Life Sciences Commons^™

Manta 3-D Turning Data, Frank E. Fish

Biology Data Repository

No abstract provided.

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 …

Release From Intraspecific Competition Promotes Dominance Of A Non-Native Invader, Robert Warren

Biology Faculty Datasets

Species can coexist through equalizing (similar fitness abilities) and stabilizing (unique niche requirements) mechanisms – assuming that intraspecific competition imposes more limitation than interspecific competition. Non-native species often de-stabilize coexistence, suggesting that they bring either a fitness advantage or a distinct niche requirement. We tested whether greater fitness or unique niche requirements best explained a successful North American invasion by the European Myrmica rubra ant. North American invaded-range M. rubra aggressively sting and occur in enormous numbers (suggesting a fitness advantage), yet our study site has a history of anthropogenic disturbance that might favor M. rubra (suggesting a unique niche). …

Interacting Effects Of Urbanization And Coastal Gradients On Ant Thermal Responses, Robert Warren

Biology Faculty Datasets

Urban-to-rural gradients intersect with other, often unmeasured, environmental gradients that may influence or even supersede species responses. Here we use coastal-to-interior and urban-rural gradients to investigate woodland ant response (physiological thermal tolerance, community structure and spring phenology) to two overlapping thermal gradients, the Great Lakes (Erie and Ontario) and the Buffalo, NY urban center (USA). Woodland ant physiological and behavioral responses, and community responses, shifted along the coastal-to-interior and urban-rural gradients, but they were generally best explained by lake effects (though urban ants tolerated higher temperatures than rural ants). The relatively colder spring temperatures in coastal areas (as compared to …

Tissue Expression Patterns Identify Mouse Cilia Genes, Timothy S. Mcclintock

Physiology Research Data

A summary of 2,127 mouse genes linked to cilia by previous high-throughput approaches (reviewed in Inglis et al., 2006), published studies of individual gene products, or by McClintock et al. 2008. Each gene was viewed at Entrez Gene to verify and update the Gene ID and Gene Symbol. Each was also searched against PubMed (Gene Symbol AND (cili* OR flagel*)) for published evidence linking the mouse gene or putative orthologs to cilia or flagella. This searchable file lists identifying information about each gene, functional information about the encoded protein, the number of high-throughput studies linking the gene to cilia, and …

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.

Composition And Quantification Of Polycyclic Aromatic Hydrocarbons In Deep-Pelagic Fauna. Cruises Dp02, Dp03, And Dp04 From August 2015 - August 2016, Isabel C. Romero

DEEPEND Datasets

Samples were collected in the northern Gulf of Mexico on cruises DP02, DP03 and DP04 from August 2015 - August 2016. Polycyclic Aromatic Hydrocarbons (PAH) data were integrated with those from population dynamics and stable isotope analysis to provide evidence for effects of oil exposure to deep pelagic communities. The target fish species include Argyropelecus spp., Ceratoscopelus warmingii, Chauliodus sloani, Diaphus spp., Lampanyctus alatus, Lepidophanes guentheri, and Sigmops elongatus. Analysis of PAHs was conducted on different fish tissues (muscle, guts, gills, and eggs) following modified EPA method 8270D and QA/QC strict protocols. Detection and quantification of PAH homologues was performed …

Northern Gulf Of Mexico Benthic And Planktic Foraminifera Taxonomy, 2011-2015, Patrick Schwing

C-IMAGE data

This dataset consists of species-level benthic and planktic foraminiferal assemblages identified from sediment cores taken throughout the northern Gulf of Mexico with relation to the Deepwater Horizon and the Southern Gulf of Mexico in relation to the Ixtoc 1 platform.

Gulf Of Mexico Benthic And Planktic Foraminifera Carbon Isotopes, 2015, Patrick Schwing, Jeff Chanton

C-IMAGE data

This dataset consists of benthic and planktic foraminiferal carbon isotope (C-13, C-14) measurements from sediment cores taken throughout the northern Gulf of Mexico with relation to the Deepwater Horizon. Stable isotope measurements were performed on Cibicidoides spp., Uvigerina spp. and Globigerinoides ruber (white).

Time Series Of Northern Gulf Of Mexico Hydrocarbon Data, 2010-2013, Isabel C. Romero

C-IMAGE data

This dataset consist of hydrocarbon measurements in sediment cores collected during the cruises to northern Gulf of Mexico in the R/V Weatherbird II from 2010-2013.

