cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26008/1912/bco-dmo.544479.1
title: ADCP data from the South Atlantic Bight (SAB) continental shelf off Long Bay (Mooring #2) at 76 meters collected from January to April in 2012 (Long Bay Wintertime Bloom project)

description: Time series of horizontal and vertical current profiles measured every 5 minutes (300sec) with an acoustic doppler current profiler (ADCP) mounted on the bottom frame looking upward. The depth resolution is 1 meter. The mooring is located at Long Bay, S. Carolina in the South Atlantic Bight and recorded from 76 meters depth.
DOI: 10.26008/1912/bco-dmo.908380.1
title: Atlantic sediment petrography analysis data from mult-corer samples collected in the Amazon Delta and Sierra Leone Rise during R/V Endeavor cruises EN-480 and EN-481 in 2010

description: These data include the sediment petrographic analysis for Amazon Delta and Sierra Leone Rise Sediments. These data were collected on multiple cruises in throughout the Atlantic; specifically, in the Amazon Delta (EN-480; July 2010) and Sierra Leone Rise (EN-481; August 2010). Sediments were collected using multi-corer and kept frozen until analysis.
Sediments were analyzed quantitatively via microscopy by Dr. Bertrand Ligouis at the Laboratories for Applied Organic Petrology at the University of Tübingen, Germany. These data help better constrain pyrogenic carbon concentrations and accumulation rates into Atlantic sediments.

These data were published in St.Laurent, et al. (2023).
DOI: 10.26008/1912/bco-dmo.908387.1
title: Atlantic sediment radiocarbon from mult-corer samples collected in the Amazon Delta and Sierra Leone Rise during R/V Endeavor cruises EN-480 and EN-481 in 2010

description: These data include the sediment radiocarbon analysis for Amazon Delta and Sierra Leone Rise Sediments. These data were collected on multiple cruises in throughout the Atlantic; specifically, in the Amazon Delta (EN-480; July 2010) and Sierra Leone Rise (EN-481; August 2010). Sediments were collected using multi-corer and kept frozen until analysis.
Radiocarbon was measured for the Amazon Delta and Sierra Leone Rise regions at the National Ocean Sciences-Accelerator Mass Spectrometry (NOSAMS) facility at Woods Hole Oceanographic Institute using the ‘reconnaissance’ method.  

These data were published in St.Laurent, et al. (2023).
DOI: 10.26008/1912/bco-dmo.885574.1
title: Chemotaxis of Vibrio alginolyticus to control/phage-infected Synechococcus exudates from 2020-2021 (VIC project)

description: This data set summarises the chemotactic response of a model marine bacteria (Vibrio alginolyticus YM4 wild-type) to filtered exudates of the cyanobacteria Synechococcus sp WH8102. Two filtrate sets were collected, each spanning 6 time points (named T1 -&gt; T6), with the initial assays split into 4 biological replicates (named A,B,C,D). The two treatments were:

1) A control treatment (named &quot;Control&quot;, or shortened to &quot;C&quot;)
2) A phage-infected treatment (named &quot;Phage&quot;, or shortened to &quot;P&quot;), where host Synechococcus were infected with the T-4 like Myovirus S-SSM5, with data collected over the pre-lysis cycle.

These treatments are fully described in: https://doi.org/10.1038/s43705-022-00169-6. The filtrates were kept frozen at -80C in 1ml aliquots, and only thawed to room temperature immediately prior to experimental use.

For each time point (T1-6), and replicate (A-D), three sets of chemotaxis assays were collected: Phage vs ASW, Control vs ASW, Phage vs Control. (Each with three biological replicates with fresh cell suspensions, with three physical replicates per sample, totaling nine samples at each time point/sample replicate). The chemotactic preference of Vibrio alginolyticus was measured by analyzing the cell distribution over time, and comparing the cell populations on opposite sides of the channel. Upon completion of the assays, the data shows that the bacteria will preferentially chemotax towards the phage-infected cells, with the strongest response occurring immediately in the infection cycle (T1), contrary to the assumed belief that it is post-lysis behavior that drives microbial chemotaxis in the oceans.
DOI: 10.26008/1912/bco-dmo.908357.1
title: Atlantic sediment polycyclic aromatic hydrocarbon (PAH)  concentrations from samples collected using a multi-corer and box corer from multiple cruises throughout the Atlantic between 1994 and 2010

