Other Oceanography and Atmospheric Sciences and Meteorology Commons^™

Soed Open Course: Seamless Modeling From Creek To Ocean On Unstructured Grids, Y. Joseph Zhang

Miscellaneous

This course explains the basic formulations used in the cross-scale SCHISM model, including the recent new developments. Hands-on tutorials will be conducted to familiarize the trainees with the basic tools useful for the modeling system. Although no formal pre-requisites are expected, trainees with prior UG model experience may find it easier to learn. Upon completion the trainees will have acquired basic knowledge on workflow in typical SCHISM simulations and be able to conduct simulations for cross-scale baroclinic processes as found in geophysical fluid dynamics (GFD)

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No Evidence For Trace Metal Limitation On Anaerobic Carbon Mineralization In Three Peatland Soils, Jason K. Keller, Jillian Wade

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Peatlands store roughly one-third of the terrestrial soil carbon and release the potent greenhouse gas methane (CH₄) to the atmosphere, making these wetlands among the most important ecosystems in the global carbon cycle. Despite their importance, the controls of anaerobic decomposition of organic matter to carbon dioxide (CO₂) and CH₄ within peatlands are not well understood. It is known, however, that the enzymes responsible for CH₄ production require cobalt, iron and nickel, and there is a growing appreciation for the potential role of trace metal limitation in anaerobic decomposition. To explore the possibility of …

Investigating Marine Resources In The Gulf Of Mexico At Multiple Spatial And Temporal Scales Of Inquiry, Joshua Paul Kilborn

USF Tampa Graduate Theses and Dissertations

The work in this dissertation represents an attempt to investigate multiple temporal and spatial scales of inquiry relating to the variability of marine resources throughout the Gulf of Mexico large marine ecosystem (Gulf LME). This effort was undertaken over two spatial extents within the greater Gulf LME using two different time-series of fisheries monitoring data. Case studies demonstrating simple frameworks and best practices are presented with the aim of aiding researchers seeking to reduce errors and biases in scientific decision making. Two of the studies focused on three years of groundfish survey data collected across the West Florida Shelf (WFS), …

How Dredge Pits Evolve Over Time: A Look At Their Geomorphologic Evolution And Infilling Processes, Patrick Robichaux

LSU Master's Theses

As coastal environments become more susceptible to land loss through accelerating sea level rise and subsidence, new restoration methods harnessing borrowed sediment are more valuable than ever. Mud-capped dredge pits (MCDPs) are a relatively new source of restoration-quality sediment that has only recently been utilized for beach and barrier island restorations in Louisiana. Because MCDPs have been in use for less than two decades in only a handful sites, little is understood about their evolution over decadal timescales. To improve our understanding of MCDPs after they are dredged, we have conducted a suite of geophysical surveys including bathymetry, sidescan sonar, …

Packaging Of Genetic Material By Gene Transfer Agents (Gtas) Produced By Marine Roseobacter Species And Their Effect On Stimulating Bacterial Growth, Shahd Bader Aljandal

USF Tampa Graduate Theses and Dissertations

Horizontal gene transfer is one of the most important mechanisms for prokaryotic genome innovation and evolution. Gene Transfer Agents (GTAs) are phage-like particles that package small fragments of the genome of a GTA-producing bacterial cell. GTA chromosomal gene clusters usually contain 15-conserved open reading frames (ORFs) and are present in most of the sequenced marine alpha-proteobacteria genomes. Some marine strains have been shown to produce GTA particles that were biologically active in marine environment.

