Physical Sciences and Mathematics Commons^™

Ecological Monitoring Program At Vims Esl: Annual Report 2023, Paige G. Ross, Richard A. Snyder

Reports

An Ecological Monitoring Program (EMP) has been established at the Virginia Institute of Marine Science Eastern Shore Laboratory (VIMS ESL) for the coastal environment near the Wachapreague lab. The goals of the initiative are to 1) provide status and trends information to scientists who study and regulators who manage Virginia’s marine resources, 2) provide a scientific context for short-term research and grant proposals 3) provide pedagogical enrichment for educators to use in their classes, and 4) build capacity in staff expertise and training of interns and students at VIMS ESL.

The program formalizes and standardizes data collection for a long-term …

Artificial Intelligence For The Electron Ion Collider (Ai4eic), C. Allaire, ..., Cristiano Fanelli, James Giroux, Joey Niestroy, Justin R. Stevens, Patrick Stone, L. Suarez, K. Suresh, Eric Walter, Et Al.

Arts & Sciences Articles

The Electron-Ion Collider (EIC), a state-of-the-art facility for studying the strong force, is expected to begin commissioning its first experiments in 2028. This is an opportune time for artificial intelligence (AI) to be included from the start at this facility and in all phases that lead up to the experiments. The second annual workshop organized by the AI4EIC working group, which recently took place, centered on exploring all current and prospective application areas of AI for the EIC. This workshop is not only beneficial for the EIC, but also provides valuable insights for the newly established ePIC collaboration at EIC. …

Eluquant: Event-Level Uncertainty Quantification In Deep Inelastic Scattering, Cristiano Fanelli, James Giroux

Arts & Sciences Articles

We introduce a physics-informed Bayesian neural network with flow-approximated posteriors using multiplicative normalizing flows for detailed uncertainty quantification (UQ) at the physics event-level. Our method is capable of identifying both heteroskedastic aleatoric and epistemic uncertainties, providing granular physical insights. Applied to deep inelastic scattering (DIS) events, our model effectively extracts the kinematic variables x, Q2, and y, matching the performance of recent deep learning regression techniques but with the critical enhancement of event-level UQ. This detailed description of the underlying uncertainty proves invaluable for decision-making, especially in tasks like event filtering. It also allows for the reduction of true inaccuracies …

Aquaculture Governance: Five Engagement Arenas For Sustainability Transformation, Darien D. Mizuta, Stefan Partelow

VIMS Articles

A greater focus on governance is needed to facilitate effective and substantive progress toward sustainability transformations in the aquaculture sector. Concerted governance efforts can help move the sector beyond fragmented technical questions associated with intensification and expansion, social and environmental impacts, and toward system-based approaches that address interconnected sustainability issues. Through a review and expert-elicitation process, we identify five engagement arenas to advance a governance agenda for aquaculture sustainability transformation: (1) setting sustainability transformation goals, (2) cross-sectoral linkages, (3) land–water–sea connectivity, (4) knowledge and innovation, and (5) value chains. We then outline the roles different actors and modes of …

Northern Neck Regional Shallow Draft Channel Dredging Plan: Feasibility Phase, Donna A. Milligan, Cameron W. Green, C. Scott Hardaway Jr., Christine A. Wilcox, Claire M. Rae, Scott Lerberg, Alex Demeo, George Brooks, Mark Mansfield

Reports

The Initial Phase of the project (Phase 1), used remote sensing and other data collection to develop a method for determining which waterbodies on the Northern Neck of Virginia need dredging. The analysis included most of the waterbodies in the counties of Lancaster, Northumberland, Richmond, and Westmoreland. From this analysis, 19 waterbodies emerged as potentially needing dredged based on physical parameters and residential and economic usage (Milligan et al., 2023).

