[Target site benthic survey reef bioerosion - 2014] - Sea urchin bio-erosion of Clathromorphum nereostratum skeleton at central and western Aleutian Islands, Alaska from visual surveys, July 2014 (Ocean Acidification:  Century Scale Impacts to Ecosystem Structure and Function of Aleutian Kelp Forests)

Summary:
Characterization of the degree to which sea urchins have excavated (bio-eroded) the calcium carbonate skeleton of Clathromorphum nereostratum, a long-lived reef-building coralline alga that forms the structural base of the kelp forest. Estimates were derived from field measurements, photoquadrat surveys, and collections, all performed via SCUBA.

cdm_data_type = Other
VARIABLES:
island (unitless)
site_name (unitless)
latitude (degrees_north)
longitude (degrees_east)
depth_feet (Depth, feet)
habitat_type (unitless)
time (seconds since 1970-01-01T00:00:00Z)
replicate (unitless)
Clathromorphum_cover (percent)
grazed_score (unitless)
quality_rank (unitless)
grazed_cover_median (percent)
max_depth_grazed_mm (millimeters)
pit_volume_cm3 (centimeters^3)


[Target site benthic survey urchin density - 2014] - Sea urchin density at each site studied with respect to Clathromorphum bioerosion, at central and western Aleutian Islands, Alaska from visual surveys, July 2014 (Ocean Acidification:  Century Scale Impacts to Ecosystem Structure and Function of Aleutian Kelp Forests)

Summary:
Sea urchin density with respect to Clathromorphum bioerosion at central and western Aleutian Islands, Alaska from visual surveys, July 2014. Estimates were derived from visual surveys, performed via SCUBA.

cdm_data_type = Other
VARIABLES:
island (unitless)
site_name (unitless)
latitude (degrees_north)
longitude (degrees_east)
time (seconds since 1970-01-01T00:00:00Z)
habitat_type (unitless)
depth_feet (Depth, feet)
replicate (unitless)
urchin_density (count per 0.25 m^2)


[Target site benthic survey urchin size biomass - 2014] - Sea urchin size and biomass with respect to Clathromorphum bioerosion at central and western Aleutian Islands, Alaska from visual surveys, July 2014 (Ocean Acidification:  Century Scale Impacts to Ecosystem Structure and Function of Aleutian Kelp Forests)

Summary:
Sea urchin size and biomass with respect to Clathromorphum bioerosion at central and western Aleutian Islands, Alaska from visual surveys, July 2014. Estimates were derived from visual surveys, performed via SCUBA.

cdm_data_type = Other
VARIABLES:
island (unitless)
site_name (unitless)
latitude (degrees_north)
longitude (degrees_east)
depth_feet (Depth, feet)
habitat_type (unitless)
time (seconds since 1970-01-01T00:00:00Z)
quadrat_count (quadrats)
urchin_diameter_mm (millimeters)
urchin_frequency (urchins)
size_biomass_convert (grams)
sum_biomass_class (grams)
urchin_biomass_grams (grams)


[Target site benthic survey vegetation - 2014] - Kelp forest community structure studied with respect to Clathromorphum bioerosion at central and western Aleutian Islands, Alaska from visual surveys, July 2014 (Ocean Acidification:  Century Scale Impacts to Ecosystem Structure and Function of Aleutian Kelp Forests)

Summary:
Kelp forest community structure studied with respect to Clathromorphum bioerosion at central and western Aleutian Islands, Alaska from visual surveys, July 2014. Estimates were derived from visual surveys, performed via SCUBA.

cdm_data_type = Other
VARIABLES:
island (unitless)
site_name (unitless)
latitude (degrees_north)
longitude (degrees_east)
depth_feet (Depth, feet)
habitat_type (unitless)
time (seconds since 1970-01-01T00:00:00Z)
observer (unitless)
replicate (unitless)
Eualaria_fistulosa_density (count per 0.25 m^2)
Laminaria_spp_density (count per 0.25 m^2)
Laminaria_yezoensis_density (count per 0.25 m^2)
Laminaria_longipes_density (count per 0.25 m^2)
Agarum_clathratum_density (count per 0.25 m^2)
Thalassiophyllum_clathrus_density (count per 0.25 m^2)
Cymathaere_triplicata_density (count per 0.25 m^2)
filamentous_red_algae_cover_score (percent cover per 0.25 m^2)
suspension_feeder_cover_score (percent cover per 0.25 m^2)
Desmarestia_spp_cover_score (percent cover per 0.25 m^2)
Codium_spp_cover_score (percent cover per 0.25 m^2)
crustose_coralline_algae_cover_score (percent cover per 0.25 m^2)
erect_calcified_algae_cover_score (percent cover per 0.25 m^2)
shell_cover_score (percent cover per 0.25 m^2)
sand_cover_score (percent cover per 0.25 m^2)
rock_cover_score (percent cover per 0.25 m^2)


[Targeted metabolomics data from coral and sea anemone larvae exposed to normoxic or hypoxic conditions] - Targeted metabolomics data from coral and sea anemone larvae exposed to normoxic or hypoxic conditions in lab and field experiments performed in USA and Bermuda during 2023-2024 (CAREER: Helping or hindering? Determining the influence of repetitive marine heatwaves on acclimatization of reef-building corals across biological scales)

Summary:
These data arose from larvae of the sea anemone Nematostella vectensis and corals Galaxea fascicularis and Porites astreoides exposed to normoxic (i.e., control) or hypoxic conditions. Larvae were sampled in groups of 20-30 and these samples were processed for targeted metabolomics at the University of Pennsylvania Metabolomics Core. The dataset contains the species from which metabolomics data originate, experimental treatment (normoxia or hypoxia), experiment metadata, and abundance of each metabolite in each sample.

cdm_data_type = Other
VARIABLES:
Species (units)
Treatment (units)
Cohort (units)
Group (units)
Life_stage (units)
Hours_post_treatment (hours)
ADP (nmol mg protein-1)
AMP (nmol mg protein-1)
ATP (nmol mg protein-1)
cAMP (nmol mg protein-1)
CMP (nmol mg protein-1)
CTP (nmol mg protein-1)
GDP (nmol mg protein-1)
GMP (nmol mg protein-1)
GTP (nmol mg protein-1)
ITP (nmol mg protein-1)
NAD (nmol mg protein-1)
NADP (nmol mg protein-1)
NAM (nmol mg protein-1)
NMN (nmol mg protein-1)
TTP (nmol mg protein-1)
UMP (nmol mg protein-1)
... (67 more variables)


[Temp & DO effects on sponges: mesocosm experimental data] - Sponge mesocosm data testing effects of temperature and dissolved oxygen on sponge filtration from experiments conducted (RAPID: Consequences of Rapid Environmental Change on Pelagic-to-Benthic Coupling by Sponges on the Continental USAs only Barrier Reef Ecosystem)

Summary:
This dataset contains the data from the mesocosm experiments described in the following study description.  See the "Related Datasets" section for more datasets from this study.

Study description:

Climate change is quickly altering marine environments by increasing sea surface temperatures and decreasing dissolved oxygen (DO) levels. Although these effects have been well-studied on the declining corals, the impact of temperature and dissolved oxygen extremes on the functional roles of sponges remains primarily unexamined. This study, conducted in the Lower Florida Keys, FL (USA) had two objectives: (1) compare sponge abundance and size distributions on hardbottom before and after the summer 2023 heatwave, and (2) investigate the filtration capacity of eight common sponge species from the Florida Keys with different morphologies (tubular vs. spherical) and microbial associations (HMA vs LMA) in mesocosms that simulated elevated temperature and hypoxic conditions for ~45 minutes. Field surveys by divers at the same 24 sites in May 2023 and June 2024 revealed that the abundance and size of spheroid sponges (e.g., Speciospongia vesparium, Hippospongia lachne) declined after the heatwave, but no noticeable effects were detected among the other species surveyed. The mesocosm experiments revealed tubular and LMA sponges consistently exhibited higher filtration efficiency of high nucleic acid (HNA) bacteria than spherical and HMA sponges under most treatment conditions. Elevated temperatures (2.5 to 5°C above ambient) significantly reduced HNA bacteria filtration capacity in spherical and HMA sponges (-43.6% ± 5.1 to -21.5% ± 4.4), whereas LMA tubular sponges were unfazed (-52.3% ± 11.6% to -62.6% ± 8.8%). The findings imply that future reef communities may shift toward more sponge dominance, particularly by heat and hypoxia-resistant, fast-growing LMA species, potentially altering ecosystem functions like water quality regulation, nutrient cycling, and habitat structure.

cdm_data_type = Other
VARIABLES:
Date (unitless)
Day (days)
Table (unitless)
Tank (unitless)
... (49 more variables)


[Temperature and light perturbations] - Incomplete assimilatory nitrate reduction by LLI Prochlorococcus in response to light and temperature stress (Features and implications of nitrogen assimilation trait variability in populations of Prochlorococcus)

Summary:
These data include Prochlorococcus cell density, nitrate (NO3-) and nitrite (NO2-) concentration, and fluorometry data for experiments that examined nitrite production by LLI Prochlorococcus following a pulse of nitrate under stress conditions. The conditions evaluated included light shock, and temperature shock.

cdm_data_type = Other
VARIABLES:
Experiment (unitless)
ExpSampleID (unitless)
Strain (unitless)
Rep (unitless)
ExpCondition (unitless)
N_source (unitless)
Light_Intensity (micromoles photones per square meter per second (umol photons m-2 s-1))
Light_Color (unitless)
Temperature (Degrees Celsius (°C))
Culture_ID (unitless)
ExpTime (minutes)
ISOTime (unitless)
Nitrite_Concentration (micromoles nitrite per liter (umol nitrite L-1))
Nitrite_Concentration_Notes (unitless)
Cell_Concentration_FCM (cells per milliliter (cells mL-1))
FRRF_filename (unitless)
FCM_filename (unitless)
FCM_Beads_Filename (unitless)
FCM_blank_filename (unitless)


[Temperature Data From Tomales Bay and Bodega Harbor] - Temperature data recorded using HOBO Pendant MX2201 loggers deployed at 14 sites in Tomales Bay and Bodega Harbor during August 2019 (Using genomics to link traits to ecosystem function in the eelgrass Zostera marina)

Summary:
To record water temperature, we deployed HOBO Pendant MX2201 loggers (fastened to PVC pipe) in the area from the 14 sites in Tomales and Bodega Harbors from which we collected genetic samples. The pipe was driven into the sediment until the logger was approximately <15 centimeters (cm) above the sediment surface, positioned to rarely be emersed except during low spring tides. We recorded water temperature at 15-minute intervals during a two-week period at all sites from 16 August to 29 August in 2019.

cdm_data_type = Other
VARIABLES:
site (unitless)
Latitude (degrees_north)
longitude (degrees_east)
ISO_DateTime_PDT (unitless)
time (Iso_datetime_utc, seconds since 1970-01-01T00:00:00Z)
temp (degrees Celsius)


[Temperature Data] - Temperature data collected in the bottoms of intertidal rock tide pools at Bodega Marine Reserve intertidal zone, between October 2017 and August 2019 (Collaborative Research: Context-dependency of top-down vs. bottom-up effects of herbivores on marine primary producers)

Summary:
Temperature data collected in the bottoms of intertidal rock tide pools at Bodega Marine Reserve intertidal zone, between October 2017 and August 2019.

cdm_data_type = Other
VARIABLES:
time (Datetimeutc, seconds since 1970-01-01T00:00:00Z)
Site (unitless)
Pool (unitless)
Latitude (degrees_north)
longitude (degrees_east)
TempC (degrees Celsius (°C))
TidBitID (unitless)
Block (unitless)
TrtGroup (unitless)
HerbivoreTreat (unitless)
TempTreat (unitless)
NutrientTreat (unitless)


[Temperature effects on bryozoan growth and reproduction] - Differential effects of temperature on multiple components of fitness in a modular animal (Bugula neritina) reveal how temperature affects reproductive capacity (Consequences of kin structure in benthic marine systems)

