2008 Inter-laboratory Comparison Study of a Reference Material for Nutrients in Seawater

Autoclaved natural seawater collected in the North Pacific Ocean was used as a reference material for nutrients in seawater (RMNS) during an inter-laboratory comparison (I/C) study conducted in 2008. This study was a follow-up to previous studies conducted in 2003 and 2006. A set of six samples was distributed to each of 58 laboratories in 15 countries around the globe, and results were returned by 54 of those laboratories (15 countries). The homogeneities of samples used in the 2008 I/C study, based on analyses for three determinants, were improved compared to those of samples used in the 2003 and 2006 I/C studies. Results of these I/C studies indicate that most of the participating laboratories have an analytical technique for nutrients that is sufficient to provide data of high comparability. The differences between reported concentrations from the same laboratories in the 2006 and 2008 I/C studies for the same batch of RMNS indicate that most of the laboratories have been maintaining internal comparability for two years. Thus, with the current high level of performance in the participating laboratories, the use of a common reference material and the adaptation of an internationally accepted nutrient scale system would increase comparability among laboratories worldwide, and the use of a certified reference material would establish traceability. In the 2008 I/C study we observed a problem of non-linearity of the instruments of the participating laboratories similar to that observed among the laboratories in the 2006 I/C study. This problem of non-linearity should be investigated and discussed to improve comparability for the full range of nutrient concentrations. For silicate comparability in particular, we see relatively larger consensus standard deviations than those for nitrate and phosphate

Calibration of CTD oxygen data collected in the Coral Sea during the 2012 BIFURCATION Cruise

An updated procedure for a CTD-oxygen calibration along with new data processing was applied to recent hydrographic cruise data in the Coral Sea during the Cruise “BIFURCATION” in September 2012. After a brief introduction with the scientific context (section 1), we describe the contents and acquisition models of hydrological and chemical data that are used for the calibration (section 2), the post-cruise calibration method (section 3) and the calibration results (section 4)

Part I: Hydrological properties within the eastern Indonesian throughflow region during the INDOMIX experiment

The Indonesian Mixing (INDOMIX) cruise of July 2010, resolves the Pacific Ocean water masses spreading from the Halmahera Sea through the Seram Sea, Manipa Strait, Banda Sea, to the Ombai Strait, and along the southern margin of Lesser Sunda Arc across the northern Savu Sea, Sumba Strait, and south of Lombok Strait. This paper focuses on the characteristics and stratification of the water masses, along this path and Part II of this study discusses the biogeochemical aspects. Two companion papers on quantification of turbulent mixing have been published elsewhere. We find: a) A marked transformation of South Pacific (SP) thermocline water within a sharp salinity front between the Halmahera Seram Seas. Tidally induced vertical mixing is the main process weakening the SP stratification, as suggested by a simple 1-dimensional diffusion model forced by vertical diffusivity of INDOMIX vertical microstructure profiler dataset. The transformation of SP water by vertical mixing can occur after 3 days, which is in good agreement with previously reported water mass residence times. Lateral advection plays a minor role; b) Interleaving salinity structure within the thermocline of the central Halmahera Sea and two deeper inflow channels. The interleaving salinity features within the central Halmahera Sea thermocline occurs where vertical diffusivity is relatively weak, compared to the vertical mixing at entry/exit portal that removes the interleaving salinity features. Two deeper inflow channels (about 950 m and 740 m depth) in the entry portal of the Halmahera Sea are mapped from the multi-beam echo sounder measurement, where both channels allow the renewal of SP thermocline water and salinity interleaving processes; c) Northward flow of thermocline water (100–200 m depth) in the Manipa Strait that injects Banda homogeneous salinity water into Seram Sea that erode Halmahera salty water via strong diapycnal mixing; d) Cyclonic upper layer circulation in Banda where eastward (westward) flow occurs in the northern (southern) Banda, confirmed by recent modeling study; and e) Relative salty Indian Ocean intermediate water flowing along southern margin of the Lesser Sunda Arc, within the South Java Undercurrent. Two distinct upper thermocline water, due to different source of Indonesian Throughflow (ITF) water, are found in the Banda Sea: fresher and colder water contrasting to saltier and warmer water that converge in this confluence region. Beneath it, Banda intermediate homogeneous salinity water and low dissolved oxygen water is dominant

