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Community Ecology And Disease Dynamics In Pacific Oysters: Unraveling Microbiome-Pathogen Interactions In The Wild, Victoria E. Cifelli

Cal Poly Humboldt theses and projects

In the context of multispecies microbial assemblages, disruptions can occur when there are alterations in host conditions, such as the onset of a disease. Notably, viruses have the potential to reshape a host's microbial community. However, the role of the host's habitat and environment, which could be pivotal in communities with shifting niche space and habitat filters, is often overlooked in host-microbe-pathogen interactions. Recognizing the importance of these factors, I employed a field-based approach to understand microbial community dynamics in the presence of disease. To address the influence of geographical location, I conducted an analysis involving healthy and infected oysters …

Engineered Cd4 T Cells Expressing A Membrane Anchored Viral Inhibitor Restrict Hiv-1 Through Cis And Trans Mechanisms, Weiming Wang, Khanghy Truong, Chaobaihui Ye, Suman Sharma, Huan He, Lihong Liu, Michael Wen, Anisha Misra, Paul Zhou, Jason T Kimata

Faculty, Staff and Students Publications

HIV-1 infection of target cells can occur through either cell-free virions or cell-cell transmission in a virological synapse, with the latter mechanism of infection reported to be 100- to 1,000-fold more efficient. Neutralizing antibodies and entry inhibitors effectively block cell-free HIV-1, but with few exceptions, they display much less inhibitory activity against cell-mediated HIV-1 transmission. Previously, we showed that engineering HIV-1 target cells by genetically linking single-chain variable fragments (scFvs) of antibodies to glycosyl phosphatidylinositol (GPI) potently blocks infection by cell-free virions and cell-mediated infection by immature dendritic cell (iDC)-captured HIV-1. Expression of scFvs on CD4

Mortality Difference From Klebsiella Aerogenes Vs Enterobacter Cloacae Bloodstream Infections, Andrew Chou, Richard Sucgang, Richard J Hamill, Lynn Zechiedrich, Barbara W Trautner

Faculty, Staff and Students Publications

Members of the order Enterobacterales, including Escherichia coli , Klebsiella species and Enterobacter species, are important pathogens in healthcare-associated infections. Higher mortality has been reported from infections due to Klebsiella pneumoniae than from E. coli , but prior studies comparing Enterobacter aerogenes (recently renamed Klebsiella aerogenes ) bacteraemia and Enterobacter cloacae complex bacteraemia have yielded conflicting results regarding whether clinical outcomes differ. We found bacteraemia with K. aerogenes was independently associated with greater risk of 30-day mortality than bacteraemia with Enterobacter cloacae complex.

Sialylation And Fucosylation Modulate Inflammasome-Activating Eif2 Signaling And Microbial Translocation During Hiv Infection, Leila B. Giron, Ceylan E. Tanes, Mariane H. Schleimann, Phillip A. Engen, Lisa M. Mattei, Altizel Anzurez, Mohammad Damra, Huanjia Zhang, Kyle Bittinger, Frederic Bushman, Andrew Kossenkov, Paul Denton, Hiroaki Tateno, Ali Keshavarizian, Mohamed Abdel-Mohsen, Alan L. Landay

Biology Faculty Publications

An emerging paradigm suggests that gut glycosylation is a key force in maintaining the homeostatic relationship between the gut and its microbiota. Nevertheless, it is unclear how gut glycosylation contributes to the HIV-associated microbial translocation and inflammation that persist despite viral suppression and contribute to the development of several comorbidities. We examined terminal ileum, right colon, and sigmoid colon biopsies from HIV-infected virally-suppressed individuals and found that gut glycomic patterns are associated with distinct microbial compositions and differential levels of chronic inflammation and HIV persistence. In particular, high levels of the pro-inflammatory hypo-sialylated T-antigen glycans and low levels of the …

Phytochemical And Antibacterial Evaluations Of Chloroform Extract Of Mondia Whitei (Hook F) Skeels, Abdullahi Shehu, Ojochide Inikpi Egwemi, Olufunmilayo Adeola Ajayi, Abdulmumeen Amao Hamid

