cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26008/1912/bco-dmo.861266.1
title: BIOS-SCOPE survey biogeochemical data as collected on Atlantic Explorer cruises (AE1614, AE1712, AE1819, AE1916) from 2016 through 2019

description: This dataset includes analyses from Niskin bottle samples collected on R/V Atlantic Explorer cruises as part of the BIOS-SCOPE campaign. Included are CTD data, and survey biogeochemical samples including inorganic nutrients, particulate organic carbon and nitrogen, dissolved organic carbon, dissolved organic nitrogen, total dissolved amino acids, bacterial abundance and production.
DOI: 10.26008/1912/bco-dmo.945707.1
title: Rock macrofaunal community from samples collected at methane seeps off Southern California with the HOV Alvin from July 16-28, 2023 during R/V Atlantis cruise AT50-12

description: Rocks were collected at methane seeps off Southern California with the HOV Alvin from July 16-28, 2023 during R/V Atlantis cruise AT50-12 for macrofaunal analyses. This dataset contains major taxa counts for fauna identified as well as collection and sample metadata.
DOI: 10.26008/1912/bco-dmo.946652.1
title: Size-fractionated particulate trace element concentrations determined by ICP-MS from Ocean Station Papa during the 2018 EXPORTS cruise (R/V Sally Ride cruise SR1812)

description: Total minor and trace element concentrations were determined by ICP-MS on profiles of size-fractionated (0.8-51um, &gt;51um) particles collected by battery-operated in-situ filtration at Ocean Station Papa in the North Pacific in August 2018 during the 2018 EXPORTS cruise (R/V Sally Ride cruise SR1812).
DOI: 10.26008/1912/bco-dmo.945703.1
title: Pushcore macrofaunal community from samples collected at methane seeps off Southern California with the HOV Alvin from July 16-27, 2023 during R/V Atlantis cruise AT50-12

description: Pushcore and rocks were collected at methane seeps off Southern California with the HOV Alvin from July 16-27, 2023 during R/V Atlantis cruise AT50-12 for macrofaunal analyses. This dataset provides macrofaunal community composition of pushcore samples.
DOI: 10.26008/1912/bco-dmo.945708.1
title: Invertebrate stable isotopes from samples collected at methane seeps off Southern California with the HOV Alvin from July 16-28, 2023 during R/V Atlantis cruise AT50-12

description: This dataset provides C and N stable isotope data for invertebrates collected by HOV Alvin from July 16-28, 2023 at methane seeps in Southern California during R/V Atlantis cruise AT50-12. There are also POC data for one surface and one near bottom water sample collected by CTD. δ13C and δ15N measurements were made on 0.2-4 mg dry-weight samples combusted using an elemental analyzer interfaced to a continuous flow isotope ratio mass spectrometer at the Stable Isotope Facility at the University of California, Davis (SIF-UCD).
DOI: 10.26008/1912/bco-dmo.949181.1
title: Counts of faunal colonists found on experimental settlement surfaces deployed at Tica Vent in East Pacific Rise on R/V Atlantis cruise AT42-21 and R/V Roger Revelle cruise RR2102 from Dec 2019 to Apr 2021