GTA particles range in size, morphology and the amount of host DNA they package. To date, the characteristics of GTAs are largely based on observations of …

Reef Fish Biodiversity In The Florida Keys National Marine Sanctuary, Megan E. Hepner

USF Tampa Graduate Theses and Dissertations

The biological diversity of reef-fish in the Florida Keys National Marine Sanctuary (FKNMS) from 1999 – 2016 was evaluated in terms of abundance, biomass, species richness, evenness, Shannon diversity, Simpson diversity, and functional diversity, using observations collected by multiple agencies and institutions under the Reef Visual Census (RVC) program. To compare the different diversity indices species richness, Shannon diversity, Simpson diversity, and functional diversity were converted into effective number of species. I examined the seven indices by no-take marine zones, in seven benthic habitat strata, and across the three-distinct geographic subregions in the Florida Keys domain (Upper, Middle, and Lower …

Calibration-Free Spectrophotometric Measurements Of Carbonate Saturation States In Seawater, Erin E. Cuyler

USF Tampa Graduate Theses and Dissertations

This work describes efforts to improve methodologies and instrumentation for investigation of the marine CO₂ system. In the first section of my thesis, a method was developed that provides simple, calibration-free measurements of seawater carbonate saturation states (Ω_spec) based solely on the use of a laboratory spectrophotometer. Measurements of pH are made in paired optical cells, one with and one without added nitric acid. The amount of added nitric acid is determined through the direct proportionality between nitrate concentration and UV absorbance. After an initial calibration, the method is calibration-free and requires no volumetric or gravimetric analyses …

Genetic Identification And Population Characteristics Of Deep-Sea Cephalopod Species In The Gulf Of Mexico And Northwestern Atlantic Ocean, Amanda Sosnowski

USF Tampa Graduate Theses and Dissertations

Nearly all deep-sea cephalopod life history studies have been completed by examination of specimens collected in the wild. Much of this work is like piecing together a puzzle; knowledge of the life history of many species remains fragmented and hence, taxonomically and phylogenetically confused. Molecular approaches and sequencing technologies are powerful tools for deciphering wild-type cephalopod life history and population dynamics. Use of molecular markers offers additional certainty for identifying specimens damaged during deep-sea collections and can elucidate often cryptic, intra- and interspecific diversity. The research presented in this study assessed broad genetic patterns of biodiversity in deep-sea cephalopods from …

Stable Isotopes In The Eye Lenses Of Doryteuthis Plei: Exploring Natal Origins And Migratory Patterns In The Eastern Gulf Of Mexico, Brenna A. Meath

USF Tampa Graduate Theses and Dissertations

Stable isotope analysis is an emerging tool to examine trophic pathways and migratory patterns of marine organisms. Squid are widely distributed in coastal and deep water regions of the Gulf of Mexico. Stable isotope ratios of carbon and nitrogen found within cephalopod tissues can provide information on both trophic level and habitat of their food sources. More recently, ontogenetic changes in stable isotope ratios within squid eye lenses have been documented. Concentric layers of crystallin proteins are added to the lens as the squid ages; the center of the lens contains the oldest layer and the youngest layers are on …

Cruise Data For Neuston Net And Paired Bongo Net Tows From 47 Stations In The Northern Gulf Of Mexico From R/V Pelican Cruise Lf2017a July 2017, 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 …

Role Of Viruses Within Metaorganisms: Ciona Intestinalis As A Model System, Brittany A. Leigh

USF Tampa Graduate Theses and Dissertations

Marine animals live and thrive in a literal sea of microorganisms, yet are often able to maintain specific associations that are largely dictated by the environment, host immunity and microbial interactions. Animal-associated microbiomes include bacteria and viruses that vastly outnumber host cells, especially in the gut environment, and are considered to be integral parts of healthy, functioning animals that act as a metaorganism. However, the processes underlying the initial establishment of these microbial communities are not very well understood. This dissertation focuses on the establishment of a well-known developmental animal model, Ciona intestinalis (sea squirt), to study the establishment and …

Thermal Radiation Anomalies Associated With Major Earthquakes, Dimitar Ouzounov, Sergey Pulinets, Menas Kafatos, Patrick Taylor