description: These data include sediment polycyclic aromatic hydrocarbon (PAH) concentrations. These data were collected on multiple cruises in throughout the Atlantic; specifically, in the Amazon Delta (EN-480; July 2010), Sierra Leone Rise (EN-481; August 2010), Niger Delta (GeoB 4901, GeoB 4903, GeoB 4904, GeoB 4905, GeoB 4907, and GeoB 4908; February/March 1998), Senegal Delta (GeoB 9501; April/May 2003), and Northwest Argentina Basin (GeoB 2814; July/August 1994). Sediments were collected using multi-corer and box corer samples and kept frozen until analysis.

Polycyclic aromatic hydrocarbon concentrations were determined by gas chromatography mass spectrometry. A total of 24 PAH analytes were quantified using ChemStation software. These data help better constrain pyrogenic carbon sources and PAH accumulation rates into Atlantic sediments.

These data were published in St.Laurent, et al. (2023).
DOI: 10.26008/1912/bco-dmo.908373.1
title: Atlantic sediment black carbon, total organic carbon, and stable carbon ratio (13C) values from samples collected using a multi-corer and box corer from multiple cruises throughout the Atlantic between 1994 and 2010

description: These data include sediment black carbon and total organic carbon concentrations and stable carbon ratio (13C) values. These data were collected on multiple cruises in throughout the Atlantic; specifically, in the Amazon Delta (EN-480; July 2010), Sierra Leone Rise (EN-481; August 2010), Niger Delta (GeoB 4901, GeoB 4903, GeoB 4904, GeoB 4905, GeoB 4907, and GeoB 4908; February/March 1998), Senegal Delta (GeoB 9501; April/May 2003), and Northwest Argentina Basin (GeoB 2814; July/August 1994). Sediments were collected using multi-corer and box corer samples and kept frozen until analysis.

Total organic carbon and black carbon concentrations and stable carbon ratio values were determined on an isotope ratio mass spectrometer coupled to an elemental analyzer. The black carbon fraction was determined using the chemothermal oxidation at 375°C method. These data help better constrain pyrogenic carbon accumulation rates into Atlantic sediments.

These data were published in St.Laurent, et al. (2023).
DOI: 10.26008/1912/bco-dmo.885701.1
title: Multiplexed Microfluidic Screening of Bacterial Chemotaxis Modeling Results from 2019-2022 (VIC project)

description: Microorganism sensing of and responding to ambient chemical gradients regulates a myriad of microbial processes that are fundamental to ecosystem function and human health and disease. The development of efficient, high-throughput screening tools for microbial chemotaxis is essential to disentangling the roles of diverse chemical compounds and concentrations that control cell nutrient uptake, chemorepulsion from toxins, and microbial pathogenesis. 

Here, we present a novel microfluidic multiplexed chemotaxis device (MCD), which uses serial dilution to simultaneously perform six parallel bacterial chemotaxis assays that span five orders of magnitude in chemostimulant concentration on a single chip. We first validated the dilution and gradient generation performance of the MCD, and then compared the measured chemotactic response of an established bacterial chemotaxis system (Vibrio alginolyticus) to a standard microfluidic assay. 

Next, the MCD's versatility was assessed by quantifying the chemotactic responses of different bacteria (Psuedoalteromonas haloplanktis, Escherichia coli) to different chemoattractants and chemorepellents. The MCD vastly accelerates the chemotactic screening process, which is critical to deciphering the complex sea of chemical stimuli underlying microbial responses.
DOI: 10.26008/1912/bco-dmo.907866.1
title: Seawater nutrient/metabolite and flow cytometry metadata - Picoplankton incubation experiment 2020

