AndreaBozzo/ceres-open-data-index huggingface dataset:
Long-term benthic ecology sampling, inner Frobisher Bay, 2016

Benthic grab samples and underwater towed video samples were collected at long-term ecology sites while onboard the Government of Nunavut vessel MV Nulialjuk and CCGS Amundsen in July and October 2016. On-board the MV Nulialjuk, benthic grab samples (triplicate samples) and underwater towed video samples were collected at 5 long-term ecology stations near Iqaluit. An additional 7 benthic grab samples (triplicate samples) and towed video samples were collected near Cairn Island. On-board the CCGS Amundsen, benthic grab samples were collected at two long-term ecology stations (triplicate samples) near Cairn Island. Sampling gear included a Van Veen grab sampler, box core, and HD GoPro video system.  Initial observations suggest that these stations are predominantly muddy sand with some larger cobbles present.  Towed video analysis and benthic grab samples indicate the presence of the algae Laminaria sp.  and Agarum clathratum and bivalves Mya truncata, Yoldia hyperborea, Clinocardium ciliatum, and Serripes groenlandicus.  Ophiuroid echinoderms and tubiculous polychaete worms and tubes are abundant. Once all benthic grab samples and towed video samples are processed, this data will be compared with the historic sample data to answer questions about the nature of long-term change of the benthos at this region in inner Frobisher Bay.

Organization: Amundsen Science
SX90 sonar data in Cumberland Sound: 2011

The data set is composed of raw files recorded with the Kongsberg Maritime SX90 long-range, low frequency (20-30 kHz) fisheries sonar during the CCGS Amundsen 2011 summer expedition in Cumberland Sound. The sonar was operated during a 24 hours dedicated survey on July 25th and 26th. The sonar transducer was lowered 2.5 feet below the hull through a gate-valve. The cylindrical 256-elements transducer allows both a horizontal and a vertical sound transmission, and the omni-directional sonar beam can be tilted from +10 to -60 degrees to scan a large portion of the water column. The raw acoustic data were saved onto an external drive and print screens of interesting targets (fish schools and/or marine mammals) were recorded.

Organization: Amundsen Science
Biodiversity and Gene Expression of Microbial Communities in the Canadian Arctic

As part of the ArcticNet expeditions (http://www.arcticnet.ulaval.ca) on the CCGS Amundsen in 2008-2019, we collected water samples from stations throughout the Canadian Arctic. Cruise tracks varied from year to year, but always included a transect of northern Baffin Bay, and sometimes sampling in Lancaster Sound, the Beaufort Sea, and/or along the east coast of Baffin Island. The sampling period ranged from summer to autumn. Samples were collected by CTD-rosette from 2-8 depths corresponding to water column features such as surface water, the subsurface chlorophyll maximum, the nitracline, or Atlantic Water. To collect samples for DNA/RNA, water was filtered through 3-µm filters and 0.2 µm cartridges, which were conserved in a buffer at -80°C. These have been used for high-throughput sequencing for amplicon-based surveys, metagenomics, and other molecular techniques. Samples for flow cytometry (to enumerate bacterial and/or pigmented cells), microscopy (with a fluorescent DAPI stain, or using FNU preservative for identifying larger cells), fluorescent in-situ hybridization (another microscopy technique), chlorophyll a (to quantify photosynthetic organisms), and HPLC pigment analysis (to identify different algae taxa), were also collected. Samples from which nucleic acids have been extracted and sequenced in many projects. Samples from which nucleic acids have been extracted and sequenced can be found in the GenBank Short Read Archive under the project accession numbers PRJNA202104, PRJNA283142, PRJNA283296, PRJNA383398, and SRX037894-SRX037896

Organization: Amundsen Science
Amundsen Science List of Stations – Event Log

This dataset contains list of stations visited by the Canadian Coast Guard Ship Amundsen in the Canadian Arctic during each scientific Annual Expeditions. Years included in this record are 2005, 2006, 2007, 2008, 2009, 2010, 2011, 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2020,  2021, 2022, 2023. During the year 2007, the Expedition spans for two consecutive years; the data from 2007 and 2008 are then compressed into one archive file. The station names, their coordinates, and the instruments deployed at specific depths are indicated. Physical variables related to atmospheric conditions such as Wind Directions (degree), Air Temperature (degree Celsius), Atmospheric Pressure (hPa), Humidity (%) are presented in the datasets as well as the Sea Water Salinity . The types of activity carried out at each station are presented. Particular comments (notes) noticed during each event are available as an extra column in the data. The time is available in both formats: Local Time and UTC.

