cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26008/1912/bco-dmo.947975.1
title: Habitat variables (mangrove, marsh, water) of Port Fourchon, LA dervied from satellite imagery taken in fall 2022

description: This dataset consists of satellite-derived habitat data tables used to quantify fine-scale landscape metrics in an estuarine environment undergoing rapid climate-driven habitat change. The data were generated as part of a study evaluating the effects of mangrove encroachment and marsh loss on species-landscape relationships in coastal Louisiana.

Habitat variables were derived for buffer zones ranging from 150 to 600 meters around 52 field sampling sites and edge zones 1, 3, and 5 meters from the water's edge, providing detailed metrics such as percent land cover, edge area, and proportional mangrove cover. The greater spatial coverage of the satellite imagery allowed for larger habitat scales to be encompassed in the analysis.

Satellite images used in this analysis were all taken during the year 2022, within a few months of our  sampling season, in the region surrounding Port Fourchon, LA. This dataset enables testing of species-specific responses to habitat features at ecologically relevant fine scales, particularly for nekton species interacting with marsh edges and immediate surrounding areas.

The primary purpose of this dataset is to inform ecological research focused on habitat suitability, landscape ecology, and the impacts of fine-scale habitat changes on estuarine species distributions. Researchers and resource managers can use these data to improve habitat suitability models, identify critical habitat features, and guide conservation strategies. The data were collected and interpreted by Herbert Leavitt, Dr. James Nelson, and Alex Thomas, with institutional affiliation at the time of collection being the University of Louisiana at Lafayette.
DOI: 10.26008/1912/bco-dmo.948112.1
title: Habitat variables (mangrove, marsh, water) of Port Fourchon, LA dervied from drone imagery taken in spring 2023.

description: This dataset consists of drone-derived habitat data tables used to quantify fine-scale landscape metrics in an estuarine environment undergoing rapid climate-driven habitat change. The data were generated as part of a study evaluating the effects of mangrove encroachment and marsh loss on species-landscape relationships in coastal Louisiana.

Habitat variables were derived for buffer zones ranging from 20 to 150 meters around 52 field sampling sites and edge zones 1, 3, and 5 meters from the water's edge, providing detailed metrics such as percent land cover, edge area, and proportional mangrove cover. The fine spatial resolution of the drone imagery allowed for precise identification of small-scale habitat features that are often missed in satellite-based analyses.

The data were collected during the Spring 2023 sampling season in the region surrounding Port Fourchon, LA, an area experiencing significant landscape changes due to sea-level rise, subsidence, and the expansion of mangroves. This dataset enables testing of species-specific responses to habitat features at ecologically relevant fine scales, particularly for nekton species interacting with marsh edges and immediate surrounding areas.

The primary purpose of this dataset is to inform ecological research focused on habitat suitability, landscape ecology, and the impacts of fine-scale habitat changes on estuarine species distributions. Researchers and resource managers can use these data to improve habitat suitability models, identify critical habitat features, and guide conservation strategies. The data were collected and interpreted by Herbert Leavitt, Dr. James Nelson, and Alex Thomas, with institutional affiliation at the time of collection being the University of Louisiana at Lafayette.
DOI: 10.26008/1912/bco-dmo.955710.1
title: Kelletia kelletii size-frequency population survey data collected by scientific SCUBA divers at 36 kelp forest habitat sites across the species’ biogeographic range in 2015, 2016 and 2017

description: Sizes of Kellet’s whelk (Kelletia kelletii) individuals in populations in the wild were obtained from subtidal benthic surveys conducted by scientific SCUBA divers at kelp forest habitat sites across the species’ biogeographic range and over multiple years. The survey data was collected in 2015, 2016 and 2017 during summer months from 36 benthic kelp forest sites, from Monterey Bay, California, USA to Isla Asuncion, Baja California Sur, Mexico.
DOI: 10.26008/1912/bco-dmo.855036.1
title: Coral biometrics data from a heating experiment using samples collected from Nikko Bay and Rebotel Reef in Palau in the spring of 2018