In this Feasibility Phase (Phase 2), more detailed site data were collected to provide data to the localities for consideration. These tasks were included in the analysis:

1. Historic shore …

Northern Neck Regional Shallow Draft Channel Dredging Plan: Initial Phase, Donna A. Milligan, Grace M. Massey, C. Scott Hardaway Jr., Christine A. Wilcox, Cameron W. Green, Mark Mansfield

Reports

The purpose of this project is to develop a regional dredging program for the localities of the Northern Neck. This report encompasses Phase 1 of the project, which included creating a database of waterbodies in Lancaster, Northumberland, Richmond, and Westmoreland Counties and the Town of Colonial Beach along the Potomac and Rappahannock Rivers and Chesapeake Bay. Generally, these waterbodies can be categorized into three basic types of shallow draft channels: federally-authorized to include aids to navigation (ATONS), non-federal with ATONS, and non-federal without ATONs. Along the Northern Neck, presently identified, are 13 federal channels, 37 non-federal channels in creeks with …

Crystal Structure And Hirshfeld Surface Analysis Of Cyclo-Tetrabromido-1k2br,3k2br-Tetrakis(Pi2-2-{[(Pyridin-2-Yl)Methyl]Amino}Ethane-1-Thiolato-Krystal Structure And Hirshfeld Surface Analysis Ofcyclo-Tetrabromido-1j2br,3j2br-Tetrakis(L2-2-{[(Pyridin-2-Yl)Methyl]Amino}Ethane-1-Thiolato-K3n,S:S)Tetramercury(Ii), I. D. Thomas, K. R. Kocher, J. A. Viehweg, Robert Pike, Deborah Bebout

Arts & Sciences Articles

The macrometallacyclic title compound, [Hg4Br4(C8H11N2S)4] or [((HgL2)(HgBr2))2] (1) where HL = 2-{[(pyridin-2-yl)meth­yl]amino}­ethane-1-thiol, was prepared and structurally characterized. The Hg2+ complex crystallizes in the P21/c space group. The centrosymmetric Hg4S4 metallacycle is constructed from metal ions with alternating distorted tetra­hedral Br2S2 and distorted seesaw N2S2 primary coordination environments with pendant pyridyl groups. The backfolded extended chair metallacycle conformation suggests inter­actions between each of the bis-chelated mercury atoms and Br atoms lying above and below the central Hg2S4 plane. Supra­molecular inter­actions in 1 include a fourfold aryl embrace and potential hydrogen bonds with bromine as the acceptor. Hirshfeld surface analysis indicates that …

Results For The 2023 Vims Industry Cooperative Surveys Of The Mid-Atlantic Bight And Georges Bank Scallop Resource Areas, Sally Roman, David Rudders, Carter Lin, Edwin D. Sánchez

Reports

The Virginia Institute of Marine Science (VIMS) conducted high resolution sea scallop dredge surveys of the Mid-Atlantic Bight (MAB) and Georges Bank (GB) scallop resource areas during May–July 2023.

Dataset: Marsh Migration Methodology Development For Wetland Restoration Targeting, Molly Mitchell, Karinna Nunez, Christine Tombleson, Julie Herman

Data

Coastal marsh loss is a significant issue globally, due in part to rising sea levels and high levels of coastal human activity. Marshes have natural mechanisms to allow them to adapt to rising sea levels, however, migration across the landscape is one of those mechanisms and is frequently in conflict with human use of the shoreline. Ensuring the persistence of marshes into the future requires an understanding of where marshes are likely to migrate under sea level rise and targeting those areas for conservation and preservation activities. The goal of this project was to 1) compile existing datasets and information …

Synthesis Of Shoreline, Sea Level Rise, And Marsh Migration Data For Wetland Restoration Targeting Final Report, Molly Mitchell, Karinna Nunez, Christine Tombleson, Julie Herman

Data

Coastal marsh loss is a significant issue globally, due in part to rising sea levels and high levels of coastal human activity. Marshes have natural mechanisms to allow them to adapt to rising sea levels, however, migration across the landscape is one of those mechanisms and is frequently in conflict with human use of the shoreline. Ensuring the persistence of marshes into the future requires an understanding of where marshes are likely to migrate under sea level rise and targeting those areas for conservation and preservation activities. The goal of this project was to 1) compile existing datasets and information …