Mathematics, Physics, and Computer Science Faculty Articles and Research

Recent developments of remote sensing methods for Earth satellite data analysis contribute to our understanding of earthquake related thermal anomalies. It was realized that the thermal heat fluxes over areas of earthquake preparation is a result of air ionization by radon (and other gases) and consequent water vapor condensation on newly formed ions. Latent heat (LH) is released as a result of this process and leads to the formation of local thermal radiation anomalies (TRA) known as OLR (outgoing Longwave radiation, Ouzounov et al, 2007). We compare the LH energy, obtained by integrating surface latent heat flux (SLHF) over the …

Ocean Wind Speed Measurement Using Wideband Gnss-R Signals, Brandon J. Kozel, Han Zhang, James L. Garrison, Benjamin Nold

The Summer Undergraduate Research Fellowship (SURF) Symposium

The use of Global Navigation Satellite System-Reflectometry (GNSS-R) for remote sensing of ocean wind speeds has been explored for nearly two decades and has become an important passive remote sensing technique for verification of hurricane formation models. To obtain wind speed measurements, reflected GNSS signals are first cross-correlated with locally generated copies to construct delay-doppler maps (DDMs). Through statistical models, DDMs can provide information about the mean-square slope (MSS) of the ocean surface, which is related to wind speed. Previous studies have focused on legacy signals such as GPS L1. However, it is expected that the MSS relationship with ocean …

Utilizing A Consumer-Grade Camera System To Quantify Surface Reflectance, Joseph J. Lehnert

Department of Geography: Dissertations, Theses, and Student Research

Consumer-grade camera systems are often employed in aerial remote sensing to provide insight into patterns and processes of interest to science and industry, a trend that has largely been encouraged by the rapid growth of the small unmanned aircraft system (sUAS) industry. However, little research exists on the ability of these systems to accurately measure surface reflectance in specific wavebands, a crucial consideration for many remote sensing applications. This research was conducted on the premise that with proper equipment and calibration techniques consumer-grade cameras would be capable of accurately measuring surface reflectance in user-defined wavebands of interest. A stereo-pair, Fujifilm …

The Mean And Turbulent Properties Of A Wildfire Convective Plume, Neil Lareau, Craig Clements

Faculty Publications, Meteorology and Climate Science

The time-mean and time-varying smoke and velocity structure of a wildfire convective plume is examined using a high-resolution scanning Doppler lidar. The mean plume is shown to exhibit the archetypal form of a bent-over plume in a crosswind, matching the well-established Briggs plume-rise equation. The plume cross section is approximately Gaussian and the plume radius increases linearly with height, consistent with plumerise theory. The Briggs plume-rise equation is subsequently inverted to estimate the mean fire-generated sensible heat flux, which is found to be 87 kW m22 . The mean radial velocity structure of the plume indicates flow convergence into the …

Synergistic Use Of Remote Sensing And Modeling To Assess An Anomalously High Chlorophyll-A Event During Summer 2015 In The South Central Red Sea, Wenzhao Li, Hesham El-Askary, K. P. Manikandan, Mohamed A. Qurban, Michael J. Garay, Olga V. Kalishnikova

Mathematics, Physics, and Computer Science Faculty Articles and Research

An anomalously high chlorophyll-a (Chl-a) event (>2 mg/m3) during June 2015 in the South Central Red Sea (17.5° to 22°N, 37° to 42°E) was observed using Moderate Resolution Imaging Spectroradiometer (MODIS) data from the Terra and Aqua satellite platforms. This differs from the low Chl-a values (<0.5 mg/m3) usually encountered over the same region during summertime. To assess this anomaly and possible causes, we used a wide range of oceanographical and meteorological datasets, including Chl-a concentrations, sea surface temperature (SST), sea surface height (SSH), mixed layer depth (MLD), ocean current velocity and aerosol optical depth (AOD) obtained from different sensors and models. Findings confirmed this anomalous behavior in the spatial domain using Hovmöller data analysis techniques, while a time series analysis addressed monthly and daily variability. Our analysis suggests that a combination of factors controlling nutrient supply contributed to the anomalous phytoplankton growth. These factors include horizontal transfer of upwelling water through eddy circulation and possible mineral fertilization from atmospheric dust deposition. Coral reefs might have provided extra nutrient supply, yet this is out of the scope of our analysis. We thought that dust deposition from a coastal dust jet event in late June, coinciding with the phytoplankton blooms in the area under investigation, might have also contributed as shown by our AOD findings. However, a lag cross correlation showed a two- month lag between strong dust outbreak and the high Chl-a anomaly. The high Chl-a concentration at the edge of the eddy emphasizes the importance of horizontal advection in fertilizing oligotrophic (nutrient poor) Red Sea waters.