Presence/Absence And Density Data For Epipelagic Tows From 48 Stations In The Northern Gulf Of Mexico From R/V Blazing Seven Cruises Lf2015a And Lf2015b June 2015 And July 2015, Jay R. Rooker, R.J. David Wells

DEEPEND Datasets

Larval catch data after the oil spill is being used to improve our understanding of the causes of temporal variability as it relates to the Deep Water Horizon oil spill (DWHOS). Bongo and neuston net tows were conducted at 48 stations in both June and July, 2015 in the northern Gulf of Mexico. Cruise data collected at each site included latitude/longitude, date, time and environmental data (temperature, salinity, dissolved oxygen). The occurrence and density of selected epipelagic (e.g., billfishes, tunas, dolphinfishes, flyingfishes) and deep pelagic (e.g., lanternfishes, bristlemouths, marine hatchetfishes) fish larvae were quantified and are being used to extend …

Composition And Quantification Of Polycyclic Aromatic Hydrocarbons In Deep-Pelagic Fauna, Cruises Dp01 And Dp02 From May 2015 - August 2015, Isabel C. Romero

DEEPEND Datasets

This data set includes the biological PAH (Polycyclic Aromatic Hydrocarbons) data of target species collected during the DP01 (May 1-8, 2015) and DP02 cruises (August 8-21, 2015) in the Northern Gulf of Mexico. The target fish species include Ceratoscopelus warmingii, Chaulidus spp., Diaphus spp., Argyropelecus spp, Lampanyctus alatus, and Sigma elongatum. Also, analysis of shrimp (Acanthephyra purpurea) and cephalopod (Grimalditeuthis bonplandi, Histioteuthis corona, Japetella diaphana) samples were conducted. PAHs were analyzed following modified EPA method 8270D and QA/QC strict protocols. Detection and quantification of PAHs were performed using a gas chromatograph/mass spectrometric detector (GC/MS/MS).

Cruise Data For Neuston Net And Paired Bongo Net Tows From 48 Stations In The Northern Gulf Of Mexico From R/V Blazing Seven Cruises Lf2015a And Lf2015b June 2015 And July 2015, Jay R. Rooker, R.J. David Wells

DEEPEND Datasets

Shelf and slope waters in the Deep Water Horizon oil spill (DWHOS) area are known to serve as critical spawning, nursery, and foraging habitat of several important oceanic species including billfishes (e.g. blue marlin, white marlin, sailfish), tunas (bluefin tuna, yellowfin tuna), and other pelagic taxa (swordfish, dolphinfishes). The aim of this component was to further investigate potential ecological effects of the DWHOS on pelagic fishes during the early life period. Larval fishes were sampled from 48 stations in the northern Gulf of Mexico and cruise data was collected at each site including latitude/longitude, date, time and environmental data (sea …

Ergot And Loline Alkaloid Concentrations In Endophyte-Infected Tall Fescue Tillers, Rebecca L. Mcculley

Forage Climate Change Experiment Research Data

Approximately 40 tall fescue tillers were randomly collected and frozen from each of the 20 treatment plots.

Tillers were cut at 7.6 cm above ground level and tested for the presence of the Epichloe endophyte using an enzyme-linked immunosorbent assay.

Tillers from each plot were sorted into 'infected' vs 'uninfected' groups, lyophilized, and ground through a 1mm screen using a Cyclotec 1093 mill.

Ground material from the endophyte infected tillers was analyzed for ergot and loline alkaloids in the lab of Lowell Bush at the University of Kentucky, Plant and Soil Sciences Dept.

For details on alkaloid analyses see: McCulley …

Dragonfly Distributions In North Dakota, Andre Delorme Ph.D, Hayden Zander

Datasets

Set of data for dragonflies (Order Odonata, Suborder Anisoptera) collected in 2016-2017. Data includes species, GPS coordinates, date collected, and sex of adults.

Changes In Balance And Joint Position Sense During A 12-Day High Altitude Trek: The British Services Dhaulagiri Medical Research Expedition, Sarah B. Clarke

Datasets

Postural control and joint position sense are essential for safely undertaking leisure and professional activities, particularly at high altitude. We tested whether exposure to a 12-day trek with a gradual ascent to high altitude impairs postural control and joint position sense. This was a repeated measures observational study of 12 military service personnel (28±4 years). Postural control (sway velocity measured by a portable force platform) during standing balance, a Sharpened Romberg Test and knee joint position sense were measured, in England (113m), and at 3 research camps (3619m, 4600m and 5140m) on a 12-day high altitude trek in the Dhaulagiri …

Dataset From: Phylogeny And Ontogeny Of Lizard Display Behavior, Michele A. Johnson, E G. Cook, B K. Kircher

Biology Faculty Research

Appendix 1. Descriptions of lizard display.

