Life Sciences Commons^™

Cytokine Data For Cytokine Profile Assessment From Peruvian Pinniped (Arctocephalus Australis And Otaria Byronia) Plasma, Mykenzee Munaco, Milton Levin, Michael Adkesson, Susana Cárdenas-Alayzad, Dimitrios G. Giarikos, Amy C. Hirons

SECLER Data

Large colonies of two vulnerable, sympatric pinniped species, Peruvian fur seals (Arctocephalus australis Peruvian subpopulation; PFS) and South American sea lions (Otaria byronia; SASL), reside and reproduce in Punta San Juan, Peru (PSJ) where they are exposed to stressors such as contaminants and El Niño Southern Oscillation (ENSO) events. The use of cytokines as immune biomarkers can be indicative of an animal’s health and function by allowing for the assessment of an individual's cytokine balance as type I helper T cells (Th1) or type II helper T cells (Th2) dominant. Utilizing archived pinniped plasma samples from 2009-2019 …

Data From: Mechanisms Of Gill-Clogging By Hagfish Slime, Luke Taylor, Gaurav Chaudhary, Gaurav Jain, Andrew Lowe, Andre Hupe, Atsuko Negishi, Yu Zeng, Randy Ewoldt, Douglas Fudge

Biology, Chemistry, and Environmental Sciences Faculty Data Sets

Abstract of Proc. Roy. Soc. article:

Hagfishes defend themselves from gill-breathing predators by producing large volumes of fibrous slime when attacked. The slime’s effectiveness comes from its ability to clog predators’ gills, but the mechanisms by which hagfish slime clogs are uncertain, especially given its remarkably dilute concentration of solids. We quantified the clogging performance of hagfish slime over a range of concentrations, measured the contributions of its mucous and thread components, and measured the effect of turbulent mixing on clogging. To assess the porous structure of hagfish slime, we used a custom device to measure its Darcy permeability. We …

Branching And Pedicellariae In Basketstars And Snakestars Database, Richard L. Turner, Brenna O. O'Neill

Ocean Engineering and Marine Sciences Faculty Publications

No abstract provided.

Drones For Large-Scale Wildlife Surveys: Raw Data To Support Manuscript - Hodgson Et Al, Amanda Hodgson

Research Datasets

We conducted trial ScanEagle drone surveys of dugongs in Shark Bay, Western Australia, covering the full extent of the drone’s range (~ 100 km), concurrently with observer surveys, with drone flying above or just behind the piloted aircraft. We aimed to test the assumption that drone imagery could provide comparable detection rates of dugongs to human observers when influenced by same environmental conditions. Data in "All data for analysis - Shark Bay Hodgson et al" include a summary of the sightings from both platforms per transect segment, including associated environmental covariates. Also included are details of each dugong group sighted …

Microplastics: Water And Oyster Data For The Indian River Lagoon, Linda Walters, Casey Craig

CEELAB Research Data

Microplastic (MP) abundances in surface waters and tissues of the oyster Crassostrea virginica were examined for one year in the Indian River Lagoon (IRL), a 251-km long estuary on the east coast of central FL, USA to better understand spatial and temporal variability. A total of 3755 MP were found in 44% of lagoon-wide water samples. Mean density (± CI) was 1.47 ± 0.09 MP/L. Central IRL sites had the lowest MP abundance, while the south had the most, likely associated with proximity to urbanization, inlets (MP sinks) and tributaries (MP sources). More MP were found in water …

Cphelps Et Al. Disease, Natural And Aquaria E. Radiata Microbiome Asv (Amplicon Sequence Variant) Table, Charlie M. Phelps

Research Datasets

This ASV table is the raw sequencing abundances for the Chapter 4 dataset with accompanying metadata.

Evaluation Of Wave Attenuation And Shoreline Protection Provided By Us Atlantic And Gulf Coast Oyster Reef Living Shoreline Projects During Storm Events, Matthew Virden, Eric Sparks

Coastal Research and Extension Center Publications

No abstract provided.

