cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.1594/pangaea.870486
title: Global monthly mean chlorophyll a surface concentrations from August 2002 to April 2012 for diatoms, coccolithophores and cyanobacteria from PhytoDOAS algorithm version 3.3 applied to SCIAMACHY data, link to NetCDF files in ZIP archive

description: This phytoplankton group (PFT) concentration a (Chl a) data are output from the algorithm PhytoDOAS version 3.3 applied to SCIAMACHY data from 2 Aug 2002 to 8 Apr 2012. Data have been gridded monthly on 0.5° latitude to 0.5°. For cyanobacteria (includes all prokaryotic phytoplankton) and diatoms the PhytoDOAS PFT retrieval algorithm by Bracher et al. (2009) and for coccolithophores the algorithm by Sadeghi et al. (2012) have been used. However, these methods have slightly been improved which includes:- Data during SCIAMACHY instrument decontamination are excluded in the analysis.- SCIAMACHY level-1b input data for PhytoDOAS are now version 7.04 data (instead of version 6.0).- The wavelength window for all three phytoplankton groups (PFTs) fit factor starts at 427.5 nm (instead of 429 nm).- Coccolithophores fit factors are retrieved in a retrieval fitting simultaneously diatoms and coccolithophores (instead of a triple fit with also fitting dinoflagellates as in Sadeghi et al. 2012).- Vibrational Raman Scattering (VRS) is now fitted directly in the blue spectrum (450 to 495 nm), following Dinter et al. (2015), (instead of in the UV—A region as in Vountas et al. 2007) except that here the daily solar background spectrum measured by SCIAMACHY and the VRS pseudo absorption spectrum calculated based on a SCIAMACHY solar spectrum following Vountas et al. (2007) was used in order to correct for the variation of instrumental effects over time (this is not achieved when using the RTM simulated background spectrum as done in Dinter et al. 2015).- The PFT Chl a are derived from the ratio of the PFT fit factor to the VRS fit factor multiplied by a LUT (Look Up Table). The LUT is based on radiative transfer model (RTM) SCIATRAN simulations (see Rozanov et al. 2014) accounting also for changing solar zenith angle (SZA).
description: Sensor/satellite name:- SCIAMACHY (Scanning Imaging Absorption Spectrometer for Atmospheric CHartographY) on ENVISAT--Variable names for variables provided: - DIA - Diatoms- COC - Coccolithophores- CYA - Cyanobacteria--Variable Units- [mg Chl a/m**3] for DIA_YYYYDD.grd- [mg Chl a/m**3] for COC_YYYYDD.grd- [mg Chl a/m**3] for CYA_YYYYDD.grd
DOI: 10.1594/pangaea.892012
title: Diatom counts in sediment core from western Lake Superior near Duluth, Minnesota, USA

description: Additional data on relative abundance and cells accumulation rates of diatoms can be found under "Further details".
DOI: 10.1594/pangaea.873198
title: Phytoplankton pigments measured on underway and water bottle samples during POSEIDON cruise POS320
DOI: 10.1594/pangaea.873200
title: Phytoplankton pigments measured from underway and water bottle samples during POSEIDON cruise POS348
DOI: 10.1594/pangaea.875873
title: Global chlorophyll a surface concentrations for diatoms, coccolithophores and cyanobacteria as the synergistic SynSenPFT product combined PhytoDOAS and OC-PFT for the period of time August 2002 - April 2012, links to NetCDF files