Organization: Amundsen Science
ArcticNet 0603d - Labrador Sea and fjords CTD data

The CTD data was obtained during leg #0603 of the 2006 ArcticNet scientific cruise. The data were collected from October 28 to November 4, 2006, aboard the CCGS Amundsen. There were 22 casts, associated to 21 oceanographic stations, in the Labrador Sea and its fjords along the Canadian coast. The following parameters were measured: temperature, conductivity and pressure (with a Sea-Bird SBE-9plus), dissolved oxygen (Sea-Bird SBE-43), pH (Sea-Bird SBE-18-I), fluorescence (Seapoint chlorophyll fluorometer), nitrate concentration (Satlantic MBARI-ISUS 5T), transmittance (Wetlabs C-Star transmissiometer), light intensity (PAR; Biospherical Instruments QCP2300) and surface light intensity (sPAR; Biospherical Instruments QCP2200). Quality control procedures were applied to the data. Data are available on the Polar Data Catalogue and at the Marine Environmental Data Service (MEDS) of Fisheries and Oceans Canada.

Organization: Amundsen Science
Mesozooplankton abundance, distribution and composition in the Canadian Arctic Archipelago: ArcticNet 2005-2018

Two samplers fitted with 200 µm to 500 µm mesh nets were used for zooplankton collection on the 2005 to 2011 and 2013 to 2018 ArcticNet's oceanographic missions onboard the NGCC Amundsen. One was a metallic structure with 4 nets of  1 m2 mouth aperture each (2x2 multiple net sampler) for water column integrated sampling. For the years 2013 to 2018, one of the nets was replaced by a LOKI (Lightframe On-sight Keyspecies Investigation) imaging system. The other sampler was a 0.5 m2 mouth aperture multinet Hydrobios for stratified sampling into nine layers (selected stations only). Samplers were hauled vertically from 10 m above the sea bottom to the surface. Filtered volume was estimated by flowmeters mounted at the mouth of each net. The Hydrobios has an integrated flowmeter providing filtered volumes for each of its nine nets. Samples were preserved in a 10% buffered formalin seawater solution. Zooplankton samples were sieved through 1000 µm and 200 µm sieves for analysis. The two size fractions were separately resuspended in water and for each of them, all the organisms in a known aliquot containing approximately 300 copepods were counted and identified to the lowest possible taxonomical level, as well as developmental stages in the case of copepods. The dataset is formatted as a station-by-species matrix with each row corresponding to a specific station and date, each column to a species, and each cell containing the integrated abundance (ind. m⁻²).

Organization: Amundsen Science
CFL 0708 - Amundsen Gulf CTD data

The CTD data was obtained during the 2007-2008 scientific cruise #0708 within the framework of the Circumpolar Flaw Lead Study (CFL). This program included a year round sampling expedition to study the air-sea interactions occurring in the ice-free sections of the southern Beaufort Sea and Amundsen Gulf.

The data were collected from December 22, 2007, to January 30, 2008, aboard the CCGS Amundsen. There were 158 CTD casts, associated to 10 ice-drift stations, located in the Amundsen Gulf area.

The following parameters were measured: temperature, conductivity and pressure (with a Sea-Bird SBE-9plus), dissolved oxygen (Sea-Bird SBE-43), pH (Sea-Bird SBE-18-I), fluorescence (Seapoint chlorophyll fluorometer), nitrate concentration (Satlantic MBARI-ISUS 5T), transmittance (Wetlabs C-Star transmissometer), light intensity (PAR; Biospherical Instruments QCP2300) and surface light intensity (sPAR; Biospherical Instruments QCP2200). Quality control procedures were applied to the data. Data are available on the Polar Data Catalogue and at the Marine Environmental Data Service (MEDS) of Fisheries and Oceans Canada.

Organization: Amundsen Science
Bioness-CTD data collected by the CCGS Amundsen in the Canadian Arctic

The Canadian research icebreaker CCGS Amundsen is equipped with BIONESS (Bedford Institute of Oceanography Net and Environmental Sampling System). It is a multiple-net sampler for zooplancton and micronekton (pelagic animals 1-10 cm in length). It uses a design with nets arranged horizontally rather than vertically.  An integrated CTD unit is also integrated to the system and allows recording of the sampled water characteristics. This dataset is composed of CTD profiles and specific data for the volume of water going through the nets during their operation. The BIONESS was deployed during the 2005, 2006, 2013, 2014 and 2016 Amundsen scientific expeditions in summer and fall. The Bioness-CTD data were corrected and controlled by comparing them to CTD-Rosette data when available. Outliers and suspicious measurements were removed from the dataset. Variables are provided for every decibar (dbar) between the maximum and minimum pressure recorded for each cast. Research programs participating in the Amundsen expeditions between 2005 and 2016 include ArcticNet, IOL and BP, BREA, Weston, Netcare, JAMSTEC, iBO and GreenEdge. In-situ data belong to and are under the responsibility of the leading Nets scientists while physical and chemical data from the sensors are part of the Amundsen core data collection.