description: Using samples collected from Nikko Bay and Rebotel Reef in Palau in the spring of 2018, this dataset examines coral physiology of two species of coral, Psammacora digitata and Pocillopora verrucosa, as part of a short-term heating experiment.
DOI: 10.26008/1912/bco-dmo.952677.1
title: CTD downcast data collected from R/V Roger Revelle cruise RR2201 in the Argo Basin in the Indian Ocean from February to March of 2022

description: This dataset contains a compilation of CTD downcast data from the R/V Roger Revelle's Indian Ocean cruise RR2201. Data were visually and statistically QA/QC'd in R after export from SBE Processing Tools. Data were not binned due to very coarse resolution of raw data (approximately 1 m). All sensors used provided calibration coefficients except for fluorescence, which was calibrated based on in situ chlorophyll-a extractions.
DOI: 10.26008/1912/bco-dmo.952687.1
title: CTD bottle data collected from R/V Roger Revelle cruise RR2201 in the Argo Basin in the Indian Ocean from February to March of 2022

description: This dataset contains a compilation of CTD bottle sensor values from theR/V Roger Revelle's Indian Ocean cruise RR2201. Data were compiled after export from SBE Processing Tools in R, QA/QC'd based on downcast profiles. All sensors used provided calibration coefficients except for fluorescence, which was calibrated based on in situ chlorophyll-a extractions.
DOI: 10.26008/1912/bco-dmo.564351.3
title: Weekly surface water samples from Newport Pier, CA collected between 11 January 2012 and 3 November 2023

description: Weekly surface water samples from Newport Pier, CA, were collected between 11 January 2012 and 3 November 2023.

This project is a continuation of a time series with weekly surface water sampling from the Microbes in the Coastal Region of Orange County (MICRO) time series station at Newport Pier (33°36.37’N, 117°55.87’W). We measured dissolved nitrate and phosphate in the water, as well as particulate organic carbon, nitrogen and phosphorus.

These data were published in Fagan et al. (2019), Larkin et al. (2020), and a pending publication, Larkin et al. (in press).
DOI: 10.26008/1912/bco-dmo.928203.1
title: Thalassiosira pseudonana CCMP1335 endometabolite uptake by Ruegeria pomeroyi DSS-3

description: 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.
DOI: 10.26008/1912/bco-dmo.491262.4
title: Weather Station data from University of Washington Friday Harbor Laboratories, Friday Harbor WA, Cantilever Point from 2006 to 2024

description: This dataset includes parameters measured by a weather station at the University of Washington Friday Harbor Laboratories, Friday Harbor WA, Cantilever Point from 2006 to 2024.
DOI: 10.26008/1912/bco-dmo.953401.1
title: COI mtDNA sequences for trematodes from fish collections across the Northern Line Islands and French Polynesia archipelagos collected between 2009 and 2023

description: The loss of biological diversity is considered one of the principal environmental challenges of the 21st century, and there are hints that this massive reorganization of food webs could affect how parasites are transmitted among hosts. Parasites are often hidden and can be easy to overlook, but they are ecologically important and ubiquitous - so it is important to understand whether we should expect more or fewer of them as biodiversity disappears. Does biodiversity loss increase the abundance of parasites by eroding natural &quot;checks and balances&quot; on transmission? Or does it decrease parasite abundance by removing the free-living biodiversity on which parasites depend? Answers to these questions are urgently needed if we are to mitigate or prevent an uptick in parasite transmission for ecosystems experiencing biodiversity loss.

In a joint collaborative research project among the University of Washington, Scripps Institution of Oceanography at UC San Diego, and California State University Monterey Bay, we created a parasite dataset of unprecedented size and taxonomic resolution. We sampled parasites of coral reef fishes from 19 replicate islands in the central equatorial Pacific to study how biodiversity and parasite burden covary.