description: The SynSenPFT product is presented as chlorophyll "a" concentrations (Chla) for diatoms, coccolithophores and cyanobacteria (some of the phytoplankton functional types, PFT) obtained globally over the World Ocean on a 4 km sinusoidal grid on a daily basis over the period of August 2002 - March 2012. The SynSenPFT is a synergistic combination of the PFT products of initial-input OC-PFT (Hirata et al., 2011, Soppa et al., 2014) applied to total chlorophyll "a" (TChla) data of Ocean Colour Climate Change Initiative (OC-CCI, Version 2, ESA) and PhytoDOAS (Bracher et al., 2009, Sadeghi et al., 2012) version 3.3 available at doi:10.1594/PANGAEA.870486 with an optimal interpolation (OI). The OI method is applied to OC-PFT and PhytoDOAS Chla products of diatoms, cyanobacteria (called prokarytoes by the OC-PFT method) and haptophytes (for OC-PFT) and coccolithophores (for PhytoDOAS). Note that OC-PFT retrieves haptophytes while PhytoDOAS retrieves coccolithophores, a (often dominating) sub-group of haptophytes. Algorithmically, the SynSenPFT is an update of OC-PFT Chla with PhytoDOAS Chla values weighted in accordance to our degree of belief to both initial-input data products. Within the current version of SynSenPFT algorithm the update is done for every sub-pixel of OC-PFT within a PhytoDOAS pixel. Thus, SynSenPFT in every OC-PFT sub-pixel on average is nudged towards PhytoDOAS values as close as allowed by the prescribed PhytoDOAS and OC-PFT error statistics.
description: File names: syn_glb_level3_ YYYYMMDD.nc (organized in a similar to OC-CCI way given the 4 km sinusoidal grid) Variables:- diatom_concentration [mg Chl a/m**3]- coccolithophores_concentration [mg Chl a/m**3]- cyanobacteria_concentration [mg Chl a/m**3]
DOI: 10.1594/pangaea.873203
title: Phytoplankton pigments measured from underway and water bottle samples during Marion Dufresne cruise MD158 (OOMPH MD07 leg 1)
DOI: 10.1594/pangaea.873208
title: Phytoplankton pigments measured from underway and water bottle samples during Marion Dufresne cruise MD160 (OOMPH MD07 leg 2)
DOI: 10.1594/pangaea.874825
title: Total organic carbon of sediment core EMB046_10-4GC in Western Skagerrak
DOI: 10.1594/pangaea.874826
title: Total organic carbon of sediment core EMB046_20-3GC in Central Skagerrak
DOI: 10.1594/pangaea.874838
title: Total organic carbon of sediment core EMB046_6-5GC in the Norwegian margin
DOI: 10.1594/pangaea.874846
title: Diatom frustules of sediment core EMB046_10-4GC in Western Skagerrak
DOI: 10.1594/pangaea.874847
title: Diatom frustules of sediment core EMB046_20-3GC in Central Skagerrak
DOI: 10.1594/pangaea.874848
title: Diatom frustules of sediment core EMB046_6-5GC in the Norwegian margin
DOI: 10.1594/pangaea.874850
title: Foraminifer of sediment core EMB046_10-4GC in Western Skagerrak
DOI: 10.1594/pangaea.874851
title: Foraminifer of sediment core EMB046_20-3GC in Central Skagerrak
DOI: 10.1594/pangaea.874852
title: Foraminifer of sediment core EMB046_6-5GC in the Norwegian margin
DOI: 10.1594/pangaea.894150
title: Bottom water temperature estimates from sediment core EMB046_20-3GC in the Skagerrak
DOI: 10.1594/pangaea.894153
title: Varimax-rotated factor analysis scores of benthic foraminifera in sediment core EMB046_20-3GC in the Skagerrak
DOI: 10.1594/pangaea.894156
title: Foraminifera of sediment core EMB046_20-3GC in the Skagerrak
DOI: 10.1594/pangaea.894157
title: Total Organic Carbon of sediment core EMB046_20-3GC in the Skagerrak
DOI: 10.1594/pangaea.894165
title: Bottom water temperature estimates from sediment core EMB046_10-4GC in the Skagerrak
DOI: 10.1594/pangaea.894166
title: Varimax-rotated factor analysis scores of benthic foraminifera in sediment core EMB046_10-4GC in the Skagerrak
DOI: 10.1594/pangaea.894172
title: Foraminifera of sediment core EMB046_10-4GC in the Skagerrak
DOI: 10.1594/pangaea.892500
title: Stable oxygen isotopes and winter bottom water temperature data from Gullmar Fjord, Skagerrak (North Sea)

