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The Role Of Cellulose Synthase-Like D Genes In Tip Growth Of Physcomitrella Patens, Erin E. Killeavy, Arielle Chaves, Alison Roberts May 2016

The Role Of Cellulose Synthase-Like D Genes In Tip Growth Of Physcomitrella Patens, Erin E. Killeavy, Arielle Chaves, Alison Roberts

Senior Honors Projects

Physcomitrella patens is a non-vascular plant with a relatively small genome and is amongst the few eukaryotic organisms that have a high rate of homologous recombination. This is valuable in biological research because it allows for targeted genetic modification of the organism. In vascular plants like Arabidopsis thaliana, a model organism, Cellulose Synthase-like D (CSLD) genes have been discovered to be important in tip growth. This type of growth is observed in the pollen tubes and root hairs of these plant types. The CSLD genes in Arabidopsis were found to play a crucial role in the growth of …

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Epidemiological Characteristics Of Clinically-Confirmed Cases Of Chikungunya In Teculutan, Guatemala, Annaly Aldana May 2016

Epidemiological Characteristics Of Clinically-Confirmed Cases Of Chikungunya In Teculutan, Guatemala, Annaly Aldana

Senior Honors Projects

As no vaccine currently exists for the Chikungunya virus (CHKV), mosquito control and efficient public health campaigns are crucial for the prevention of disease propagation. The purpose of this research project is to identify populations particularly at-risk for acquiring Chikungunya, and to explore the role that cultural attitudes may play in impacting mosquito-borne disease. Due to its geographical structure and climate, Guatemala is an ideal territory for the spread of emerging and re-emerging mosquito-borne diseases. This project was developed by collaborating with the public governmental health clinic in the municipal town of Teculután, in the department of Zacapa in Guatemala. …

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Faculty Senate Meeting Minutes April 21, 2016, University Of Rhode Island Faculty Senate Apr 2016

Faculty Senate Meeting Minutes April 21, 2016, University Of Rhode Island Faculty Senate

Faculty Senate Meeting Minutes

No abstract provided.

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Curricular Affairs Committee Report #533 Appendix N, University Of Rhode Island Faculty Senate Apr 2016

Curricular Affairs Committee Report #533 Appendix N, University Of Rhode Island Faculty Senate

Faculty Senate Committee Reports and Appendices

No abstract provided.

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Curricular Affairs Committee Report #533 Appendix B, University Of Rhode Island Faculty Senate Apr 2016

Curricular Affairs Committee Report #533 Appendix B, University Of Rhode Island Faculty Senate

Faculty Senate Committee Reports and Appendices

No abstract provided.

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Curricular Affairs Committee Report #533 Appendix P, University Of Rhode Island Faculty Senate Apr 2016

Curricular Affairs Committee Report #533 Appendix P, University Of Rhode Island Faculty Senate

Faculty Senate Committee Reports and Appendices

No abstract provided.

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Curricular Affairs Committee Report #533 Appendix R, University Of Rhode Island Faculty Senate Apr 2016

Curricular Affairs Committee Report #533 Appendix R, University Of Rhode Island Faculty Senate

Faculty Senate Committee Reports and Appendices

No abstract provided.

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Draft Genome Sequence Of The New Pathogen For Bivalve Larvae Vibrio Bivalvicida, Javier Dubert, Edward J. Spinard, David R. Nelson, Marta Gomez-Chiarri, Jesus L. Romalde, Juan L. Barja Apr 2016

Draft Genome Sequence Of The New Pathogen For Bivalve Larvae Vibrio Bivalvicida, Javier Dubert, Edward J. Spinard, David R. Nelson, Marta Gomez-Chiarri, Jesus L. Romalde, Juan L. Barja

Cell and Molecular Biology Faculty Publications

Vibrio bivalvicida is a novel pathogen of bivalve larvae responsible for recent vibriosis outbreaks affecting shellfish hatcheries. Here, we announce the draft genome sequence of V. bivalvicida 605 and describe potential virulence factors.