description: Sponges are known for their efficient uptake of organic matter, both particulate (POM) and dissolved (DOM), from the water column, but there is also evidence that sponges, and their associated symbionts, produce DOM rich in nucleosides and other unidentified metabolites that is transferred to the surrounding reef via their exhalent seawater. However, little is known about the effect of this sponge metabolome on another vital component of reef ecosystems, picoplankton. If the metabolome impacts the structure of the picoplankton community, then there may be a subsequent alteration to the reef dissolved nutrient pool. To address these questions, we exposed Caribbean reef picoplankton communities to either filtered reef sea water (control) or a sponge exhalent metabolome mixture from two Caribbean sponges, Niphates digitalis and Xestospongia muta, in closed, dark incubations for 24 - 48 hours.  Sponge exhalent and reef sea water, for use as media in the incubation experiment, was collected on 13-December-2020 from Looe Key Reef Sanctuary Preservation Area (24.54605, -81.40610) in the Florida Keys National Marine Sanctuary (FKNMS) as permitted via FKNMS-2020-149. We used flow cytometry to identify any changes in picoplankton cell concentrations following exposure to sponge-derived nutrients. We also used a cutting-edge suite of analyses to identify nutrient components contributed by the sponge holobiont to reef water and to monitor changes in the incubation bottles, including: targeted and untargeted metabolomics, fluorescent DOM (fDOM), dissolved combined neutral sugars (DCNS), total organic carbon (TOC), total nitrogen (TN), and inorganic nutrients.
DOI: 10.26008/1912/bco-dmo.644012.1
title: Autonomous Underwater Vehicle Monterey Bay Time Series - AUV Makai CTD

description: Autonomous Underwater Vehicle Monterey Bay Time Series - AUV Makai CTD
DOI: 10.26008/1912/bco-dmo.825891.3
title: Water column dissolved radium-226 and radium-228 from Leg 1 (Seattle, WA to Hilo, HI) of the US GEOTRACES Pacific Meridional Transect (PMT) cruise (GP15, RR1814) on R/V Roger Revelle from September to October 2018

description: Water column dissolved radium-226 and radium-228 from Leg 1 (Seattle, WA to Hilo, HI) of the US GEOTRACES Pacific Meridional Transect (PMT) cruise (GP15, RR1814) on R/V Roger Revelle from September to October 2018. In this dataset version (v3), the radium-226 data have been updated from the previous version of the dataset.
DOI: 10.26008/1912/bco-dmo.825947.3
title: Water column dissolved radium-226 and radium-228 from Leg 2 (Hilo, HI to Papeete, French Polynesia) of the US GEOTRACES Pacific Meridional Transect (PMT) cruise (GP15, RR1815) on R/V Roger Revelle from October to November 2018

description: Water column dissolved radium-226 and radium-228 from Leg 2 (Hilo, HI to Papeete, French Polynesia) of the US GEOTRACES Pacific Meridional Transect (PMT) cruise (GP15, RR1815) on R/V Roger Revelle from October to November 2018. In this dataset version (v3), the radium-226 data have been updated from the previous version of the dataset.
DOI: 10.26008/1912/bco-dmo.906617.1
title: A study using amplicon sequencing of the viral mcp gene of dinoRNAVs to analyze their dynamics in the reef-buliding coral &lt;i&gt;Porites c.f. lobata&lt;/i&gt; at three reef zones around Moorea, French Polynesia

description: These data are from a study that used amplicon sequencing of the viral major capsid protein (mcp) gene of positive-sense single-stranded RNA viruses known to infect symbiotic dinoflagellates ('dinoRNAVs') to analyze their dynamics in the reef-building coral, Porites lobata. The investigators repeatedly sampled 54 colonies across three environmentally distinct reef zones (fringing reef, back reef, and forereef) around the island of Moorea, French Polynesia over a three-year period and spanning a reef-wide thermal stress event. Temperature was measured in each reefzone to quantify differences in temperature according to reef zone and during the thermal stress event. 