This data set contains COI mtDNA sequence accession numbers, collection locations, and life stages for trematodes from the family Microscaphidiidae and Paramphistomatidae from fish collections across the Northern Line Islands and French Polynesia archipelagos collected between 2009 and 2023. Specifically this data set represents 87 Microscaphidiidae samples from the Northern Line Islands and 132 Paramphistomatidae from French Polynesia.
DOI: 10.26008/1912/bco-dmo.954941.1
title: Dissolved trace metal and macronutrient concentrations from field samples collected during the EXPORTS North Atlantic campaign at the Porcupine Abyssal Plain-Sustained Observatory (PAP-SO) site on board the RRS Discovery (DY131) in May 2021

description: This dataset includes dissolved trace metal (manganese, iron, cobalt, nickel, copper, cadmium, zinc, lead) and macronutrient (nitrate+nitrite, phosphate, silicic acid, nitrite) concentration data from field samples collected during the EXPORTS North Atlantic campaign at the Porcupine Abyssal Plain-Sustained Observatory (PAP-SO) site on board the RRS Discovery (DY131). These data were primarily collected opportunistically during the course of water collection for incubation experiments (see separate dataset for incubations), and provide field context for the shipboard incubation experiments as well as temporal characterization of a retentive anticyclonic eddy occupied over the course of the cruise.

This research 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.
DOI: 10.26008/1912/bco-dmo.942938.1
title: Gene expression of Pocillopora damicornis collected from reef of Heron Island, southern Great Barrier Reef from Jan 2021 to Feb 2021

description: Corals residing in habitats that experience frequent seawater pCO2 variability may possess an enhanced capacity to cope with ocean acidification. Yet, we lack a clear understanding of the molecular toolkit enabling acclimatization to environmental extremes, and how life-long exposure to pCO2 variability influences biomineralization. 

We examined the gene expression responses and micro-skeletal characteristics of Pocillopora damicornis originating from the reef flat and reef slope of Heron Island, southern Great Barrier Reef. The reef flat (454 ± 3.0) and reef slope (418 ± 1.9) had similar mean seawater pCO2 (µatm; mean ± SE), but the reef flat experienced twice the mean daily pCO2 amplitude (range of 797v. 399  µatm day-1, respectively). A controlled mesocosm experiment was conducted over eight weeks, from mid-January to late-March 2021, exposing P. damicornis from the reef slope and reef flat to stable (218±9) or variable (911±31) diel pCO2 fluctuations (µatm; mean ± SE). This dataset includes the gene expression data for these samples.
DOI: 10.26008/1912/bco-dmo.945987.1
title: Bacteria Counts CTD Bottle Measurements from CTD samples collected during R/V Hugh R. Sharp cruise HRS2204 from Apr to May 2022

description: These data include measurements of free bacteria in whole seawater and particle-associated bacteria for particles larger than 1.2 microns from CTD bottle water samples collected during a cruise on the Northeast Continental Shelf to study particle disaggregation. One cruise was completed aboard the R/V Hugh R. Sharp from 2022-04-21 through 2022-05-02 (HRS 22-04), which visited a variety of stations and hydrodynamic environments associated with the Northeast Continental Shelf of the United States. Stations ranged from Georges Bank and the Great South Channel near the Gulf of Maine, Martha's Vineyard, the mouth of the Sakonnet River near Newport, Rhode Island, and Hudson Canyon near New York. These data were collected as part of a study to clarify the importance of hydrodynamic forces on the cohesion, aggregation, and breakup of marine particles. These data were collected by Dr. Austin Grubb of the Rutgers University on the cruise led by Dr. Matthew Rau (chief scientist) of the George Washington University.
DOI: 10.26008/1912/bco-dmo.945964.1
title: Transparent Exopolymer Particles (TEP) from CTD samples collected during R/V Hugh R. Sharp cruise HRS2204 from Apr to May 2022