description: These data include counts of faunal colonists found on experimental settlement surfaces (termed “sandwiches” – comprised of 6 stacked polycarbonate plates separated by spacers) deployed at Tica Vent in the 9°50’ N region of the East Pacific Rise and details of the colonization experiment deployments and recoveries (e.g., dive numbers, deployment and recovery times, temperature measurements, etc.). 
Some sandwiches were originally deployed on cruise AT42-21 (R/V Atlantis, December 2019) and additional sandwiches were deployed and all were recovered on cruise RR2102 (R/V Roger Revelle, March-April 2021). Deployment and recovery of sandwiches utilized deep submergence vehicles HOV Alvin and ROV Jason. Sandwiches were deployed in three biogenic zones (Alvinella-dominated, Riftia-dominated, and mussel-dominated) and had either an established microbial biofilm or no biofilm upon the start of the colonization experiment. It was hypothesized that established microbial biofilms may be indicators of suitable habitat for faunal colonists, specifically larvae, in hydrothermal vent environments characterized by high spatial and temporal variability in abiotic conditions. These short-term (~2 week) colonization experiments thus tested whether the age of the microbial biofilm influenced faunal communities that colonized surfaces across a gradient of habitat conditions. 
These data were collected as part of a collaborative project involving the personnel associated with the labs of Dr. Shawn Arellano (Western Washington University), Dr. Lauren Mullineaux (Woods Hole Oceanographic Institution), and Dr. Costantino Vetriani (Rutgers University). This dataset is published in Ladd et al., 2024 (DOI: 10.1016/j.dsr.2024.104314).
DOI: 10.26008/1912/bco-dmo.949666.1
title: Metadata for longread sequencing of Carcinus maenas collected from Buzzards Bay, Massachusetts from May 2022 to Aug 2022

description: This project explores genomic changes in the invasive European green crab (Carcinus maenas), including at a putative inversion polymorphism. To begin to explore structural variation without a reference genome, we conducted semi-targeted longread sequencing of the C. maenas genome using MinION sequencing. This dataset includes individual metadata for 6 raw MinION reads, archived at GenBank's SRA under BioProject PRJNA1171011. This sequencing was conducted using crabs from Massachusetts waters.
DOI: 10.26008/1912/bco-dmo.929305.2
title: Dissolved Macronutrient Concentrations from Depth Profiles and Incubation Experiments from STING I Cruise AE2305 on R/V Atlantic Explorer in the Gulf of Mexico from February to March 2023

description: Concentrations of inorganic dissolved macronutrients, including phosphate, nitrate plus nitrite (N+N), silicic acid, and nitrite, from phytoplankton shipboard incubation experiments and depth profiles collected on STING I cruise AE2305 on R/V Atlantic Explorer in the Gulf of Mexico from February to March 2023.

This project investigates how groundwater discharge delivers important nutrients to the coastal ecosystems of the West Florida Shelf. Preliminary studies indicate that groundwater may supply both dissolved organic nitrogen (DON) and iron in this region. In coastal ecosystems like the West Florida Shelf that have very low nitrate and ammonium concentrations, DON is the main form of nitrogen available to organisms. Nitrogen cycling is strongly affected by iron availability because iron is essential for both photosynthesis and for nitrogen fixation. This study will investigate the sources and composition of DON and iron, and their influence on the coastal ecosystem. The team will sample offshore groundwater wells, river and estuarine waters, and conduct two expeditions across the West Florida Shelf in winter and summer.
DOI: 10.26008/1912/bco-dmo.948928.1
title: 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

description: 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.
DOI: 10.26008/1912/bco-dmo.948929.1
title: 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

description: 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.
DOI: 10.26008/1912/bco-dmo.949610.1
title: Metadata for targeted genotyping of green crabs collected in the northeast Pacific from Aug 2016 to Oct 2022

description: This project explores genetic changes in the invasive European green crab (Carcinus maenas) in the northeast Pacific, using targeted genotyping of SNPs identified in prior high-resolution population genomics in the region. It tracks the early stages of green crab invasion into a new environment, particularly through repeated sampling of multiple size-classes of crabs from the same sites over multiple years. Samples span time and space across the species range in the northeast Pacific, with a focus on the coast of Washington and Oregon. This dataset includes individual collection and accession metadata for 1,662 crabs, for which raw demultiplexed reads are archived at GenBank's SRA under BioProject PRJNA1177418.
DOI: 10.26008/1912/bco-dmo.949682.1
title: Metadata for RNASeq of green crabs collected in the northeast Pacific from Apr 2017 to Aug 2021

