PanGet - downloads multiple data sets from PANGAEA

The software PanGet is a special tool for the download of multiple data sets from PANGAEA. It uses the PANGAEA data set ID which is unique and part of the DOI. In a first step a list of ID's of those data sets to be downloaded must be created. There are two choices to define this individual collection of sets. Based on the ID list, the tool will download the data sets. Failed downloads are written to the file *_failed.txt. The functionality of PanGet is also part of the program Pan2Applic (choose File > Download PANGAEA datasets...) and PanTool2 (choose Basic tools > Download PANGAEA datasets...).

Benthic and substrate cover data derived from a time series of photo-transect surveys for the Eastern Banks, Moreton Bay Australia, 2004-2015

This paper describes seagrass species and percentage cover point-based field data sets derived from georeferenced photo transects. Annually or biannually over a ten year period (2004-2015) data sets were collected using 30-50 transects, 500-800 m in length distributed across a 142 km**2 shallow, clear water seagrass habitat, the Eastern Banks, Moreton Bay, Australia. Each of the eight data sets include seagrass property information derived from approximately 3000 georeferenced, downward looking photographs captured at 2-4 m intervals along the transects. Photographs were manually interpreted to estimate seagrass species composition and percentage cover (Coral Point Count excel; CPCe). Understanding seagrass biology, ecology and dynamics for scientific and management purposes requires point-based data on species composition and cover. This data set, and the methods used to derive it are a globally unique example for seagrass ecological applications. It provides the basis for multiple further studies at this site, regional to global comparative studies, and, for the design of similar monitoring programs elsewhere.

Global compilation of chlorophyll fluorescence profiles from several data bases, and from published and unpublished individual sources

The present data set includes 268,127 vertical in situ fluorescence profiles obtained from several available online databases and from published and unpublished individual sources. Metadata about each profiles are given in the file provided here in further details. The majority of profiles comes from the National Oceanographic Data Center (NODC) and the fluorescence profiles acquired by Bio-Argo floats available on the Oceanographic Autonomous Observations (OAO) platform (63.7% and 12.5% respectively). Different modes of acquisition were used to collect the data presented in this study: (1) CTD profiles are acquired using a fluorometer mounted on a CTD-rosette; (2) OSD (Ocean Station Data) profiles are derived from water samples and are defined as low resolution profiles; (3) the UOR (Undulating Oceanographic Recorder) profiles are acquired by a equipped with a fluorometer and towed by a research vessel; (4) PA profiles are acquired by autonomous platforms (here profiling floats or elephant seals equipped with a fluorometer). Data acquired from gliders are not included in the compilation.

Micromesistius poutassou (blue whiting) abundance and biomass data in Bay of Biscay estimated from acoustic surveys (2000-2012)

Acoustic and pelagic trawl data were collected during various pelagic surveys carried out by IFREMER in May between 2000 and 2012 (except 2001), on the eastern continental shelf of the Bay of Biscay (Pelgas series). The acoustic data were collected with a Simrad EK60 echosounder operating at 38 kHz (beam angle at -3 dB: 7°, pulse length set to 1.024 ms). The echosounder transducer was mounted on the vessel keel, at 6 m below the sea surface. The sampling design were parallel transects spaced 12 nm apart which were orientated perpendicular to the coast line from 20 m to about 200 m bottom depth. The nominal sailing speed was 10 knots and 3 knots on average during fishing operations. The scrutinising (species identification) of acoustic data was done by first characterising acoustic schools by type and then linking these types with the species composition of specific trawl hauls. The data set contains nautical area backscattering values, biomass and abundance estimates for blue whiting for one nautical mile long transect lines. Further information on the survey design, scrutinising and biomass estimation can be found in Doray et al. 2012.

