cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26008/1912/bco-dmo.956486.1
title: Microsphere counts from Oikopleura dioica houses following feeding incubations with three microsphere sizes (for each functionalized microsphere) available in environmentally relevant concentrations

description: Cell surface properties can strongly mediate microbial interactions with predators in soil and host-pathogen systems. Yet, the role of microbial surface properties in avoiding or enhancing predation in the ocean remains a research frontier. Appendicularians are globally abundant marine suspension feeders that capture marine microorganisms in a complex mucous filtration system. We used artificial microspheres to test whether the surface properties of prey particles influenced selection by the appendicularian, O. dioica.  Across microsphere sizes (0.5, 1, 2 and 3 µm) and concentrations (~103-106 particles ml-1), which were varied to represent realistic microbial communities, carboxylate- and amine-modified particles were handled differently by the appendicularians. The carboxylate-modified particles were enriched in the gut while the amine-modified particles were enriched in the mucous filters, leading to different particle fates.

This dataset includes microsphere counts from appendicularian houses for incubations with microsphere concentrations varied with size.
DOI: 10.26008/1912/bco-dmo.957150.1
title: Microsphere counts from Oikopleura dioica guts following feeding incubations with two microsphere sizes (for each functionalized microsphere) available in equal concentration.

description: Cell surface properties can strongly mediate microbial interactions with predators in soil and host-pathogen systems. Yet, the role of microbial surface properties in avoiding or enhancing predation in the ocean remains a research frontier. Appendicularians are globally abundant marine suspension feeders that capture marine microorganisms in a complex mucous filtration system. We used artificial microspheres to test whether the surface properties of prey particles influenced selection by the appendicularian, Oikopleura dioica . Across microsphere sizes (0.5, 1, 2 and 3 µm) and concentrations (~103-106 particles ml-1), which were varied to represent realistic microbial communities, carboxylate- and amine-modified particles were handled differently by the appendicularians. The carboxylate-modified particles were enriched in the gut while the amine-modified particles were enriched in the mucous filters, leading to different particle fates. 

This dataset includes microsphere counts from appendicularian guts following feeding incubations with two microsphere sizes (for each functionalized microsphere) available in equal concentration.
DOI: 10.26008/1912/bco-dmo.923530.1
title: 3D coordinates to calculate speed and nearest neighbor distances in each trial of Antarctic krill in lab experiments at Palmer Station, Antarctica in November 2022.

description: Laboratory experiments were conducted on schools of Antarctic krill in the novel annular flume at Palmer Station, Antarctica, in November 2022.  Using overhead camera along with stereophotogrammetry system the swimming trajectories of krill were recorded while altering flow and light levels in the tank. 

The purpose of the study is to understand how Antarctic krill schooling structure changes under environmental cues such as flow and light, with the hope that distribution of these important species can be predicted through knowledge of the environment in the wild. Southern Ocean ecologists, biologists, and oceanographers in general could benefit from this work. Kuvvat Garayev and David Murphy from University of South Florida were responsible for the collection and interpretation of data.
DOI: 10.26008/1912/bco-dmo.956298.1
title: Microsphere counts from incubation chambers of Oikopleura dioica prior to and following feeding incubations for experiment with artificial microspheres with two functionalized surfaces in three sizes

description: Cell surface properties can strongly mediate microbial interactions with predators in soil and host-pathogen systems. Yet, the role of microbial surface properties in avoiding or enhancing predation in the ocean remains a research frontier. Appendicularians are globally abundant marine suspension feeders that capture marine microorganisms in a complex mucous filtration system. We used artificial microspheres to test whether the surface properties of prey particles influenced selection by the appendicularian, O. dioica.  Across microsphere sizes (0.5, 1, 2 and 3 µm) and concentrations (~103-106 particles ml-1), which were varied to represent realistic microbial communities, carboxylate- and amine-modified particles were handled differently by the appendicularians. The carboxylate-modified particles were enriched in the gut while the amine-modified particles were enriched in the mucous filters, leading to different particle fates. 
This dataset includes incubation chamber concentrations at the beginning and end of feeding incubations.
DOI: 10.26008/1912/bco-dmo.957135.1
title: Microsphere counts from Oikopleura dioica guts following feeding incubations with three microsphere sizes (for each functionalized microsphere) available in environmentally relevant concentrations

