensive Procedure on model results for parameter assessment opens a new potential in testing eutrophication reduction measures within the North Sea catchment. As a result of the workshop further work was proposed to confirm and bolster confidence in the results. One general field of difficulty appeared to be the model forcing with SPM data in order to achieve realistic levels of light attenuation. Finally, effects of the prescribed spin-up procedure are compared against a long-term run over many years and consequences on the resulting initial nutrient concentrations are highlighted.
Located in
Library
/
RBINS Staff Publications
-
Detection of Algal Blooms in European waters based on satellite chlorophyll data from MERIS and MODIS.
-
A technique for algal-bloom detection in European waters is described, based on standard chlorophyll a concentration (Chl) data from two ocean-colour sensors, the Moderate Resolution Imaging Spectroradiometer (MODIS) and Medium Resolution Imaging Spectrometer (MERIS). Comparison of the two data sources shows good agreement in case 1 waters, whereas the difference is significant in coastal waters including turbid areas. A relationship between the water-leaving reflectance at 667 nm and Chl for case 1 waters was used to eliminate pixels where Chl retrieval is contaminated by backscatter from inorganic suspended matter. Daily Chl data are compared to a predefined threshold map to determine whether an algal bloom has occurred. In this study, a threshold map was defined as the 90th percentile of previous years' data to take account of regional differences in typical Chl levels, with separate maps for each sensor to take account of sensor-specific bias. The algal-bloom detection processing chain is described, and example results are presented.
Located in
Library
/
RBINS Staff Publications
-
Modelling the transport of common sole larvae in the Southern North Sea: influence of hydrodynamics and larval vertical movements.
-
In the present work we used a particle-tracking model coupled to a 3D hydrodynamic model to study the combined effect of hydrodynamic variability and active vertical movements on the transport of sole larvae in the southern North Sea. Larval transport from the 6 main spawning grounds was simulated during 40 day periods starting on 2 plausible spawning dates, the 15/04 and the 01/05, during 2 years, 1995 and 1996. In addition to a “passive” behaviour, 3 types of active vertical movements inspired from previous studies have been tested: (1) Eggs and early larvae float in the surface waters, late larvae migrate toward the bottom and stay there until the end of the simulation; (2 and 3) Eggs float in the surface waters, early larvae perform diel vertical migrations in the surface waters, and (2) Late larvae perform diel vertical migrations in the bottom waters until the end of the simulation; or (3) Late larvae perform tidally synchronised vertical migrations in the bottom waters until the end of the simulation. These behaviours have been implemented in the model with vertical migration rates, positive or negative, which can account for buoyancy or real swimming activity. Variations in larval transport were analysed in terms of mean trajectories, final larvae distribution, larval retention above nurseries, and connectivity. Results suggest that the variations in larval retention above nurseries due to the varying hydrodynamic conditions are not consistent in space i.e. not the same for all the spawning sites. The effect of active vertical movements on larval transport is also not consistent in space: Effects of active vertical movements include decreased retention above nurseries, decreased transport and/or decreased horizontal dispersion of larvae through reduced vertical shear (depending on the zone). The variability in larval retention due to hydrodynamic variability is higher than variability due to differences in the behaviour of larvae. In terms of connectivity, exchanges of larvae between the 6 areas considered are moderate: 10 connections happened out of the 30 possible, and the amount of larvae exchanged is much lower than the amount of larvae retained except in a few cases. This is not incompatible with the possible existence of subpopulations of sole in the Eastern Channel and southern North Sea.
Located in
Library
/
RBINS Staff Publications
-
Cloud filling of ocean color and sea surface temperature remote sensing products over the Southern North Sea by the Data Interpolating Empirical Orthogonal Functions methodology.
-
Optical remote sensing data is now being used systematically for marine ecosystem applications, such as the forcing of biological models and the operational detection of harmful algae blooms. However, applications are hampered by the incompleteness of imagery and by some quality problems. The Data Interpolating Empirical Orthogonal Functions methodology (DINEOF) allows calculation of missing data in geophysical datasets without requiring a priori knowledge about statistics of the full data set and has previously been applied to SST reconstructions. This study demonstrates the reconstruction of complete space-time information for 4 years of surface chlorophyll a (CHL), total suspended matter (TSM) and sea surface temperature (SST) over the Southern North Sea (SNS) and English Channel (EC). Optimal reconstructions were obtained when synthesising the original signal into 8 modes for MERIS CHL and into 18 modes for MERIS TSM. Despite the very high proportion of missing data (70%), the variability of original signals explained by the EOF synthesis reached 93.5 % for CHL and 97.2 % for TSM. For the MODIS TSM dataset, 97.5 % of the original variability of the signal was synthesised into 14 modes. The MODIS SST dataset could be synthesised into 13 modes explaining 98 % of the input signal variability. Validation of the method is achieved for 3 dates below 2 artificial clouds, by comparing reconstructed data with excluded input information. Complete weekly and monthly averaged climatologies, suitable for use with ecosystem models, were derived from regular daily reconstructions. Error maps associated with every reconstruction were produced according to Beckers et al. (2006) [6]. Embedded in this error calculation scheme, a methodology was implemented to produce maps of outliers, allowing identification of unusual or suspicious data points compared to the global dynamics of the dataset. Various algorithms artefacts were associated with high values in the outlier maps (undetected cloud edges, haze areas, contrails, cloud shadows). With the production of outlier maps, the data reconstruction technique becomes also a very efficient tool for quality control of optical remote sensing data and for change detection within large databases.