Tanzania Journal of Science

Mondia whitei, also known as Mondia, is an aromatic plant of Apocynaceae family. It is used as aphrodisiac, antidepressant, fertility medication and to improve appetite. The present study aimed to evaluate the phytochemical and antibacterial properties of the plant. The chloroform extract of M. whitei was screened for its antibacterial effects using agar diffusion method against five bacterial strains (Staphylococcus aureus, Pseudomonas aeruginosa, Escherichia coli, Klebsiella pneumoniae and Salmonella typhi). The extract was active against S. typhi, K. pneumoniae and S. aureus at 400, 400 and 200 mg/mL, respectively. The antibacterial activity of the extract was observed in a dose-dependent …

Antimalarial And Antimicrobial Activities Of Some Heteroleptic Metal(Ii) Complexes Of Sulfadiazine–Vitamin C: Synthesis And Spectroscopic Studies, Ikechukwu P. Ejidike, Mercy O. Bamigboye, Dorcas A. Fadare, Juliana B. Adetunji, Joshua A. Obaleye

Tanzania Journal of Science

Some new Ni(II), Zn(II), Co(II), Cu(II), and Cd(II) of mixed Sulphadiazine and Vitamin C complexes have been synthesized and characterized by different spectroscopic techniques such as FT-IR, elemental analysis, molar conductivity, and magnetic measurements. Both ligands used for this research work act as bidentate ligands towards the central metal ions coordinating through the nitrogen atoms of >C=N–, NH2 groups of Sulphadiazine and oxygen atoms of OH, CO groups of Vitamin C. Tetrahedral and square-planar geometries have been proposed for the complexes. The complexes are stable under atmospheric conditions. The ligands and their complexes were screened for antimicrobial activities against some …

Antibody Epitope Profiling Of The Kshv Lana Protein Using Virscan, Sydney J. Bennett, Dicle Yalcin, Sara R. Privatt, Owen Ngalamika, Salum J. Lidenge, John T. West, Charles Wood

School of Biological Sciences: Faculty Publications

The humoral antibody response against Kaposi sarcoma-associated herpesvirus (KSHV) in infected individuals has been characterized demonstrating the latency-associated nuclear antigen (LANA) as the most antigenic KSHV protein. Despite the antigenicity of the protein, specific LANA epitopes have not been systematically characterized. Here, we utilized a bacteriophage T7 library, which displays 56-amino acid KSHV LANA peptides with 28-amino acid overlap (VirScan), to define those epitopes in LANA targeted by antibodies from a cohort of 62 sub-Saharan African Kaposi sarcoma (KS) patients and 22 KSHV-infected asymptomatic controls. Intra- and inter-patient breadth and magnitude of the anti-LANA responses were quantified at the peptide …

System Shock: Using -Omics Data To Characterize Biological Remodeling In The Microbiome, Resistome, And Transcriptome Of Bacteria, Winston Eugene Anthony

Arts & Sciences Graduate Student Theses and Dissertations

The human experience is indelibly linked to microbial life. So much so, that the holobiont theory has been coined to define the assemblage of host and microbe as a discrete ecological unit. Perturbation of the commensal microbiome can create niche space for pathogens, which through the concomitant rise of antimicrobial resistance represent an ever-evolving danger. In Chapter 2 of this dissertation, I describe the results of an interventional study designed to directly perturb the healthy gut microbiome and observe the dynamics of taxonomic composition and functional recovery. I observe significant decreases after 5 days of antibiotic treatment in the gold …

Inferring Adaptation In Social Microbes From Experimental Evolution Under Relaxed Selection, Tyler John Larsen

Arts & Sciences Graduate Student Theses and Dissertations

Microbes exist against a backdrop of other organisms, and the interactions between microbes have major consequences on their traits, their evolution, and their impact on the world. Microbial interactions and the adaptations that enable them are extremely diverse – they can unlock abilities beyond the reach of individual cells or lead to a population’s destruction, they can be temporary or permanent, they can be between genetically identical cells or different species entirely. The first chapter of this dissertation reviews microbial interactions and the related concept of the evolution of conflict and cooperation.To be certain a trait is an adaptation at …

The Enemy Within: An Investigation Of The Intracellular Bacteria In Urinary Tract Infections, Jennie Elizabeth Hazen