Supplementary Table 11: Regional Zotu Table (Data As Relative Abundances), Charlie M. Phelps, Kathryn Mcmahon, Andrew Bissett, Rachele Bernasconi, Peter D. Steinberg, Torsten Thomas, Ezequiel M. Marzinelli, Megan J. Huggett

Research Datasets

This zOTU table is the relative abundances for the whole regional (combined WA and NSW) dataset.

Caribbean Fad Tracking Project Dataset, Erin E. Kimak, David W. Kerstetter, Thomas D. Pitchford

Kerstetter Fisheries and Avian Ecology Lab Datasets

This dataset encompasses crowd-sourced reports of abandoned, lost or otherwise discarded fishing gear (ALDFG), particularly drifting Fish Aggregating Devices (dFADs) from citizen scientists around the North Atlantic Ocean and greater Caribbean region. Data collection did not involve survey efforts, but rather keyword searches of affiliated terms such as "bamboo raft" and "satellite buoy", as well as collection of reports via email and Facebook. Although this dataset is incomplete and an under representation of the total number of ALDFG dFADs as a result of widespread nature of stranding locations, it provides a minimum estimate of the numbers of FADs stranding in …

Journal Of Ecology 2021 Global Rainfall-Seagrass Resilience-Swan River, Chanelle L. Webster, Kathryn M. Mcmahon, Paul S. Lavery, Simone Strydom, Marta Sánchez Alarcón, Kieryn L. Kilminster, Katherine Bennet, Sian Mcnamara

Research Datasets

The excel file contains: summary of daily maximum precipitation from global rainfall analysis, monthly change in seagrass indicators (biomass, leaf density etc); water quality data including salinity, temperature and light data. There are also .nc files containing precipitation data from 1979-2019.

Conserving Critical Seagrass Habitat For Dugong. Dugong Seagrass Associations Summary Data., Kathryn M. Mcmahon, Paul Lavery, Nicole Said, Chris Cleguer, Amanda Hodgson

Research Datasets

This is the summary dataset of the dugong seagrass associations data containing dugong counts, benthic habitat cover, seagrass nutrient content, water temperature, water current speed, water depth and water transparency from three locations in the Pilbara over 3 time periods in 2018-2019.

Conserving Critical Seagrass Habitat For Dugong. Seagrass Network Monitoring Data Summary, Kathryn M. Mcmahon, Paul Lavery, Nicole Said

Research Datasets

This is the summary dataset of the seagrass monitoring data containing benthic habitat, seagrass meadow characteristics, seed density and environmental variables from three locations in the Pilbara over 3-4 time periods in 2018-2019.

Predictors Of Marine Genetic Structure In The Indo-Australian Archipelago [Dataset], Kathryn M. Mcmahon, Udhi Eko Hernawan

Research Datasets

This is the dataset extracted from 101 publications on 99 marine species from eight taxonomic groups in the Indo Australian Archipelago. Data extracted includes measures of genetic structure and the potential predictors.

A Brain-Infecting Parasite Impacts Host Metabolism Both During Exposure And After Infection Is Established, Lauren E. Nadler, Erik Bengston, Erika J. Eliason, Cameron Hassibi, Siri H. Helland-Riise, Ida B. Johansen, Garfield T. Kwan, Martin Tresguerres, Andrew V. Turner, Kelly L. Weinersmith, Øyvind Øverli, Ryan F. Hechinger

Marine & Environmental Sciences Faculty Datasets

1. Metabolic costs associated with parasites should not be limited to established infections. Even during initial exposure to questing and attacking parasites, hosts can enact behavioural and physiological responses that could also incur metabolic costs. However, few studies have measured these costs directly. Hence, little is known about metabolic costs arising from parasite exposure.
2. Further, no one has yet measured whether and how previous infection history modulates metabolic responses to parasite exposure.
3. Here, using the California killifish (Fundulus parvipinnis) and its brain-infecting parasite (Euhaplorchis californiensis), we quantified how killifish metabolism, behaviour, and osmoregulatory phenotype changed upon acute …