description: Cell surface properties can strongly mediate microbial interactions with predators in soil and host-pathogen systems. Yet, the role of microbial surface properties in avoiding or enhancing predation in the ocean remains a research frontier. Appendicularians are globally abundant marine suspension feeders that capture marine microorganisms in a complex mucous filtration system. We used artificial microspheres to test whether the surface properties of prey particles influenced selection by the appendicularian, Oikopleura dioica.  Across microsphere sizes (0.5, 1, 2 and 3 µm) and concentrations (~103-106 particles ml-1), which were varied to represent realistic microbial communities, carboxylate- and amine-modified particles were handled differently by the appendicularians. The carboxylate-modified particles were enriched in the gut while the amine-modified particles were enriched in the mucous filters, leading to different particle fates. 

This dataset includes microsphere counts from appendicularian guts following feeding incubations with three microsphere sizes (for each functionalized microsphere) available in environmentally relevant concentrations.
DOI: 10.26008/1912/bco-dmo.923518.1
title: Rotation order parameters in each trial of Antarctic krill in lab experiments at Palmer Station, Antarctica in November 2022.

description: Laboratory experiments were conducted on schools of Antarctic krill in the novel annular flume at Palmer Station, Antarctica, in November 2022.  Using overhead camera along with stereophotogrammetry system the swimming trajectories of krill were recorded while altering flow and light levels in the tank. 

The purpose of the study is to understand how Antarctic krill schooling structure changes under environmental cues such as flow and light, with the hope that distribution of these important species can be predicted through knowledge of the environment in the wild. Southern Ocean ecologists, biologists, and oceanographers in general could benefit from this work. Kuvvat Garayev and David Murphy from University of South Florida were responsible for the collection and interpretation of data.
DOI: 10.26008/1912/bco-dmo.957165.1
title: Vanadium concentrations and isotope compositions of seawater samples collected from the South Atlantic Ocean (2010 UK GEOTRACES cruise GA10/D357 Leg 1) and the Black Sea (2013 MedBlack GEOTRACES cruise leg 2, 64PE373, R/V Pelagia)

description: These data include vanadium concentrations and isotope compositions of seawater samples from the South Atlantic Ocean (collected during the UK GEOTRACES cruise GA10/D357 Leg 1) and the shallow water columns in the Black Sea (collected during the leg 2 of the MedBlack GEOTRACES cruises, 64PE373, R/V Pelagia). The resin column chromatography method is utilized to purify vanadium. The vanadium concentrations were measured with the Agilent 7500ce Inductively Coupled Plasma Mass Spectrometry (ICP-MS) and Thermo Element 2 ICP‑MS, and the isotope compositions were measured with the Neptune Multi-collector-ICP-MS. These data assess the cycling of vanadium isotopes in seawater and were collected by Dr. Siqi Li at Florida State University.
DOI: 10.26008/1912/bco-dmo.825947.4
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 (v4), there have been corrections made to sample depths and sample ID numbers.
DOI: 10.26008/1912/bco-dmo.956590.1
title: Size fractionated mesozooplankton biomass, elemental and stable isotope measurements derived from plankton net tows conducted on R/V Roger Revelle cruise RR2201 (BLOOFINZ-IO) in the Argo Basin region off NW Australia during January-March 2022

description: This dataset contains size fractionated mesozooplankton biomass, elemental and stable isotope measurements derived from plankton net tows conducted from the cruise RR2201 of R/V Roger Revelle (BLOOFINZ-IO, January-March 2022) in the Argo Basin region off NW Australia.
DOI: 10.26008/1912/bco-dmo.825891.4
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 (v4), there have been corrections made to sample depths and sample ID numbers.
DOI: 10.26008/1912/bco-dmo.925841.2
title: Data and code from an examination of growth rates of cyanobacteria co-cultured with a heterotrophic bacterium, Alteromonas, under either present-day or predicted future pCO2 conditions