Organization: Amundsen Science
Cloud base height in Baffin Bay and the NW Passage: 2013

Processed atmospheric ceiling heights were recorded from a CT25K ceilometer. The instrument was mounted on the CCGS Amundsen icebreaker on the port side directly behind the ship's wheelhouse. Data were collected during transit, set transects, 24-hour stations, and multi-day drift stations. The instrument was running continuously during the IPY-CFL project, with only minor interruptions for maintenance activities.

Organization: Amundsen Science
SX90 sonar data in the Beaufort Sea: 2011

The data set is composed of raw files recorded with the Kongsberg Maritime SX90 long-range, low frequency (20-30 kHz) fisheries sonar during the CCGS Amundsen 2011 summer expedition in the Beaufort Sea. The sonar was operated during 4 dedicated surveys (109 hours) and during 258 hours of opportunistic survey, from 27 August to 3 October. The sonar transducer was lowered 2.5 feet below the hull through a gate-valve. The cylindrical 256-elements transducer allows both a horizontal and a vertical sound transmission, and the omni-directional sonar beam can be tilted from +10 to -60 degrees to scan a large portion of the water column. The raw acoustic data were saved onto an external drive and print screens of interesting targets (fish schools and/or marine mammals) were recorded.

Organization: Amundsen Science
Mesozooplankton vertical distribution data in the Cape Bathurst polynya complex, southern Beaufort Sea

Zooplankton were collected with a multi sampler Hydrobios® equipped with nine nets of 200 µm mesh size each that was deployed either from the moonpool of the CCGS icebreaker Amundsen or from its front deck. Overall 140 profiles were made, mostly in Amundsen Gulf but also along Banks Island's west coast up to McClure Strait and in Darnley and Franklin Bays. The Hydrobios has a flowmeter providing filtered volumes directly for each net. Samples were preserved in a 4% buffered formalin solution in seawater. Zooplankton samples were sieved through 200 µm and 1000 µm sieves. The two size fractions were resuspended in water and all the organisms in a known aliquot containing approximately 300 animals were counted and identified to the lowest possible taxonomical level, and developmental stages for copepods. The data set will list the taxa at the sampling stations, their individual counts, volume sampled and depth, thus permitting the determination of species and developmental stages integrated abundances (ind.m-2) or abundances per unit volume (ind.m-3), providing a unique time series of zooplankton seasonal dynamics in the circumpolar flaw lead system.

Organization: Amundsen Science
Ship-Based Eddy Covariance Data, 2010 ArcticNet, Northwest Passage (Oct)

During the ArcticNet annual cruises of the research icebreaker CCGS Amundsen, characteristics of the near-surface atmosphere are monitored in conjunction with surface sea water properties to observe the relationship between the surface micro-climate and the air-sea exchange , with particular interest in CO2.  Central to this integrated dataset is an eddy covariance system used to monitor fluxes of CO2, H2O, heat and momentum.  The system continuously sampled the following variables at a rate of 10 Hz (instrument used to collect each variable is in parentheses, and approximate instrument height above surface is indicated):

-3D wind velocity (Gill WindMaster Pro ultra-sonic anemometer) - 15m
-Sonic air temperature (Gill WindMaster Pro ultra-sonic anemometer) - 15m
-CO2 molar concentration (LI7500 open path gas analyzer) - 15m
-H2O molar concentration (LI7500 open path gas analyzer) - 15m
-CO2 mixing ratio (LI7000 integrated into a closed path system) - 15m
-H2O mixing ratio (LI7000 integrated into a closed path system) - 15m
-3D ship motion - angular rates and accelerations (MotionPak, Systron Donner) - 13m

All instruments were mounted on a meteorological tower on the bow of the research icebreaker CCGS Amundsen.

Organization: Amundsen Science
ArcticNet 1003b - Northwest Passage CTD Data

The CTD data was obtained during the 2010 ArcticNet scientific cruise #1003b.

The data were collected from October 8 to 17, 2010, aboard the CCGS Amundsen. There were 27 casts associated to 18 stations, located in the Northwest Passage.