Multiple Hydrocarbon Data From Mangrove Forests Collected During A Coastal Survey Conducted In The Bay Of Campeche, Southern Gulf Of Mexico From 2016-08-09 To 2016-08-10, Isabel Romero, David Hollander

C-IMAGE data

This survey was conducted in mangrove forests from the Bay of Campeche (Mexico) in August 2016 to search for remnants of the Ixtoc-1 spill. This study focused on (1) the chemical composition and concentration of oil weathering products, (2) weathering processes, and (3) fate and potential toxicological impacts. This dataset contains hydrocarbon concentrations, date and location (longitude and latitude) of sample collection. The measurements of hydrocarbons were made using Agilent 7680B gas chromatograph coupled with an Agilent 7010 triple quadrupole mass spectrometer. This dataset supports the publication: Radović, J. R., Romero, I. C., Oldenburg, T. B. P., Larter, S. R., …

Snp Population Genetic Data For The Seagrass Halodule Uninervis From Pilbara Region, Western Australia, Kathryn Margaret Mcmahon, Richard Evans

Research Datasets

This dataset contains 80 SNP loci from 15 locations with 25-47 samples per locations. Each column contains data from two alleles. All genotyped samples are included. Prior to population genetic analysis clone mates were identified and removed.

Living Shoreline Stabilization To Increase Resiliency At De Soto National Memorial, Linda Walters, Melinda Donnelly, Christian Pilato, Suzanne Connor

CEELAB Research Data

De Soto National Memorial (Bradenton, FL) is an important location where both Native Americans and De Soto's army of soldiers once lived. We have been working closely with the National Park Service and the University of Central Florida to understand how to best stabilize this shoreline using living shoreline techniques combined with long-term natural recruitment. Stabilizing De Soto's shoreline is essential to decrease erosion and shoreline loss to protect the Park's cultural and natural resources, especially the numerous historically significant shell middens. Through pre-restoration monitoring, we determined that high-energy boat wakes were limiting natural mangrove recruitment. Lack of retention of …

Sedimentary Age Models, Benthic Foraminifera, Mass Accumulation Rates, And Volcanic Grain Data From R/V Justo Sierra Cruise In The Southern Gulf And Ixtoc I From 2015-08-03 To 2015-08-06, Patrick Schwing

C-IMAGE data

This dataset includes age models, benthic foraminifera species counts used for stable isotope analysis, mass accumulation rates and volcanic grain counts from 6 sediment cores collected throughout the southern Gulf of Mexico during the R/V Justo Sierra cruise in the Southern Gulf and Ixtoc I from 2015-08-03 to 2015-08-06. Samples were analyzed by gamma spectrometry with High-Purity Germanium (HPGe) gamma-ray detectors (Canberra Coaxial Planar configuration) for total 210Pb (46.5 keV), 214Pb (295 keV and 351 keV), and 214Bi (609 keV) activities. The mean activity of the 214Pb (295 keV), 214Pb (351 keV), and 214Bi (609 keV) was used as a …

Short-Lived Radioisotope Geochronology From Sediment Cores Collected During R/V Weatherbird Ii Cruises In The Northern Gulf Of Mexico From 2010-11-18 To 2016-09-09, Gregg R. Brooks, Rebekka A. Larson

C-IMAGE data

Short-lived Radioisotope (SLRad) data were generated for selected core sub-samples at 2mm sampling intervals for “surficial unit” and 5mm sampling resolution intervals to base of cores. SLRad data generated include sample activity as disintegrations per minute per gram (dpm/g) of: 1) Excess 234Th (234Thxs) activity, which is calculated by measuring the total 234Th (234ThTot) activity and the subtraction of the measured or estimated “Supported” 234Th (234ThSup) activity, 2) Excess 210Pb (210Pbxs) activity, which is calculated by measuring the total 210Pb (210PbTot) activity and subtraction of the measured background 210Pb (210PbSup) activity (average of 214Pb at 295keV, 214Pb at 351keV, and …