description: The CO2 content of Earth's atmosphere is rapidly increasing due to human consumption of fossil fuels. Models based on short-term culture experiments predict that major changes will occur in marine phytoplankton communities in the future ocean, but these models rarely consider how the evolutionary potential of phytoplankton or interactions within marine microbial communities may influence these changes. Here we experimentally evolved representatives of four phytoplankton functional types (silicifiers, calcifiers, coastal cyanobacteria, and oligotrophic cyanobacteria) in co-culture with a heterotrophic bacterium, Alteromonas, under either present-day or predicted future pCO2 conditions. The data and analysis code in this dataset show that the growth rates of cyanobacteria generally increased under both conditions, and the growth defects observed in ancestral Prochlorococcus cultures at elevated pCO2 and in axenic culture were diminished after evolution. Evolved Alteromonas were also poorer &quot;helpers&quot; for Prochlorococcus, supporting the assertion that the interaction between Prochlorococcus and heterotrophic bacteria is not a true mutualism but rather a competitive interaction stabilized by Black Queen processes. This work provides new insights on how phytoplankton will respond to anthropogenic change and on the evolutionary mechanisms governing the structure and function of marine microbial communities.
DOI: 10.26008/1912/bco-dmo.941657.2
title: Particle birefringence photon yield and particle beam attenuation coefficient derived from optical particle sensors deployed on GTC CTD casts on the U.S. GEOTRACES Pacific Meridional Transect (PMT) cruise (GP15) on R/V Roger Revelle from Sept-Nov 2018

description: This data set was derived from optical particle sensors deployed during casts of the GEOTRACES Trace Metal Carousel (GTC) as part of the GEOTRACES Pacific Meridional Transect (GP15 expedition). There are several related data files provided. Data files are provided containing the average of all optical data profiles at each station for 0-500 meters (m) depth as well as for the full depth of the water column (6000 meters). CTD data used in the profile data calculations are also provided.
DOI: 10.26008/1912/bco-dmo.949808.1
title: Beam attenuation coefficient, scattering, and fluorescence data derived from optical particle sensors deployed during casts of the ODF rosette on the GEOTRACES GP17-OCE cruise aboard R/V Roger Revelle (RR2214) from December 2022 to January 2023

description: This dataset contains recalculated and filtered transmissometer beam attenuation coefficient values for the ODF CTD from the GEOTRACES GP17-OCE cruise aboard R/V Roger Revelle (RR2214) from December 2022 to January 2023. Data files are provided containing the average of all optical data profiles at each station for 0-500 meters (m) depth (depth intervals of 5-meters) as well as for the full depth of the water column (6000 meters). Note scattering sensor data are only available in the ODF CTD data from GP17-OCE stations 18 onward.
DOI: 10.26008/1912/bco-dmo.956099.1
title: Cross-polarized photon yield, beam attenuation coefficient, scattering, and fluorescence data derived from optical particle sensors interfaced to a CTD deployed during McLane pump casts on the GP17-OCE R/V Roger Revelle (RR2214) cruise Dec 2022 - Jan 2023

description: This dataset was derived from optical particle sensors interfaced to a logging CTD and deployed during McLane Pump casts of the as part of the GEOTRACES GP17-OCE Expedition from the south Pacific gyre to Southern Ocean (R/V Roger Revelle RR2214). Data files are provided containing data for the 0-500 meter depth interval and also for the full water column. Files include measures of particle birefringence photon yield (units of parts per million per meter) and particle beam attenuation coefficient (units of per meter), scattering (units of  mFTU), and chlorophyll estimated from fluorescence readings. Note McLane CTD scatting profiles are available only at GP17-OCE stations 1, 3, 6, 8, 12, and 14. 