Assessment Of Changes Of Complex Shoreline From Medium‑Resolution Satellite Imagery, Nikolay P. Nezlin, Julie Herman, Jonathan Hodge, Stephen Sagar, Robbi Bishop-Taylor, Guangming Zheng, John M. Digiacomo

VIMS Articles

The imagery collected by medium-resolution earth-observing satellites is a powerful and cost-effective tool for the quantitative assessment of shoreline dynamics for water bodies of different spatial scales. In this study, we utilize imagery collected in 1984–2021 on the Middle Peninsula, Virginia, bordering the Chesapeake Bay, USA, by medium-resolution (10–30 m) satellites Landsat-5/7/8 and Sentinel-2A/B. The data was managed in the Earth Analytics Interoperability Lab (EAIL) Data Cube built and configured by the Commonwealth Scientific and Industrial Research Organization (CSIRO, Australia and Chile). The assessments of shoreline change demonstrate adequate agreement with assessments based on aerial photography collected during 1937–2009 by …

A Language Framework For Modeling Social Media Account Behavior, Alexander C. Nwala, Alessandro Flammini, Filippo Menczer

Arts & Sciences Articles

Malicious actors exploit social media to inflate stock prices, sway elections, spread misinformation, and sow discord. To these ends, they employ tactics that include the use of inauthentic accounts and campaigns. Methods to detect these abuses currently rely on features specifically designed to target suspicious behaviors. However, the effectiveness of these methods decays as malicious behaviors evolve. To address this challenge, we propose a language framework for modeling social media account behaviors. Words in this framework, called BLOC, consist of symbols drawn from distinct alphabets representing user actions and content. Languages from the framework are highly flexible and can be …

Identification Of Transient Radio Frequency Occlusion Events In Urban Environments, Margaret M. Rooney, Mark Hinders

Arts & Sciences Articles

We model the propagation of SHF OFDM signals around vehicles and buildings since these are the most common elements present in urban environments that could lead to complex radio frequency signal scattering. Scenarios involving temporary hidden node situations, which we term transient occlusion events, are simulated and compared to scenarios where a line of sight transmission event occurs. Sets of fingerprints generated from signals recorded in full-wave 3D finite difference time domain simulations of these two different types of situations are compared, and features in the fingerprints corresponding to the occlusion of a transmitted signal by a vehicle or a …

Gis Data: Prince George’S County, Maryland – Shoreline Inventory Data 2023, Karinna Nunez, Tamia Rudnicky, Sharon Killeen, Jessica Hendricks, Catherine R. Duning, Evan Hill

Data

The shoreline inventory files have been generated to support the application of the Maryland Shoreline Stabilization Model (SSM), developed by the Center for Coastal Resources Management (CCRM), Virginia Institute of Marine Science (VIMS), to enhance and streamline regulatory decision making in Maryland. This shoreline inventory includes the features needed as inputs to run the SSM.

The data developed for the Shoreline Inventory is based on a three-tiered shoreline assessment approach. This assessment characterizes conditions by using observations made remotely at the desktop using high resolution imagery. The three-tiered shoreline assessment approach divides the shore zone into three regions:

1) the …

Gis Data: Harford County, Maryland – Shoreline Inventory Data 2023, Karinna Nunez, Tamia Rudnicky, Sharon Killeen, Jessica Hendricks, Catherine R. Duning, Evan Hill

Data

The shoreline inventory files have been generated to support the application of the Maryland Shoreline Stabilization Model (SSM), developed by the Center for Coastal Resources Management (CCRM), Virginia Institute of Marine Science (VIMS), to enhance and streamline regulatory decision making in Maryland. This shoreline inventory includes the features needed as inputs to run the SSM.