description: These data include measurements of transparent exopolymer particles (TEP) from CTD bottle water samples collected during a cruise on the Northeast Continental Shelf to study particle disaggregation. One cruise was completed aboard the R/V Hugh R. Sharp from 2022-04-21 through 2022-05-02 (HRS22-04), which visited a variety of stations and hydrodynamic environments associated with the Northeast Continental Shelf of the United States. Stations ranged from Georges Bank and the Great South Channel near the Gulf of Maine, Martha's Vineyard, the mouth of the Sakonnet River near Newport, Rhode Island, and Hudson Canyon near New York. TEP measurements were performed following recently published methods relying on Alcian Blue staining protocols and spectrophotometry. These data were collected as part of a study to clarify the importance of hydrodynamic forces on the cohesion, aggregation, and breakup of marine particles. These data were collected by Dr. Kieran Curran of the University of New Hampshire on the cruise led by Dr. Matthew Rau (chief-sci) of the George Washington University.
DOI: 10.26008/1912/bco-dmo.945973.1
title: Biogenic Silica from CTD samples collected during R/V Hugh R. Sharp cruise HRS2204 from Apr to May 2022

description: These data include measurements of biogenic silica from CTD bottle water samples collected during a cruise on the Northeast Continental Shelf to study particle disaggregation. One cruise was completed aboard the R/V Hugh R. Sharp from 2022-04-21 through 2022-05-02 (HRS22-04), which visited a variety of stations and hydrodynamic environments associated with the Northeast Continental Shelf of the United States. Stations ranged from Georges Bank and the Great South Channel near the Gulf of Maine, Martha's Vineyard, the mouth of the Sakonnet River near Newport, Rhode Island, and Hudson Canyon near New York. These data were collected as part of a study to clarify the importance of hydrodynamic forces on the cohesion, aggregation, and breakup of marine particles. These data were collected by Dr. Austin Grubb of the Rutgers University on the cruise led by Dr. Matthew Rau (chief-sci) of the George Washington University.
DOI: 10.26008/1912/bco-dmo.945981.1
title: Turbulence microstructure profiles collected during R/V Hugh R. Sharp cruise HRS2204 from Apr to May 2022

description: These data include profiles of turbulence dissipation rate obtained from a Rockland Scientific VMP-250 deployed during a cruise on the Northeast Continental Shelf to study particle disaggregation. One cruise was completed aboard the R/V Hugh R. Sharp from 2022-04-21 through 2022-05-02 (HRS22-04), which visited a variety of stations and hydrodynamic environments associated with the Northeast Continental Shelf of the United States. Cruise stations where dissipation rate profiles were obtained ranged from Georges Bank and the Great South Channel near the Gulf of Maine, and Hudson Canyon near New York. These data were collected as part of a study to clarify the importance of hydrodynamic forces on the cohesion, aggregation, and breakup of marine particles. These data were collected by Dr. Matthew Rau (chief scientist) of the George Washington University.
DOI: 10.26008/1912/bco-dmo.948396.1
title: Dark DIC Fixation Rates collected from CliOMZ AT50-10 in the Eastern Pacific Ocean from May to June 2023 (CliOMZ project)

description: These data include dark dissolved inorganic carbon (DIC) fixation rates measured on R/V Atlantis (CliOMZ AT50-10 expedition) from Golfito, Costa Rica to San Diego, USA in May-June 2023.  We aimed at quantifying dark DIC fixation rates associated with nitrification by specifically inhibiting ammonia-oxidizing microorganisms. Instruments used were a CTD profiler and a scintillation counter (Perkin-Elmer Tri-Carb 2910 TR).
DOI: 10.26008/1912/bco-dmo.948411.1
title: Heterotrophic Production Rates collected from CliOMZ AT50-10 in the Eastern Pacific Ocean from May to June 2023 (CliOMZ project)