Summary:
Thermal performance curves (TPCs) are important tools for predicting the sensitivity of populations to climate change. The goal of this study was to assess and compare the relationships between temperature and different life-history components in a modular animal to reveal the mechanisms underlying TPCs for fitness. We reared replicated clones of the marine bryozoan Bugula neritina across a thermal gradient (16 values) ranging from 23 to 32°C, which reflected the upper thermal range of seasonal variation in the field. TPCs were constructed for survival (measured as zooids states within a colony), growth rate, development to reproductive maturity and reproductive capacity, which were measured over much of the realized lifespan expected under field conditions (~30 days). The effect of temperature was more acute on zooid states rather than whole-colony survival, and increased temperature increased the frequency of polypide regression. Most colonies reached reproductive maturity up to ~30°C, but growth rate and reproduction decreased at temperatures beyond ~25°C. The decline in reproductive capacity over temperatures above ~25°C was then due to the decline in the production of zooids capable of brooding embryos and zooids transitioning to regressed states up until about 30°C and transitioning to dead state beyond that.

cdm_data_type = Other
VARIABLES:
colony (unitless)
genotype (unitless)
fragment (unitless)
tankID (unitless)
target_temp (degrees Celsius (°C))
realized_temp (degrees Celsius (°C))
incubator (unitless)
date (unitless)
colony_age_days (unitless)
days_since_cutting (unitless)
days_since_being_put_into_treatment (unitless)
zooids_starting (unitless)
ovicells_count (unitless)
zooids_feeding (unitless)
zooids_regressed (unitless)
zooids_dead (unitless)
zooids_total (unitless)


[Temperature from thermistor chain] - Temperature from a thermistor chain deployed along a 30m depth contour at Mission Beach, CA in June of 2016 (Quantifying plankton dynamics in the internal tide using swarms of buoyancy-controlled robots)

Summary:
Temperature from a thermistor chain deployed along a 30m depth contour at Mission Beach, CA in June of 2016.

cdm_data_type = Other
VARIABLES:
time (ISO Date Time UTC, seconds since 1970-01-01T00:00:00Z)
Surface_height (Sea Surface Height, meters (m))
T_surface (degrees Celsius)
T_27_25 (degrees Celsius)
T_26_25 (degrees Celsius)
T_25_25 (degrees Celsius)
T_24_25 (degrees Celsius)
T_23_25 (degrees Celsius)
T_22_25 (degrees Celsius)
T_21_25 (degrees Celsius)
T_20_25 (degrees Celsius)
T_19_25 (degrees Celsius)
T_18_25 (degrees Celsius)
T_17_25 (degrees Celsius)
T_16_25 (degrees Celsius)
T_15_25 (degrees Celsius)
T_14_25 (degrees Celsius)
T_13_25 (degrees Celsius)
T_12_25 (degrees Celsius)
T_11_25 (degrees Celsius)
T_10_25 (degrees Celsius)
T_9_25 (degrees Celsius)
T_8_25 (degrees Celsius)
T_7_25 (degrees Celsius)
T_6_25 (degrees Celsius)
T_5_25 (degrees Celsius)
... (4 more variables)


[Temperature Time Series] - In situ temperature measurements collected at the height of El Niño at Jarvis Island in 2015 and 2016 (Skeletal Records of Coral Reef Bleaching in the Central Equatorial Pacific)

Summary:
This dataset contains in situ temperature measurements collected at the height of El Ni\u00f1o on 12-15 November 2015 and after severe El Ni\u00f1o conditions had subsided on 16-24 May 2016 for the west and east sides of Jarvis Island at 7-10 m depth.

cdm_data_type = Other
VARIABLES:
datetime_UTC (unitless)
latitude (degrees_north)
longitude (degrees_east)
location_label (unitless)
temperature (degrees Celcius (°C))
time (ISO Date Time UTC, seconds since 1970-01-01T00:00:00Z)


[Temperature-dependence of juvenile Black sea bass growth and lipid accumulation - Experiment 2] - Temperature-dependence of juvenile Black sea bass growth and lipid accumulation determined through lab experiments conducted from September 2021 to February 2022 at UConn Avery Point (Collaborative research: Understanding the effects of acidification and hypoxia within and across generations in a coastal marine fish)

Summary:
The northern stock of Black sea bass (BSB, Centropristis striata) has greatly expanded over the past decade, potentially due to warming Northwest Atlantic shelf waters affecting overwintering especially in juveniles. To gather better empirical data we quantified winter growth and lipid accumulation in BSB juveniles from Long Island Sound using two complementing experiments. The data from Experiment 2 are presented here.

The data from Experiment 1 are presented in a related dataset (https://www.bco-dmo.org/dataset/897895). Experiment 2 measured the same traits as Experiment 1 but exposed juveniles to a simulated thermal overwinter profile (October - March) with seasonally varying food rations. Monthly individual length growth (GR) and weight-specific growth (SGR) responded in the direction of seasonal food level changes, showing reduced growth in December-February in a 'Winter dip' treatment, but compensatory growth in a 'Winter pulse' treatment. A 6-month consumption average of 1.7% feeding-1 ('Winter pulse') elicited a mean GR of 0.15 millimeters per day (mm d-1) and SGR of 0.55% d-1, whereas juveniles consuming on average 3.8% per feeding ('Winter dip') had significantly faster GR (0.20 mm d-1) and SGR (0.71% d-1). Growth efficiencies ranged between 15-30% and were inversely related to food consumption.

In both experiments, juveniles disproportionally accumulated lipid over lean mass, with lipid proportions tripling in Exp2 from 4% at 65 mm to 12% at 120 mm.

cdm_data_type = Other
VARIABLES:
Site (unitless)
longitude (degrees_east)
latitude (degrees_north)
Date_col (unitless)
Species (unitless)
Tank (unitless)
BSB_ID (unitless)
Group (unitless)
Treat (unitless)
... (34 more variables)


[Temporal Comparison of Mussel (Mytilus californianus) Shell Thickness] - Temporal comparison of mussel (Mytilus californianus) shell thickness determined from shells collected from six study sites along the west coast of North America from 2000 to 2019 (Coastal mosaics of local adaptation and the eco-evolutionary dynamics of a marine predator-prey interaction)

Summary:
Climate change, specifically ocean acidification, is impacting calcification of marine organisms. A reduction in pH has been shown to affect mussel growth and shell thickness along the Pacific coast of North America. Mussels, Mytilus californianus, are a foundation species in rocky shore ecosystems and are prey for a number of taxa, including the Channeled Dogwhelk, Nucella canaliculata, which feeds by drilling a hole through the shell of their prey. Previous research has documented geographic variation in N. canaliculata predator drilling phenotype on Mytilus californianus. However, few studies have assessed how variation in mussel shell traits shape the evolution of this co-evolving predator. Thus, we analyzed M. californianus shell thickness over two decades (2000-2001, 2008-2009, and 2019) and across ~1,000 kilometers of coastline to quantify the prey-driven selection landscape. We analyzed mussel shell thickness at 1/3 the length of the mussel shell as this is the most commonly drilled region. Mussel shells from the central Oregon coast were thicker than those from California. This pattern is associated with geographic variation in predator drilling phenotypes. However, the selective landscape appears to be changing, with recent mussel shells being thinner than a decade prior, particularly on the central Oregon coast. This research highlights the importance of studying species interactions across broad spatial and temporal scales.

cdm_data_type = Other
VARIABLES:
Site (unitless)
Site_Code (unitless)
State (unitless)
Latitude (degrees_north)
longitude (degrees_east)
Date_Collected (unitless)
Year_Collected (unitless)
Time_Period (unitless)
Quadrat_num (unitless)
Mussel_num (unitless)
Shell_Length (millimeters (mm))
Height (millimeters (mm))
... (11 more variables)


[Temporal genetic patterns in plankton] - Data from: Iacchei, M., E. Butcher, E. Portner, Goetze, E. (in press) It’s about time: Insights into temporal genetic patterns in oceanic zooplankton from biodiversity indices. (Basin-scale genetics of marine zooplankton)

Summary:
This dataset\u00a0consists of mitochondrial sequence data and specimen
information for two species of copepods, Haloptilus longicornis and
Pleuromamma xiphias, collected at an open ocean time series site in the North
Pacific Subtropical Gyre (station ALOHA, 22.45N, 158W) during 11 of the
routine Hawai'i Ocean Time-series (HOT) research cruises from September of
2012 to October of 2013 (HOT-246 to HOT-256).\u00a0Data for Haloptilus
longicornis include\u00a0a 546 base-pair fragment of mitochondrial cytochrome
c oxidase subunit II for each of 483 individuals (mean of 44 animals per
cruise). Data for Pleuromamma xiphias include\u00a0a 551 base-pair fragment of
mitochondrial cytochrome c oxidase subunit I for each of 510 individuals (mean
of 46 animals per cruise). Information is also provided on the HOT cruise
number, date, and specific tow from which each individual was collected. Life
stage and sex of each animal are also noted when identifiable

These data are associated with the forthcoming publication:
 Iacchei, M., E. Butcher, E. Portner, Goetze, E. (in press) It\u2019s about
time: Insights into temporal genetic patterns in oceanic zooplankton from
biodiversity indices.\u00a0 Limnology and Oceanography \u00a0

The unique haplotypes in these data are also available under NCBI accession
numbers KY560470 - KY560514 [Haloptilus longicornis], KY560515 -
KY560565\u00a0[Pleuromamma xiphias].

The following files have been included in this dataset (note that the sequence
IDs in these files differ from the NCBI sequence IDs):
 HOT-HALO.fasta: A fasta-formatted text file containing sequences for a
portion of the mitochondrial cytochrome c oxidase subunit II gene (COII; 546
bp) for 483 Haloptilus longicornis individuals collected at Station ALOHA.

HOT-PLXI.fasta: A fasta-formatted text file containing sequences for a portion
of the mitochondrial cytochrome c oxidase subunit I gene (COI; 551 bp) for 510
Pleuromamma xiphias individuals collected at Station ALOHA.

HALO.csv and PLXI.csv: Converted to csv from an Excel file consisting of one
worksheet for Haloptilus longicornis and one worksheet for Pleuromamma
xiphias. In each worksheet, column headings designate:
 sample_id: the sample ID number associated with the original organism
collected, DNA extraction, and PCR amplification.
 sequence_id: the sample ID number associated with sequences analysed for the
project.
 genus: Genus of the collected organism.
 species: Species of the collected organism.
 cruise: The cruise number for the Hawai'i Ocean Time Series (HOT) cruise on
which the specimen was collected.
 tow: The net tow number on which the specimen was collected.
 collection_date: The date on which the specimen was collected, formatted as
yyyy-mm-dd.
 stage_sex: The life stage (Copepodite or Adult) of the individual, and the
sex (Copepodite, Female, Male).
 stage: The life stage (Copepodite or Adult) of the individual. Column added
by BCO-DMO\u00a0from the original stage_sex column for ease of use.
 sex: The sex (Copepodite, Female, or Male) of the individual.\u00a0Column
added by BCO-DMO\u00a0from the original stage_sex column for ease of use.
 mtCO*_sequence: The mtDNA sequence (COII for Haloptilus longicornis; COI for
Pleuromamma xiphias) associated with that individual. This sequence matches
the sequence associated with the Sequence ID number in the respective fasta
file.

cdm_data_type = Other
VARIABLES:
file_link (unitless)
description (unitless)


[TEP and CSP HOT time series] - TEP and CSP particles collected from Station ALOHA for HOT time series during R/V Kilo Moana cruises from Jan 2020 to Sep 2022 (Collaborative Research: Transparent exopolymer and phytoplankton vertical migration as sources for preformed nitrate anomalies in the subtropical N. Pacific Ocean)

Summary:
These data include transparent exopolymer particle (TEP) and Coomassie stainable particle (CSP) concentrations within the upper 350 meters collected on 15 cruises to Station ALOHA over the period of January 2020 through September 2022. Particle concentrations are measured spectrophotometrically using Alcian blue (TEP) and Coomassie blue (CSP) dyes and reported in the semi-quantitative concentration units of xanthan gum equivalents µg / L (TEP) and bovine albumen equivalents µg / L (CSP). Also included are total dissolved carbohydrate concentrations in µM C / L units on a subset of 9 cruises. These analyses are a contribution to the project, "Collaborative Research: Transparent exopolymer and phytoplankton vertical migration as sources for preformed nitrate anomalies in the subtropical N. Pacific Ocean" funded by the Chemical and Biological Oceanography Programs at NSF.

cdm_data_type = Other
VARIABLES:
Cruise (unitless)
Date (unitless)
longitude (degrees_east)
latitude (degrees_north)
depth (m)
Transparent_Exopolymer_Particles (micrograms xanthan gum equivalents per liter (ug XG equiv./L))
Coomassie_Stainable_Particles (micrograms bovine albumen equivalents per liter (ug BA equiv./L))
Total_Dissolved_Carbohydrates (micromolar (uM C))