description: We present 2500 years of reconstructed bottom-water temperatures (BWT) in annual to subdecadal resolution by using a fjord sediment archive from the NE Atlantic region. The BWT represent winter conditions due to the fjord hydrography and associated timing and frequency of bottom-water renewals. The study is based on a ca. 8-m long sediment core from Gullmar Fjord (Sweden), dated by 210Pb and AMS 14C and analysed for stable oxygen isotopes (δ18O) measured on shallow infaunal benthic foraminiferal species Cassidulina laevigata. The BWT, calculated by using the palaeotemperature equation of McCorkle et al (1997), range between 2.7 - 7.8°C and are within the annual temperature variability, instrumentally recorded in the deep fjord basin since the 1890s. The record demonstrates a warming during the Roman Warm Period (~350 BCE - 450 CE), variable BWT during the Dark Ages (~450 - 850 CE), positive BWT anomalies during the Viking Age/Medieval Climate Anomaly (~850 - 1350 CE) and a long-term cooling with distinct multidecadal variability during the Little Ice Age (~1350 - 1850 CE). The fjord BWT record also picks up the contemporary warming of the 20th century (presented here until 1996), which does not stand out in the 2500-year perspective and is of the same magnitude as the Roman Warm Period and the Medieval Climate Anomaly.
description: Supplement to: Polovodova Asteman, Irina; Filipsson, Helena L; Nordberg, Kjell (2018): Tracing winter temperatures over the last two millennia using a north-east Atlantic coastal record. Climate of the Past, 14(7), 1097-1118
DOI: 10.1594/pangaea.894173
title: Total Organic Carbon of sediment core EMB046_10-4GC in the Skagerrak
DOI: 10.1594/pangaea.894373
title: Temperature and salinity from CTD cast EMB046_17-CTD in the Skagerrak
DOI: 10.1594/pangaea.894374
title: Temperature and salinity from CTD cast EMB046_20-CTD in the Skagerrak
DOI: 10.1594/pangaea.908171
title: Bait Trials at Ria Formosa Lagoon

description: Bait trials for use in BRUV methods were conducted around Ria Formosa Lagoon, South Portugal.
DOI: 10.1594/pangaea.908176
title: Bait Trials at Swansea Bay

description: Bait trials for use in BRUV methods were conducted around Swansea Bay, South Walesl.
DOI: 10.1594/pangaea.906180
title: Clear Liquid Optical Lens Species Identification

description: Here we describe and test the addition of a clear liquid optical chamber (CLOC) to a BRUV system to improve underwater visibility when observing motile fauna in turbid waters. The CLOC method was trialled with respect to the ability of the system to identify taxa to species level in both controlled laboratory and field conditions across gradients of underwater visibility.
description: Supplement to: Jones, Robyn E; Griffin, Ross A; Rees, Sam C; Unsworth, Richard (2019): Improving visual biodiversity assessments of motile fauna in turbid aquatic environments. Limnology and Oceanography-Methods, 17, 544-554
DOI: 10.1594/pangaea.936700
title: Table 1-1: Calibrated XRF data and derived measurements from Site 1264 combined with some Site 1265 data

description: Calibrated XRF data and derived measurements combined from Site 1264, with some data from Site 1265.All data from 1264 is presented using this studies revised composite depth scale (rmcd; D21), the adjusted revised composite depth scale (armcd; D21) and astronomically tuned (Age Ma D21).The Site 1264 ln(Ca/Fe) data between ~205-315.96 rmcd was previously published by Liebrand et al., 2016.The %CaCO3 originally derived from the ln(Ca/Fe) in the original publication has been recalculated here after the Liebrand et al., 2016 ln(Ca/Fe) data was calibrated to the 2018 measurement campaign for consistency.The Site 1265 %CaCO3 data comes from Liebrand et al., 2016/2018.
DOI: 10.1594/pangaea.933689
title: Biomarkers and their hydrogen isotopic composition of dissolved organic matter in Lena River, 2010-2014

description: Contents of long-chain n-alkanes (n-C17 to n-C33) in soil samples as well as particles settled from a large-volume water sample collected in the Lena Delta. The data set also contains stable hydrogen isotopic composition (δD) of odd-chain n-alkanes n-C23 to n-C31 expressed in permille relative to VSMOW.
DOI: 10.1594/pangaea.933694
title: Biomarkers and their hydrogen iIsotopic composition of suspended particulate matter in Lena River, 2002-2011

description: Concentrations of long-chain n-alkanes (n-C17 to n-C33) in suspended particulate matter samples collected on glass-fibre filters in the Lena Delta. The data set also contains stable hydrogen isotopic composition (δD) of odd-chain n-alkanes n-C23 to n-C31 expressed in permille relative to VSMOW.
DOI: 10.1594/pangaea.946968
title: Known mapped areas of seagrass (Zostera marina & Zostera noltii) meadows around the United Kingdom – 1998 to 2021