Estimation Of Bubble-Mediated Air–Sea Gas Exchange From Concurrent Dms And Co2 Transfer Velocities At Intermediate–High Wind Speeds, Thomas G. Bell, Sebastian Landwehr, Scott D. Miller, Warren J. De Bruyn, Adrian H. Callaghan, Brian Scanlon, Brian Ward, Mingxi Yang, Eric S. Saltzman

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Simultaneous air–sea fluxes and concentration differences of dimethylsulfide (DMS) and carbon dioxide (CO2/ were measured during a summertime North Atlantic cruise in 2011. This data set reveals significant differences between the gas transfer velocities of these two gases (1kw/ over a range of wind speeds up to 21ms􀀀1. These differences occur at and above the approximate wind speed threshold when waves begin breaking. Whitecap fraction (a proxy for bubbles) was also measured and has a positive relationship with 1kw, consistent with enhanced bubble-mediated transfer of the less soluble CO2 relative to that of the more soluble DMS. However, the correlation …

Viruses In Marine Animals: Discovery, Detection, And Characterizarion, Elizabeth Fahsbender

USF Tampa Graduate Theses and Dissertations

Diseases in marine animals are emerging at an increasing rate. Disease forecasting enabled by virus surveillance presents a proactive solution for managing emerging diseases. Broad viral surveys aid in disease forecasting by providing baseline data on viral diversity associated with various hosts, including many that are not associated with disease. However, these viruses can become pathogens due to expansion in host or geographic range, as well as when changing conditions shift the balance between commensal viruses and the host immune system. Therefore, it is extremely valuable to identify and characterize viruses present in many different hosts in a variety of …

Nuclear Weapons In A Changing Climate: Probability, Increasing Risks, And Perception, Adam Liska, Tyler R. White, Eric Holley, Robert J. Oglesby

Adam Liska Papers

Many people tend to think that the outcome of any nuclear weapons use today will result in an escalatory situation with apocalyptic outcomes for the countries involved. Yet many factors are increasing the probability of the limited use of nuclear weapons (e.g., 1 to 20 warheads) in a range of conflict scenarios. Previous atmospheric model simulations of regional nuclear conflicts employing many relatively small bombs have been estimated to cause a global “nuclear autumn,” with great reductions in agricultural productivity, stratospheric ozone loss, and spread of hazardous radioactive fallout. The totality of these effects would result in widespread damage …

Using An Altimeter-Derived Internal Tide Model To Remove Tides From In Situ Data, Edward D. Zaron, Richard D. Ray

Civil and Environmental Engineering Faculty Publications and Presentations

Internal waves at tidal frequencies, i.e., the internal tides, are a prominent source of variability in the ocean associated with significant vertical isopycnal displacements and currents. Because the isopycnal displacements are caused by ageostrophic dynamics, they contribute uncertainty to geostrophic transport inferred from vertical profiles in the ocean. Here it is demonstrated that a newly developed model of the main semidiurnal (M2) internal tide derived from satellite altimetry may be used to partially remove the tide from vertical profile data, as measured by the reduction of steric height variance inferred from the profiles. It is further demonstrated that the internal …

Characterizing Gross Lesions In Corals On Fringing Reefs Of Taiwan And Hainan Island, China, Adrienne George