[TEP and CSP NPSG transect] - TEP and CSP particle concentrations from samples collected from Station ALOHA to 31ºN in the North Pacific in June 2021 on the R/V Kilo Moana cruise KM2108 (Collaborative Research: Transparent exopolymer and phytoplankton vertical migration as sources for preformed nitrate anomalies in the subtropical N. Pacific Ocean)

Summary:
These data include transparent exopolymer particle (TEP) and Coomassie stainable particle (CSP) concentrations within the upper 500 meters collected on a 12-day June 2021 cruise aboard the R/V Kilo Moana (KM2108) that visited Station ALOHA to 31 N nominally along 158 W in the subtropical North Pacific. Particle concentrations are measured spectrophotometrically using Alcian blue (TEP) and Coomassie blue (CSP) dyes and reported in the semi-quantitative concentration units of xanthan gum equivalents µg / L (TEP) and bovine albumen equivalents µg / L (CSP). Also included are total dissolved carbohydrate concentrations in µM C units, salinity, temperature, as well as oxygen, nitrate, silicate, phosphate, ammonium, dissolved organic phosphorus, dissolved organic nitrogen concentrations in µM units. These analyses are a contribution to the project, "Collaborative Research: Transparent exopolymer and phytoplankton vertical migration as sources for preformed nitrate anomalies in the subtropical N. Pacific Ocean" funded by the Chemical and Biological Oceanography Programs at NSF.

cdm_data_type = Other
VARIABLES:
Cruise (unitless)
Station (unitless)
Date (unitless)
longitude (degrees_east)
latitude (degrees_north)
Pressure (decibars (dbar))
depth (m)
Salinity (Practical Salinity Units (PSU))
Temperature (degrees Celsius)
Fluorescence (relative fluorescence units (RFU))
Oxygen (micromolar (uM))
Total_Dissolved_Phosphorus (micromolar (uM))
Phosphate (micromolar (uM))
Dissolved_Organic_Phosphorus (micromolar (uM))
Silicate (micromolar (uM))
Nitrate_plus_Nitrite (micromolar (uM))
... (6 more variables)


[Test Dataset] - Test dataset created for testing and troubleshooting purposes (BCO-DMO: Accelerating Scientific Discovery through Adaptive Data Management)

Summary:
Raw data and assembled scaffolds for the Atlantic silverside genome

Test text: Ipsum lorep test text

Another paragraph with stuff

Some italics here

cdm_data_type = Other
VARIABLES:
Sample (unitless)
time (Datetime, seconds since 1970-01-01T00:00:00Z)
Location (unitless)
depth (Depth_category, m)
Salinity (PSU)
In_Situ_Temperature (degrees Celsius)
DIC (micromoles per kilogram (umol/kg))
TA (micromoles per kilogram (umol/kg))
pH_Total (total scale)
pH_NBS (NBS scale)
pH_at_12pt5C (total scale)


[Texas fish eye lens stable isotopes] - Stable isotope ratios in eye lens tissues of individuals of three species of fish from the Matagorda Bay region of Texas in the northwestern Gulf of Mexico from 2021 to 2023 (Collaborative Research: Shifting the Hypoxia Paradigm – New Directions to Explore the Spread and Impacts of Ocean/Great Lakes Deoxygenation)

Summary:
This dataset describes the stable isotope ratios in eye lens tissues of individuals of three fish species (Red Drum Sciaenops ocellatus, Southern Flounder Paralichthys lethostigma, and Atlantic Croaker Micropogonias undulatus) in the Matagorda Bay region of Texas in the northwestern Gulf of Mexico.

cdm_data_type = Other
VARIABLES:
FishID (unitless)
Subsample (unitless)
Duplicate (unitless)
Species (unitless)
d13C (permil (‰))
d15N (permil (‰))
d34S (permil (‰))
latitude (Station_latitude, degrees_north)
longitude (Station_longitude, degrees_east)
Date_Collected (unitless)


[Texas fish muscle stable isotopes] - Stable isotope compositions (carbon, nitrogen, and sulfur) of muscle tissue in three species of fish from the Matagorda Bay region of Texas in the northwestern Gulf of Mexico from 2021 to 2023 (Collaborative Research: Shifting the Hypoxia Paradigm – New Directions to Explore the Spread and Impacts of Ocean/Great Lakes Deoxygenation)

Summary:
This dataset describes stable isotope compositions (carbon, nitrogen, and sulfur) of muscle tissue in three species of fish (Red Drum Sciaenops ocellatus, Southern Flounder Paralichthys lethostigma, and Atlantic Croaker Micropogonias undulatus) in the Matagorda Bay region of Texas in the northwestern Gulf of Mexico. Fish carcasses were obtained from anglers at boat docks, fish cleaning stations, or other locations in the region. Fish were also obtained from bait shops where the proprietors verified the fish were sourced from the Matagorda Bay study region. These fish will be dissected to subsample white muscle tissue from each fish (skin and scales removed). Muscle samples were then dried, pulverized, and analyzed for stable isotope compositions to assess potential shifts in dietary or habitat-specific residence patterns within and between species. This dataset is part of a larger project assessing fish dietary and habitat use patterns in response to environmental stressors including hypoxia and pollutant accumulation.

cdm_data_type = Other
VARIABLES:
FishID (unitless)
Duplicate (unitless)
Species_Code (unitless)
Species (unitless)
C13 (permil (‰))
N15 (permil (‰))
S34 (permil (‰))
latitude (Station_latitude, degrees_north)
longitude (Station_longitude, degrees_east)
Date_Collected (unitless)


[TGA for OAE North Atlantic experiments] - Thermogravimetric analysis (TGA) for precipitate from shipboard ocean alkalinity enhancement (OAE) experiments in the North Atlantic on R/V Atlantic Explorer cruise AE2320 in September 2023 (OCE-PRF:  Towards Quantifying Calcium Carbonate Sediment Dissolution During Marine Diagenesis)

Summary:
To explore mineral formation due to alkalinity addition, we present results from shipboard experiments in which an aqueous solution of NaOH was added to unfiltered seawater collected from the surface ocean in the Sargasso Sea. Alkalinity addition ranged from 500 to 2000 micromoles per kilogram (µmol.kg-1) and the carbonate chemistry was monitored through time by measuring total alkalinity (TA) and dissolved inorganic carbon (DIC), which were used to calculate Ω. The amount of precipitate and its mineralogy were determined throughout the experiments. Mineral precipitation took place in all experiments over a timescale of hours to days. The dominant mineralogy of precipitate is aragonite with trace amounts of calcite and brucite. Aragonite crystallite size increases and its micro-strain decreases with time, consistent with Ostwald ripening. This dataset contains TGA analysis for precipitate from an experiment where TA was enhanced by 2000 µmol.kg-1.

cdm_data_type = Other
VARIABLES:
time_elapsed (Time, minutes)
Temperature (degrees Celsius)
Weight_mg (milligrams (mg))
Weight_pcnt (percent)
first_derivative (unitless)
Heat_Flow (milliwatts (mW))
Temperature_Difference_C (degrees Celsius)
Temperature_Difference_uV (microvolts (uV))
Sample_Purge_Flow (milliliters per minute (mL/min))


[Th-234 activity] - Water column Th-234 activity determined using a 4-L technique from samples collected on R/V Melville cruise MV1008 in the Costa Rica Dome in 2010 (CRD FLUZiE project) (Costa Rica Dome FLUx and Zinc Experiments)

Summary:
Water column Thorium-234 and Uranium-238 measured on the MV1008 cruise in the Costa Rica Dome (CRD) region of the Eastern Tropical Pacific Ocean.

cdm_data_type = Other
VARIABLES:
event (integer)
cast (integer)
cycle (integer)
depth (m)
niskin (integer)
sample (unitless)
latitude (degrees_north)
longitude (degrees_east)
sal (practical salinity units (PSU))
density (kilograms per cubic meter (kg m-3))
U238_activity (decays per minute per liter (dpm L-1))
Th234_activity (decays per minute per liter (dpm L-1))
uncertainty (decays per minute per liter (dpm L-1))
time (ISO Date Time UTC, seconds since 1970-01-01T00:00:00Z)


[Thalassiosira pseudonana CCMP1335 endometabolite uptake by Ruegeria pomeroyi DSS-3] - Thalassiosira pseudonana CCMP1335 endometabolite uptake by Ruegeria pomeroyi DSS-3 (Effects of Climate Change Variables on Microbial Autotroph-Heterotroph Carbon Flux)

Summary:
The ocean's temperature increase has fundamental implications for physiological rates and processes of marine microbes. In this study, a marine diatom Thalassiosira pseudonana CCMP1335 was acclimated for three months at temperatures below (14°C), equal to (20°C), and above (28°C). Heterotrophic bacterium Ruegeria pomeroyi DSS-3 was inoculated into cultures, and transporter expression was compared between temperatures.  R. pomeroyi transporter expression leveraged as  a biosensor of available diatom exometabolites indicated temperature-related substitution of diatom osmolytes dimethylsulfoniopropionate (DMSP), dihydroxypropanesulfonate (DHPS), and homarine (dominating carbon transfer at lower temperatures) with glycine betaine and choline (dominating at higher temperatures). T. pseudonana endometabolome pools and biosynthetic pathway expression indicated increased availability of amino acids and glycerol-3-phosphate at higher temperatures. Overall trends across datasets supported a greater importance of organic sulfur compounds in diatom-bacterial metabolite transfer at lower temperatures and greater importance of organic nitrogen compounds at higher temperatures.

cdm_data_type = Other
VARIABLES:
Experiment (unitless)
Sample_ID (unitless)
Metabolomics_Workbench_Project_ID (unitless)
Metabolomics_Workbench_Study_ID (unitless)
Metabolomics_Workbench_Sample_ID (unitless)
Number (unitless)
Temperature (degrees Celsius (°C))
Replicate (unitless)
Culture (unitless)
JGI_Sample_ID (unitless)
Time_Point_h (hours (h))
Bacteria_presence (unitless)
Glycine_Betaine (NMR peak intensity per biovolume)
Proline (NMR peak intensity per biovolume)
DHPS (NMR peak intensity per biovolume)
... (13 more variables)


[Thalassiosira wessiflogii growth rate and TEP] - Results from growth rate experiment with the diatom Thalassiosira wessiflogii in semi-continuous culture; conducted at the Thornton lab, TAMU from 2007-2012 (Diatom EPS Production project) (Effect of Temperature on Extracellular Polymeric Substance Production (EPS) by Diatoms)

Summary:
Data from laboratory experiment on growth rate and transparent exopolymer particles (TEP) in the diatom Thalassiosira wessiflogii (CCMP 1051) in a semi-continuous culture (four replicate cultures).

cdm_data_type = Other
VARIABLES:
day (dimensionless)
dilution_rate (per day (day-1))
culture (dimensionless)
cell_abundance (cells per milliliter)
cell_vol_mean (cubic micrometers (um^3))
cell_vol_sd (cubic micrometers (um^3))
cell_vol_n (dimensionless)
chla (Concentration Of Chlorophyll In Sea Water, micrograms per liter (ug L-1))
chla_per_cell (Concentration Of Chlorophyll In Sea Water, picograms per cell (pg cell-1))
chla_per_cell_vol (Concentration Of Chlorophyll In Sea Water, femtograms per cubic micrometer (fg um-3))
tot_carb (micrograms per milliliter (ug mL-1))
tot_carb_per_cell (picograms per cell (pg cell-1))
tot_carb_per_cell_vol (femtograms per cubic micrometer (fg um-3))
TEP (TEP per milliliter (TEP mL-1))
TEP_mean_size (square micrometers (um^2))
TEP_sd (square micrometers (um^2))
TEP_n (dimensionless)
tot_TEP_area (square millimeters per milliliter (mm^2 mL-1))
TEP_prod_rate (square millimeters per milliliter per day  (mm^2 mL-1 day-1))
vol_conc (microliters per liter (uL L-1))
vol_conc_sd (microliters per liter (uL L-1))
vol_conc_n (dimensionless)
agg_vol_conc (microliters per liter (uL L-1))
agg_vol_conc_sd (microliters per liter (uL L-1))
agg_vol_conc_n (dimensionless)
... (5 more variables)


[Thaumarchaea transcriptomes] - Nitrosopelagicus brevis CN25 and U25 grown in nitrogen replete and deplete conditions, with subsequent transcriptome sequencing and identification. (Gene content, gene expression, and physiology in mesopelagic ammonia-oxidizing archaea)

Summary:
Nitrosopelagicus brevis CN25 and U25 were grown in nitrogen replete and deplete conditions, with subsequent transcriptome sequencing.

cdm_data_type = Other
VARIABLES:
Accession (unitless)
Sample_Name (unitless)
Organism (unitless)
Tax_ID (unitless)
Strain (unitless)


[The influence of reactive oxygen species on "‘respiration" isotope effect] - The influence of reactive oxygen species on "‘respiration" isotope effect (Clumped Oxygen Isotope Signature of Marine Dissolved Oxygen)

Summary:
The triple-oxygen isotope (17O/16O, 18O/16O) measurement of oxygen-bearing species represents one of the most robust tools to directly trace oxygen cycling in the environment. One particularly consequential application of this isotope system is the analysis of dissolved oxygen (O2) in aquatic environments to determine gross oxygen production. This approach assumes that photosynthesis, microbial respiration, and gas exchange are the main drivers of dissolved O2 isotope compositions, and that each process is described by predictable, consistent triple-oxygen isotope effects. However, there currently exists a large disagreement in the literature on the triple-oxygen isotope effect of respiration, which carries major implications for global primary productivity estimates. Recent work has additionally highlighted the ubiquitous production of extracellular reactive oxygen species (ROS) such as superoxide and hydrogen peroxide by microorganisms; this flux maybe responsible for as much as 20% of net oxygen utilization in the ocean.