The data developed for the Shoreline Inventory is based on a three-tiered shoreline assessment approach. This assessment characterizes conditions by using observations made remotely at the desktop using high resolution imagery. The three-tiered shoreline assessment approach divides the shore zone into three regions:

1) the …

Gis Data: Cecil County, Maryland – Shoreline Inventory Data 2023, Karinna Nunez, Tamia Rudnicky, Sharon Killeen, Jessica Hendricks, Catherine R. Duning, Evan Hill

Data

The shoreline inventory files have been generated to support the application of the Maryland Shoreline Stabilization Model (SSM), developed by the Center for Coastal Resources Management (CCRM), Virginia Institute of Marine Science (VIMS), to enhance and streamline regulatory decision making in Maryland. This shoreline inventory includes the features needed as inputs to run the SSM.

The data developed for the Shoreline Inventory is based on a three-tiered shoreline assessment approach. This assessment characterizes conditions by using observations made remotely at the desktop using high resolution imagery. The three-tiered shoreline assessment approach divides the shore zone into three regions:

1) the …

Gis Data: Caroline County, Maryland – Shoreline Inventory Data 2023, Karinna Nunez, Tamia Rudnicky, Sharon Killeen, Jessica Hendricks, Catherine R. Duning, Evan Hill

Data

The shoreline inventory files have been generated to support the application of the Maryland Shoreline Stabilization Model (SSM), developed by the Center for Coastal Resources Management (CCRM), Virginia Institute of Marine Science (VIMS), to enhance and streamline regulatory decision making in Maryland. This shoreline inventory includes the features needed as inputs to run the SSM.

The data developed for the Shoreline Inventory is based on a three-tiered shoreline assessment approach. This assessment characterizes conditions by using observations made remotely at the desktop using high resolution imagery. The three-tiered shoreline assessment approach divides the shore zone into three regions:

1) the …

Elizabeth River Basin Environmental Justice Indicators, Molly Mitchell, Andrew M. Scheld, Sarah Stafford, Tamia Rudnicky, Joseph Snitzer

Data

This data is a portion of the data included in the Elizabeth River Environmental Justice Tool (https://cmap22.vims.edu/EREJTool/) The Elizabeth River Environmental Justice map viewer contains a variety of layers that will help planners target vulnerable locations and populations within the Elizabeth River Watershed. This data was developed specifically to support the Elizabeth River Project’s decision making in this region.

Road Network Analyses Elucidate Hidden Costs Of Road Flooding Under Accelerating Sea Level Rise, Molly Mitchell, Jessica Hendricks, Daniel Schatt

VIMS Articles

Introduction: As sea level rises and coastal communities simultaneously grow, road flooding has the potential to significantly disrupt travel along road networks and make houses, businesses, and critical facilities difficult to reach. The impacts of tidal and storm surge flooding on roadways present challenging social and economic considerations for all coastal jurisdictions. Maintenance, public and private accessibility, evacuation routes, emergency services are just a few of the common themes local governments are beginning to address for low-lying roadways currently known to flood. Continuation of these services allows a community to thrive, to maintain or increase its tax base, and to …

The Importance Of Winter Dinoflagellate Blooms In Chesapeake Bay—A Missing Link In Bay Productivity, Nicole C. Millette, Sophie Clayton, Margaret Mulholland, Leah Gibala-Smith, Michael Lane

VIMS Articles

It is widely assumed that phytoplankton abundance and productivity decline during temperate winters because of low irradiance and temperatures. However, winter phytoplankton blooms commonly occur in temperate estuaries, but they are often undocumented because of reduced water quality monitoring in winter. The small body of in situ work that has been done on winter blooms suggests they can be of enormous consequence to ecosystems. However, because monitoring is often reduced or stopped altogether during winter, it is unclear how widespread these blooms are or how long they can last. We analyzed an over 30-year record of monthly phytoplankton monitoring samples …

Predicting Micronutrient Deficiency With Publicly Available Satellite Data, Elizabeth Bondi-Kelly, Haipeng Chen, Christopher D. Golden, Nikhil Behari, Milind Tambe