Images were also taken of all colonies at each sample point in order to analyze colony health and partial mortality. By the end of the sampling period, 28% (5/18) of corals in the fringing reef experienced partial mortality versus 78% (14/18) of corals in the forereef. Over 90% (50/54) of colonies had detectable dinoRNAV infections. Reef zone influenced the composition and richness of viral mcp amino acid types ('aminotypes'), with the fringing reef containing the highest aminotype richness. The reef-wide thermal stress event significantly increased aminotype dispersion, and this pattern was strongest in the colonies that experienced partial mortality. Amplicon sequencing was also used to amplify the D1–D2 region of the 28 S large subunit (LSU) nuclear ribosomal RNA gene and to ultimately identify the dominant lineages of Symbiodinaiceae (the hosts of dinoRNAVs) in all P. lobata colonies. All colonies were dominated by Cladocopium C15 symbionts. These findings demonstrate that dinoRNAV infections respond to environmental fluctuations experienced in situ on reefs.
DOI: 10.26008/1912/bco-dmo.907873.1
title: Processed CTD data (binned) from 20 casts conducted on R/V Pelican cruise PE23-20 in the Northern Gulf of Mexico in May 2023

description: This dataset includes the processed CTD data from 20 casts conducted on R/V Pelican cruise PE23-20 in the Northern Gulf of Mexico in May 2023. Data were averaged into 1-meter depth bins.
DOI: 10.26008/1912/bco-dmo.908342.1
title: 1-decibar binned CTD data from 103 stations collected during R/V Roger Revelle cruise RR2004 along the 150W meridian from 30S to 60S

description: This dataset includes the processed CTD data from 103 stations collected during R/V Roger Revelle cruise RR2004, which sailed from Honolulu, Hawaii on December 26, 2020 to the Southern Ocean and returned to Honolulu on February 23, 2021. Data have been binned by pressure into 1-decibar bins.
DOI: 10.26008/1912/bco-dmo.907507.1
title: Comparative analysis of tissue biomass and energy reserves of six coral species from nearshore and offshore reefs in Palau, Micronesia during March 2017

description: 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.
DOI: 10.26008/1912/bco-dmo.908001.1
title: Processed CTD data from 20 casts conducted on R/V Pelican cruise PE23-20 in the Northern Gulf of Mexico in May 2023

description: This dataset includes the processed CTD data from 20 casts conducted on R/V Pelican cruise PE23-20 in the Northern Gulf of Mexico in May 2023. Data have not been binned by depth.
DOI: 10.26008/1912/bco-dmo.663183.1
title: Particulate data collected on R/V Melville (MV1405, IrnBru) along the California coast in July 2014

description: This dataset includes trace element concentrations in particles collected with GO-Flo bottles on R/V Melville (MV1405, IrnBru) along the California coast in July 2014.
DOI: 10.26008/1912/bco-dmo.905077.1
title: Ultrahigh resolution Mass Spectrometry data from a depth profile collected at 200 m depth intervals at the Bermuda Atlantic Time Series Station (BATS) in August 2019 and at the Hawaii Ocean Time Series station (HOTS) Aloha in July 2021

description: This data set contains ultrahigh resolution mass spectrometric data collected at BATS and HOTS at 200 m depth intervals in August 2019, and July 2021, respectively.
DOI: 10.26008/1912/bco-dmo.905149.1
title: Fluorescence data from a depth profile collected at 200 m depth intervals at the Bermuda Atlantic Time Series Station (BATS) in August 2019 and at the Hawaii Ocean Time Series Staiton Aloha in July 2021

description: This dataset contains the Parallel Factor Analysis data derived from excitation emission matrix data from solid-phase extracted.
DOI: 10.26008/1912/bco-dmo.553241.1
title: Diazotroph abundances (nifH gene) from multiple HOE-DYLAN cruises from July to September 2012 (C-MORE project)

description: This dataset contains diazotroph abundances determined using quantitative PCR (qPCR) targeting the nifH gene, from a long-term occupation of Station ALOHA in the North Pacific Subtropical Gyre (July to September 2012). The goal of this extended field sampling was to characterize temporal (diel to seasonal) variability in microbial processes, and link these changes to the biogeochemistry of the region. Part of this entailed characterizing the temporal and spatial dynamics of the diazotroph (N2-fixing) community.
DOI: 10.26008/1912/bco-dmo.906188.1
title: Acartia tonsa development time for transgenerational experiment

description: These data include development (i.e. maturation) time measurements for A. tonsa during multigenerational exposure to ocean warming (OW), ocean acidification (OA), and combined ocean warming and acidification (OWA) including a benign ambient condition temperature and CO2 control (AM). These data were collected every third generation between F0 and F15 and at F25 for all treatments. Data were calculated for naupliar development time (i.e. naupliar stage 1 to naupliar stage 6) and copepodite development time (i.e. copepodite stage 1 to adulthood).
DOI: 10.26008/1912/bco-dmo.906222.1
title: Acartia tonsa survival data for transgenerational ocean warming and acidification data