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Is Ca-125 The Leading Biomarker In Determining Early-Onset Ovarian Cancer Diagnosis In 2016?, Alexa Clark Apr 2016

Is Ca-125 The Leading Biomarker In Determining Early-Onset Ovarian Cancer Diagnosis In 2016?, Alexa Clark

Senior Honors Projects

Epithelial ovarian cancer is the most lethal gynecologic malignancy with very ineffective efforts at early detection and therapeutic methodologies to reduce mortality. The origin and pathogenicity of ovarian cancer is vastly unclear, which is why diagnosing the disease early on is difficult. CA-125 is a used as therapeutic tumor marker for ovarian cancer, but it is not diagnostic or specific. The role of CA-125 in the early detection of ovarian cancer is extremely controversial and has not been widely accepted for screening in women who do not show any symptoms. In order to enhance the sensitivity for early disease detection …

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"Paying For Success": Structuring Reimbursement Of Free Healthcare For Pre-Insured Patients Using The Social Equity Bond Model, Nikkole Turgeon Apr 2016

"Paying For Success": Structuring Reimbursement Of Free Healthcare For Pre-Insured Patients Using The Social Equity Bond Model, Nikkole Turgeon

Senior Honors Projects

Millions of Americans without insurance under the Affordable Care Act expansion fall into two categories: the ‘coverage gap’ and the ‘citizenship gap’. These two groups are disproportionately affected by health disparities due to low-income or legal status. Health disparities affect individuals in many aspects of their lives, including their health, finances, and overall quality of life. To improve the lives of uninsured individuals in Providence, Rhode Island Clínica Esperanza/Hope Clinic (CEHC) proposes to set up a Social Investment Bond Pay for Success program. CEHC has teamed with the Rhode Island Office of Health and Human Services and other RI organizations …

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Effects Of Environmental Factors On The Abundance Of Blacklegged Ticks, Jasmine L. Miller, Roger A. Lebrun, Howard S. Ginsberg Apr 2016

Effects Of Environmental Factors On The Abundance Of Blacklegged Ticks, Jasmine L. Miller, Roger A. Lebrun, Howard S. Ginsberg

Senior Honors Projects

The nymphal stage of the blacklegged tick, Ixodes scapularis, is the major vector of Lyme disease, the most common vector-borne disease in North America. Tick abundance has generally been estimated using either flag/drag samples or samples from hosts. However, the biases of these sampling methods have not been adequately studied. We compared samples using both methods from sites in Massachusetts and Wisconsin. Tick abundance was compared with variables related to weather (temperature, relative humidity, and tick adverse moisture events), vegetation (canopy cover, tree density, shrub density, ground vegetation, and leaf litter cover), and host abundance (mice, small mammals, medium …

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The Lattice Kinetic Monte Carlo Method As A Versatile Tool For Simulating Diverse Micro And Mesoscale Phenomena, Talid Sinno Mar 2016

The Lattice Kinetic Monte Carlo Method As A Versatile Tool For Simulating Diverse Micro And Mesoscale Phenomena, Talid Sinno

Amgen Seminar Series in Chemical Engineering

Lattice-based, or ‘on-lattice’, kinetic Monte Carlo simulations are attractive because of their relative computational simplicity and efficiency, and have been employed to simulate an enormous range of non-equilibrium physical, chemical and biological phenomena. In a kinetic Monte Carlo simulation (also referred to as dynamic Monte Carlo or the Gillespie method), which is typically applied to a collection of discrete particles, rates must first be specified for a set of ‘events’, such as a hop of an atom from one lattice site to another or a reaction between two particles. The universe of events and the associated rates are input to …

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2016-03 Library Impact Statement For Bio/Soc 210g Sociobiology Of Sex, Michael Cerbo Mar 2016

2016-03 Library Impact Statement For Bio/Soc 210g Sociobiology Of Sex, Michael Cerbo

Library Impact Statements

Library Impact Statement submitted in response to new course proposal for BIO/SOC 210G Sociobiology of Sex. This class was supported with no need for additional resources. Responding library faculty: Michael Cerbo. Requesting faculty: Jessica Adams.

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2016-03 Library Impact Statement For Bio/Apg 282g Sapiens: The Changing Nature Of Human Evolution, Michael Cerbo Mar 2016

2016-03 Library Impact Statement For Bio/Apg 282g Sapiens: The Changing Nature Of Human Evolution, Michael Cerbo

Library Impact Statements

Library Impact Statement submitted in response to new course proposal for BIO/APG 282G Sapiens: the Changing Nature of Human Evolution. This class was supported with no need for additional resources. Responding library faculty: Michael Cerbo. Requesting faculty: Jason Kolbe.