USF Tampa Graduate Theses and Dissertations

Visible lesions on coral colonies are potential indicators that environmental stressors are influencing a reef. To test this hypothesis, pairs of near-shore reefs on Taiwan were surveyed along an anthropogenically influenced gradient that included locations near the cities of Taipei and Taitung, and more remote reefs off Green Island. Two fringing reefs at Sanya, Hainan Island, a popular Chinese resort area, were also assessed. Field surveys were undertaken to detect, quantify and visually describe the occurrence of lesions at each site. Coral mucus samples were collected from both normal-appearing polyps and lesion-afflicted areas of colonies to assess carbon requirements of …

Characterizing South American Mesoscale Convective Complexes Using Isotope Hydrology, Kyle J. Hogancamp

Masters Theses & Specialist Projects

Mesoscale convective complexes (MCCs) over subtropical South America contribute an average annual volume of precipitation equal to approximately seven km3 and occur with an average regularity in the region, with more than 30 per warm season. Isotopic characteristics of precipitation, such as δ2H and δ18O values, provide information that can be used to identify unique processes and sources related to precipitation events. The largest database of isotope characteristics of precipitation within the region is the Global Network of Isotopes in Precipitation (GNIP), which provides varying temporal resolution data from stations around the world, including subtropical South America.

Using this database, …

Assessing Seasonal And Spatial Variability In The Hydrogeochemistry Of Glacial Meltwater In Iceland, Anisha Tuladhar

Masters Theses & Specialist Projects

A detailed comparative geochemical characterization of three different types of Iceland glacial systems was conducted during June, August, and October, 2016. The study was carried out at a total of 11 outlet glacier rivers flowing from the icecaps Vatnajökull, Eyjafjallajökull, and Mýrdalsjökull. A total of 75 grab samples were collected (25 for each sampling period). The hydrogeochemical variations of Icelandic glacial meltwater are influenced by volcanic activity, temporal changes, and geographical location, which differed between the sampling sites within the glaciers and icecaps. Lower pH range, and comparatively higher and variable specific conductivity, SO4, S and F is linked to …

Aerial Water Sampler, Carrick Detweiler, John-Paul Ore, Baoliang Zhao, Sebastian Elbaum

School of Computing: Faculty Publications

In one aspect, a vehicle includes an aerial propulsion system, an altitude sensor system, a water sampling system, and a control system. The water sampling system includes a water sampling extension configured to extend away from the vehicle, one or more water sample receptacles, and a water pump. The control system is configured to perform operations including: guiding, using the aerial propulsion system, the vehicle over a water Source; causing, using sensor data from the altitude sensor system, the vehicle to descend towards the water source so that the water sampling extension contacts the water source; and causing, using the …

On The Relationship Between Spring Nao And Snowmelt In The Upper Southwestern United States, Boksoon Myoung, Seung Hee Kim, Jinwon Kim, Menas Kafatos

Mathematics, Physics, and Computer Science Faculty Articles and Research

This study examines the relationship between the North Atlantic Oscillation (NAO) and snowmelt in spring in the upper southwestern states of the United States (UP_SW) including California, Nevada, Utah, and Colorado, using SNOTEL datasets for 34 yr (1980–2014). Statistically significant negative correlations are found between NAO averages in the snowmelt period and timings of snowmelt (i.e., positive NAO phases in spring enhance snowmelt, and vice versa). It is also found that correlations between El Niño–Southern Oscillation and snowmelt are negligible in the region. The NAO–snowmelt relationship is most pronounced below the 2800-m level; above this level, the relationship becomes weaker. …

Homestead National Monument Of America, Bat Acoustic Monitoring, September 2016, Daniel S. Licht

United States National Park Service: Publications

Abstract

Homestead National Monument of America is a 211-acre park located in an agrarian landscape in southeastern Nebraska. From September 16 to October 1, 2016, park staff deployed acoustic monitors at three sites in the park for purposes of monitoring night-time bat activity. The three sites averaged 179, 48, and 33 bat detections per night. Night-time bat activity was generally highest in the 1-2 hours following sunset.