Located in
Library
/
RBINS Staff Publications
-
Nutrient dynamics and phytoplankton development along an estuary-coastal zone continuum: A model study.
-
This study presents a first attempt to quantify the biogeochemical transformations and fluxes of carbon and nutrients along the entire mixing zone of the shallow, tidally-dominated estuary–coastal zone continuum of the Scheldt (Belgium/The Netherlands). A fully transient, two-dimensional, nested-grid hydrodynamic model of the continuum is coupled to the biogeochemical MIRO model for the coastal zone and the CONTRASTE model for the estuary. Transient model simulations are performed with a high spatial (80–750 m) and temporal (30 min) resolution over a period of one year (January–December 1995). The high temporal resolution allows including the short-term variability triggered by the tides, the freshwater discharge and the wind stress. System scale simulations provide time series of nutrient transformations and fluxes along the entire estuary–coastal zone continuum, as well as highly resolved nutrient inventories for the estuarine and the coastal zone sub-domains. Simulation results reveal that the balance between highly variable estuarine nutrient inputs and physical constrains set by the unsteady residual transport field exert an important control on the magnitude and succession of phytoplankton blooms and the ecosystem structure in the coastal zone. In addition, they suggest that the poorly surveyed estuarine–coastal zone interface plays a central role in the continuum. In this dynamic area, marked spatial concentration gradients develop and episodically lead to a reversal of material fluxes from the coast into the estuary. During distinct episodes of the productive period, euryhaline coastal diatoms intrude far upstream into the saline estuary. This intrusion reduces the estuarine nutrient concentrations and export fluxes, thereby reinforcing the nutrient limitation in the coastal area. As a consequence, the estuarine filter does not operate independently from the processes in the coastal zone. The dynamic interplay between the two ecosystems and the intense process rates operating at their transition, therefore, strongly supports our continuum approach.
Located in
Library
/
RBINS Staff Publications
-
Seasonal and inter-annual variability of air-sea CO2 fluxes and seawater carbonate chemistry in the Southern Bight of the North Sea.
-
A 3D coupled biogeochemical–hydrodynamic model (MIRO-CO2&CO) is implemented in the English Channel (ECH) and the Southern Bight of the North Sea (SBNS) to estimate the present-day spatio-temporal distribution of air–sea CO2 fluxes, surface water partial pressure of CO2 (pCO2) and other components of the carbonate system (pH, saturation state of calcite (Xca) and of aragonite (Xar)), and the main drivers of their variability. Over the 1994–2004 period, air–sea CO2 fluxes show significant interannual variability, with oscillations between net annual CO2 sinks and sources. The inter annual variability of air–sea CO2 fluxes simulated in the SBNS is controlled primarily by river loads and changes of biological activities (net autotrophy in spring and early summer, and net heterotrophy in winter and autumn), while in areas less influenced by river inputs such as the ECH, the inter annual variations of air–sea CO2 fluxes are mainly due to changes in sea surface temperature and in near-surface wind strength and direction. In the ECH, the decrease of pH, of Xca and of Xar follows the one expected from the increase of atmospheric CO2 (ocean acidification), but the decrease of these quantities in the SBNS during the considered time period is faster than the one expected from ocean acidification alone. This seems to be related to a general pattern of decreasing nutrient river loads and net ecosystem production (NEP) in the SBNS. Annually, the combined effect of carbon and nutrient loads leads to an increase of the sink of CO2 in the ECH and the SBNS, but the impact of the river loads varies spatially and is stronger in river plumes and nearshore waters than in offshore waters. The impact of organic and inorganic carbon (C) inputs is mainly confined to the coast and generates a source of CO2 to the atmosphere and low pH, of Xca and of Xar values in estuarine plumes, while the impact of nutrient loads, highest than the effect of C inputs in coastal nearshore waters, also propagates offshore and, by stimulating primary production, drives a sink of atmospheric CO2 and higher values of pH, of Xca and of Xar.
Located in
Library
/
RBINS Staff Publications
-
Modelling diatom and Phaeocystis blooms and nutrient cycles in the Southern Bight of the North Sea: the MIRO model.
-
The link between anthropogenic nutrient loads and the magnitude and extent of diatom and Phaeocystis colony blooms in the Southern Bight of the North Sea was explored with the complex ecosystem model MIRO. The model was adapted for resolving the changing nutrient loads, the complex biology of the bloom species and the tight coupling between the benthic and pelagic compartments that characterise this shallow coastal shelf sea ecosystem. State variables included the main inorganic nutrients (nitrate [NO3], ammonium [NH4], phosphate [PO4] and dissolved silica [DSi]), 3 groups of phytoplankton with different trophic fates (diatoms, nanophytoflagellates and Phaeocystis colonies), 2 zooplankton groups (copepods and microzooplankton), bacteria, and 5 classes of detrital organic matter with different biodegradability. The capability of the MIRO model to properly simulate the observed SW–NE gradient in nutrient enrichment and the seasonal cycle of inorganic and organic C and nutrients, phytoplankton, bacteria and zooplankton in the eastern English Channel and Southern Bight of the North Sea is demonstrated by running the model for the period from 1989 to 1999. The MIRO code was implemented in a simplified multi-box representation of the hydrodynamic regime. These model runs give the first general view of the seasonal dynamics of Phaeocystis colony blooms and nutrient cycling within the domain. C, N and P budget calculations show that (1) the coastal ecosystem has a low nutrient retention and elimination capacity, (2) trophic efficiency of the planktonic system is low, and (3) both are modulated by meteorological forcing.
Located in
Library
/
RBINS Staff Publications