description: This project explores genomic changes in the invasive European green crab (Carcinus maenas) in the northeast Pacific. It tracks the earliest stages of green crab invasion into a new environment where the species is predicted to have substantial ecological and economic impacts. Samples span time and space across the species range in the northeast Pacific, with a focus on areas where the species is currently expanding. This dataset includes individual metadata for 127 raw RNA-Seq reads, archived at GenBank's SRA under BioProject PRJNA1170986.
DOI: 10.26008/1912/bco-dmo.928732.1
title: Depth profiles from Seagliders 146, 147, 148, 511, 512, and 626 in a total of 18 missions at Station ALOHA in the North Pacific Subtropical Gyre from 2008-2023

description: This dataset includes over 20,000 depth profiles collected with underwater gliders in a total of 18 missions between 2008 and 2023. The glider missions were centered at the long-term sampling site of the Hawaii Ocean Time-series (HOT) program, Station ALOHA (22°45′N, 158°W), within the North Pacific Subtropical Gyre. The gliders were equipped with sensors to measure temperature, salinity, pressure, dissolved oxygen concentration, chlorophyll a concentration from fluorescence (excitation/emission lambda = 470/695 nm), and the particulate backscattering coefficient at three wavelengths (lambda = 470 nm, 700 nm, and either 650 or 660 nm depending upon mission). Vertical profiles down to at least 200 m were collected for all sensors over periods of several months per mission. Chlorophyll a and oxygen concentrations are calibrated with discrete observations. Particulate backscattering coefficients are corrected with an additional dark subtraction. This dataset differs from the raw data files in that it is quality controlled, calibrated, and corrected. Raw data files can be found at https://hahana.soest.hawaii.edu/seagliders/index.php. The glider observations were collected over the years by Dr. Karl, with different funding sources (including NSF) to investigate carbon cycle processes in the oligotrophic North Pacific Subtropical Gyre. Dr. Ferron and Dr. Barone received NSF funding to conduct a re-analysis of this comprehensive dataset in order to characterize metabolic rates and understand their patterns of variability. Dr. Garcia conducted the data processing that resulted in this curated dataset. Steve Poulos operated the Seagliders in all missions.
DOI: 10.26008/1912/bco-dmo.948709.1
title: Size fractionated organic carbon and nitrogen concentration and stable isotopes from water column of the East Pacific Rise in April 2019 on the R/V Atlantis cruise AT42-09

description: On R/V Atlantic cruise AT42-09 in April 2019, size fractionated suspended particulate organic matter samples from the water column at the East Pacific Rise (9°50'N 104°18.14'W) were obtained by opening the bottom of the Niskin bottle to ensured that particles that had sunk below the spigot were included. Between 100 and 120 L of water was gravity filtered, in sequence, through nylon mesh (142 mm diameter) of decreasing pore size (500, 180, 53, 20 µm and 5 µm mesh). The resuspended particulate matter from each sample and size class was collected by vacuum filtration through a 1.2 µm nominal pore size, pre-combusted GF/C glass fiber filter. Samples were wafted with HCl overnight to remove carbonate and sent to the UC Davis Stable Isotope Facility for C and N analysis concentration and stable isotope analysis. 

The purpose of these samples was were used to create particle size to carbon and nitrogen relationships for models, while gaining insights into the origins and fate of particulate organic matter in the ocean. Additionally, these organic matter fractions are directly linked to 16S rRNA amplicon data.  16S rRNA sequence amplicons exactly corresponding to this organic matter data are deposited in SRA (Short Read Archive) under BioProject PRJNA1191024. 