The following parameters were measured: temperature, conductivity and pressure (with a Sea-Bird SBE-9plus), dissolved oxygen (Sea-Bird SBE-43), fluorescence (Seapoint chlorophyll fluorometer), CDOM (Wetlabs FL(RT)D), nitrate concentration (Satlantic MBARI-ISUS 5T), transmittance (Wetlabs C-Star transmissometer), light intensity (PAR; Biospherical Instruments QCP2300) and surface light intensity (sPAR; Biospherical Instruments QCP2200).

Quality control procedures were applied to the data. Data are available on the Polar Data Catalogue and at the Marine Environmental Data Service (MEDS) of Fisheries and Oceans Canada.

Organization: Amundsen Science
ArcticNet/IOL - Industry Marine Observatories (moorings) in the Beaufort Sea (2009-2011)

From 2009 to 2011, eight moorings equipped with state-of-the-art instruments were maintained in the industry exploration acreages EL446, EL449 and EL451 to collect year-round records of currents, temperature, salinity, turbidity, nutrients, dissolved oxygen, ice thickness and the vertical flux of carbon and contaminants. The moorings were deployed over the Mackenzie Shelf and Slope in depths ranging from 80m to 1000m and were equipped with Ice Profiling Sonar (IPS5), Acoustic Doppler Current Profiler (QM ADCP), Doppler Value Sampling (DVS), RBR conductivity and temperature logger, sand speed IPS instruments, sediment traps (Technicap) and acoustic release transponder (model 8242XS). The available quality controlled data include water temperature, conductivity (salinity), density, PAR, Chla, turbidity, oxygen and current velocity (speed and direction). This study was supported through a research collaboration between the Amundsen program, ArcticNet, BP Exploration Operating Company Limited, ExxonMobil and Imperial Oil.

Organization: Amundsen Science
HPLC Pigment Analysis of the Phytoplankton Community in Franklin Bay

Sample collection: The sampling was part of the Canadian Arctic Shelf Exchange Study (CASES) in which CCGS Amundsen was frozen in Franklin Bay in the coastal Beaufort Sea (Station FB/200) during winter. Upper mixed-layer microbial plankton communities were sampled 5m below the water surface using the ship CTD rosette system equipped with 12L Niskins during openwater conditions. During the time that the ship was frozen in Franklin Bay from December 2003 to early June 2004, samples were taken using a 5L Niskin bottle from 3m below the bottom ice through a 300mm hole that had been drilled 500m upstream of the ship. HPLC pigment analysis: One to two liter samples of water were filtered onto Whatman GF/F filters and stored frozen at -80C until analysis. Phytoplankton pigments on the GF/Fs were extracted in 3mL of 95 percent MeOH and 100 uL of the extracts was injected into a Varian ProStar HPLC equipped with a Symmetry C8 column. The HPLC peaks were detected by diode-array spectroscopy (350-750nm) and absorbance chromatograms were obtained at 440 (for chls) and 450nm (for carotenoids). Chlorophylls were also detected by fluorescence (excitation: 440nm; emission: 650nm). The HPLC solvent protocol was based on gradient dilution with two solvent mixtures (Zapata et al. 2000): a methanol, acetonitrile, and aqueous pyridine (50:25:25 v:v:v) solution; and a methanol, acetonitrile, and acetone (20:60:20 v:v:v) solution. The flow rate was 1mL/ min, and the equilibration time was 7min.

Organization: Amundsen Science
Impact of climate change on the Arctic benthos in the southeastern Beaufort Sea

Samples were collected at 5 sites ranging in water depth from 100 to 595 m at least once in each season (ice-covered and open-water condition) between March and August 2008 onboard the icebreaker CCGS Amundsen. At each sampling station, an USNEL box corer was deployed for collecting seafloor sediments. From each box core, 5 sub-cores of 11 cm diameter and 20 cm sediment depth were taken for assessing benthic carbon remineralisation in microcosm incubations and 3 additional subcores of 5 cm diameter and 10 cm length were taken for determining sediment properties.

Incubations of sediment microcosms were run in a dark, temperature-controlled room (2-4 °C) for 24-48 h. Each sediment microcosm was sieved through a 0.5 mm mesh under running sea water at the end of incubations to determine biomass of macrofaunal communities. The sieve residue was preserved in a buffered 4% seawater-formaldehyde solution and analysed for species composition and abundance under a stereomicroscope in the lab.