Sediment Texture And Composition Of Sediment Cores Collected During R/V Weatherbird Ii Cruises In The Northern Gulf Of Mexico From 2010-11-18 To 2016-09-09, Gregg R. Brooks, Rebekka A. Larson

C-IMAGE data

Sediment texture and composition data were generated for selected core sub-samples at 2mm sampling intervals for “surficial unit” and 5mm sampling resolution intervals to base of cores. Sediment texture values are expressed as % Gravel, % Sand, % Silt and % Clay as calculated by dry weight (g). % Mud can be calculated by combining % Silt and % Clay. Sediment composition is expressed as % carbonate content measured by acid leaching. This dataset supports the publication: Larson, R. A., Brooks, G. R., Schwing, P. T., Holmes, C. W., Carter, S. R., & Hollander, D. J. (2018). High-resolution investigation of …

Short-Lived Radioisotope (Excess Pb210) Measurements From Sediment Cores Collected Throughout The Gulf Of Mexico From 2010-11-07 To 2017-07-20, Patrick Schwing, David Hollander

C-IMAGE data

This dataset includes baseline short-lived radioisotope measurements from sediment cores collected throughout the Gulf of Mexico. Samples were analyzed by gamma spectrometry with High-Purity Germanium (HPGe) gamma-ray detectors (Canberra Coaxial Planar configuration) for total 210Pb (46.5 keV), 214Pb (295 keV and 351 keV), and 214Bi (609 keV) activities. The mean activity of the 214Pb (295 keV), 214Pb (351 keV), and 214Bi (609 keV) was used as a proxy for 226Ra activity and therefore the supported 210Pb that is produced in situ. The reported excess 210Pb (210Pbxs) is the difference of the total 210Pb and the supported 210Pb.

Wageningen Aquaria/Microcosm Experiments, Benthic Foraminifera Assemblage And Stable Isotope Measurements, Patrick Schwing, David J. Hollander

C-IMAGE data

Dataset contains benthic foraminifera assemblage and stable isotope measurements. Stable isotope measurements are presented in δ13C and δ18O (‰). Diversity indices include Shannon, Fisher’s Alpha and evenness. Benthic foraminifera abundance is reported as individuals per unit mass (indiv./g).

Ichthyology Scientific Collection Spreadsheet, Karisa Boyer

Ichthyology Collection

No abstract provided.

Core Extrusion Bulk Density/Pore Water, Northern Gulf Of Mexico, November 2010 To September 2016, Rebekka A. Larson, Gregg R. Brooks

C-IMAGE data

Measurement of sediment sample wet weight (g) and dry weight (g) for core sub-samples at 2mm sampling intervals for “surficial unit” and 5mm sampling resolution intervals to base of cores. Bulk density is the dry weight per sampling volume expressed as g/cm^3 and is utilized in the calculation of Mass Accumulation Rates (MAR’s). Samples were collected in the northern Gulf of Mexico from November 2010 to September 2016.

Trace Metals And Minor Elements In Southern Gulf Of Mexico Sediments Following The Ixtoc Marine Oil Blow Out Event, 2015, David W. Hastings, Thomas Bartlett

C-IMAGE data

Our objective is to compare the impact of two marine oil well blowouts on surface sediments in the Gulf of Mexico: the recent 2010 DWH blowout in the Northern Gulf with the Ixtoc blowout in 1979/80 in the Southern Gulf. A suite of trace and minor elements (V, Cr, Mn, Fe, Co, Ni, Cu, Sr, Cd, Mo, Ba, Re, and U) some of which are sensitive to changes in sedimentary redox conditions, was analyzed in bulk surface sediments; that data is presented here. Sediment cores were collected in the SE GoM on a research cruise on the R/V Justo Sierra …