Analysis of minerals from Arctic Ocean sediments

The Arctic Ocean System is a key player regarding the climatic changes of Earth. Its highly sensitive ice Cover, the exchange of surface and deep water masses with the global ocean and the coupling with the atmosphere interact directly with global climatic changes. The output of cold, polar water and sea ice influences the production of deep water in the North Atlantic and controls the global ocean circulation ("the conveyor belt"). The Arctic Ocean is surrounded by the large Northern Hemisphere ice sheets which not only affect the sedimentation in the Arctic Ocean but also are supposed to induce the Course of glacials and interglacials. Terrigenous sediment delivered from the ice sheets by icebergs and meltwater as well as through sea ice are major components of Arctic Ocean sediments. Hence, the terrigenous content of Arctic Ocean sediments is an outstanding archive to investigate changes in the paleoenvironment. Glazigenic sediments of the Canadian Arctic Archipelago and surface samples of the Arctic Ocean and the Siberian shelf regions were investigated by means of x-ray diffraction of the bulk fraction. The source regions of distinct mineral compositions were to be deciphered. Regarding the complex circumpolar geology stable christalline shield rocks, active and ancient fold belts including magmatic and metamorphic rocks, sedimentary rocks and wide periglacial lowlands with permafrost provide a complete range of possible mineral combinations. Non- glaciated shelf regions mix the local input from a possible point source of a particular mineral combination with the whole shelf material and function as a sampler of the entire region draining to the shelf. To take this into account, a literature research was performed. Descriptions of outcropping lithologies and Arctic Ocean sediments were scanned for their mineral association. The analyses of glazigenic and shelf sediments yielded a close relationship between their mineral composition and the adjacent source region. The most striking difference between the circumpolar source regions is the extensive outcrop of carbonate rocks in the vicinity of the Canadian Arctic Archipelago and in N Greenland while siliciclastic sediments dominate the Siberian shelves. In the Siberian shelf region the eastern Kara Sea and the western Laptev Sea form a destinct region defined by high smectite, (clino-) pyroxene and plagioclase input. The source of this signal are the extensive outcrops of the Siberian trap basalt in the Putorana Plateau which is drained by the tributaries of the Yenissei and Khatanga. The eastern Laptev Sea and the East Siberian Sea can also be treated as one source region containing a feldspar, quartz, illite, mica, and chlorite asscciation combined with the trace minerals hornblende and epidote. Franz Josef Land provides a mineral composition rich in quartz and kaolinite. The diverse rock suite of the Svalbard archipelago distributes specific mineral compositions of highly metamorphic christalline rocks, dolomite-rich carbonate rocks and sedimentary rocks with a higher diagenetic potential manifested in stable newly built diagenetic minerals and high organic maturity. To reconstruct the last 30,000 years as an example of the transition between glacial and interglacial conditions a profile of sediment cores, recovered during the RV Polarstern" expedition ARK-VIIIl3 (ARCTIC '91), and additional sediment cores around Svalbard were investigated. Besides the mineralogy of different grain size fractions several additional sedimentological and organo-geochemical Parameterswere used. A detailed stratigraphic framework was achieved. By exploiting this data set changes in the mineral composition of the Eurasian Basin sediments can be related to climatic changes. Certain mineral compositions can even be associated with particular transport processes, e.g. the smectitel pyroxene association with sea ice transport from the eastern Kara Sea and the western Laptev Sea. Hence, it is possible to decipher the complex interplay between the influx of warm Atlantic waters into the Southwest of the Eurasian Basin, the waxing and waning of the Svalbard1Barents- Sea- and Kara-Sea-Ice-Sheets, the flooding of the Siberian shelf regions and the surface and deep water circulation. Until now the Arctic Ocean was assumed to be a rather stable System during the last 30,000 years which only switched from a completely ice covered situation during the glacial to seasonally Open waters during the interglacial. But this work using mineral assemblages of sediment cores in the vicinity of Svalbard revealed fast changes in the inflow of warm Atlantic water with the Westspitsbergen Current (< 1000 years), short periods of advances and retreats of the marine based Eurasian ice sheets (1000-3000 years), and short melting phases (400 years?). Deglaciation of the marine-based Eurasian and the land-based north American and Greenland ice sheets are not simultaneous. This thesis postulates that the Kara Sea Ice Sheet released an early meltwater signal prior to 15,000 14C years leading the Barents Sea Ice Sheet while the western land-based ice sheets are following later than 13,500 14C years. The northern Eurasian Basin records the shift between iceberg and sea-ice material derived from the Canadian Arctic Archipelago and N-Greenland and material transported by sea-ice and surface currents from the Siberian shelf region. The phasing of the deglaciation becomes very obvious using the dolomite and quartd phyllosilicate record. It is also supposed that the flooding of the Laptev Sea during the Holocene is manifested in a stepwise increase of sediment input at the Lomonosov Ridge between the Eurasian and Amerasian Basin. Depending on the strength of meltwater pulses from the adjacent ice sheets the Transpolar Drift can probably be relocated. These movements are traceable by the distribution of indicator minerals. Based on the outcome of this work the feasibility of bulk mineral determination can be qualified as excellent tool for paleoenvironmental reconstructions in the Arctic Ocean. The easy preparation and objective determination of bulk mineralogy provided by the QUAX software bears the potential to use this analyses as basic measuring method preceding more time consuming and highly specialised mineralogical investigations (e.g. clay mineralogy, heavy mineral determination).