To examine the influence of ROS-mediated O2 recycling on the oxygen utilization isotope effect, we measured the triple-oxygen isotope fractionations and mass laws of superoxide dismutase, catalase, and iron-mediated H2O2 degradation. We incorporate these constraints into an oxygen isotope flux model to explore the influence of ROS-mediated oxygen cycling on "respiration" isotope effects in previous studies. We find that ROS-mediated oxygen cycling can reconcile the previously reported range of triple-oxygen isotope fractionation factors and that typical marine isotope effects are broadly consistent with independent estimates of superoxide-mediated oxygen loss. These data are described further in the related publication, Sutherland et al., 2022 (doi: 10.1016/j.gca.2022.02.033).

cdm_data_type = Other
VARIABLES:
Sample (unitless)
n (unitless)
d18O_smowslap (permil)
D17O (permil)
d17O_smowslap_log (unitless)
d18O_smowslap_log (unitless)


[Thermal limits of Acartia tonsa and the effect of isopod parasitism] - Thermal limits of Acartia tonsa and the effect of isopod parasitism from Critical Thermal Maxima (CTmax) experiments conducted with copepods collected from Key Largo, Florida in February 2023 (Linking eco-evolutionary dynamics of thermal adaptation and grazing in copepods from highly seasonal environments)

Summary:
Acartia tonsa were collected from Key Largo, Florida in February 2023. A portion of the adult female copepods in this collection were parasitized by juvenile bopyrid isopods. We measured thermal limits (as Critical Thermal Maximum) for individuals with and without these parasites. Data were collected by Dr. Matthew Sasaki.

cdm_data_type = Other
VARIABLES:
experiment (unitless)
experiment_date (unitless)
experiment_day (unitless)
experiment_month (unitless)
experiment_year (unitless)
tube (unitless)
bopyrid (unitless)
ctmax (degrees Celsius)


[Thermal performance of corals in high and low nutrient enrichment - bulk physiology] - Bulk physiology data from corals in high and low nutrient enrichments in a fore reef habitat in Mo'orea, French Polynesia in 2019 (RUI: Collaborative Research: Defining the biogeochemical context and ecological impacts of submarine groundwater discharge on coral reefs)

Summary:
This dataset contains bulk physiology data collected from October to November of 2019 from the study described below. See the "Related Datasets" section or the project page for other data collected as part of this study.

Study description:

Global- and local-scale anthropogenic stressors have been the main drivers of coral reef decline, causing shifts in coral reef community composition and ecosystem functioning. Excess nutrient enrichment can make corals more vulnerable to ocean warming by suppressing calcification and reducing photosynthetic performance. However, in some environments, corals can exhibit higher growth rates and thermal performance in response to nutrient enrichment. In this study, we measured how chronic nutrient enrichment at low concentrations affected coral physiology, including endosymbiont and coral host response variables, and holobiont metabolic responses of Pocillopora spp. colonies in Mo'orea, French Polynesia. We experimentally enriched corals with dissolved inorganic nitrogen and phosphate for 15 months on an oligotrophic fore reef in Mo'orea. We first characterized symbiont and coral physiological traits due to enrichment and then used thermal performance curves to quantify the relationship between metabolic rates and temperature for experimentally enriched and control coral colonies. We found that endosymbiont densities and total tissue biomass were 54% and 22% higher in nutrient-enriched corals, respectively, relative to controls. Algal endosymbiont nitrogen content cell−1 was 44% lower in enriched corals relative to the control colonies. In addition, thermal performance metrics indicated that the maximal rate of performance for gross photosynthesis was 29% higher and the rate of oxygen evolution at a reference temperature (26.8 °C) for gross photosynthesis was 33% higher in enriched colonies compared to the control colonies. Together, our results show that in an oligotrophic fore reef environment, nutrient enrichment can cause changes in coral endosymbiont physiology that increase the performance of the coral holobiont.

cdm_data_type = Other
VARIABLES:
fragment_ID (unitless)
chlA_ugcm2 (micrograms per square centimeter (ug/cm2))
... (9 more variables)


[Thermal performance of corals in high and low nutrient enrichment - respirometry] - Respirometry data from corals in high and low nutrient enrichments in a fore reef habitat in Mo'orea, French Polynesia in 2019 (RUI: Collaborative Research: Defining the biogeochemical context and ecological impacts of submarine groundwater discharge on coral reefs)

Summary:
This dataset contains respirometry data collected from October to November of 2019 from the study described below. See the "Related Datasets" section or the project page for other data collected as part of this study.

Study description:

Global- and local-scale anthropogenic stressors have been the main drivers of coral reef decline, causing shifts in coral reef community composition and ecosystem functioning. Excess nutrient enrichment can make corals more vulnerable to ocean warming by suppressing calcification and reducing photosynthetic performance. However, in some environments, corals can exhibit higher growth rates and thermal performance in response to nutrient enrichment. In this study, we measured how chronic nutrient enrichment at low concentrations affected coral physiology, including endosymbiont and coral host response variables, and holobiont metabolic responses of Pocillopora spp. colonies in Mo'orea, French Polynesia. We experimentally enriched corals with dissolved inorganic nitrogen and phosphate for 15 months on an oligotrophic fore reef in Mo'orea starting in October of 2019. We first characterized symbiont and coral physiological traits due to enrichment and then used thermal performance curves to quantify the relationship between metabolic rates and temperature for experimentally enriched and control coral colonies. We found that endosymbiont densities and total tissue biomass were 54% and 22% higher in nutrient-enriched corals, respectively, relative to controls. Algal endosymbiont nitrogen content cell−1 was 44% lower in enriched corals relative to the control colonies. In addition, thermal performance metrics indicated that the maximal rate of performance for gross photosynthesis was 29% higher and the rate of oxygen evolution at a reference temperature (26.8 °C) for gross photosynthesis was 33% higher in enriched colonies compared to the control colonies. Together, our results show that in an oligotrophic fore reef environment, nutrient enrichment can cause changes in coral endosymbiont physiology that increase the performance of the coral holobiont.

cdm_data_type = Other
VARIABLES:
Fragment_ID (unitless)
Temperature_category (unitless)
... (4 more variables)


[Thermalgravimetric analysis] - Photodegradation of macroplastics in the marine environment: Thermalgravimetric analysis (EAGER: Collaborative Research: NSF2026:  Is Plastic Degradation Occurring in the Deep Ocean Water Column?)

Summary:
The photodegradation of macroplastics in the marine environment remains poorly understood. Here, we investigated the weathering of commercially available plastics (tabs 1.3 × 4.4 × 0.16 cm), including high-density polyethylene, low-density polyethylene, polypropylene, polystyrene, and polycarbonate, in seawater under laboratory-simulated ultraviolet A radiation for 3–9 months, equivalent to 25–75 years of natural sunlight exposure without considering other confounding factors. After the exposure, the physical integrity and thermal stability of the tabs remained relatively intact, suggesting that the bulk polymer chains were not severely altered despite strong irradiation, likely due to their low specific surface area. In contrast, the surface layer (∼1 μm) of the tabs was highly oxidized and eroded after 9 months of accelerated weathering. Several antioxidant additives were identified in the plastics through low temperature pyrolysis coupled with gas chromatography/mass spectrometry (Pyr-GC/MS) analysis. The Pyr-GC/MS results also revealed many new oxygen-containing compounds formed during photodegradation, and these compounds indicated the dominance of chain scission reactions during weathering. These findings highlight the strong resistance of industrial macroplastics to weathering, emphasizing the need for a broader range of plastics with varying properties and sizes to accurately estimate plastic degradation in the marine environment.

cdm_data_type = Other
VARIABLES:
Polymer_name (unitless)
Polymer_acronym (unitless)
Incubation_time (units)
Unit_of_incubation_time (unitless)
Replicate (unitless)
Onset_Temperature (decimal degrees (°C))
Max_Temperature (decimal degrees (°C))
Unit_of_Temperature (unitless)


[Thread mechanics] - Lab study on the effect of temperature and pCO2 on mussel byssal attachment (thread mechanics) with mussels collected in May 2012 from Argyle Creek, San Juan Island, WA (48.52˚ N, 123.01˚ W) (Effects of Ocean Acidification on Coastal Organisms: An Ecomaterials Perspective)

Summary:
These data were used in a structural analysis study to evaluate how pCO2 and an additional stressor, elevated temperature, influences byssal thread quality and production. Mussels (M. trossulus) were collected in May 2012 from Argyle Creek, San Juan Island, WA (48.52\u02da N, 123.01\u02da W) and held in a mesh box submerged under the dock at Friday Harbor Laboratories (FHL), San Juan Island, WA for up to 14 d. Mussels were placed in controlled temperature and pCO2 treatments in the Ocean Acidification Experimental Laboratory (OAEL), then newly produced threads were counted and pulled to failure to determine byssus strength.

cdm_data_type = Other
VARIABLES:
Mussel_ID (unitless)
Temp (Temperature, degrees Celcius (°C))
pH (Sea Water Ph Reported On Total Scale, unitless)
pCO2_Target (P CO2 Target, microatmosphere (uatm))
Treatment_ID (unitless)
Trial (unitless)
GI (unitless)
CI (gram per cubic millimeter (g/mm^3))
Distal_Diam (millimeter (mm))
Prox_Major (millimeter (mm))
Prox_Minor (millimeter (mm))
Yield (Newton (N))
Location (unitless)
Breaking_Ext (millimeter (mm))
Breaking_Force (Newton (N))
Plaque_Force (Newton (N))
Proximal_Force (Newton (N))
Distal_Force (Newton (N))
Breaking_Stress (Newton per square millimeter (N/mm^2))
Youngs_Mod (Newton per square millimeter (N/mm^2))
Thread_Stiffness (Newton per square millimeter (N/mm^2))
Thread_Ext (unitless)


[Thread number] - Lab study on the effect of temperature and pCO2 on mussel byssal attachment (thread number) with mussels collected in May 2012 from Argyle Creek, San Juan Island, WA (48.52˚ N, 123.01˚ W) (Effects of Ocean Acidification on Coastal Organisms: An Ecomaterials Perspective)

Summary:
These data were used in a structural analysis study to evaluate how pCO2 and an additional stressor, elevated temperature, influences byssal thread quality and production. Mussels (M. trossulus) were collected in May 2012 from Argyle Creek, San Juan Island, WA (48.52\u02da N, 123.01\u02da W) and held in a mesh box submerged under the dock at Friday Harbor Laboratories (FHL), San Juan Island, WA for up to 14 d. Mussels were placed in controlled temperature and pCO2 treatments in the Ocean Acidification Experimental Laboratory (OAEL), then newly produced threads were counted and pulled to failure to determine byssus strength.