Organization: Amundsen Science
Biodiversity and Gene Expression of Microbial Communities in Hudson Bay

As part of the BaySys project (https://umanitoba.ca/faculties/environment/departments/ceos/research/BaySys.html) to understand the role of freshwater in Hudson Bay, water samples were collected in 2017 and 2018, including oceanic vertical profiles collected by CTD-rosette from 4 depths (surface, subsurface chlorophyll maximum, 70 m and bottom water), surface river water collected by zodiac, and surface water from the ice edge and below ice collected with a pump. In total, 156 water samples were collected in 2017 and 162 samples in 2018, covering most of the western Hudson Bay and the entrance to Hudson Strait. To collect samples for DNA/RNA, water was filtered through 3-µm filters and 0.2 µm cartridges, which were conserved in a buffer at -80°C. These samples may be used for molecular techniques such as 16S/18S amplicons sequencing and shotgun metagenomic to identify the organisms present, gaining further insight into the structure of plankton communities and the potential genetic adaptations to salinity gradients. Other samples were collected at the same stations and depths for flow cytometry (to enumerate bacterial and/or pigmented cells), epifluorescence microscopy with DAPI stain, and fluorescent in-situ hybridization (another microscopy technique). All these samples were transported back to the lab for further analysis.

Organization: Amundsen Science
Webcam pictures of the Amundsen Gulf

The webcam was installed on the navigation deck of CCGS Amundsen on the port side (see http://www.amundsen.ulaval.ca/index.php?url=11511&sub=1). Its field of view nearly match with that of microwave radiometer. Thus, both of the instruments look at the same area on the ground. The webcam is set to acquire JPEG images every 5 seconds or it can be set according to the requirement by the user. A sodium lamp has be lighted on the port side to get the pictures during the night time.

Organization: Amundsen Science
Atmospheric Profiling Radiometer, 2007-2008

Raw data are collected using a Radiometrics TP/WVP3000A Profiling Radiometer.  The instrument is located directly behind the wheelhouse of the Amundsen icebreaker and has a clear view of the sky.  The upward-looking radome passively monitors microwave radiation in the 22-29 GHz range and in the 51-59 GHz range.  The unit is also equipped to measure cloud height, surface temperature, relative humidity, and atmospheric pressure.  Output products include vertical profiles of temperature, water vapour, relative humidity, and an estimate of total column integrated liquid water content.

Organization: Amundsen Science
CASES 0404-Beaufort Sea CTD data

The CTD data was obtained during LEG 07 of the 2004 CASES scientific cruise #0404. This Leg was carried out from May 12th 2004 to June 24th 2004 aboard the CCGS Amundsen. There were 131 CTD casts in Leg 7. All of these casts, associated to 45 oceanographic stations, are located in the Beaufort sea research area. The following parameters were measured: temperature, conductivity and pressure (with a Sea-Bird 911 probe), oxygen (Sea-Bird 43), pH (Seabird 18), fluorescence (Seapoint fluorometer), nitrates (Satlantic MBARI ISUS), transmittance (Wetlabs C-Star transmissometer), PAR/Irradiance and SPAR/Irradiance (Biospherical Instruments QC2300). Data were quality controlled.  Data are available on the Polar Data Catalogue and at the Marine Environmental Data Service (MEDS) of Fisheries and Ocean Canada.

Organization: Amundsen Science
ArcticNet - CFL - Arctic SOLAS 0706c - Beaufort Sea CTD data

The CTD data was obtained during the 2007-2008 ArcticNet scientific cruise #0706. The data were collected from October 15 to November 6, 2007, aboard the CCGS Amundsen. There were 108 casts, associated to 78 oceanographic stations, in the Beaufort Sea. 

The following parameters were measured: temperature, conductivity and pressure (with a Sea-Bird SBE-9plus), dissolved oxygen (Sea-Bird SBE-43), pH (Sea-Bird SBE-18-I), fluorescence (Seapoint chlorophyll fluorometer), nitrate concentration (Satlantic MBARI-ISUS 5T), transmittance (Wetlabs C-Star transmissometer), light intensity (PAR; Biospherical Instruments QCP2300) and surface light intensity (sPAR; Biospherical Instruments QCP2200). Quality control procedures were applied to the data. Data are available on the Polar Data Catalogue and at the Marine Environmental Data Service (MEDS) of Fisheries and Oceans Canada.

Organization: Amundsen Science
All-sky camera imagery - ArcticNet Cruise 2010 - Hudson Bay

The all-sky camera system consists of a Nikkon D-90 camera, with a wide-angle fisheye lens, a homemade enclosure with clear acrylic dome end-cap, and a small heater on a thermostat.  The system is mounted on a small 'crows nest' above the wheelhouse on the CCGS Amundsen.  Maintenance checks were performed daily.

Organization: Amundsen Science