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Draft Genome Sequence Of Aliiroseovarius Crassostreae Cv919-312, The Causative Agent Of Roseovarius Oyster Disease (Formerly Juvenile Oyster Disease), Linda Kessner, Edward Spinard, Marta Gomez-Chiarri, David C. Rowley, David R. Nelson Mar 2016

Draft Genome Sequence Of Aliiroseovarius Crassostreae Cv919-312, The Causative Agent Of Roseovarius Oyster Disease (Formerly Juvenile Oyster Disease), Linda Kessner, Edward Spinard, Marta Gomez-Chiarri, David C. Rowley, David R. Nelson

Fisheries, Animal and Veterinary Sciences Faculty Publications

Aliiroseovarius crassostreae CV919-312 is a marine alphaproteobacterium and the causative agent of Roseovarius oyster disease. We announce here the draft genome sequence of A. crassostreae CV919-312 and identify potential virulence genes involved in pathogenicity.

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Measuring Your Research Impact: Citation And Altmetrics Tools, Amanda Izenstark, Julia Lovett, Andrée Rathemacher Mar 2016

Measuring Your Research Impact: Citation And Altmetrics Tools, Amanda Izenstark, Julia Lovett, Andrée Rathemacher

Technical Services Faculty Presentations

Slides from a presentation, "Measuring Your Research Impact: Citation and Altmetrics Tools," offered at the Association of Rhode Island Health Sciences Libraries (ARIHSL) Business Meeting on March 16, 2016. The meeting took place at the Miriam Hospital in Providence, Rhode Island.

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2016-03 Library Impact Statement For Nrs/Bio 519 Field Experience In Herpatology (Amphibian And Reptile Ecology), Michael Cerbo Mar 2016

2016-03 Library Impact Statement For Nrs/Bio 519 Field Experience In Herpatology (Amphibian And Reptile Ecology), Michael Cerbo

Library Impact Statements

Library Impact Statement submitted in response to new course proposal for NUR/BIO 519 Field Experience in Herpatology (Amphibian and Reptile Ecology).This class was supported with no need for additional resources. Responding library faculty: Michael Cerbo. Requesting faculty: Nancy Karraker.

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2016-03 Library Impact Statement For Nrs/Bio 419 Field Experience In Herpatology (Amphibian And Reptile Ecology), Michael Cerbo Mar 2016

2016-03 Library Impact Statement For Nrs/Bio 419 Field Experience In Herpatology (Amphibian And Reptile Ecology), Michael Cerbo

Library Impact Statements

Library Impact Statement submitted in response to new course proposal for NRS/BIO 419 Field Experience in Herpatology (Amphibian and Reptile Ecology).This class was supported with no need for additional resources. Responding library faculty: Michael Cerbo. Requesting faculty: Nancy Karraker

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Selectively Permeable Microbial Nanoculture System As Artificial Microniches, Tagbo Niepa Mar 2016

Selectively Permeable Microbial Nanoculture System As Artificial Microniches, Tagbo Niepa

Amgen Seminar Series in Chemical Engineering

Microfluidics-based approaches for isolating microbes, replicating their microenvironments and growth conditions can provide new platforms to elucidate many fundamental biological questions. For instance, the spatial confinement of microorganisms in microcompartments can spawn new insights on the inherent advantages of cell clustering and biofilm formation in microbial survival and virulence mechanisms. As the worldwide antibiotic crisis persists, there is an urgent need for emerging technologies that enable the scrutiny of the evolution of multidrug resistance, and facilitate the study of cooperative or antagonistic microbial interactions. Here we describe a method to generate artificial multifunctional microniches in order to encapsulate and interrogate …

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Immuno And Affinity Cytochemical Analysis Of Cell Wall Composition In The Moss Physcomitrella Patens, Elizabeth A. Berry, Mai L. Tran, Christos S. Dimos, Michael J. Budziszek Jr., Tess R. Scavuzzo-Duggan, Alison Roberts Mar 2016

Immuno And Affinity Cytochemical Analysis Of Cell Wall Composition In The Moss Physcomitrella Patens, Elizabeth A. Berry, Mai L. Tran, Christos S. Dimos, Michael J. Budziszek Jr., Tess R. Scavuzzo-Duggan, Alison Roberts

Biological Sciences Faculty Publications

In contrast to homeohydric vascular plants, mosses employ a poikilohydric strategy for surviving in the dry aerial environment. A detailed understanding of the structure, composition, and development of moss cell walls can contribute to our understanding of not only the evolution of overall cell wall complexity, but also the differences that have evolved in response to selection for different survival strategies. The model moss species Physcomitrella patens has a predominantly haploid lifecycle consisting of protonemal filaments that regenerate from protoplasts and enlarge by tip growth, and leafy gametophores composed of cells that enlarge by diffuse growth and differentiate into several …

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Functional Biomaterials Via Supramolecular Assembly Of Biomolecule Fusions, Gregory Hudalla Mar 2016