cdm_data_type = Other
VARIABLES:
Mussel_ID (unitless)
Temp (Temperature, degrees Celcius (°C))
pH (Sea Water Ph Reported On Total Scale, unitless)
pCO2_Target (P CO2 Target, micro atmosphere (uatm))
pCO2_Measured (P CO2 Measured, micro atmosphere (uatm))
Treatment_ID (unitless)
Thread_Count (unitless)
Trial (unitless)


[Three-Prime Tag-Sequencing (3' Tag-Seq) Data for Pisaster ochraceus] - Bioproject accession information on tag-sequence data for Pisaster ochraceus samples collected from Bodega Bay, CA, in July 2019 (Collaborative Proposal: Selection and Genetic Succession in the Intertidal -- Population Genomics of Pisaster ochraceus During a Wasting Disease Outbreak and its Aftermath)

Summary:
Outbreaks of sea star wasting (SSW) have killed millions of sea stars across over 20 taxa in the last decade alone, threatening the health and stability of coastal communities around the world. While the causative agent remains unknown, it has recently been postulated that hypoxia exposure may play a dominant role in the onset of SSW. We leveraged a study that subjected ochre sea stars to organic matter amendment in a controlled laboratory setting to induce hypoxia and used a repeated sampling design to collect non-invasive tissue samples from both healthy and wasting individuals. Following tag-based RNAseq (TagSeq), we analyzed differential gene expression (DGE) patterns among and within these individuals sampled strategically throughout the 15-day experiment. Transcriptional profiles reveal a progressive change in gene expression accompanying the advancement of SSW, reflecting a transition from asymptomatic stars to the onset of characteristic SSW lesions that progressively worsen until, in some cases, the star dies of their symptoms. Included in this dataset is the accession information for 89 individual TagSeq samples across 20 individual Pisaster ochraceus sea stars at multiple time points during the study to make them available for subsequent re-evaluation. The sequence data have been deposited into the NCBI archive under BioProject PRJNA1116313 and will be publicly available on 2025-08-01.

cdm_data_type = Other
VARIABLES:
sample_name (unitless)
bioproject_accession (unitless)
bioproject_ncbi (unitless)
assay_type (unitless)
organism (unitless)
isolate_id (unitless)
isolation_source (unitless)
collection_date (unitless)
geo_loc_name (unitless)
latitude (degrees_north)
longitude (degrees_east)
tissue (unitless)
biomaterial_provider (unitless)
collected_by (unitless)
host_tissue_sampled (unitless)


[Tidal study of seawater microbial communities] - Flow cytometry and nutrient analyses data from a tidal study over 48 hours of mangrove, seagrass, and seawater from the US Virgin Islands in July of 2017 (Signature exometabolomes of Caribbean corals and influences on reef picoplankton)

Summary:
Data from a tidal study over 48 hours of mangrove, seagrass, and seawater from the US Virgin Islands in 2017.  These data include tidal height, depth, temperature, salinity, Prochlorococcus counts, Synechococcus counts, Picoeukaryote abundances, nutrient concentrations at accession numbers for sequences at The National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA).

cdm_data_type = Other
VARIABLES:
Sample_ID (unitless)
NCBI_BioProject_accession_number (NCBI Bio Project Accession Number, unitless)
NCBI_BioSample_accession_number (NCBI Bio Sample Accession Number, unitless)
Sample_type (unitless)
Sequencing_Strategy (unitless)
Sequencing_Instrument_model (unitless)
Sequencing_strategy (unitless)
Site_Name (unitless)
Biome (unitless)
latitude (degrees_north)
longitude (degrees_east)
Collection_Date (unitless)
Collection_Time (unitless)
time (ISO Date Time UTC, seconds since 1970-01-01T00:00:00Z)
Tide (unitless)
Tide_Height (Sea Surface Height, meters (m))
Time_elapsed_between_tide_timepoint_and_collection (Sea Surface Height, minutes)
depth (Collection Depth, m)
Site_Depth (meters (m))
Temperature (degrees Celsius (ºC))
Salinity (Sea Water Practical Salinity, Practical Salinity Units (PSU))
Prochlorococcus (cells per milliliter (cells/ml))
Synechococcus (cells per milliliter (cells/ml))
... (7 more variables)


[tidepool ammonium and mussels] - Ammonium in tidepools with and without mussels from Cape Flattery, WA from 2010-2011 (Regenerated Nitrogen project) (The Role of Regenerated Nitrogen for Rocky Shore Productivity)

Summary:
We evaluated the role of mussels by adding 15N-labeled NH4+ to an assemblage
of tidepools where they were either present at natural abundance levels, or
absent through manual removal. \u00a0The role of phototrophs was separately
examined by conducting these experiments both during the day and at night.
\u00a0The tidal height of pools varied between 1.2 to 1.5 m above Mean Lower
Low Water (MLLW). Tidepools were thus isolated from each other as well as the
nearshore environment during the low tide period when experiments were
conducted. Each experiment included 4 to 5 mussel removal (MR) tidepools
(since 2002) and 4 to 5 mussel control (MC) tidepools with natural mussel
densities. \u00a0In June 2010, we performed daytime NH4+ tracer experiments
and in August 2010 nighttime experiments using the same tidepools. The
following year (July 2011) these experiments were repeated with the addition
of bottle incubations (see below) to evaluate the effects of suspended
tidepool components and extended sampling for 6 days after the initial 15N
addition to test for long-term retention of NH4+. \u00a0During the 2011
experiments, unforeseen rain reduced the salinity in some pools by up to 51%,
and we have attempted to correct for the expected dilution of NH4+ in our
tidepool rate calculations.

Because isotope enrichment levels were relatively low, we used the
conventional delta notation instead of atom% to describe variations in 15N
enrichment (where delta-15NH4+ = {(15N:14N sample \u00f7 15N:14N standard)
-1}\u00d71000\u2030, where the standard is atmospheric N2. \u00a0Tracer
labeled ammonium chloride (15NH4Cl) was added to the pools to approximate a
1000\u2030 enrichment in 2010 (doubling the 15N-NH4+ concentration) and a
2000\u2030 enrichment in 2011(tripling the 15N-NH4+ concentration). 15N
natural abundance is only 0.365% and these tracer additions thus had a
negligible effect on the overall NH4+ concentrations increasing them by only
~0.4% and ~0.8%, respectively. Tidepool volumes were estimated
spectrophotometrically using varying concentrations of food dye (Pfister
1995). Together with estimates of NH4+ concentration (from 2009 data), we
estimated the tracer addition required to achieve the targeted 15N
enrichments. However, the actual initial enrichments varied substantially,
684.4 - 2406.4\u2030 in 2010 and 781.4 - 3880.2\u2030 in 2011, likely due to
error in tidepool volume estimation and natural variations in initial NH4+
concentrations. Fortunately, we sampled immediately following each tracer
addition allowing for the determination of the true initial 15N enrichment.
\u00a0

Prior to tracer addition at ebb tide, 100 mL of tidepool water was syringe-
filtered (Whatman GF/F) into separate HDPE bottles for natural abundance
15NH4+ and concentration determination. \u00a0To each pool, tracer 15NH4+ was
then added and distributed by stirring with a stick. Water samples were
immediately collected for measuring initial 15N enrichment and subsequently at
2, 4, and 6 hour intervals to determine isotope and concentration time
courses. All water samples were frozen until analysis. Tidepool oxygen, pH,
and temperature (Hach HQ4D) were also collected at ~ 2 h intervals throughout
the experiment.

In 2011 we also assessed the contribution of the suspended microbial community
to NH4+ cycling by enclosing tidepool water in a 250 mL transparent
polycarbonate incubation bottle. Following tracer addition, the bottle was
filled, then left to float in the tidepool for the duration of the experiment.
Samples from bottles were filtered as described both immediately after
containment and at the end of the experiment (~6 h later).

We assessed macroalgal contribution to NH4+ removal by transplanting two
tidepool-dwelling algae species. \u00a0Prionitis sternbergii were sampled 2
weeks prior to the experiment for baseline natural abundance 15N values and
transplanted into the pools with Z-Spar Epoxy (Pfister 2007). On the day of
the experiment, the red-alga, Corallina vancouveriensis from a single source
patch, was also sampled for 15N natural abundance, inserted into pieces of
Styrofoam, and floated in each pool.

At the end of each experiment (~6 h sampling point), we sampled tidepool
particulate organic material (POM) by filtering through combusted GF/F filters
until they clogged (~ 600 mL), comparing these samples with POM similarly
sampled from the immediate nearshore. \u00a0Floating Corallina spp. samples
were collected into clean Eppendorf tubes, and similar sized pieces of
Prionitis spp. were collected from each pool into clean foil packets.\u00a0
 We evaluated the extent of longer-term 15N tracer retention in 2011 by
sampling tidepool water, POM and transplanted Prionitis 1, 3, and 6 days
following tracer addition. We sampled at ebb tide and at again at slack water
just prior to high tide on the first day after tracer addition (that is, 24 h
later) and at slack water prior to high tide on Day 3 and 6.\u00a0

Relevant References:

2014\. Pather, S., C. A. Pfister, M. Altabet, D. M. Post. Ammonium cycling in
the rocky intertidal: remineralization, removal and retention. Limnology and
Oceanography
59:361-372.\u00a0[http://aslo.org/lo/toc/vol_59/issue_2/0361.htm](\\http://aslo.org/lo/toc/vol_59/issue_2/0361.html\\)

DOI for this dataset:\u00a0The role of regenerated nitrogen for rocky shore
productivity, Cape Flattery, Washington, 2010 &
2011.\u00a0Handle:\u00a0[http://hdl.handle.net/1912/6420](\\http://hdl.handle.net/1912/6420\\).\u00a0DOI:10.1575/1912/6420

Related Datasets:
[ammonium removal by seaweeds](\\https://www.bco-dmo.org/dataset/489420\\)
[filter tracer content](\\https://www.bco-dmo.org/dataset/489283\\)
[natural abundance N and C filter content](\\http://www.bco-
dmo.org/dataset/489310\\)
[tidepool incubation ammonium](\\https://www.bco-dmo.org/dataset/489085\\)

cdm_data_type = Other
VARIABLES:
site (unitless)
... (18 more variables)


[tidepool incubation ammonium] - Ammonium levels in incubated bottles in tidepools from Cape Flattery, WA from 2010-2011 (Regenerated Nitrogen project) (The Role of Regenerated Nitrogen for Rocky Shore Productivity)

Summary:
We evaluated the role of mussels by adding 15N-labeled NH4+ to an assemblage
of tidepools where they were either present at natural abundance levels, or
absent through manual removal. \u00a0The role of phototrophs was separately
examined by conducting these experiments both during the day and at night.
\u00a0The tidal height of pools varied between 1.2 to 1.5 m above Mean Lower
Low Water (MLLW). Tidepools were thus isolated from each other as well as the
nearshore environment during the low tide period when experiments were
conducted. Each experiment included 4 to 5 mussel removal (MR) tidepools
(since 2002) and 4 to 5 mussel control (MC) tidepools with natural mussel
densities. \u00a0In June 2010, we performed daytime NH4+ tracer experiments
and in August 2010 nighttime experiments using the same tidepools. The
following year (July 2011) these experiments were repeated with the addition
of bottle incubations (see below) to evaluate the effects of suspended
tidepool components and extended sampling for 6 days after the initial 15N
addition to test for long-term retention of NH4+. \u00a0During the 2011
experiments, unforeseen rain reduced the salinity in some pools by up to 51%,
and we have attempted to correct for the expected dilution of NH4+ in our
tidepool rate calculations.

Because isotope enrichment levels were relatively low, we used the
conventional delta notation instead of atom% to describe variations in 15N
enrichment (where delta-15NH4+ = {(15N:14N sample \u00f7 15N:14N standard)
-1}\u00d71000\u2030, where the standard is atmospheric N2. \u00a0Tracer
labeled ammonium chloride (15NH4Cl) was added to the pools to approximate a
1000\u2030 enrichment in 2010 (doubling the 15N-NH4+ concentration) and a
2000\u2030 enrichment in 2011(tripling the 15N-NH4+ concentration). 15N
natural abundance is only 0.365% and these tracer additions thus had a
negligible effect on the overall NH4+ concentrations increasing them by only
~0.4% and ~0.8%, respectively. Tidepool volumes were estimated
spectrophotometrically using varying concentrations of food dye (Pfister
1995). Together with estimates of NH4+ concentration (from 2009 data), we
estimated the tracer addition required to achieve the targeted 15N
enrichments. However, the actual initial enrichments varied substantially,
684.4 - 2406.4\u2030 in 2010 and 781.4 - 3880.2\u2030 in 2011, likely due to
error in tidepool volume estimation and natural variations in initial NH4+
concentrations. Fortunately, we sampled immediately following each tracer
addition allowing for the determination of the true initial 15N enrichment.
\u00a0

Prior to tracer addition at ebb tide, 100 mL of tidepool water was syringe-
filtered (Whatman GF/F) into separate HDPE bottles for natural abundance
15NH4+ and concentration determination. \u00a0To each pool, tracer 15NH4+ was
then added and distributed by stirring with a stick. Water samples were
immediately collected for measuring initial 15N enrichment and subsequently at
2, 4, and 6 hour intervals to determine isotope and concentration time
courses. All water samples were frozen until analysis. Tidepool oxygen, pH,
and temperature (Hach HQ4D) were also collected at ~ 2 h intervals throughout
the experiment.