Jacob Cram conceived of the idea. Benjamin Tully of Center for Dark Energy Biosphere Investigations, University of Southern California oversaw sample collection. Paulina Huanca Valenzuela and Clara Fuchsman prepped the samples in the laboratory and analyzed the data.
DOI: 10.26008/1912/bco-dmo.948637.1
title: Suspended Organic Particle concentration and stable C and N isotopes from the Eastern Tropical North Pacific in April 2018 (R/V Roger Revelle RR1805) and October 2019 (R/V Kilo Moana KM1920)

description: Suspended Organic Particle Carbon and Nitrogen concentrations and stable C and N isotopes were obtained from the Eastern Tropical North Pacific on the R/V Revelle cruise RR1805 in April 2018 and the R/V Kilo Moana cruise KM1920 in October 2019. R/V Revelle cruise RR1805 sampled two stations in 2018: St P2 (16.9ºN 107ºW) and St P1 (20.3 °N 106.1°W). These two stations included an anoxic Oxygen Deficient Zone from 105-820 m for St P2 and 68-800 m for St P1. The R/V Kilo Moana cruise KM1920 sampled two stations in 2019: St P2 (16.9°N 107°W) and St P3 (21.8°N  109.9°W). These two stations included an anoxic Oxygen Deficient Zone from 110-820 m for St P2 and 160-650 m for St P3. St P3 is at the Northern Edge of the Oxygen Deficient Zone. St P2 is offshore in the core of the Oxygen Deficient Zone, and St P1 is on the continental slope.  

During both cruises, water for bulk suspended particulate organic C and N analyses was obtained from Niskin bottles on a CTD rosette and vacuum-filtered it onto pre-combusted GF/F filters. Samples were wafted with HCl to remove carbonate and sent to the UC Davis Stable Isotope Facility (Davis, CA) for C and N analysis utilizing an elemental analyzer attached to an isotope ratio mass spectrometer. 

The samples were obtained to determine whether organic matter concentrations increased and isotopic composition changed at the secondary chlorophyll maximum in the Oxygen Deficient Zone and at the zooplankton/forage fish vertical migration depth in the Oxygen Deficient Zone.  St P2 and St P1  had a secondary chlorophyll maximum and St P3 did not. 

Samples were collected and data were analyzed by Clara Fuchsman of Horn Point Laboratory, a part of the University of Maryland Center for Environmental Science.
DOI: 10.26008/1912/bco-dmo.948682.1
title: Size fractionated organic C and N concentrations and stable isotopes from the Eastern Tropical North Pacific on the R/V Kilo Moana cruise KM1920 in October 2019

description: Size fractionated Organic Particle Carbon and Nitrogen concentrations and stable C and N isotopes from the Eastern Tropical North Pacific  were obtained from the R/V Kilo Moana on cruise KM1920 in the Eastern Tropical North Pacific at two stations in October 2019: St P2 (16.9°N 107°W) and St P3 (21.8°N 109.9°W). These two stations included an anoxic Oxygen Deficient Zone from 110-820 m for St P2 and 160-650 m for St P3. 

For size fractionated particulate organic C and N analyses, water was obtained from Niskin bottles on a CTD rosette, by opening the bottom of the Niskin bottle.  Water was gravity filtered through stacked mesh with the following pore sizes: 500 um, 180 um, 53 um, 20 um, and 5 um. Each fraction was resuspended off the mesh and vacuum filtered it onto pre-combusted GF/C filters (nominal pore size 1.2 um). Samples were wafted with HCl to remove carbonate and sent to the UC Davis Stable Isotope Facility (Davis, CA) for C and N analysis utilizing an elemental analyzer attached to an isotope ratio mass spectrometer. 

The samples were obtained to determine particle size to carbon and nitrogen relationships for models, while gaining insights into the origins of particulate organic matter in the Oxygen Deficient Zone. 

Samples were collected by Jacob Cram of Horn Point Laboratory (University of Maryland Center for Environmental Science) and his lab members.  