description: These data include survivorship measurements collected for Acartia tonsa during multigenerational exposure to ocean warming (OW), ocean acidification (OA), and combined ocean warming and acidification (OWA) including a benign ambient condition temperature and CO2 control (AM). These data were collected every third generation between F0 and F15 and at F25 for all treatments. Data was collected as the proportion of surviving individuals on any day (x) relative to the starting number of individuals for an single experiment.
DOI: 10.26008/1912/bco-dmo.906342.1
title: Acartia tonsa body size data for transgenerational ocean warming and acidification experiments

description: These data include body size measurements collected for Acartia tonsa during multigenerational exposure to ocean warming (OW), ocean acidification (OA), and combined ocean warming and acidification (OWA) including a benign ambient condition temperature and CO2 control (AM). These data were collected every third generation between F0 and F15 and at F25 for all treatments. Data was collected on C1 juveniles (C1), adult males (C6M), and adult females (C6F). Individual copepods were stained with non-acid lugol’s solution, isolated in a drop of filtered seawater, and photographed using a Lumenera Infinity5-5 camera (Teledyne Lumenera, Ottawa, ON, CAN) attached to an inverted microscope (Olympus IX70, Olympus, Waltham, MA, USA) after the water droplet had been removed. Body size was measured as prosome length at C1 and C6 stages using Image-J (https://imagej.nih.gov/ij/).
DOI: 10.26008/1912/bco-dmo.906780.1
title: Acartia tonsa egg production rate and egg hatching success for transgenerational exposure to ocean warming and ocean acidification

description: These data include egg production rate (EPR) and egg hatching success (HS) data for Acartia tonsa during multigenerational exposure to ocean warming (OW), ocean acidification (OA), and combined ocean warming and acidification (OWA) including a benign ambient condition temperature and CO2 control (AM). These data were collected every third generation between F0 and F15 and at F25 for all treatments. Data was collected as the number of eggs produced and hatched offspring per female per treatment at each generation.
DOI: 10.26008/1912/bco-dmo.888772.1
title: Particulate trace element concentrations measured during four cruises in 2019 at locations around the Bermuda Atlantic Time-series Study (BATS) station

description: Particulate trace element concentrations were measured during 4 BATS cruises (March, May, August, November) in 2019 as part of the Bermuda Atlantic Iron Timeseries (BAIT) project. Three stations were sampled around the BATS station to 1800 meters (m) with a trace-metal clean rosette system. Collected water was passed through 0.45-micrometer (um) Supor membranes and subsequently subjected to both a weak acid leach and a total digest. Samples were analyzed via magnetic sector ICPMS for aluminum (Al), phosphorus (P), titanium (Ti), vanadium (V), manganese (Mn), iron (Fe), cobalt (Co), nickel (Ni), copper (Cu), zinc (Zn), cadmium (Cd), barium (Ba), lead (Pb), and thorium (Th). Data have been used to partition particulate Fe into lithogenic, biogenic, and authigenic fractions, and to understand controls on Fe cycling in the upper ocean over a seasonal cycle.
DOI: 10.26008/1912/bco-dmo.904895.1
title: Element quotas of individual phytoplankton cells from samples collected on the US GEOTRACES Arctic cruise GN01 (HLY1502) on USCGC Healy in August-October 2015

description: Individual phytoplankton cells were collected on the US GEOTRACES Arctic cruise GN01 (HLY1502) on USCGC Healy in August-October 2015. The elemental (Si, P, S, Mn, Fe, Co, Ni, Cu, Zn) content of each cell was measured with synchrotron x-ray fluorescence (SXRF). Carbon was calculated from biovolume. Data can be used to assess biogenic particulate metal fraction, as well as changes in the accumulation of these elements across environmental gradients. Data are part of the larger international GEOTRACES dataset.
DOI: 10.26008/1912/bco-dmo.907003.1
title: Nutrient transfer experiments with host coral and symbionts under varying environmental conditions conducted March 2014 and March 2015

description: 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.