description: These data include heterotrophic production rates measured on R/V Atlantis (CliOMZ AT50-10 expedition) from Golfito, Costa Rica to San Diego, USA in May-June 2023.  We aimed at comparing heterotrophic and chemoautotrophic microbial activities at the selected study sites. Instruments used were a CTD profiler and a scintillation counter (Perkin-Elmer Tri-Carb 2910 TR).
DOI: 10.26008/1912/bco-dmo.911407.1
title: OOI Global Irminger Sea Array CTD and Discrete Water Sampling Data from Mooring Overturning Cruises in the Irminger Sea from 2014-2023 (OOI Cruise Data project)

description: The hydrographic sampling performed by The NSF Ocean Observatories Initiative Coastal and Global Scale Nodes(OOI CGSN) as part of each Array turn represents a significant collection of valuable physical, chemical, and biological information. In addition to the CTD, collected hydrographic data include discrete oxygen, salinity, nutrient (nitrate, nitrite, silicate, phosphate, ammonium), chlorophyll, and carbon system measurements. These data serve several important functions. First, they are necessary for the calibration and evaluation of the moored instrumentation at each Array. Furthermore, the annual (Global) or biannual (Coastal) collection of data at the same locations provides a unique timeseries of a large set of water properties following established community standards and methods, independent of its association with the OOI moorings.

The analysis of collected water samples for the parameters listed above are performed by a number of outside labs on behalf of OOI-CGSN. Consequently, the water sampling data for a given cruise is distributed among a number of different files. The Discrete Sampling Summary integrates the related CTD, metadata, and discrete water sample data into a single file. Additionally, it synthesizes qualitative and quantitative information about the quality of a measurement into data quality flags for each associated parameter which follow WOCE-standards. 

The final product is the Discrete Sampling Summary spreadsheet which contains the metadata, CTD data, and discrete water sample data into a single spreadsheet with data quality flags.

This dataset includes hydrographic data from the Global Irminger Sea Array located in the North Atlantic to the southeast of Greenland.This region experiences high winds and large surface waves, strong atmosphere-ocean exchanges of energy and gases, carbon dioxide sequestration, high biological productivity, and an important fishery. It is one of the few places on Earth with deep-water formation that feeds the large-scale thermohaline circulation.
DOI: 10.26008/1912/bco-dmo.923122.1
title: OOI Global Station Papa Array CTD and Discrete Water Sampling Data from Mooring Overturning Cruises in the Gulf of Alaska from 2013 to 2023 (OOI Cruise Data project)

description: The hydrographic sampling performed by OOI-CGSN (the Ocean Observatories Initiative - Coastal and Global Scale Nodes) as part of each Array turn represents a significant collection of valuable physical, chemical, and biological information. In addition to the CTD, collected hydrographic data include discrete oxygen, salinity, nutrient (nitrate, nitrite, silicate, phosphate, ammonium), chlorophyll, and carbon system measurements. These data serve several important functions. First, they are necessary for the calibration and evaluation of the moored instrumentation at each Array. Furthermore, the annual (Global) or biannual (Coastal) collection of data at the same locations provides a unique time series of a large set of water properties following established community standards and methods, independent of its association with the OOI moorings.

The analyses of collected water samples for the parameters listed above are performed by a number of outside labs on behalf of OOI-CGSN. Consequently, the water sampling data for a given cruise is distributed among a number of different files. The Discrete Sampling Summary integrates the related CTD, metadata, and discrete water sample data into a single file. Additionally, it synthesizes qualitative and quantitative information about the quality of a measurement into data quality flags for each associated parameter which follow WOCE-standards.

The final product is the Discrete Sampling Summary spreadsheet which contains the metadata, CTD data and discrete water sample data into a single spreadsheet with data quality flags.

This dataset includes hydrographic data from the Global Station Papa Array located in the Gulf of Alaska next to the NOAA Pacific Marine Environmental Laboratory (PMEL) Surface Buoy. The region is extremely vulnerable to ocean acidification, has a productive fishery, and low eddy variability. It is impacted by the Pacific Decadal Oscillation and adds to a broader suite of OOI and other observatory sites in the Northeast Pacific.