Compilation of downward flux observations from sediment trap deployments in the Atlantic Ocean - Contribution to EURO-BASIN's Data integration

We provide a compilation of downward fluxes (total mass, POC, PON, BSiO2, CaCO3, PIC and lithogenic/terrigenous fluxes) from over 6000 sediment trap measurements distributed in the Atlantic Ocean, from 30 degree North to 49 degree South, and covering the period 1982-2011. Data from the Mediterranean Sea are also included. Data were compiled from different sources: data repositories (BCO-DMO, PANGAEA), time series sites (BATS, CARIACO), published scientific papers and/or personal communications from PI's. All sources are specifed in the data set. Data from the World Ocean Atlas 2009 were extracted to provide each flux observation with contextual environmental data, such as temperature, salinity, oxygen (concentration, AOU and percentage saturation), nitrate, phosphate and silicate.

Climate forecast data (Nino3.4 SST, Arctic sea ice extent) and observational references, link to files in Rdata format

This data set contains seasonal forecasts of sea surface temperature and Arctic sea ice extent from state-of-the-art climate models, along with observational references used to evaluate those forecasts. Common skill scores like the correlation between modelled and observed time series are also reported.

Biogeochemical data from terrestrial and aquatic ecosystems in a periglacial catchment, West Greenland

Global warming is expected to be most pronounced in the Arctic where permafrost thaw and release of old carbon may provide an important feedback mechanism to the climate system. To better understand and predict climate effects and feedbacks on the cycling of elements within and between ecosystems in northern latitude landscapes, a thorough understanding of the processes related to transport and cycling of elements is required. A fundamental requirement to reach a better process understanding is to have access to high-quality empirical data on chemical concentrations and biotic properties for a wide range of ecosystem domains and functional units (abiotic and biotic pools). The aim of this study is therefore to make one of the most extensive field data sets from a periglacial catchment readily available that can be used both to describe present-day periglacial processes and to improve predictions of the future. Here we present the sampling and analytical methods, field and laboratory equipment and the resulting biogeochemical data from a state-of-the-art whole-ecosystem investigation of the terrestrial and aquatic parts of a lake catchment in the Kangerlussuaq region, West Greenland. This data set allows for the calculation of whole-ecosystem mass balance budgets for a long list of elements, including carbon, nutrients and major and trace metals.

Inventory of SINOPS project data sets

During the SINOPS project, an optimal state of the art simulation of the marine silicon cycle is attempted employing a biogeochemical ocean general circulation model (BOGCM) through three particular time steps relevant for global (paleo-) climate. In order to tune the model optimally, results of the simulations are compared to a comprehensive data set of 'real' observations. SINOPS' scientific data management ensures that data structure becomes homogeneous throughout the project. Practical work routine comprises systematic progress from data acquisition, through preparation, processing, quality check and archiving, up to the presentation of data to the scientific community. Meta-information and analytical data are mapped by an n-dimensional catalogue in order to itemize the analytical value and to serve as an unambiguous identifier. In practice, data management is carried out by means of the online-accessible information system PANGAEA, which offers a tool set comprising a data warehouse, Graphical Information System (GIS), 2-D plot, cross-section plot, etc. and whose multidimensional data model promotes scientific data mining. Besides scientific and technical aspects, this alliance between scientific project team and data management crew serves to integrate the participants and allows them to gain mutual respect and appreciation.