The two PIC sensors (PIC010, and PIC011) used in this study have been extensively documented (Bishop et al. 2022). Briefly, the sensors are built on a digital WETLabs C-star 25cm pathlength 6000-meter rated transmissometer. A 660-nanometer laser replaced the transmissometer's LED light source. High crossing efficiency polarizers were externally mounted to both source and receiver windows; the source polarizer is aligned with the plane of polarization of the laser and the receiver polarizer is crossed to minimize transmission of the direct beam. As light from the primary beam encounters birefringent particles, its plane of polarization is rotated and the sensor receives a signal. Details of methodology are included in Bishop et al., 2022 (doi: 10.3389/frsen.2022.837938).
DOI: 10.26008/1912/bco-dmo.956233.1
title: Cross-polarized photon yield, beam attenuation coefficient, and fluorescence data derived from optical particle sensors deployed during casts of the GTC rosette on the GP17-OCE R/V Roger Revelle (RR2214) cruise Dec 2022 - Jan 2023

description: This data set was derived from optical particle sensors deployed during casts of the GEOTRACES Trace Metal Carousel (GTC) as part of the GEOTRACES GP17-OCE Expedition from the south Pacific gyre to Southern Ocean (R/V Roger Revelle RR2214). Data files are provided containing data for the 0-500 meter depth interval and also for the full water column. Data include measures of particle birefringence photon yield (units of parts per million per meter) and particle beam attenuation coefficient (units of per meter).  

The two PIC sensors (PIC010, and PIC011) used in this study have been extensively documented (Bishop et al. 2022). Briefly, the sensors are built on a digital WETLabs C-star 25-centimeter pathlength 6000-meter rated transmissometer. A 660-nanometer laser replaced the transmissometer's LED light source. High crossing efficiency polarizers were externally mounted to both source and receiver windows; the source polarizer is aligned with the plane of polarization of the laser and the receiver polarizer is crossed to minimize transmission of the direct beam. As light from the primary beam encounters birefringent particles, its plane of polarization is rotated and the sensor receives a signal. Details of methodology are included in Bishop et al., 2022 (doi: 10.3389/frsen.2022.837938).
DOI: 10.26008/1912/bco-dmo.925872.2
title: Data and analysis code used to experimentally evolve representatives of four phytoplankton functional types in co-culture with a heterotrophic bacterium under either present-day or predicted future pCO2 conditions

description: The CO2 content of Earth's atmosphere is rapidly increasing due to human consumption of fossil fuels. Models based on short-term culture experiments predict that major changes will occur in marine phytoplankton communities in the future ocean, but these models rarely consider how the evolutionary potential of phytoplankton or interactions within marine microbial communities may influence these changes. Here we experimentally evolved representatives of four phytoplankton functional types (silicifiers, calcifiers, coastal cyanobacteria, and oligotrophic cyanobacteria) in co-culture with a heterotrophic bacterium, Alteromonas, under either present-day or predicted future pCO2 conditions. The data and analysis code in this dataset show that the genomes of all four phytoplankton as well as Alteromonas evolved over the course of the experiment.  Mutations in oxidative stress related genes (PTOX and thioredoxin reductase) were ubiquitous in evolved cultures of Prochlorococcus, suggesting adaptation in response to the well-studied deficiencies of this genus in terms of stress resistance in culture. With the exception of Prochlorococcus, most phytoplankton genomes appeared to experience mostly purifying selection, but Alteromonas genomes showed strong evidence of directional selection, particularly in co-culture with eukaryotic phytoplankton. Metabolic pathways were under intense selection for Alteromonas, and in particular adaptation to co-culture with eukaryotes appeared to select for a shift from growth on organic acids using an abbreviated TCA cycle to growth on more complex substrates using the complete TCA cycle.  This work provides new insights on how phytoplankton will respond to anthropogenic change and on the evolutionary mechanisms governing the structure and function of marine microbial communities.
DOI: 10.26008/1912/bco-dmo.953833.1
title: Mussel respiration data from experiments with mussels sourced in WA conducted at University of Washington Friday Harbor Laboratories, Friday Harbor, WA from 2020 to 2023

description: From 2021 to 2023, we measured aquatic respiration rates of three species of mytilid mussels (Mytilus trossulus Gould, M. galloprovincialis (L.), and M. californianus Conrad) under a range of water temperatures and velocities. M. californianus was obtained from the intertidal zone at Cattle Point, WA, USA (48.449966, -122.964350) and shipped in chilled coolers to the University of Washington Friday Harbor Laboratories (48.545998, -123.013046). M. trossulus and M. galloprovinicialis were obtained from a commercial supplier (Penn Cove Shellfish, Coupeville, WA, USA). Mussels were acclimated in a recirculating seawater.