This appendix provides the descriptions of display data for each lizard genus, compiled from a search of the primary scientific literature. Posture and motion displays components were categorized as types of postural changes, head movements, mouth displays, gular displays, limb movements, and tail movements. An “x” in a cell indicates that at least one species in that genus has been reported to use a given posture or motion in its display. Color displays were categorized by the body location of the color involved in display, with each color reported to be involved in at …

Data From: Seasonal Variation In The Utility Of A Status Signaling System: Plumage Ornament Predicts Foraging Success Only During Periods Of High Competition, Philip Queller, Troy G. Murphy

Biology Faculty Research

No abstract provided.

"Distribution Of The North American Porcupine (Erethizon Dorsatum) In Northern California" Appendix, Cara L. Appel, William J. Zielinski, Frederick V. Schlexer, Richard Callas, Tim Bean

Research Data Sets

Western Wildlife 4:17–28, 2017: The North American Porcupine (Erethizon dorsatum) is one of the most widely distributed mammals in North America, but recent reports have suggested declines in parts of its range in the West. In California, we know little about porcupines’ historical or current status; maps of porcupine distribution conflict considerably. Nevertheless, the species is of interest to natural resource managers. For much of the 1900s, foresters and others primarily treated porcupines as pests because of the undesirable damage they inflict by feeding on trees and gnawing on manmade items in search of salt. More recently, porcupines …

Cattail Management Scenario Simulations Using Mondrian, Kenneth J. Elgersma, Jason P. Martina, Deborah E. Goldberg, William S. Currie

Data Sets

A set of computer simulations using the Mondrian model (ver 3.8) to simulate different approaches for control of invasive cattails.

A Marine Heat Wave Drives Massive Losses From The World’S Largest Seagrass Carbon Stocks [Dataset], Ariane Arias-Ortiz, Oscar Serrano, Pere Masqué, Paul Lavery, Ute A. Mueller, Gary A, Kendrick, Mohammad Rozaimi, Alba Esteban, James W, Fourqurean, Núrià N. Marbà, Miquel-Angel Mateo, Kathy Murray, Michael Rule, Carlos M. Duarte

Research Datasets

The database compiles published data (in Arias-Ortiz et al., 2018) on biogeochemical characteristics (density, organic carbon, stable carbon isotopes and sediment grain size) of soils underneath seagrass meadows in Shark Bay, Western Australia. Pb-210 concentrations of the first 20 cm are included along with C-14 raw ages. The dataset compiles data for a total of 49 cores, 25 - 300 cm-long (11 cores with Pb-210 and C-14 data). Enquiries about the dataset may be sent to Ariane Arias-Ortiz: ariane.arias@uab.cat

Rmenvdata.Xlsx, George P. Malanson

George P Malanson

Damm_Komarkova_Cover.Xlsx, George P. Malanson

George P Malanson

No abstract provided.

Pah Analysis: Red Snapper Bile Pah Metabolite Concentrations, Northern Gulf Of Mexico, 2012, Steven Murawski

C-IMAGE data

The data contained in this spreadsheet represent bile PAH metabilote determinations from selected species collected in the northern Gulf of Mexico (NGM) during longline sampling. The data were analyzed at the Nortwest Fisheries Science Center (NWFSC), using methods described in “Murawski et al. 2014. Prevalence of skin lesions and PAH concentrations in Gulf of Mexico Fishes, Post-Deepwater Horizon. Transactions of the American Fisheries Society (DOI:10.1080/00028487.2014.911205)”.

Pah Analysis: Bile Pah Metabolite Concentrations In Longline Captured Fish, Northern Gulf Of Mexico, 2011, Steven Murawski

C-IMAGE data

The data contained in this spreadsheet represent bile PAH metabilote determinations from selected species collected in the northern Gulf of Mexico (NGM) during longline sampling. The data were analyzed at the Nortwest Fisheries Science Center (NWFSC), using methods described in “Murawski et al. 2014. Prevalence of skin lesions and PAH concentrations in Gulf of Mexico Fishes, Post-Deepwater Horizon. Transactions of the American Fisheries Society (DOI:10.1080/00028487.2014.911205)”.

Spatially-Dependent Biotic And Abiotic Factors Drive Survivorship And Physical Structure Of Green Roof Vegetation, Jason Aloisio

Student Publications

Plant survivorship depends on biotic and abiotic factors that vary at local and regional scales. This survivorship, in turn, has cascading effects on community composition and the physical structure of vegetation. Survivorship of native plant species is variable among populations planted in environmentally stressful habitats like urban roofs, but the degree to which factors at different spatial scales affect survivorship in urban systems is not well understood. We evaluated the effects of biotic and abiotic factors on survivorship, composition and physical structure of two native perennial species assemblages, one characterized by a mixture of C₄ grasses and forbs (Hempstead …