R-ArcticNet, A Regional Hydrographic Data Network for the Pan-Arctic Region (ISO-image of CD-ROM)

We describe the contemporary hydrography of the pan-Arctic land area draining into the Arctic Ocean, northern Bering Sea, and Hudson Bay on the basis of observational records of river discharge and computed runoff. The Regional Arctic Hydrographic Network data set, R-ArcticNET, is presented, which is based on 3754 recording stations drawn from Russian, Canadian, European, and U.S. archives. R-ArcticNET represents the single largest data compendium of observed discharge in the Arctic. Approximately 73% of the nonglaciated area of the pan-Arctic is monitored by at least one river discharge gage giving a mean gage density of 168 gages per 106 km2. Average annual runoff is 212 mm yr?1 with approximately 60% of the river discharge occurring from April to July. Gridded runoff surfaces are generated for the gaged portion of the pan-Arctic region to investigate global change signals. Siberia and Alaska showed increases in winter runoff during the 1980s relative to the 1960s and 1970s during annual and seasonal periods. These changes are consistent with observations of change in the climatology of the region. Western Canada experienced decreased spring and summer runoff.

Global distributions of diazotrophs abundance, biomass and nitrogen fixation rates - Gridded data product (NetCDF) - Contribution to the MAREDAT World Ocean Atlas of Plankton Functional Types

The MAREDAT atlas covers 11 types of plankton, ranging in size from bacteria to jellyfish. Together, these plankton groups determine the health and productivity of the global ocean and play a vital role in the global carbon cycle. Working within a uniform and consistent spatial and depth grid (map) of the global ocean, the researchers compiled thousands and tens of thousands of data points to identify regions of plankton abundance and scarcity as well as areas of data abundance and scarcity. At many of the grid points, the MAREDAT team accomplished the difficult conversion from abundance (numbers of organisms) to biomass (carbon mass of organisms). The MAREDAT atlas provides an unprecedented global data set for ecological and biochemical analysis and modeling as well as a clear mandate for compiling additional existing data and for focusing future data gathering efforts on key groups in key areas of the ocean. This is a gridded data product about diazotrophic organisms . There are 6 variables. Each variable is gridded on a dimension of 360 (longitude) * 180 (latitude) * 33 (depth) * 12 (month). The first group of 3 variables are: (1) number of biomass observations, (2) biomass, and (3) special nifH-gene-based biomass. The second group of 3 variables is same as the first group except that it only grids non-zero data. We have constructed a database on diazotrophic organisms in the global pelagic upper ocean by compiling more than 11,000 direct field measurements including 3 sub-databases: (1) nitrogen fixation rates, (2) cyanobacterial diazotroph abundances from cell counts and (3) cyanobacterial diazotroph abundances from qPCR assays targeting nifH genes. Biomass conversion factors are estimated based on cell sizes to convert abundance data to diazotrophic biomass. Data are assigned to 3 groups including Trichodesmium, unicellular diazotrophic cyanobacteria (group A, B and C when applicable) and heterocystous cyanobacteria (Richelia and Calothrix). Total nitrogen fixation rates and diazotrophic biomass are calculated by summing the values from all the groups. Some of nitrogen fixation rates are whole seawater measurements and are used as total nitrogen fixation rates. Both volumetric and depth-integrated values were reported. Depth-integrated values are also calculated for those vertical profiles with values at 3 or more depths.

Real-time surface current data in the Ibiza Channel from January to October 2016

The data set consists of maps of total velocity of surface currents in the Ibiza Channel, derived from HF radar measurements.