In 2011 we also assessed the contribution of the suspended microbial community
to NH4+ cycling by enclosing tidepool water in a 250 mL transparent
polycarbonate incubation bottle. Following tracer addition, the bottle was
filled, then left to float in the tidepool for the duration of the experiment.
Samples from bottles were filtered as described both immediately after
containment and at the end of the experiment (~6 h later).

We assessed macroalgal contribution to NH4+ removal by transplanting two
tidepool-dwelling algae species. \u00a0Prionitis sternbergii were sampled 2
weeks prior to the experiment for baseline natural abundance 15N values and
transplanted into the pools with Z-Spar Epoxy (Pfister 2007). On the day of
the experiment, the red-alga, Corallina vancouveriensis from a single source
patch, was also sampled for 15N natural abundance, inserted into pieces of
Styrofoam, and floated in each pool.

At the end of each experiment (~6 h sampling point), we sampled tidepool
particulate organic material (POM) by filtering through combusted GF/F filters
until they clogged (~ 600 mL), comparing these samples with POM similarly
sampled from the immediate nearshore. \u00a0Floating Corallina spp. samples
were collected into clean Eppendorf tubes, and similar sized pieces of
Prionitis spp. were collected from each pool into clean foil packets.\u00a0
 We evaluated the extent of longer-term 15N tracer retention in 2011 by
sampling tidepool water, POM and transplanted Prionitis 1, 3, and 6 days
following tracer addition. We sampled at ebb tide and at again at slack water
just prior to high tide on the first day after tracer addition (that is, 24 h
later) and at slack water prior to high tide on Day 3 and 6.\u00a0

Relevant References:

2014\. Pather, S., C. A. Pfister, M. Altabet, D. M. Post. Ammonium cycling in
the rocky intertidal: remineralization, removal and retention. Limnology and
Oceanography
59:361-372.\u00a0[http://aslo.org/lo/toc/vol_59/issue_2/0361.htm](\\http://aslo.org/lo/toc/vol_59/issue_2/0361.html\\)

DOI for this dataset:\u00a0The role of regenerated nitrogen for rocky shore
productivity, Cape Flattery, Washington, 2010 &
2011.\u00a0Handle:\u00a0[http://hdl.handle.net/1912/6420](\\http://hdl.handle.net/1912/6420\\).\u00a0DOI:10.1575/1912/6420

Related Datasets:
[ammonium removal by seaweeds](\\https://www.bco-dmo.org/dataset/489420\\)
[filter tracer content](\\https://www.bco-dmo.org/dataset/489283\\)
[natural abundance N and C filter content](\\http://www.bco-
dmo.org/dataset/489310\\)
[tidepool ammonium and mussels](\\https://www.bco-dmo.org/dataset/488860\\)

cdm_data_type = Other
VARIABLES:
site (unitless)
... (10 more variables)


[Time to development larval purple urchins] - Time to developmental stage across temperature and food experiments in the larval purple sea urchin, Strongylocentrotus purpuratus (Collaborative Research: The effects of marine heatwaves on reproduction, larval transport and recruitment in sea urchin metapopulations)

Summary:
Trends in development time and time to metamorphic competency across temperature and food availability treatments were measured in Strongylocentrotus purpuratus larvae. Effects of temperature and food availability were tested using a 6 x 4 factorial experimental design with six temperature treatments (10, 12, 14, 16, 18, 20°C) and four concentrations of Rhodomonas sp. microalgae (500, 2500, 5000, 10,000 cells mL-1) for a total of 24 treatment combinations. Developmental stage was determined in>50% individuals were of a certainstage and metamorphic competency was determined when >50% of larvae exhibited tube feet and adhered to the bottle. Time to metamorphic competency decreased exponentially with temperature with larvae at 10°C reaching competency in 61 days, larvae at 12ºC in 33 days, larvae at 14ºC in 29 days, larvae at 16ºC in 25 days, larvae at 18ºC in 22 days, and larvae at 20ºC in 21 days.
This dataset includes the treatment combinations and days to metamorphic competency for each treatment combination.

cdm_data_type = Other
VARIABLES:
temp (degrees Celsius)
food (cells per mL)
days_settled (days)
days_prism (days)
days_fourarm (days)
days_sixarm (days)
days_eightarm (days)


[Tissue data from Keister et al. 2023] - Comparative analysis of tissue biomass and energy reserves of six coral species from nearshore and offshore reefs in Palau, Micronesia during March 2017 (Collaborative Research: Stability, flexibility, and functionality of thermally tolerant coral symbioses)

Summary:
The nearshore reef habitats in Palau, Micronesia, serve as a representation of the challenges that coral populations may face in a future with warmer and more acidic oceans. Interestingly, corals inhabiting these nearshore habitats demonstrate a greater ability to withstand and recover from episodes of thermal stress compared to their offshore counterparts. In order to investigate the underlying physiological mechanisms behind this tolerance, we conducted a comparative analysis of six coral species found in both offshore and nearshore environments. Specifically, we examined parameters such as tissue biomass (ash-free dry weight cm−2), energy reserves (including protein, total lipid, and carbohydrate content), as well as several crucial lipid classes.

cdm_data_type = Other
VARIABLES:
latitude (degrees_north)
longitude (degrees_east)
SampleID (unitless)
Species (unitless)
Site (unitless)
Collection_Date (unitless)
AFDW (grams)
Total_lipids (joules)
Surface_Area (squared centimeters (cm^2))
Protein (joules)
Carbohydrate (joules)
WAX (milligrams Ash Free Dry Weight per gram (mg AFDW/g))
TAG (milligrams Ash Free Dry Weight per gram (mg AFDW/g))
ST (milligrams Ash Free Dry Weight per gram (mg AFDW/g))
Phospholipids (milligrams Ash Free Dry Weight per gram (mg AFDW/g))


[Tissue Measurements] - Tissue thickness from coral cores taken in the central equatorial Pacific (Skeletal Records of Coral Reef Bleaching in the Central Equatorial Pacific)

Summary:
Coral cores were collected in the central equatorial Pacific (Central Pacific Coral reefs, -5 to 5 latitude, Dongsha Atoll, Curacao, Barbados, Martinique coral reefs). The thickness of the tissue in each core was measured as an index of biomass or energetic reserve.

cdm_data_type = Other
VARIABLES:
ENSO_State (unitless)
Island (unitless)
Tissue_Thickness (millimeter (mm))
Standard_Error (unitless)


[Tissue Thickness] - Tissue thickness measurements from coral cores collected at Jarvis Island from 2010-2015 (Skeletal Records of Coral Reef Bleaching in the Central Equatorial Pacific)

Summary:
This dataset contains tissue thickness measurements for Jarvis Island coral cores from 2010-2015. Coral tissue thickness, measured as the vertical distance between the top of the core to the most recently accreted dissepiment, was measured on a slice of skeleton cut from the top of each core using a Nikon SMZ1500 stereomicroscope and SPOT imaging software.

cdm_data_type = Other
VARIABLES:
core_ID (unitless)
year (unitless)
tissue_thickness (millimeter (mm))


[TMs and Nuts from EXPORTS NA Incubations] - Dissolved trace metal and macronutrient concentration data from incubation experiments conducted during the May 2021 EXPORTS North Atlantic cruise (DY131) (Collaborative Research: Diatoms, Food Webs and Carbon Export - Leveraging NASA EXPORTS to Test the Role of Diatom Physiology in the Biological Carbon Pump)

Summary:
This dataset includes trace metal (iron, manganese, cobalt, nickel, copper, zinc, cadmium, lead) and macronutrient (nitrate+nitrite, nitrite, phosphate, silicic acid) concentration data from incubation experiments conducted on board the RRS Discovery during the EXPORTS North Atlantic campaign at the Porcupine Abyssal Plain-Sustained Observatory (PAP-SO) site (DY131). In these experiments, additions of macronutrients (N, P, Si) and Fe were used to assess the level of Si, N, and Fe stress being experienced by the phytoplankton and to contextualize taxa-specific metatranscriptome responses for resolving gene expression profiles in the in-situ communities.

This research project focuses on the vertical export of the carbon associated with a major group of phytoplankton, the diatoms in the North Atlantic near the Porcupine Abyssal Plain. The major objective is to understand how diatom community composition and the prevailing nutrient conditions create taxonomic differences in metabolic state that combine to direct diatom taxa to different carbon export pathways. The focus is on diatoms, given their large contribution to global marine primary productivity and carbon export which translates into a significant contribution to the biogeochemical cycling of carbon (C), nitrogen (N), phosphorus (P), iron (Fe) and silicon (Si). It is hypothesized that the type and degree of diatom physiological stress are vital aspects of ecosystem state that drive export. To test this hypothesis, combined investigator expertise in phytoplankton physiology, genomics, and trace element chemistry is used to assess the rates of nutrient use and the genetic composition and response of diatom communities, with measurements of silicon and iron stress to evaluate stress as a predictor of the path of diatom carbon export. The EXPORTS field campaign in the North Atlantic sampled a retentive eddy over nearly a month in May 2021, which coincided with the decline of the North Atlantic Spring Bloom.

cdm_data_type = Other
VARIABLES:
CRUISE_ID (unitless)
EVTNBR (unitless)
DATE_UTC (unitless)
JULIAN_DAY (unitless)
EPOCH (unitless)
EPOCH_DAY (unitless)
... (61 more variables)


[TN327 Axial 2015 MAPR Mooring Data] - Data collected from Miniature Autonomous Plume Recorders (MAPRs) deployed near the Axial Seamount on the Juan de Fuca Ridge on R/V Thomas G. Thompson TN327 in August 2015 and collected in July 2017. (Event response to an eruption at Axial Seamount)

Summary:
Data collected from Miniature Autonomous Plume Recorders (MAPRs) deployed near the Axial Seamount on the Juan de Fuca Ridge on R/V Thomas G. Thompson TN327 in August 2015 and collected in July 2017.

cdm_data_type = Other
VARIABLES:
MAPR (no units)
Elevation (meters)
latitude (degrees_north)
longitude (degrees_east)
Cruise (no units)
time (ISO Date Time, seconds since 1970-01-01T00:00:00Z)
Press_db (decibars)
Temp_deg (degrees Celsius)
depth (m)
Neph_volts (volts)
Press_counts (counts)
Temp_counts (counts)
Neph_counts (counts)


[TORCH-II] - Coastal water biogeochemistry collected aboard the R/V Endeavor along the North Atlantic coast from 2017-08-20 to 2017-08-28 (Collaborative Research: Defining the Role of Biologically Produced Reactive Oxygen Species in Dark Mercury Cycling)

Summary:
Samples were collected from four water column sites along the Northeast Coast of the United States in August 2017 aboard the R/V Endeavor. Samples were collected using a 12-bottle trace metal clean CTD (Conductivity, Temperature and Depth) rosette, and were kept clean by using acid washed tubing to collect water directly into acid-washed 1 L PTFE bottles. Sample depths were chosen based on the water column profile obtained from a separate 24-bottle CTD rosette system equipped with Seabird software, which also provided the temperature, dissolved oxygen, salinity, PAR, beam transmission and fluorescence profiles reported here.

cdm_data_type = Other
VARIABLES:
sheet (unitless)
Station (unitless)
latitude (degrees_north)
longitude (degrees_east)
Year (unitless)
Month (unitless)
Day (unitless)
time2 (Time, unitless)
time (ISO Datetime UTC, seconds since 1970-01-01T00:00:00Z)
depth (m)
Temp (Temperature, degrees Celsius (C))
Florescence (miligrams per meter cubed (mg/m3))
Chlorophyll (Concentration Of Chlorophyll In Sea Water, micrograms per liter (ug/L))
Chloro_sd (micrograms per liter (ug/L))
PAR (Downwelling Photosynthetic Photon Radiance In Sea Water, microeinteins per meter squared second (microE/m2s))
Beam_Transmission (percent)
Salinity (Sea Water Practical Salinity, PSU)
O2 (mililiters per liter (mL/L))
NO2 (Mole Concentration Of Nitrite In Sea Water, micromole (uM))
NH4 (Mole Concentration Of Ammonium In Sea Water, micromole (uM))
NO3 (Mole Concentration Of Nitrate In Sea Water, micromole (uM))
... (29 more variables)


[Total alkalinity] - Total alkalinity during coral calcification experiments conducted on Oahu, Hawaii from November of 2014 to November of 2015 (Will corals recover from bleaching under ocean acidification conditions?)