Based on the acoustic surveys the big brown (Eptesicus fuscus), eastern red (Lasiurus borealis), northern long-eared (Myotis septentrionalis) and evening bats (Nycticeius humeralis) were present at the …

Estimating Methane Emissions From Biological And Fossil-Fuel Sources In The San Francisco Bay Area, Seongeun Jeong, Xinguang Cui, Donald Blake, Ben Miller, Stephen Montzka, Arlyn Andrews, Abhinav Guha, Philip Martien, Ray Bambha, Brian Lafranchi, Hope Michelsen, Craig Clements, Pierre Glaize, Marc Fischer

Faculty Publications, Meteorology and Climate Science

We present the first sector-specific analysis of methane (CH4) emissions from the San Francisco Bay Area (SFBA) using CH4 and volatile organic compound (VOC) measurements from six sites during September – December 2015. We apply a hierarchical Bayesian inversion to separate the biological from fossil-fuel (natural gas and petroleum) sources using the measurements of CH4 and selected VOCs, a source-specific 1 km CH4 emission model, and an atmospheric transport model. We estimate that SFBA CH4 emissions are 166–289 Gg CH4/yr (at 95% confidence), 1.3–2.3 times higher than a recent inventory with much of the underestimation from landfill. Including the VOCs, …

Comparison Of The Scavenging Intensity, Remineralization And Residence Time Of 210po And 210pb At Key Interfaces (Biotic, Sediment-Water And Hydrothermal) Along The Geotraces East Pacific Zonal Transect, John Niedermiller

Wayne State University Theses

The contrasting geochemical behavior of two long-lived progeny of 222Rn, namely 210Po and 210Pb, provide valuable insights on the extent of recycling of biogenic particulate matter and their preferential removal from the water column. A total of 135 water samples were collected and analyzed from six vertical profiles for 210Po and 210Pb along the US GEOTRACES East Pacific Zonal Transect. This study shows decreasing atmospheric 210Pb flux from the measured 210Pb activity in aerosols indicating an overall decrease from east to west along the cruise transect. Differences in scavenging intensities, inventories, and residence times of 210Po and 210Pb at key …

Spatial And Temporal Variability In Mlt Turbulence Inferred From In Situ And Ground-Based Observations During The Wadis-1 Sounding Rocket Campaign, Boris Strelnikov, Arthur Szewczyk, Irina Strelnikova, Ralph Latteck, Gerd Baumgarten, Aroh Barjatya, Et.Al

Publications

In summer 2013 the WADIS-1 sounding rocket campaign was conducted at the Andøya Space Center (ACS) in northern Norway (69° N, 16° E). Among other things, it addressed the question of the variability in mesosphere/lower thermosphere (MLT) turbulence, both in time and space. A unique feature of the WADIS project was multi-point turbulence sounding applying different measurement techniques including rocket-borne ionization gauges, VHF MAARSY radar, and VHF EISCAT radar near Tromsø. This allowed for horizontal variability to be observed in the turbulence field in the MLT at scales from a few to 100 km. We found that the turbulence dissipation …

Multiple Drivers Of Seasonal Change In Pri: Implications For Photosynthesis 2. Stand Level, Anatoly A. Gitelson, John A. Gamon, Alexei E. Solovchenko

Biological Systems Engineering: Papers and Publications

The goal of this study was to explore the relationships between stand-level photochemical reflectance index (PRI) and canopy structure/ pigment pools, as well as light use efficiency (LUE) of photosynthetically active vegetation focusing on seasonal or ontogenetic time frames. PRI was originally designed as a means of assessing the xanthophyll cycle and LUE over short (e.g. diurnal) time frames, and few studies have explored the drivers of PRI over longer, seasonal time frames, particularly in crops having different photosynthetic pathways or canopy structures. Consequently, our purpose was to understand and quantify the drivers of PRI responses over seasonal time scales …