Arts & Sciences Articles

Micronutrient deficiency (MND), which is a form of malnutrition that can have serious health consequences, is difficult to diagnose in early stages without blood draws, which are expensive and time-consuming to collect and process. It is even more difficult at a public health scale seeking to identify regions at higher risk of MND. To provide data more widely and frequently, we propose an accurate, scalable, low-cost, and interpretable regional-level MND prediction system. Specifically, our work is the first to use satellite data, such as forest cover, weather, and presence of water, to predict deficiency of micronutrients such as iron, Vitamin …

Prioritizing The Protection And Creation Of Natural And Naturebased Features For Coastal Resilience Using A Gis-Based Ranking Framework – An Exportable Approach, Jessica Hendricks, Pamela Mason, Julie Herman, Carl Hershner

VIMS Articles

Increasing the preservation and creation of natural and nature-based features (NNBF), like wetlands, living shorelines, beaches, dunes and other natural features to improve community resilience in the face of increasing coastal flooding may be achieved by highlighting the locally relevant benefits that these features can provide. Here we present a novel application of the least-cost geospatial modeling approach to generate inundation pathways that highlight landscape connections between NNBF and vulnerable infrastructure. Inundation pathways are then used to inform a ranking framework that assesses NNBF based on their provision of benefits and services to vulnerable infrastructure and for the broader community …

Sorption Of Representative Organic Contaminants On Microplastics: Effects Of Chemical Physicochemical Properties, Particle Size, And Biofilm Presence, Wenxuan Cui, Robert C. Hale, Yichao Huang, Et Al.

VIMS Articles

Microplastic pollution has attracted mounting concerns worldwide. Microplastics may concentrate organic and metallic contaminants; thus, affecting their transport, fate and organismal exposure. To better understand organic contaminant-microplastic interactions, our study explored the sorption of selected polychlorinated biphenyls (PCBs), polybrominated diphenyl ethers (PBDEs), α-hexabromocyclododecane (α-HBCDD), and organophosphate flame retardants (OPFRs) on high-density polyethylene (HDPE) and polyvinylchloride (PVC) microplastics under saline conditions. Sorption isotherms determined varied between chemicals and between HDPE and PVC microplastics. Log Freundlich sorption coefficients (Log K_F) for the targeted chemicals ranged from 2.01 to 5.27 L kg^-1 for HDPE, but were significantly lower for PVC, …

Road Accessibility From County Seat Under Flooding: Middle Peninsula, Northern Neck, Southside, Molly Mitchell, Jessica Hendricks, Daniel Schatt, Marcia Berman

Data

The impacts of recurrent flooding on roadways present challenging social and economic considerations for all coastal jurisdictions. Maintenance, public and private accessibility, evacuation routes, and emergency services are just a few of the common themes local governments are beginning to address for low-lying roadways currently known to flood. The project implements a protocol developed by CCRM to analyze the level at which road flooding may impact communities and their ability to reach key locations at periodic intervals; through the year 2100 in coastal Virginia. Using a network analysis, road accessibility is evaluated at different levels of flooding (at 0.1 meter …

Modeling Titan’S Atmosphere Through Investigation Of Low-Temperature Kinetics And Branching Of N (^2d) And C2h4 Towards Cyclic-2h-Azirine (C-Ch2nch), Ruby Neisser, Sophia Haile

Undergraduate Research Awards

Excerpt from paper: "Understanding the rate coefficients and branching of reactions in extraterrestrial atmospheres is of vital importance because it allows us to build a more complete picture of the overall chemical makeup and photochemical behavior in these alien environments. Gaining insight into these exotic reactions is crucial not only for understanding extraterrestrial environments, but also for providing a better understanding of reactions on Earth. The atmosphere of Titan, Saturn’s largest moon, is notably rich in nitrogen compounds and chemical reactions, which makes it an immensely important environment to study.1 Titan’s reducing atmosphere resembles that of early Earth (the first …

Statistical Modeling: Regression, Survival Analysis, And Time Series Analysis, Lawrence Leemis

Open Education Resources (OER)

Statistical Modeling provides an introduction to regression, survival analysis, and time series analysis for students who have completed calculus-based courses in probability and mathematical statistics. The book uses the R language to fit statistical models, conduct Monte Carlo simulation experiments and generate graphics. Over 300 exercises at the end of the chapters makes this an appropriate text for a class in statistical modeling.