Arts & Sciences Graduate Student Theses and Dissertations

Urinary tract infections (UTIs) are common diseases that are associated with significant morbidities. Multiple studies have indicated that multiple species of uropathogenesis bacteria invade and persist within bladder epithelial cells as a necessary step of uropathogenesis. Interestingly, many of these species are not canonically associated with intracellular infections. Although the first study describing bacteria within the urothelium was published two decades ago, this critical step of uropathogenesis remains relatively understudied.I established a murine model of community-acquired A. baumannii UTI, a previously unstudied manifestation of the disease. While immunocompetent mice resolved their infections quickly, immunocompromised mice displayed high bacterial burdens throughout …

Growth Productivity As A Determinant Of The Inoculum Effect For Bactericidal Antibiotics, Gabriela Diaz-Tang, Estefania Marin Meneses, Kavish Patel, Sophia Mirkin, Laura Garcia-Dieguez, Camryn Pajon, Ivana Barraza, Vijay Patel, Helana Ghali, Angelica P. Tracey, Christopher Blanar, Allison J. Lopatkin, Robert P. Smith

Biology Faculty Articles

Understanding the mechanisms by which populations of bacteria resist antibiotics has implications in evolution, microbial ecology, and public health. The inoculum effect (IE), where antibiotic efficacy declines as the density of a bacterial population increases, has been observed for multiple bacterial species and antibiotics. Several mechanisms to account for IE have been proposed, but most lack experimental evidence or cannot explain IE for multiple antibiotics. We show that growth productivity, the combined effect of growth and metabolism, can account for IE for multiple bactericidal antibiotics and bacterial species. Guided by flux balance analysis and whole-genome modeling, we show that the …

Preliminary Analysis Of The Effects Of Non-Target Supplemental Feeding On Camera Trap Captures Of Small Mammals In Central Georgia, Raena Mccown, Travis Cunningham, Alfred J. Mead

Georgia Journal of Science

Supplemental bird feeding is a widespread hobby throughout western culture. Although it brings joy to many people, bird feeding has been shown to have potentially negative effects on local bird populations and small mammalian species. To study the differences in local occurrence of native small mammalian species around bird feeders and in more distant settings, six camera traps were placed in a rural residential area in Putnam County, Georgia. Three cameras were placed facing bird feeders and three placed a minimum of 60 m away from the feeders. Species presence was recorded three days a week from 12:00 am Monday …

(R2022) Mathematical Modelling Of Tuberculosis And Covid-19 Co-Infection In India: A Real Data Analysis On Concomitant Diseases, Vijai Shanker Verma, Harshita Kaushik, Archana Singh Bhadauria

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, we have proposed an epidemiological model to study the dynamics of two concomitant diseases Tuberculosis (TB) and COVID-19. Here, we have formulated a deterministic compartmental model as an extended form of the classical SIS model. First, the basic reproduction number R₀ is derived and then stability analysis of the model is done. It is observed that the disease-free equilibrium is stable when R₀ is less than one and the endemic equilibrium is stable only when R₀ is greater than one. Numerical simulation is carried out to illustrate the theoretical findings and to study the …

(R1522) Modelling The Influence Of Desertic Aerosols On The Transmission Dynamics Of Neisseria Meningitidis Serogroup A, Francis Signing, Berge Tsanou, Samuel Bowong

Applications and Applied Mathematics: An International Journal (AAM)

This paper assesses the role of desert aerosols and vaccine on the transmission dynamics of Neisseria Meningitis serogroup A (NmA). It is biologically well-documented that the inhalation of aerosol dust and its presence in the nasal cavity weakens the nasopharyngeal mucosa by damaging the mucosal barrier and inhibiting the mucosal immune defenses of susceptible and vaccinated individuals. We address the latter by proposing and analyzing a mathematical model for the dynamics of NmA that specifically accounts for the fast progression of susceptible and vaccinated individuals to the invasive stage of the disease. We compute the basic reproduction number and use …

Epidemic Time Series Similarity Is Related To Geographic Distance And Age Structure, Tad Dallas, Grant Foster, Robert L. Richards, Bret D. Elderd

Faculty Publications

Objective

More similar locations may have similar infectious disease dynamics. There is clear overlap in putative causes for epidemic similarity, such as geographic distance, age structure, and population size. We compare the effects of these potential drivers on epidemic similarity compared to a baseline assumption that differences in the basic reproductive number (R₀) will translate to differences in epidemic trajectories.