Functional Biomaterials Via Supramolecular Assembly Of Biomolecule Fusions, Gregory Hudalla

Amgen Seminar Series in Chemical Engineering

Research in the Hudalla lab creates functional materials for therapeutic or diagnostic applications via “self-assembly”, the spontaneous organization of molecules into supramolecular structures. In general, we first develop synthetic peptides that self-assemble into a desired nano-scale architecture, and then use these peptides as “fusion tags” to organize biologically active molecules into functional materials. One aspect of my research program focuses on creating biomaterials that can recognize carbohydrate-binding proteins, or “lectins”, via self-assembly of synthetic glycopeptides. This talk will present examples of biomaterials that can inhibit lectin bioactivity via non-covalent capture within lectin-rich environments, or harness lectin bioactivity via controlled release …

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Near-Infrared Bio-Imaging Labels And Sensors Using Single-Walled Carbon Nanotubes, Daniel Roxbury Mar 2016

Near-Infrared Bio-Imaging Labels And Sensors Using Single-Walled Carbon Nanotubes, Daniel Roxbury

Amgen Seminar Series in Chemical Engineering

The intrinsic band-gap photoluminescence (fluorescence) of single-walled carbon nanotubes (SWCNTs) exhibits exceptional photostability, narrow bandwidth, near-infrared (nIR) tissue-penetrating emission, and microenvironmental sensitivity, which enables their usage in a variety of biomedical imaging applications. Amphiphilic biopolymers, such as single-stranded DNA or peptides, are capable of singly-dispersing SWCNTs, enabling photoluminescence in aqueous solutions. A DNA sequence-dependent scheme for SWCNT species (chirality) separation has been observed that highly correlated with DNA-SWCNT binding strengths. Using all-atom replica exchange molecular dynamics simulations (REMD), equilibrium structures confirmed that a variety of novel DNA secondary structures form when confined to the exterior surface of the SWCNT in …

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Characterizing A Debris Field Using Digital Mosaicking And Cad Model Superimposition From Underwater Video, Jay M. Vincelli, Fatih Calakli, Michael A. Stone, Graham E. Forrester, Timothy Mellon, John D. Jarrell Mar 2016

Characterizing A Debris Field Using Digital Mosaicking And Cad Model Superimposition From Underwater Video, Jay M. Vincelli, Fatih Calakli, Michael A. Stone, Graham E. Forrester, Timothy Mellon, John D. Jarrell

Natural Resources Science Faculty Publications

Identifying submerged objects is critical for several disciplines such as marine archaeology and search and rescue. However, identifying objects in underwater searches presents many challenges, particularly if the only data available to analyze is poorquality video where the videographer did not plan for photogrammetric techniques to be utilized. In this paper, we discuss the use of adaptive sampling of the underwater video to extract sharp still images for stitching and analysis, and creating mosaicked images by identifying and matching local scale-invariant feature transform features using computationally efficient algorithms. Computer aided design models of suspected aircraft components were superimposed, and a …

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Bacteria Removal From Stormwater Runoff Using Tree Filters: A Comparison Of A Conventional And An Innovative System, Laura A. Schifman, Varun K. Kasaraneni, Ryan K. Sullivan, Vinka Oyanedel-Craver, Thomas B. Boving Feb 2016

Bacteria Removal From Stormwater Runoff Using Tree Filters: A Comparison Of A Conventional And An Innovative System, Laura A. Schifman, Varun K. Kasaraneni, Ryan K. Sullivan, Vinka Oyanedel-Craver, Thomas B. Boving

Civil & Environmental Engineering Faculty Publications

Non-point source pollution of stormwater contributes high contaminant loads into surface water bodies and poses a threat to the ecosystem, public health and economy. Although (pre)treatment standards have not been introduced at the federal level, Rhode Island (RI) has set minimal contaminant reduction standards for stormwater using structural best management practices (BMP). As BMP performance depends highly on geographical location and climate, and the Northeastern United States experiences broad ranges of temperatures throughout the year along with long intermittent periods between precipitation events, stormwater treatment can be challenging. In this field study, two tree filters were evaluated: a conventional unit …

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Faculty Senate Meeting Minutes February 18, 2016, University Of Rhode Island Faculty Senate Feb 2016

Faculty Senate Meeting Minutes February 18, 2016, University Of Rhode Island Faculty Senate

Faculty Senate Meeting Minutes

No abstract provided.