Summary:
Total alkalinity during coral calcification experiments conducted on Oahu, Hawaii from November of 2014 to November of 2015

cdm_data_type = Other
VARIABLES:
date_HST (unitless)
t1 (microequivalents per kilogram(ueq/kg))
t2 (microequivalents per kilogram(ueq/kg))
t3 (microequivalents per kilogram(ueq/kg))
t4 (microequivalents per kilogram(ueq/kg))
t5 (microequivalents per kilogram(ueq/kg))
t6 (microequivalents per kilogram(ueq/kg))
t7 (microequivalents per kilogram(ueq/kg))
t8 (microequivalents per kilogram(ueq/kg))


[total coral cover] - Percent of coral cover in 3, 20x40 m transects,Panama, 1984-2010 (EPac Corals projects I-VII) (Ecological Effects of the 1982/83 El Nino-Associated Disturbance to Eastern Pacific Coral Reefs)

Summary:
Total coral cover surveys were conducted at the Uva Island coral reef (7o48\u201946\u201dN, 81o45\u201935\u201dW), Gulf of Chiriqu\u00ed, Panama from 1984 to 2010.

cdm_data_type = Other
VARIABLES:
year (unitless)
month (MM)
method (unitless)
replicate (unitless)
pcent_cover (percent)


[Total dissolved Cr concentration and isotopic composition in the ETNP from RR1804-05 and KM1919-20] - Total dissolved chromium (Cr) concentration and isotopic composition in the Eastern Tropical North Pacific from samples collected on R/V Roger Revelle and R/V Kilo Moana in April-May 2018 and Sept-Oct 2019 (Cr Isotope Oceanography of the Eastern Tropical North Pacific Ocean)

Summary:
Understanding the cycling of chromium (Cr) and how chromium stable isotopes (δ53Cr) are altered in response to different processes in the modern ocean is important in our interpretation of marine sedimentary δ53Cr records, a promising redox proxy. Therefore, it is crucial to investigate the geochemical processes of Cr in reducing environments such as oxygen deficient zones (ODZs). In this study, we investigated the cycling of Cr in the Eastern Tropical North Pacific (ETNP) ODZ by analyzing the [Cr] and δ53Cr of total dissolved Cr and Cr(III). Our Cr(III) data at two inshore stations shows profile features and Cr reduction isotopic fractionation factor (-1.5‰) similar to an offshore station in a previous study. We also observed significant Cr scavenging signals in the upper 1000 meters (m) throughout the ODZ with an inshore-offshore variability in its magnitude. Specifically, anoxic bottom waters on the continental slope see the greatest Cr scavenging with heaviest δ53Cr (+1.85‰). Our estimates of the scavenged Cr isotopic composition are within error of the anoxic and euxinic marine sedimentary δ53Cr. This implies that the vertical transport of Cr to the seafloor and subsequent diagenesis may not generate significant isotopic fractionation for Cr. This is the first thorough investigation into the Cr cycling in the ETNP ODZ and demonstrated promising usage of marine sedimentary δ53Cr as a redox proxy for ancient oceans.

In the ODZ, oxygen is consumed by degrading sinking particles and reaches extremely low levels (too low to support aerobic life) from 100m to 800m depth. However, microbes that can use other oxidants such as nitrate to metabolize organic carbon live there, and we showed that they also convert soluble anionic chromate Cr(VI) to cationic Cr(III), about half of which is scavenged onto sinking particles and removed to the seafloor. This reduction is accompanied by preferential reduction of light Cr isotopes, so the Cr(III) is 1.3‰ lighter than the source Cr(VI). The removal of part of this light Cr(III) by scavenging leaves the residual total Cr heavier than the source Cr. The analyzed samples listed here were chosen to be from the center and margins of the ETNP ODZ and over extremely reducing continental margin sediments.

cdm_data_type = Other
VARIABLES:
Cruise (unitless)
Station (unitless)
Latitude (degrees_north)
... (5 more variables)


[Total DOC 14C] - Total DOC 14C from samples collected from the North Pacific Subtropical Gyre and Central North Atlantic (The Microbial Nitrogen Pump: Coupling 14C and Compound-specific Amino Acids to Understand the Role of Microbial Transformations in the Refractory Ocean DON Pool)

Summary:
Total DOC 14C from samples collected from the North Pacific Subtropical Gyre and Central North Atlantic. These data were published in Broek et al. (2019) and Broek et al. (2017).

cdm_data_type = Other
VARIABLES:
location (unitless)
year (unitless)
season (unitless)
sample_type (unitless)
depth (m)
UCIAMS_num (unitless)
Fm (unitless)
Fm_stdev (unitless)
d14C (D14 C, permil (‰))
d14C_stdev (D14 C Stdev, permil (‰))
C14_age (years before present)
C14_age_stdev (years before present)


[Total lipid measurements - field data] - Total lipid measurements for field-collected animals from the Gulf of Mexico Estuary near Port Aransas and Mud Island, Texas from 2020 to 2021 (Counter-gradient Flow of Fatty Acids in Marine Food Webs Through Egg Boons)

Summary:
Total lipid measurements for field-collected animals from the Gulf of Mexico Estuary near Port Aransas and Mud Island, Texas from 2020 to 2021.

cdm_data_type = Other
VARIABLES:
Taxon (unitless)
Common_name (unitless)
Sample_ID (unitless)
Site (unitless)
lat (degrees_north)
longitude (degrees_east)
Date_collected (unitless)
Date_analyzed (unitless)
Tissue (unitless)
Primary_check (unitless)
Total_lipids (milligrams per gram dry weight (mg g-1 dw))


[Total mercury and methylmercury concentrations in longnose lancetfish tissues from the North Pacific Ocean] - Total mercury and methylmercury concentrations measured across 10 tissues of the longnose lancetfish (Alepisaurus ferox) collected from the central and eastern North Pacific between 2018 and 2023 (Scripps Center for Oceans and Human Health: advancing the science of marine contaminants and seafood security)

Summary:
This dataset contains total mercury and methylmercury concentrations measured across 10 tissues (brain, caudal white muscle, dorsal white muscle, gallbladder, gill filament, gonad, heart, intestine, liver, and stomach lining) of a globally distributed deep-sea fish, the longnose lancetfish (Alepisaurus ferox). Lancetfish specimens were collected by fisheries observers of the National Oceanic and Atmospheric Administration Pacific Islands Region and West Coast Region Observer Programs from 2018 to 2023 between 20 – 40° N and 115 – 160° W in the central and eastern North Pacific Ocean. The data were used to examine patterns of mercury bioaccumulation in lancetfish and evaluate the use of lancetfish as a biomonitoring species of mercury in the deep sea.

cdm_data_type = Other
VARIABLES:
specimen_id (unitless)
date (unitless)
latitude (degrees_north)
longitude (degrees_east)
FL_mm (millimeters (mm))
whole_mass_g (grams (g))
size_class (unitless)
tissue_type (unitless)
percent_moisture (percentage (%))
THg_wet_ng_g (nanogram per gram (ng/g))
hg_notes (unitless)
MeHg_wet_ng_g (nanogram per gram (ng/g))
mehg_type (unitless)
percent_mehg (percentage (%))


[Total mercury concentrations and size data for bigeye tuna, yellowfin tuna, and longnose lancetfish from the North Pacific Ocean] - Total mercury (THg) concentration, fork length, and mass data for bigeye tuna (Thunnus obesus), yellowfin tuna (Thunnus albacares), and longnose lancetfish (Alepisaurus ferox) collected from the central and eastern North Pacific between 1971 and 2023 (Scripps Center for Oceans and Human Health: advancing the science of marine contaminants and seafood security)

Summary:
This dataset contains total mercury (THg) concentration, fork length, and mass data for bigeye tuna (Thunnus obesus), yellowfin tuna (Thunnus albacares), and longnose lancetfish (Alepisaurus ferox) collected from the central and eastern North Pacific between 1971 and 2023. The THg data for tunas were compiled from published literature. We compared the THg bioaccumulation curve for lancetfish from this study to the bioaccumulation curves for two well-studied tuna species to examine how life history and feeding ecology affect THg accumulation with size.

cdm_data_type = Other
VARIABLES:
specimen_id (unitless)
speciesID (unitless)
date (unitless)
latitude (degrees_north)
longitude (degrees_east)
length_cm (centimeters (cm))
weight_kg (kilograms (kg))
wetTHg_ng_g (nanograms per gram (ng/g))
reference (unitless)


[Total Mercury Time Series at Scripps Pier] - Total Mercury Concentrations Collected from Scripps Pier in La Jolla, CA from December 2020 to December 2024 (Collaborative Proposal: Unravelling the Oceanic Dimethylmercury Cycle)

Summary:
weekly collected samples of Total Mercury from Scripps Pier in La Jolla, CA from December 2020 to December 2024 to capture variability over multiple years. Samples were collected using a peristaltic pump equipped with weighted sample tubing into pre-cleaned glass bottles. Samples were analyzed via a Tekran 2600 Automatic Mercury Sampler.

cdm_data_type = Other
VARIABLES:
latitude (degrees_north)
longitude (degrees_east)
Date (unitless)
Time_UTC (unitless)
time (Iso_datetime_utc, seconds since 1970-01-01T00:00:00Z)
Surface_THg_Concentration (picomolar (pM))
Deep_THg_Concentration (picomolar (pM))
depth (Deep_sample_depth, m)


[Total Organic Sulfur] - Total organic sulfur (TOS) collected from Niskin bottle samples on R/V Knorr cruise KN210-04 in the Western Atlantic Ocean between Uruguay and Barbados from March to May 2013 (Deep Atlantic DOM project) (Dissolved Organic Matter Composition in the Deep Atlantic Ocean)

Summary:
This dataset contains the concentration of total organic sulfur (TOS) in seawater from samples collected during the R/V Knorr cruise KN210-04 between 29 Mar 2013 and 06 May 2013 along the eastern coast of South America.

cdm_data_type = Other
VARIABLES:
cast (unitless)
station (unitless)
date_utc_YYYYMMDD_start (unitless)
time_utc_HHMM_start (unitless)
event_start (unitless)
depth (m)
latitude (degrees_north)
longitude (degrees_east)
TOS_nM (TOS N M, nanomolar (nM))
TOS_sd (nanomolar (nM))


[Total spectral count of proteins (MetZyme 0.2)] - Total spectral count of proteins from R/V Kilo Moana cruise KM1128 for the METZYME expedition in the tropical North Pacific in 2011. (Connecting Trace Elements and Metalloenzymes Across Marine Biogeochemical Gradients (GPc03))

Summary:
Global metaproteomic dataset for KM1128 the METZYME expedition. The global proteome dataset presented here included 16951 protein identifications and 31994 unique peptide identifications compiled from 37 samples and 74 raw files (CID and HCD modes for each file) and ### total spectra.

cdm_data_type = Other
VARIABLES:
sample_id (unitless)
MS_MS_sample_name (unitless)
station_id (unitless)
depth (Depth_m, m)
latitude (Latitude_dd, degrees_north)
longitude (Longitude_dd, degrees_east)
date_y_m_d (unitless)
time_h_m_s (unitless)
time (Iso_datetime_utc, seconds since 1970-01-01T00:00:00Z)
minimum_filter_size_microns (microns)
maximum_filter_size_microns (microns)
cruise_id (unitless)
protein_id (unitless)
spectral_count_sum (count)
molecular_weight_kDa (kilodalton (kDa))
protein_name (unitless)
ncbi_id (unitless)
ncbi_name (unitless)
kegg_id (unitless)
kegg_description (unitless)
kegg_pathway (unitless)
pfams_id (unitless)
pfams_name (unitless)
uniprot_id (unitless)
enzyme_comm_id (unitless)