We conducted lab experiments to investigate the effects of multiple environmental stressors (e.g., water temperature and velocity) on physiological responses in three closely-related mytilid mussel species. In closed respirometry chambers  (15 cm × 5 cm × 5 cm, L × W × H), we measured oxygen use by individual mussels under a combination of five temperatures (e.g.,  5, 11, 17, 23, and 29°C) and five velocities (2, 4, 6, 10, and 20 cm s-1) in a fully crossed design. Oxygen concentrations were measured with non-intrusive fiber-optic O2 sensors (Pyroscience, Aachen, DEU). Samples were recorded at a rate of 1 Hz and drift of the O2 probe was negligible (e.g., &lt;0.1% over 2 h at 20°C). Trials were run for 2 h, ensuring that a stable rate of decline could be identified. After each trial, all soft tissues were dried for 72 hours at 60°C (Lindeberg/Blue M Vacuum Oven; ThermoScientific Inc., Waltham, MA, USA) and weighed using an analytical balance (0.001 g; PA153 Pioneer Analytical Balance; Ohaus Corp., Pine Brook, NJ, USA). Data were analyzed to estimate respiration rates using the R package respR (Harianto, 2019).
DOI: 10.26008/1912/bco-dmo.928636.1
title: Sampling and experimental metadata related to 'Candidatus' Aquarickettsia rohweri transcriptome data from host Acropora cervicornis colonies collected at Looe Key, Lower Florida Keys from Apr to Jun of 2019

description: This dataset contains sampling and experimental metadata related to 'Candidatus' Aquarickettsia rohweri transcriptome sequences housed at the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA) under BioProject PRJNA1048415. All host colonies (Acropora cervicornis genotype ML-50) were collected from the same location, the Mote Marine Laboratory in situ coral nursery in Looe Key, Lower Florida Keys between April and June of 2019.

The Rickettsiales-like bacterial parasite, 'Candidatus' Aquarickettsia rohweri (NCBI:txid2602574) is a ubiquitous coral symbiont that is strongly linked to coral disease susceptibility in staghorn coral, and is undergoing positive selection across the Caribbean. Although ‘Ca.’ A. rohweri is a putative parasite, little is known about the activity of this bacterium in coral tissue. We performed a transcriptomic analyses of ‘Ca.’ A. rohweri populations during a 6-week nutrient exposure experiment.  ‘Ca.’ A. rohweri energy scavenging genes and those potentially involved during habitat transition are significantly upregulated during enrichment. Specifically, transcripts involved in signaling, virulence, two-component systems, and nutrient import genes are elevated under higher nutrients. These data support the predicted role of ‘Ca.’ A. rohweri as a highly active nutrient-responsive A. cervicornis parasite and provide a glimpse at the mechanism of induced disease susceptibility while implicating nutrient exposure in its horizontal transmission.
DOI: 10.26008/1912/bco-dmo.956635.1
title: Rainwater aluminum measurements of samples collected November 2018 to March 2020 at Tudor Hill, Bermuda as part of the Bermuda Atlantic Iron Timeseries project

description: These data include total-dissolvable aluminum concentrations in rainwater and corresponding rainfall amounts for composite samples collected during approximately weekly intervals on the sampling tower at Tudor Hill, Bermuda, between November 2018 and March 2020. The data allow estimates of the wet deposition of aluminum to the Bermuda region over the period of the BAIT project, which included cruises in the Bermuda Atlantic Time-series Study (BATS) region in March, May, August and November 2019. The rain samples were collected by staff of the Bermuda Institute of Ocean Sciences (the Tudor Hill tower facility is managed by Dr. Andrew Peters, with funding from NSF), and sample processing and analyses were completed in the laboratory of Dr. Peter Sedwick at Old Dominion University.