First Evidence of Anoxia and Nitrogen Loss in the Southern Canary Upwelling System

The northeastern Atlantic hosts the most ventilated subsurface waters of any eastern boundary upwelling system, while coastal upwelling source waters are slightly above hypoxic levels. Anoxic conditions have previously been found offshore inside mesoscale eddies whose core waters undergo oxygen consumption for many months. Based on circumstantial in situ observations this study demonstrates that the Senegalese coastal ocean is subjected to episodic occurrence of zero dissolved oxygen concentration at depth along with elevated nitrite concentration (11 mmol/m3) and nitrate/nitrite deficit to phosphate, thereby indicating severe anoxia and intense nitrogen loss. The anoxic event was associated with a prolonged upwelling relaxation episode in March 2012 and a near shore diatom bloom that underwent degradation while being advected offshore in stratified waters. This is consistent with scenarios observed in other upwelling systems (Benguela and California) and such conditions are presumably frequent in the southern part of the Canary system. Plain Language Summary Oxygen is a key requirement for respiration by marine living organisms. Warming of the atmosphere and the ocean surface to reduces the oxygenation of offshore waters. Similarly, the extra load of nutrients from agriculture or waste waters modify algal production, particularly in coastal regionsoften resulting in oxygen‐depleted waters. Specific reactions affecting the ionic forms of nitrogen also occur within oxygen‐depleted waters also impact the nitrogen cycle by generating nitrite, which is poisonous for marine organisms, and nitrous oxide, a powerful greenhouse gas.We took measurements at sea to show that a poorly studied coastal sector of the North Atlantic Ocean, the Senegalese continental shelf, can be episodically subjected to complete depletion of subsurface oxygen (anoxia) as well as high nitrite concentrations, constituting the first report of anoxia for this oceanic region. We also show that this anoxia is likely the consequence of the decay of a bloom of diatoms, a group of microalgae common in this type of ecosystem thatinitially developed in shallow waters and transported offshore by anomalous currents associated with low‐wind conditions

A new hybrid record linkage process to make epidemiological databases interoperable: application to the GEMO and GENEPSO studies involving BRCA1 and BRCA2 mutation carriers

International audienceBackground: Linking independent sources of data describing the same individuals enable innovative epidemiological and health studies but require a robust record linkage approach. We describe a hybrid record linkage process to link databases from two independent ongoing French national studies, GEMO (Genetic Modifiers of BRCA1 and BRCA2), which focuses on the identification of genetic factors modifying cancer risk of BRCA1 and BRCA2 mutation carriers, and GENEPSO (prospective cohort of BRCAx mutation carriers), which focuses on environmental and lifestyle risk factors.Methods: To identify as many as possible of the individuals participating in the two studies but not registered by a shared identifier, we combined probabilistic record linkage (PRL) and supervised machine learning (ML). This approach (named "PRL + ML") combined together the candidate matches identified by both approaches. We built the ML model using the gold standard on a first version of the two databases as a training dataset. This gold standard was obtained from PRL-derived matches verified by an exhaustive manual review. Results The Random Forest (RF) algorithm showed a highest recall (0.985) among six widely used ML algorithms: RF, Bagged trees, AdaBoost, Support Vector Machine, Neural Network. Therefore, RF was selected to build the ML model since our goal was to identify the maximum number of true matches. Our combined linkage PRL + ML showed a higher recall (range 0.988-0.992) than either PRL (range 0.916-0.991) or ML (0.981) alone. It identified 1995 individuals participating in both GEMO (6375 participants) and GENEPSO (4925 participants).Conclusions: Our hybrid linkage process represents an efficient tool for linking GEMO and GENEPSO. It may be generalizable to other epidemiological studies involving other databases and registries