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A Bacterial Quorum-Sensing Precursor Induces Mortality In The Marine Coccolithophore, Emiliania Huxleyi, Elizabeth L. Harvey, Robert W. Deering, David C. Rowley, Abrahim El Gamal, Michelle Schorn, Bradley Moore, Matthew Johnson, Tracy J. Mincer, Kristen E. Whalen Feb 2016

A Bacterial Quorum-Sensing Precursor Induces Mortality In The Marine Coccolithophore, Emiliania Huxleyi, Elizabeth L. Harvey, Robert W. Deering, David C. Rowley, Abrahim El Gamal, Michelle Schorn, Bradley Moore, Matthew Johnson, Tracy J. Mincer, Kristen E. Whalen

Biomedical and Pharmaceutical Sciences Faculty Publications

Interactions between phytoplankton and bacteria play a central role in mediating biogeochemical cycling and food web structure in the ocean. However, deciphering the chemical drivers of these interspecies interactions remains challenging. Here, we report the isolation of 2-heptyl-4-quinolone (HHQ), released by Pseudoalteromonas piscicida, a marine gamma-proteobacteria previously reported to induce phytoplankton mortality through a hitherto unknown algicidal mechanism. HHQ functions as both an antibiotic and a bacterial signaling molecule in cell–cell communication in clinical infection models. Co-culture of the bloom-forming coccolithophore, Emiliania huxleyi with both live P. piscicida and cell-free filtrates caused a significant decrease in algal growth. Investigations …

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Psamm: A Portable System For The Analysis Of Metabolic Models, Jon Lund Steffensen, Keith Dufault-Thompson, Ying Zhang Feb 2016

Psamm: A Portable System For The Analysis Of Metabolic Models, Jon Lund Steffensen, Keith Dufault-Thompson, Ying Zhang

Cell and Molecular Biology Faculty Publications

The genome-scale models of metabolic networks have been broadly applied in phenotype prediction, evolutionary reconstruction, community functional analysis, and metabolic engineering. Despite the development of tools that support individual steps along the modeling procedure, it is still difficult to associate mathematical simulation results with the annotation and biological interpretation of metabolic models. In order to solve this problem, here we developed a Portable System for the Analysis of Metabolic Models (PSAMM), a new open-source software package that supports the integration of heterogeneous metadata in model annotations and provides a user-friendly interface for the analysis of metabolic models. PSAMM is independent …

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Curricular Affairs Committee Minutes February 1, 2016, University Of Rhode Island Faculty Senate Feb 2016

Curricular Affairs Committee Minutes February 1, 2016, University Of Rhode Island Faculty Senate

Faculty Senate Committee Reports and Appendices

No abstract provided.

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Hydrogen Utilization Potential In Subsurface Sediments, Rishi R. Adhikari, Clemens Glombitza, Julia C. Nickel, Chloe H. Anderson, Ann G. Dunlea, Arthur J. Spivack, Richard W. Murray, Steven D'Hondt, Jens Kallmeyer Jan 2016

Hydrogen Utilization Potential In Subsurface Sediments, Rishi R. Adhikari, Clemens Glombitza, Julia C. Nickel, Chloe H. Anderson, Ann G. Dunlea, Arthur J. Spivack, Richard W. Murray, Steven D'Hondt, Jens Kallmeyer

Graduate School of Oceanography Faculty Publications

Subsurface microbial communities undertake many terminal electron-accepting processes, often simultaneously. Using a tritium-based assay, we measured the potential hydrogen oxidation catalyzed by hydrogenase enzymes in several subsurface sedimentary environments (Lake Van, Barents Sea, Equatorial Pacific, and Gulf of Mexico) with different predominant electron-acceptors. Hydrogenases constitute a diverse family of enzymes expressed by microorganisms that utilize molecular hydrogen as a metabolic substrate, product, or intermediate. The assay reveals the potential for utilizing molecular hydrogen and allows qualitative detection of microbial activity irrespective of the predominant electron-accepting process. Because the method only requires samples frozen immediately after recovery, the assay can be …

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2016-01 Library Impact Statement For Afs 490 Capstone In Aquaculture And Fisheries Sciences, Joanna Burkhardt Jan 2016

2016-01 Library Impact Statement For Afs 490 Capstone In Aquaculture And Fisheries Sciences, Joanna Burkhardt

Library Impact Statements

Library Impact Statement submitted in response to new course proposal for AFS 490 Capstone in Aquaculture and Fisheries Sciences. This class was supported with no need for additional resources. Responding library faculty: Michael Cerbo. Requesting faculty: Austin Humphries.

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