Methods

Using COVID-19 case counts from United States counties, we explore the importance of geographic distance, population size differences, and age structure dissimilarity on resulting epidemic similarity.

Results

We find clear effects of geographic space, age structure, …

The Effects Of Tubulin Post-Translational Modifications On The Flagellar Motility Of Trypanosoma Brucei, Katherine Wentworth

All Theses

Trypanosoma brucei is a parasitic kinetoplastid that causes African trypanosomiasis and is transmitted to a mammalian host by the tsetse fly (Glossina spp.). T. brucei relies on its flagellar motility to carry out its morphological changes from the procyclic form (predominant in the fly vector) to the bloodstream form (infectious form in mammals) and navigate the bloodstream of its host. The driving structure within the flagellum is the axoneme, which is composed of microtubules and dynein motor proteins. The tubulin code hypothesis suggests that cells regulate microtubule motor protein activity through post-translational modifications (PTMs) of alpha and beta …

Serologic Surveillance For Sars-Cov-2 Infection Among Wild Rodents, Europe, Vincent Bourret, Lara Dutra, Hussein Alburkat, Sanna Mäki, Ella Lintunen, Marine Wasniewski, Ravi Kant, Maciej Grzybek, Vinaya Venkat, Hayder Asad, Julien Pradel, Marie Bouilloud, Herwig Leirs, Valeria Carolina Colombo, Vincent Sluydts, Peter Stuart, Andrew Mcmanus, Jana A. Eccard, Jasmin Firozpoor, Christian Imholt, Joanna Nowicka, Aleksander Goll, Nathan Ranc, Guillaume Castel, Nathalie Charbonnel, Tarja Sironen

Publications

We report results from serologic surveillance for exposure to SARS-CoV-2 among 1,237 wild rodents and small mammals across Europe. All samples were negative, with the possible exception of 1. Despite suspected potential for human-to-rodent spillover, no evidence of widespread SARS-CoV-2 circulation in rodent populations has been reported to date.

Esitämme tulokset serologisesta tutkimuksesta, jossa seulottiin SARS-CoV-2 tartuntojen varalta 1,237 luonnonvaraista jyrsijää ja piennisäkästä eri puolilta Eurooppaa. Kaikki näytteet olivat negatiivisia, yhtä näytettä lukuun ottamatta. SARS-CoV-2:n läikkymisen ihmisistä jyrsijöihin on arveltu olevan mahdollista, mutta todisteet viruksen laajamittaisesta leviämisestä jyrsijäpopulaatioissa puuttuvat.

Insectdisease: Programmatic Access To The Ecological Database Of The World’S Insect Pathogens, Tad Dallas, Colin J. Carlson, Patrick R. Stephens, Sadie J. Ryan, David W. Onstad

Faculty Publications

Curated databases of species interactions are instrumental to exploring and understanding the spatial distribution of species and their biotic interactions. In the process of conducting such projects, data development and curation efforts may give rise to a data product with utility beyond the scope of the original work, but which becomes inaccessible over time. Data describing insect host–pathogen interactions are fairly rare, and should thus be preserved and curated with appropriate metadata. Here, we introduce the insectDisease R package, a mechanism for curating, updating and distributing data from the Ecological Database of the World's Insect Pathogens, a database of insect …

Recombinant Simian Varicella Virus-Simian Immunodeficiency Virus Vaccine Induces T And B Cell Functions And Provides Partial Protection Against Repeated Mucosal Siv Challenges In Rhesus Macaques, Bapi Pahar, Wayne Gray, Marissa Fahlberg, Brooke Grasperge, Meredith Hunter, Arpita Das, Christopher Mabee, Pyone Pyone Aye, Faith Schiro, Krystle Hensley, Aneeka Ratnayake, Kelly Goff, Celia Labranche, Xiaoying Shen, Georgia D. Tomaras, C. Todd Demarco, David Montefiori, Patricia Kissinger, Preston A. Marx