[TP metals sediments with no pretreatment] - Total phosphorus and metal concentrations from sediment extracts from samples collected during cruises in the Arctic Ocean, California Margin, and Equatorial Pacific from 1992-1998 (A new marine sediment sample preparation scheme for  solution 31P NMR analysis)

Summary:
Total phosphorus and metal concentrations from sediment extracts from samples collected during cruises in the Arctic Ocean, California Margin, and Equatorial Pacific from 1992-1998.

cdm_data_type = Other
VARIABLES:
Type (unitless)
Extract (unitless)
Dilution (unitless)
Sample_ID (unitless)
Analyte_Name (unitless)
Int_Corr (unknown)
RSD_Corr_Int (unknown)
Conc_Calib (parts per million (ppm))


[TP sediments with pretreatment] - Total phosphorus concentrations in NMR sediment pretreatment extracts from samples collected during cruises in the Arctic Ocean, California Margin, and Equatorial Pacific from 1992-1998 (A new marine sediment sample preparation scheme for  solution 31P NMR analysis)

Summary:
Total phosphorus concentrations in nuclear magnetic resonance (NMR) sediment pretreatment extracts from samples collected during cruises in the Arctic Ocean, California Margin, and Equatorial Pacific from 1992-1998.

cdm_data_type = Other
VARIABLES:
Extract (unitless)
Step (unitless)
Dilution (unitless)
Sample_ID (unitless)
Analyte_Name (unitless)
Int_Corr (unitless)
RSD_Corr_Int (unitless)
Conc_Calib (parts per million (ppm))


[TP sediments with pretreatment] - Total phosphorus concentrations in NMR sediment pretreatment extracts from samples collected during R/V JOIDES Resolution cruise JRES-336 (IODP336, North Pond) to the western flank of the mid-Atlantic Ridge in November of 2011 (Potential phosphorus uptake mechanisms of the deep sedimentary biosphere)

Summary:
Total phosphorus concentrations in nuclear magnetic resonance (NMR) sediment pretreatment extracts from samples collected during R/V JOIDES Resolution cruise JRES-336 (IODP336, North Pond) to the western flank of the mid-Atlantic Ridge in November of 2011. Samples were analyzed in 2016.

cdm_data_type = Other
VARIABLES:
Extract (unitless)
Step (unitless)
Dilution (unitless)
Sample_ID (unitless)
Date (nd)
Analyte_Name (unitless)
Int_Corr (unitless)
RSD_Corr_Int (unitless)
Conc_Calib (parts per million (ppm))


[TPC Growth rates: 100 generations] - Daily growth rates for Thermal Performance Curve (TPC) of Chaetoceros simplex after about 100 generations of evolution at seven temperatures, 12-34 degrees C. (Dimensions: Collaborative Research: Genetic, functional and phylogenetic diversity determines marine phytoplankton community responses to changing temperature and nutrients)

Summary:
Daily growth rates for Thermal Performance Curve (TPC) of Chaetoceros simplex after about 100 generations of evolution at seven temperatures, 12-34 degrees C.

cdm_data_type = Other
VARIABLES:
Evol_strain (none)
Temperature (Celsius degrees)
Well_replicate (unitless)
Growth_rate (day-1)


[TPC Growth rates: 200 generations] - Daily growth rates for Thermal Performance Curve (TPC) of Chaetoceros simplex in nitrogen-replete evolved populations after about 200 generations of evolution at eight temperatures, 10-35 degrees C. (Dimensions: Collaborative Research: Genetic, functional and phylogenetic diversity determines marine phytoplankton community responses to changing temperature and nutrients)

Summary:
Daily growth rates for Thermal Performance Curve (TPC) of Chaetoceros simplex in nitrogen-replete evolved populations after about 200 generations of evolution at eight temperatures, 10-35 degrees C.

cdm_data_type = Other
VARIABLES:
Evol_strain (unitless)
Temperature (Celsius degrees)
Flask_replicate (unitless)
Growth_rate (day-1)


[Trace elements in CaCO3 and fluid] - Table 2. Elemental ratios and partition coefficients for CaCO3 in deepsea conditions: Mg, S, Sr, and Ba between crystallized solids and fluid. (Biologically induced methane oxidation and precipitation of carbonate minerals: An experimental study)

Summary:
Trace elements in CaCO3 and fluid. Table 2. Elemental ratios and partition coefficients for CaCO3 in deepsea conditions: Mg, S, Sr, and Ba between crystallized solids and fluid.

cdm_data_type = Other
VARIABLES:
analysis (unitless)
run (unitless)
press (bars)
minerals (unitless)
Mg_Ca (millimole per mole of calcium)
Mg_Ca_2sd (millimole per mole of calcium)
S_Ca (millimole per mole of calcium)
S_Ca_2sd (micromole per mole of calcium)
Sr_Ca (millimole per mole of calcium)
Sr_Ca_2sd (millimole per mole of calcium)
Ba_Ca (millimole per mole of calcium)
Ba_Ca_2sd (micromole per mole of calcium)
KMg (unitless)
KMg_2sd (unitless)
KS (unitless)
KS_2sd (unitless)
KSr (unitless)
KSr_2sd (unitless)
KBa (unitless)
Kba_2sd (unitless)


[Trace metal and organic iron ligand data] - Trace metal and organic iron ligand data collected during the PLUME RAIDERS cruise (RR2106) on the R/V Roger Revelle from 18 September – 6 November 2021 along the 16-18ºS section of the Southern East Pacific Rise. (Collaborative Research: Are Low-Temperature Hydrothermal Vents an Important but Overlooked Source of Stabilized Dissolved Iron to the Ocean?)

Summary:
This dataset includes the concentrations of total dissolvable iron and manganese, dissolved iron and manganese, and dissolved organic iron-binding ligands collected on the PLUME RAIDERS expedition. Samples were collected during the PLUME RAIDERS cruise (RR2106) on the R/V Roger Revelle from 18 September – 6 November 2021. The main study area was located along the 16-18ºS section of the Southern East Pacific Rise, and the sampling was focused near the ride crest at depths below 1,500 m. Both the total dissolvable and dissolved  iron and manganese concentrations were determined shipboard using flow injection analysis. The total organic iron-binding ligand data was  generated both shipboard and in the lab using competitive ligand exchange adsorptive cathodic stripping voltammetry. The siderophore concentrations were measured following a solid phase extraction step, and then eluents were measured using inductively coupled plasma mass spectrometry. The dissolvable and dissolved metal data was generated by Dr. Joe Resing and Nathan Buck at NOAA-PMEL and the ligand and siderophore data was generated by Dr. Laura Moore and Dr. Randelle Bundy at the University of Washington.

cdm_data_type = Other
VARIABLES:
GT_number (unitless)
Cruise (unitless)
Station (unitless)
Cast_number (unitless)
Rosette (unitless)
Site_Name (unitless)
Station_ID (unitless)
Bottle_Position (unitless)
Nisken_number (unitless)
Date (unitless)
Time_GMT (unitless)
time (Iso_datetime_utc, seconds since 1970-01-01T00:00:00Z)
Pressure_dbar (dbars)
depth (Depth_m, m)
Temp_degC (degrees celsius)
... (20 more variables)


[Trace-metals from CTD casts and underway water samples] - Trace-metals from CTD casts and underway water samples collected during the R/V Hugh R. Sharp cruise HRS1414 in the Mid and South-Atlantic Bight in August of 2014 (DANCE project) (Collaborative Research: Impacts of atmospheric nitrogen deposition on the biogeochemistry of oligotrophic coastal waters)

Summary:
Dissolved iron, nitrate+nitrite, ammonium, and phosphate were measured from CTD bottle samples, and underway water samples collected with a towfish system during the R/V Hugh R. Sharp cruise HRS1414 in the Mid and South-Atlantic Bight in August of 2014.  This dataset also includes temperature, salinity, chlorophyll fluorescence, depth, latitude, and longitude.

cdm_data_type = Other
VARIABLES:
sample_source (unitless)
Sample_ID (unitless)
Station (unitless)
depth (m)
Date (unitless)
time2 (Time, unitless)
latitude (degrees_north)
longitude (degrees_east)
Dfe (nanomoles per liter (nmol/L))
DFe_flag (unitless)
NO3_NO2 (micromoles per liter (umol/L))
PO4 (micromoles per liter (umol/L))
NH4 (nanomoles per liter (nmol/L))
Temp (Temperature, degrees Celsius (°C))
Salinity (Sea Water Practical Salinity, Practical salinity units (PSU))
Fluor (volt)


[trace_metal_microarray] - Results from trace metal controlled diel microarray experiments with diatoms carried out in the Kustka and Allen labs at Rutgers in Newark, NJ from 2007-2011 (Expression profiling and functional genomics of a pennate diatom: Mechanisms of iron acquisition, stress acclimation, and recovery)

Summary:
Results from trace metal controlled diel microarray experiments with diatoms carried out in the Kustka and Allen labs at Rutgers in Newark, NJ from 2007-2011. Ten diel microarray experiments were completed (seven for P. tricornutum encompassing three Fe concentrations, and three for T. pseudonana encompassing two Fe concentrations).

cdm_data_type = Other
VARIABLES:
species (dimensionless)
exp_id (dimensionless)
fe_prime (pMol)
growth_rate (ln(cell density)/day)
growth_rate_se (dimensionless)
Fv_to_Fm (dimensionless)
Fv_to_Fm_sd (dimensionless)
pH (Sea Water Ph Reported On Total Scale, pH scale)
pH_sd (P H SD, dimensionless)


[Tracer data] - Nutrient transfer experiments with host coral and symbionts under varying environmental conditions in March 2014 and March 2015 (Collaborative Research: Stability, flexibility, and functionality of thermally tolerant coral symbioses)

Summary:
Symbiotic mutualisms are essential to ecosystems and numerous species across the tree of life. For reef-building corals, the benefits of their association with endosymbiotic dinoflagellates differ within and across taxa, and nutrient exchange between these partners is influenced by environmental conditions. Furthermore, it is widely assumed that corals associated with symbionts in the genus Durusdinium tolerate high thermal stress at the expense of lower nutrient exchange to support coral growth. We traced both inorganic carbon (H13CO3–) and nitrate (15NO3–) uptake by divergent symbiont species and quantified nutrient transfer to the host coral under normal temperatures as well as in colonies exposed to high thermal stress. Colonies representative of diverse coral taxa associated with Durusdinium trenchii or Cladocopium spp. exhibited similar nutrient exchange under ambient conditions. In contrast, heat-exposed colonies with D. trenchii experienced less physiological stress than conspecifics with Cladocopium spp. while high carbon assimilation and host transfer was maintained. This discovery is different from the prevailing notion that these mutualisms inevitably suffer trade-offs in physiological performance. These findings emphasize that certain host-symbiont combinations adapted to high temperature equatorial environments; and why their increase in prevalence is likely important to the future productivity and stability of coral reef ecosystems.

cdm_data_type = Other
VARIABLES:
latitude (degrees_north)
longitude (degrees_east)
Site (unitless)
Species (unitless)
Symbiont (unitless)
Temperature (degrees Celsius)
Replicate (unitless)
Fraction (unitless)
AP13C (percent)
AP15N (percent)
Fv_Fm (unitless)
Densities (cells per squared centimeter (cells cm-2))


[Transcriptome statistics] - Transcriptome statistics from samples obtained on LMG1411 collected on the Gould (LMG1411) in the Western Antarctica Peninsula in 2014. (Polar Transcriptomes project) (Iron and Light Limitation in Ecologically Important Polar Diatoms: Comparative Transcriptomics and Development of Molecular Indicators)

Summary:
Transcriptome statistics from samples obtained on LMG1411 collected on the Gould (LMG1411) in the Western Antarctica Peninsula in 2014. (Polar Transcriptomes project)

cdm_data_type = Other
VARIABLES:
species (unitless)
raw_sequence_reads (count)
contigs_num (count)
isogroups_num (count)
transcriptome_size (Megabase)
mean_contig_length (base pair)
max_contig_length (base pair)
min_contig_length (base pair)
N50 (unitless)
contiguity (unitless)
BUSCO_pcnt (percent)
spliceosome_pcnt (percent)
ribosome_pcnt (percent)
KEGG (count)