Part 1: Regression
Chapter 1: Simple Linear Regression
Chapter 2: Inference in Simple Linear Regression
Chapter 3: Topics in Regression

Part II: Survival Analysis
Chapter 4: Probability Models in Survival Analysis
Chapter 5: Statistical Methods in Survival …

Shellfish, Shorelines, Seagrass And Schism How Virginia Became A Leader In Coastal Marine Science, George Mapp

Miscellaneous

Since the 1930s, when William and Mary professor Donald Davis proposed hiring a state-funded biologist to address fisheries issues, Virginia marine scientists have diagnosed shellfish diseases, rejuvenated the oyster and clam fisheries, preserved wetlands and shorelines, restored seaside seagrass, and accurately modeled Chesapeake Bay circulation. This informal history looks back at the lives of the many dedicated marine scientists, advisory personnel, and administrators who led the Commonwealth through difficult times: collapse of the oyster industry, James River toxic pesticide pollution, Chesapeake Bay water quality degradation, crab and striped bass population declines, and the current challenges brought about by climate change …

Frequent Storm Surges Affect The Groundwater Of Coastal Ecosystems, Giovanna Nordio, Ryan Frederiks, Mary Hingst, Joel Carr, Matthew L. Kirwan, Et Al

VIMS Articles

Recent studies have focused on the effect of large tropical cyclones (hurricanes) on the shore, neglecting the role of less intense but more frequent events. Here we analyze the effect of the offshore tropical storm Melissa on groundwater data collected along the North America Atlantic coast. Our meta-analysis indicates that both groundwater level and specific conductivity significantly increased during Melissa, respectively reaching maximum values of 1.09 m and 25.2 mS/cm above pre-storm levels. Time to recover to pre-storm levels was 10 times greater for groundwater specific conductivity, with a median value of 20 days, while groundwater level had a median …

Immunofluorescence Visualization Of Polycyclic Aromatic Hydrocarbon Mixtures In The Eastern Oyster Crassostrea Virginica, Kristen M. Prossner, Hamish J. Small, Ryan Carnegie, Michael A. Unger

VIMS Articles

Bivalve mollusks including oysters have low metabolic potential and are therefore susceptible to accumulating high levels of lipophilic organic contaminants such as polycyclic aromatic hydrocarbons (PAHs). Human exposure to PAHs via consumption of this important commercial shellfish can be a serious public health concern in areas where high PAH contamination exists. Previous PAH immunohistochemical studies have been limited to laboratory-based exposures focusing on one or a few individual PAH compounds. To date, such studies have yet to explore PAH accumulation in oysters, known to have some of the highest levels of PAHs across different food products. Using a monoclonal antibody …

Sediment Metagenomics Reveals The Impacts Of Poultry Industry Wastewater On Antibiotic Resistance And Nitrogen Cycling Genes In Tidal Creek Ecosystems, Miguel Semedo, Bongkeun Song

VIMS Articles

The intensification of the poultry industry may lead to the increased spread of antibiotic resistance genes (ARGs) in the environment. However, the impacts of wastewater discharge from poultry processing plants on the sediment resistome are relatively unexplored. Furthermore, its relationships with important biogeochemical pathways, such as the N cycle, are virtually unknown. The overall objective of this study was to examine the abundance and diversity of antibiotic resistance and N cycling genes in sediment microbial communities impacted by poultry industry wastewater. We performed a metagenomic investigation of sediments in an impacted and a reference tidal creek. We also quantified the …