description: Since 1998, approximately 148,134,806 m2 (14,813.5 Ha) of seagrass habitat has been mapped across the United Kingdom coastline. This was calculated from a total of 1,872 polygons from 67 datasets of mapped seagrass meadows using various methodologies of surveying (diving, aerial photography, hydrographic surveys, walking surveys, drone mapping, in situ assessments) and various resolutions. This data was collated from a wide range of databases outlined in the paper by Green et al. (2021; doi:10.3389/fpls.2021.629962). The datasets were subsequently projected into QGIS, merged, and dissolved into one layer as one single shapefile. The resulting dataset is a composite shapefile depicting mapped seagrass distribution across the United Kingdom, saved as a QGIS polygon shapefile, using the Assigned Coordinate Reference System (CRS) EPSG:4326 – WGS 84.
description: The shapefile contains a composite, collated seagrass polygon layer from multiple datasets and methodologies of surveying seagrass distribution, from the United Kingdom since 1998. The file can be projected into (Q)GIS using the Assigned Coordinate Reference System (CRS) EPSG:4326 - WGS 84. All four files need to be downloaded and saved for the shapefile to open correctly within your (Q)GIS.Projection: Latitude, Longitude (Extent: 49.916495539, -7.398963225 : 60.235218890, 1.238957057)Date: EPSG:4326 – WGS 84This project has been funded with the support of the Kickstart Scheme (https://www.gov.uk/government/collections/kickstart-scheme, award number 55YT-ZLKE) and the CGI x Project Seagrass partnership (https://www.cgi.com/uk/en-gb/news/climate/cgi-announces-strategic-partnership-project-seagrass-reduce-co2, award number CGI-PS21)
DOI: 10.1594/pangaea.940352
title: Mean spectral diffuse attenuation coefficients averaged for 320 nm to 338.5 nm (UVAB), 356.5 nm to 390 nm (UVA) and 390 nm to 423 nm (blue) in the Atlantic Ocean from Sentinel-5P instrument TROPOMI

description: This data set contains the mean diffuse attenuation coefficient of the downwelling plane irradiance over the first optical depth and over three different wavelength regions: 312.5 - 338 nm (Kd-UVAB), 356.5 - 390 nm (Kd-UVA), and 390 - 423 nm (KD-blue) as retrieved from the Sentinel-5P TROPOMI sensor from 11 May to 9 June 2018 in the Atlantic Ocean. The retrieval for the products is based on Differential Optical Absorption Spectroscopy (DOAS) extended to the ocean domain (PhytoDOAS). The spectral integrated Kd are derived from the Vibrational Raman Scattering (VRS) signal of the ocean which is retrieved by DOAS fits in three different fit windows. Kd-UVAB corresponds to DOAS VRS fits in the wavelength regions of 349.5 - 382 nm, Kd-UVA to 405 - 450 nm, and Kd-blue to 450 - 493 nm. VRS fit factors in the blue fit window (450 - 493 nm) were offset-corrected (an offset of 0.186 was added to the VRS fit factor of all processed S5P ground pixels). Derived Kd-blue are otherwise unrealistically high. The offset was determined with the help of Kd data at 490 nm from the Ocean and Land Color Instrument (OLCI) onboard Sentinel-3A. Fit results from the DOAS retrieval are converted into physical quantities using look-up-tables which were established with coupled atmosphere-ocean radiative transfer modeling using the software SCIATRAN version 4.0.8 (Rozanov et al. 2017, https://www.iup.uni-bremen.de/sciatran/). Only TROPOMI data with a cloud fraction smaller 0.01 were processed by the algorithm. Output data within the Atlantic Ocean (55°N-55°S, 70°W-10°E) were gridded daily into 0.083° latitudinal/longitudinal bins. Details on the algorithm can be found in the related publication by Oelker et al. (2022).
description: These are daily xyz files with latitude, longitude and Kd value in m-1; for each wavelength range there is one fiel; all files of one wavelength range are zipped together.
DOI: 10.1594/pangaea.959037
title: CT raw data (DICOM format) of sediment core GeoB22336-4 from northern Baffin Bay, Maria S. Merian cruise MSM66

description: Archive halves of core GeoB22336-4 were scanned using a Philips computer tomography (CT) Brilliance iCT Elite 256 at the hospital Klinikum Bremen-Mitte, Bremen, Germany, with an X-ray source voltage of 120 kV and a current of 300 mA at a resolution of 0.293 mm in the x and y directions and 0.625 mm resolution in the z-direction (0.3 mm reconstruction interval). Images were reconstructed using the filtered Back Projection (fBP) mode and a bone kernel (YB (Enhanced)).
DOI: 10.1594/pangaea.964695
title: Macroplankton and micronekton length/size frequencies from the Norwegian Sea 2019-2020