Filters were prepped in the lab, and data were analyzed by Clara Fuchsman of Horn Point Laboratory, a part of the University of Maryland Center for Environmental Science.
DOI: 10.26008/1912/bco-dmo.948746.1
title: Suspended Organic Particle concentration and stable C and N isotopes (collected with McClane Pumps and GF/F filters) from the Eastern Tropical North Pacific on the R/V Thompson cruise TN278 in April 2012

description: Suspended organic carbon and nitrogen concentrations and stable isotopes were obtained on the R/V Thompson cruise TN278 at St P2 (16.5 N 107.1 W; known as BB2 on this cruise) and at St P1 (20.1 N 106.0 W; known as BB1 on this cruise) in the Eastern Tropical North Pacific Oxygen Deficient Zone in April 2012. The Oxygen Deficient Zone extended from 105 m to 820 m at St P2 and from 95 to 800 m at St P1. Water was filtered onto 142 mm pre-combusted GF/F filters in situ using McClane pumps (on average ~300-500 L) in a depth profile. Two 21 mm diameter punches were obtained from each 142 mm filter and used for organic matter analysis. Sample punches were wafted with HCl overnight to remove carbonate and sent to the UC Davis Stable Isotope Facility (Davis, CA) for C and N analysis. 

The purpose of this sampling was to quantify suspended organic matter in an offshore Oxygen Deficient Zone. 

Jacquelyn Neibauer and Rick Keil of the University of Washington deployed the McClane pumps on the cruise. Jacquelyn Neibauer was in charge of prepping the samples. Megan Duffy and Clara Fuchsman of the University of Washington analyzed the data.
DOI: 10.26008/1912/bco-dmo.936224.1
title: Virus and prokaryote abundances from experiments conducted with samples collected at a hydrothermal vent site by ROV SuBastian during R/V Falkor (too) expedition FKt230627 along the East Pacific Rise in July of 2023

description: We used the virus-dilution technique to quantify lytic virus production at nine sites across vent, sub-vent, and non-vent habitats along the East Pacific Rise during expedition FKt230627 aboard R/V Falkor(too). This technique leverages the density-dependent nature of viral infection, preventing new infections by dilution. Samples were collected via ROV SuBastian, sequentially filtered to remove larger particles, and concentrated using tangential-flow filtration. Duplicate incubations were set up with prokaryotic concentrate and virus-free water, pressurized to 250 bar, and incubated in the dark at in situ temperatures for 30 hours. Subsamples were taken every six hours for enumeration of prokaryotes and viruses via flow cytometry. Parallel experiments were conducted at surface pressure to assess the impact of pressure on virus production rates. The methodology ensures observed increases in viral abundance are due to pre-existing infections. The experiments were conducted aboard R/V Falkor(too) between 5-22 July 2023 by Tinkara Tinta and Nicole Krause. Prokaryotes and viruses were enumerated flow-cytometrically back in the lab by Christian Winter.
DOI: 10.26008/1912/bco-dmo.941463.1
title: Particle birefringence photon yield and particle beam attenuation coefficient derived from a logging CTD deployed during McLane Pump casts on the US GEOTRACES Pacific Meridional Transect (PMT) cruise (GP15) on R/V Roger Revelle from Sept-Nov 2018

description: This data set was derived from a logging CTD deployed during McLane Pump casts as part of the GEOTRACES Pacific Meridional Transect (GP15 expedition). There are several related data files provided. The primary data files include: (1) data for the 0-500 meters (m) depth interval, including measures of particle birefringence photon yield (units of parts per million per meter) and particle beam attenuation coefficient (units of per meter); and (2) 0-500 m McLane optics profiles data by broken down by specific cast number and deployment phase. Supplemental files include data for the full depth of the water column (6000 meters) and CTD data used in the reduction of optical birefringence yield and for the calculation of particle beam attenuation coefficient.
DOI: 10.26008/1912/bco-dmo.950021.1
title: Total Mercury Concentrations Collected from Scripps Pier in La Jolla, CA from December 2020 to December 2024

description: 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.
DOI: 10.26008/1912/bco-dmo.941657.1
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. The primary data files include: (1) data for the 0-500 meters (m) depth interval, including measures of particle birefringence photon yield (units of parts per million per meter) and particle beam attenuation coefficient (units of per meter); and (2) 0-500 m optics data separated by cast and cast direction. Supplemental files include data for the full depth of the water column and CTD data used in the profile data calculations.