Faculty and Student Publications

HIV vaccine mediated efficacy, using an expanded live attenuated recombinant varicella virus-vectored SIV rSVV-SIVgag/env vaccine prime with adjuvanted SIV-Env and SIV-Gag protein boosts, was evaluated in a female rhesus macaques (RM) model against repeated intravaginal SIV challenges. Vaccination induced anti-SIV IgG responses and neutralizing antibodies were found in all vaccinated RMs. Three of the eight vaccinated RM remained uninfected (vaccinated and protected, VP) after 13 repeated challenges with the pathogenic SIVmac251-CX-1. The remaining five vaccinated and infected (VI) macaques had significantly reduced plasma viral loads compared with the infected controls (IC). A significant increase in systemic central memory CD4+ T …

Survey Of Fleas And Ticks For Rickettsia Rickettsii And Rickettsia Typhi And Surveys Of Humans And Wild Animals For Serological Evidence Of Infection By These Rickettsiae In Rural And Urban Areas Of El Paso, Texas And Other Areas Of Texas, Karen Rocio Valdez

Open Access Theses & Dissertations

The ecology and epidemiology of Rocky Mountain Spotted fever and typhus fever pathogens are poorly understood along the United Statesâ??Mexico border, especially in the far Southwestern region of Texas. The objective of this dissertation was to understand the prevalence and distribution of Rickettsia rickettsii and Rickettsia typhi and associated tick and flea species and the prevalence of these Rickettsiae in domestic and feral mammals in urban and rural areas of the El Paso community and other areas of Texas. Also, the goal was to determine if humans are being infected by R. rickettsii and R. typhi in the El Paso …

Bugs, Bullets And Birds: Factors Affecting The Health And Survival Of Ferruginous Hawk Nestlings In The Intermountain West, Ellis A. Juhlin

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Ferruginous Hawks are a bird of prey species that nest in sagebrush steppe and grassland habitat. These birds are threatened by habitat loss and fragmentation from urbanization, rural development, oil and natural gas extraction, habitat treatment projects, and wildfires, and experiencing widespread population declines across their breeding range. Because of this, Ferruginous Hawks (FEHAs) have been deemed a Species of Greatest Conservation Need by state management agencies in Utah, Idaho, Wyoming and Nevada. The health and survival of Ferruginous Hawk (FEHA) nestlings is crucial to long-term population viability. Understanding the threats these birds are facing as nestlings can provide valuable …

Insecticide Susceptibility And Resistance Detection In Phlebotomus Argentipes Sandflies (Diptera: Psychodidae: Phlebotominae), Shawna M. Hennings

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Leishmaniasis is an understudied disease found predominantly in high heat and humidity areas. The disease is transmitted by sandflies which are blood-feeding, biting insects. There is currently no known vaccine for any form of leishmaniasis and treatment imposes a significant economic impact on already poor and marginalized populations, as well as severe, lingering side effects for afflicted individuals. Annually, there are millions of people around the world afflicted with a form of Leishmaniasis that is transmitted by species of sandflies. The primary sandfly population control method for over half a century has been indoor residual spraying using insecticides. The selective …

Riqueza, Abundancia Relativa Y Actividad De Los Mamíferos De Una Reserva En Restauración En Costa Rica, Pablo Pacheco, Lucia López, Alison Vega Cambronero, José Manuel Mora

Biology Faculty Publications and Presentations

“Richness, relative abundance and activity of medium and large mammals of a reserve under restoration in Costa Rica”. Introduction: Private protected areas are a valuable complement to national systems of protected areas. The Sierra Zapote Reserve in Abangares, Costa Rica, established in 2000, protects 70 ha of advanced secondary forest, regenerating secondary forest and primary riparian forest. It is expected to favor faunal communities, like medium and large mammals, which are among the species most threatened by habitat loss and fragmentation; nevertheless; there is a lack of recent faunal assessments at Sierra Zapote. Objective: To assess the richness, relative abundance …

Population Demography, Spatial Ecology, And Habitat Use Of The Florida Box Turtle (Terrapene Bauri) On A Barrier Island, Michael D. Mills

USF Tampa Graduate Theses and Dissertations

Turtles are one the most threatened vertebrate groups in the world due to anthropogenic threats such as habitat loss and overexploitation. In addition to occupying a range that has been vulnerable to major habitat loss, the Florida box turtle (Terrapene bauri) is particularly at risk of overexploitation due to its popularity in the pet trade. Sanibel Island is a barrier island in southwest Florida that has experienced major habitat loss and is the site of a recent poaching event. In response to these threats, studies of both the population demography and spatial ecology were conducted on Sanibel’s Florida box turtle …

The Antimicrobial Resistance Crisis Needs Action Now, Nonia Pariente

Research on Antimicrobial Resistance

Antimicrobial resistance is a global problem of increasing proportions that we cannot afford to look away from. This World Antimicrobial Awareness Week, we shine a light on the crisis and ways we can all help to address it.