description: We provide here a curated set of data containing representative length/size measurements of key macroplankton and mesopelagic fish collected by a Macroplankton trawl (~6 m x 6 m mouth opening, non-graded mesh with 3 mm light-opening) from cruises in the Norwegian Sea during the International Ecosystem Survey in the Nordic Seas (IESNS) in May to June 2019 and 2020. The collected material is obtained from standardized V-shaped hauls down to a maximum depth of about 1000 m, although some shallower V-hauls are included either to look at the vertically migrating mesopelagic organisms that enter the epipelagic domain during nighttime hours, or because of depth restrictions due to shallow bottom topography.
DOI: 10.25345/c51j97k27
title: MassIVE MSV000094088 - Microbial environmental feedbacks and the evolution of soil organic matter
title: More than two thirds of organic carbon stored in terrestrial ecosystems is contained in soil organic matter (SOM). The residence time of SOM is strongly dictated by the physical and biological properties of soil, including the formation of soil aggregates and the binding of OM to the surface of soil minerals. Both mechanisms protect otherwise available C from microbial (fungal, bacterial and archaeal) catabolism. However, our emerging conceptual understanding of SOM stabilization highlights the role anabolic metabolisms play in the formation of SOM from microbial necromass and metabolic byproducts, and the propensity of certain functional groups to bind to the surface of minerals. Notably, microbially derived SOM containing phosphoric or nitrogenous (e.g., aliphatic or amine) functional groups, showed preferential binding to mineral surfaces, and hence, enhanced stabilization of OM compounds in soils. Stabilizing the C cycle remains a social imperative. Bridging this critical knowledge gap is dependent on our elucidating the traits, mechanisms and drivers dictating the production of diverse biochemical compounds and the factors determining the residence time of these compounds under perturbation. This dataset aims to improve mechanistic understanding of the pathways and processes leading to the production of microbial SOM, which currently limits our capability to predict how these complex ecosystems will respond to pulse or press disturbances anticipated under a changing climate. The work (proposal:https://doi.org/10.46936/10.25585/60001233) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.
DOI: 10.25345/c5ws8hx58
title: MassIVE MSV000094089 - Determination of metabolic changes occurring in engineered low-lignin poplar
title: Hybrid poplar (Populus alba × grandidentata; p39) wild type (WT) and QsuB transgenic low-lignin lines were previously described (Unda et al., 2022). WT and lines QsuB1, QsuB5, and QsuB15 were grown in a greenhouse as described in Lin et al., 2022. Samples for metabolomic analyses were collected after a growth period of six months. Stems were cut 5 cm above the root collar and segments of 5 cm were collected above the 1st (bottom), 20th (middle), and 40th (top) internodes. The bark was peeled and developing xylem tissue was collected by scraping the surface of the debarked segments using a razor blade. This approach generated developing xylem samples from the mature (bottom segment), intermediate (middle segment), and immature (top segment) parts of the stem. All the samples were immediately placed in liquid nitrogen, and stored at −80 °C until time of use. Frozen samples were pulverized with a ball mill (Retsch) using stainless steel jars and grinding balls. Four biological replicates from each transgenic poplar line and WT control were used for metabolomic analyses. The data showed that some changes in metabolite abundance occur only in a specific tissue such as the xylem, phloem, or periderm. In the poplar line that exhibits the strongest reduction of lignin, we found that ~19% of the detected metabolite ions had different abundances in the xylem from mature stems. Changes affect predominantly the shikimate and phenylpropanoid pathways, secondary cell wall metabolism, and result in significant accumulation of hydroxybenzoates that derive from protocatechuate and salicylate. Unda et al., 2022: https://doi.org/10.1111/nph.18136 Lin et al., 2022: https://doi.org/10.1186/s13068-022-02245-4. The work (proposal:https://doi.org/10.46936/10.25585/60000514) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.
DOI: 10.25345/c5s17t40c
title: MassIVE MSV000094090 - Microbial regulation of soil water repellency to control soil degradation
title: Soil water repellency (SWR) (i.e. soil hydrophobicity or decreased soil wettability) is a major cause of global soil degradation and a key agricultural concern. This metabolomics data will support the larger effort measuring soil water repellency and soil aggregate formation caused by microbial community composition through a combination of the standard drop penetration test, transmission electron microscopy characterization and physico-chemical analyses of soil aggregates at 6 timepoints. Model soils created from clay/sand mixtures as described in Kallenbach et al. (2016, Nature Communications) with sterile, ground pine litter as a carbon/nitrogen source were inoculated with 15 different microbial communities known to have significantly different compositions based on 16S rRNA sequencing. This data will allow assessment of the direct influence of microbial community composition on soil water repellency and soil aggregate stability, which are main causes of soil degradation. The work (proposal:https://doi.org/10.46936/10.25585/60001346) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.