Dna Sequences Of The Mitochondrial Cytochrome C Oxidase I (Coi) Genes From Deep Sea Fishes, Cruises Dp03 And Dp04 From May 2016 - August 2016, Max Weber, Kimberly A. Finnegan, Andrea Bernard, Ron Eytan, Mahmood S. Shivji

DEEPEND Datasets

The deep sea ecosystem is believed to contain the highest biomass of fish in the oceans. However, the taxonomic diversity in this ecosystem is incompletely described and likely to be vastly underestimated. DNA sequence data (barcodes) have become a key tool to discover hidden biodiversity. We generated mitochondrial DNA barcode datasets based on the Cytochrome c oxidase I (COI) gene from deep sea fishes. These data were analyzed using phylogenetic and statistical methods to reveal cryptic species and make taxonomic linkages between adult fishes and their early life stages. These datasets were generated from fishes collected in the northern Gulf …

Mitochondrial And Nuclear Sequences For Phylogenetic Analysis Of Three Cephalopod Species, Northern Gulf Of Mexico, May 2015 To May 2017, Amanda Sosnowki

DEEPEND Datasets

The midwater column contains a wide diversity of cephalopods in the northern Gulf of Mexico. DNA sequence data (barcodes) have become a key tool to discover hidden biodiversity. We generated mitochondrial DNA barcode datasets based on the Cytochrome c oxidase I (COI), 16s, and 28s genes from cephalopods. These data were analyzed using phylogenetic methods to examine possible connectivity of 3 species (Vampyroteuthis infernalis, Pyroteuthis margaritifera, and Cranchia scabra) between two basins, the Gulf of Mexico and the area surrounding Bear Seamount in the northwestern Atlantic Ocean. These datasets were generated from cephalopods collected in the northern Gulf of Mexico …

Dna Sequences Of Mitochondrial Cytochrome C Oxidase I (Coi) Genes From Deep Sea Fishes Collected During Deepend Cruise Dp05 From 2017-05-01 To 2017-05-11, Kimberly A. Finnegan, Andrea Bernard, M. Weber, Ron Eytan, Mahmood S. Shivji

DEEPEND Datasets

Deep sea fishes were collected in the northern Gulf of Mexico during DEEPEND cruise DP05 from May 1 to 11, 2017. This dataset contains Genbank accession numbers of DNA sequences of the mitochondrial Cytochrome c oxidase I (COI) gene from fish species collected.

Comparison Of Porifera Bacterial Symbiont Community Profiles Based On Host Species And Source Template, Celeste Banfill, Jose Lopez

Lopez Laboratory: Genomics & Microbial Data

The present microbiome study reports a follow up microbiome characterization of the Porifera Tree of Life (PorToL) project, which has recognized the significance of understanding the evolutionary relationships among diverse sponge taxa (Redmond et al 2012; Thacker et al, 2013; and see http://Portol.org). The aim of this research is to opportunistically expand on the work of Hill et al. (2013) to provide preliminary data that 1) compares the diversity of bacterial communities across eight sponge taxa and 2) compares the differences between DNA and cDNA (RNA) generated 16S rRNA data to distinguish active vs. non-active bacteria.

Microorganisms Facilitate Uptake Of Dissolved Organic Nitrogen By Seagrass Leaves [Dataset], Flavia Tarquinio, Jeremy Bourgoure, Annette Koenders, Bonnie Laverock, Christin Säwström, Glenn A. Hyndes

Research Datasets

The database compiles data (used in Tarquinio et al. 2018, ISME Journal, accepted for publication) obtained from nitrogen stable isotope analysis (IRMS) and Nanoscale secondary ion mass spectrometry (NanoSIMS) of seagrass (Posidonia sinuosa) leaves and associated microorganisms. Row data (IRMS) are presented for bulk tissue ¹⁵N enrichment of P. sinuosa leaves at different times of incubation (plotted as bar chart in the manuscript), as well as the enrichment detected through the drawing of regions of interest (ROI) from NanoSIMS image analysis and plotted as box plots in the manuscript.