Unraveling The Complex Interactions Between Members Of The Schistosoma Haematobium Group And Bulinus Snails In And Around Lake Victoria In West Kenya, Caitlin Raiselle Babbitt

Biology ETDs

Schistosoma haematobium, the agent of urogenital schistosomiasis, and related schistosomes are transmitted by members of the genus Bulinus. Each of the 38 Bulinus species vary in their ability to vector schistosome species and non-schistosome trematodes resulting in a patchwork of snail-parasite compatibilities. Accurately identifying snail intermediate hosts and the disease-causing parasites they transmit is critical for snail control strategies and the management of human schistosomiasis. Towards these ends, this thesis identifies bulinid species and the parasites they transmit and implicates certain species in the transmission of S. haematobium. The thesis also includes a systematic review of methods …

Integrated Xenosurveillance Of Loa Loa, Wuchereria Bancrofti, Mansonella Perstans And Plasmodium Falciparum Using Mosquito Carcasses And Faeces: A Pilot Study In Cameroon, Joseph Pryce, Nils Pilotte, Benjamin Menze, Allison R. Sirois, Michael Zulch, Jean Pierre Agbor, Steven A. Williams, Charles S. Wondji, Lisa Reimer

Biological Sciences: Faculty Publications

Background Community presence of loiasis must be determined before mass drug administration programmes for lymphatic filariasis and onchocerciasis can be implemented. However, taking human blood samples for loiasis surveillance is invasive and operationally challenging. A xenosurveillance approach based on the molecular screening of mosquitoes and their excreta/feces (E/F) for Loa loa DNA may provide a non-invasive method for detecting the community presence of loiasis. Methods We collected 770 wild mosquitoes during a pilot study in a known loiasis transmission area in Mbalmayo, Cameroon. Of these, 376 were preserved immediately while 394 were kept in pools to collect 36-hour E/F samples …

County-Level Societal Predictors Of Covid-19 Cases And Deaths Changed Through Time In The United States: A Longitudinal Ecological Study, Philip J. Bergmann, Nathan A. Ahlgren, Rosalie A. Torres Stone

Biology

People of different racial/ethnic backgrounds, demographics, health, and socioeconomic characteristics have experienced disproportionate rates of infection and death due to COVID-19. This study tests if and how county-level rates of infection and death have changed in relation to societal county characteristics through time as the pandemic progressed. This longitudinal study sampled monthly county-level COVID-19 case and death data per 100,000 residents from April 2020 to March 2022, and studied the relationships of these variables with racial/ethnic, demographic, health, and socioeconomic characteristics for 3125 or 97.0% of U.S. counties, accounting for 96.4% of the U.S. population. The association of all county-level …

The Phytoremediation Of Escherichia Coli In Contaminated Water By Lemna Minor, Salvinia Minima, And Azolla Caroliniana, Madison Han

Journal of the South Carolina Academy of Science

No abstract provided.

Covid-19-Impacted Research And Education In Global Healthcare And Stem: Evaluation Of Case Studies, Yumna Indorewala, Santanu De

Trick to the Treat of Internships and Research

The zoonotic novel coronavirus has posed major challenges to the world’s economy, social development, and public health. Effects in the education and research in the field of healthcare and STEM are accentuated in lower-developed countries or communities where the access to technology and a reliable internet connection are luxuries making it difficult to attain education virtually. The Coronavirus Infectious Disease 2019 (COVID-19) has also disrupted research and training in STEM and healthcare. With significant increases in infection rates there is an urge to redirect projects towards virology research and vaccine development. This comprehensive literature review includes case studies highlighting the …