Microbiology Commons^™

Using Single Cell Genomics To Explore The Impact Of Marine Viruses On Microbial Respiration., Paxton Tomko

MCB Articles

Viral metabolic reprograming of marine prokaryotes, through the use of virally encoded auxiliary metabolic genes (AMGs), plays a critical role in marine ecosystem function by influencing biochemical cycles and genetic diversity in these environments. Despite the fundamental role viruses play in global environmental ecosystems, they remain an understudied aspect of microbial ecology and evolution, in part due to the methods available for studying virus host interactions in natural systems. Thus far, metagenomic analyses have been used to study the interactions of virus host pairs, but these types of analyses have their limitations in accurately linking viruses to hosts, or culture-based …

Evaluation Of Hormonal Suppression Treatments Of Endometriosis, Olivia Vermeulen

Biology and Microbiology Graduate Students Plan B Research Projects

Endometriosis is a chronic, multifactorial, and estrogen dependent disease that causes lesions made of endometrial tissue to implant in areas other than the uterus such as the ovaries, fallopian tubes, abdominal cavity, lungs, and even heart (1). These lesions can cause an immense amount of pain in the implanted area during the menstrual cycles and can cause infertility issues, but unfortunately there are not many available and effective treatment options available that do not involve surgically removing the lesions (2). However, there are certain hormonal suppression medications being that are new or are being tested that can alleviate inflammation and …

Analysis Of Protein-Protein Interactions Between Legionella Pneumophilia Effectors, Briana Harness

Mahurin Honors College Capstone Experience/Thesis Projects

Legionella pneumophila an intracellular, opportunistic pathogen that is the causative agent of Legionnaires’ disease and Pontiac fever. A key component of Legionella’s pathogenicity is a series of effector proteins, which aid in the establishment of the Legionella-containing vacuole (LCV). The abundant library of effector proteins L. pneumophila has within its arsenal gives L. pneumophila the ability to infect several different hosts. The pathogenesis of L. pneumophila within various hosts depends on its ability to modulate the activity of its effector proteins through protein-protein interactions within effectors and eukaryotic host cell proteins. By understanding how L. pneumophila regulates its effectors, a …

Artificial Intelligence, Big Data, And Regulation Of Immunity: Challenges And Opportunities, Bhagirath Singh, Anthony M Jevnikar, Eric Desjardins

Microbiology & Immunology Publications

The immune system is regulated by a complex set of genetic, molecular, and cellular interactions. Rapid advances in the study of immunity and its network of interactions have been boosted by a spectrum of "omics" technologies that have generated huge amounts of data that have reached the status of big data (BD). With recent developments in artificial intelligence (AI), theoretical and clinical breakthroughs could emerge. Analyses of large data sets with AI tools will allow the formulation of new testable hypotheses open new research avenues and provide innovative strategies for regulating immunity and treating immunological diseases. This includes diagnosis and …

Microbial Prevalence And Antibiotic Resistance Associated With Urban Food Production Systems, Nirosha Ruwani Amarasekara

Wayne State University Dissertations

Despite the increasing popularity of urban agriculture and farmers’ markets, there is a lack of scientific data on microbial prevalence and antibiotic resistance associated with this unique food production system. The overall goal of this research is to understand antibiotic resistance and microbial prevalence in soil and fresh produce associated with urban agriculture. Specifically, we aim to investigate ARG in association with resistance genes to metals and other compounds in urban agricultural soil as well as antibiotic resistome and Listeria contamination in fresh produce distributed in urban communities.

In the initial phase of this research, soil samples were collected from …

The Methane-Oxidizing Microbial Communities Of Three Maar Lakes In Tropical Monsoon Asia, Iona Eunice C. Bicaldo, Karol Sophia Agape R. Padilla, Tzu Hsuan Tu, Wan Ting Chen, Milette U. Mendoza-Pascual, Carmela Vannette B. Vicera, Justine R. De Leon, Kamille N. Poblete, Eleanor S. Austria, Mark Louie D. Lopez, Yuki Kobayashi, Fuh Kwo Shiah, Rey Donne S. Papa, Noboru Okuda, Pei Ling Wang, Li Hung Lin

Environmental Science Faculty Publications

Methane-oxidizing bacteria (MOB) is a group of planktonic microorganisms that use methane as their primary source of cellular energy. For tropical lakes in monsoon Asia, there is currently a knowledge gap on MOB community diversity and the factors influencing their abundance. Herewith, we present a preliminary assessment of the MOB communities in three maar lakes in tropical monsoon Asia using Catalyzed Reporter Deposition, Fluorescence In-Situ Hybridization (CARD-FISH), 16S rRNA amplicon sequencing, and pmoA gene sequencing. Correlation analysis between MOB abundances and lakes’ physicochemical parameters following seasonal monsoon events were performed to explain observed spatial and temporal patterns in MOB diversity. …

Electrospun Tamarindus Indica-Loaded Antimicrobial Pmma/Cellulose Acetate/Peo Nanofibrous Scaffolds For Accelerated Wound Healing: In-Vitro And In-Vivo Assessments, Elbadawy A. Kamoun, Elbadawy A. Kamoun

Nanotechnology Research Centre

In this work, Tamarindus indica (T. indica)-loaded crosslinked poly(methyl methacrylate) (PMMA)/cellulose acetate (CA)/poly(ethylene oxide) (PEO) electrospun nanofibers were designed and fabricated for wound healing applications. T. indica is a plant extract that possesses antidiabetic, antimicrobial, antioxidant, antimalarial and wound healing properties. T. indica leaves extract of different concentrations were blended with a tuned composition of a matrix comprised of PMMA (10 %), CA (2 %) and PEO (1.5 %), and were electrospun to form smooth, dense and continuous nanofibers as illustrated by SEM investigation. In vitro evaluation of T. indicaloaded nanofibers on normal human skin fibroblasts (HBF4) revealed a high …

Managing Stress: A Study Of Stress Response Mechanisms In Mycobacteria, Augusto C. Hunt Serracin

Biology Dissertations - Archive

Mycobacteria encompass many pathogenic species known to cause severe disease in humans. A well-known example is Mycobacterium tuberculosis (Mtb), the causative agent of the lung disease tuberculosis, which kills millions of humans worldwide yearly. Pathogenic mycobacteria like Mtb are challenging to treat because of their innate ability to adapt to environmental stress. Their unique cell physiology and conserved stress responses allow them to combat biological insults, regulate growth, and regulate genes involved in stress; all these responses increase tolerance to antibiotics. The current therapies to treat mycobacterial infections are lengthy and, at times, unsuccessful, partly due to antibiotic tolerance. A …

A New Model For Polar Growth In Mycobacteria: The Role Of Wag31 And Mmpl3 In Cell Wall Synthesis, Neda Habibi Arejan

Biology Dissertations - Archive

The disease Tuberculosis (TB) is caused by the pathogen Mycobacterium tuberculosis and was the cause of over one million deaths worldwide in 2023 (World Health Organization, 2023). TB treatment is difficult due to antibiotic tolerance and emerging resistance in Mtb strains. Mycobacterial cells have different regulatory mechanisms that allow them to adjust to myriad environmental stressors: these responses often lead to antibiotic tolerance. Therefore, studying responses to stress will lead to insights about antibiotic tolerance and treatment failure. Here, we specifically study two essential mycobacterial proteins, Wag31 and MmpL3, involved in cell wall metabolism. We show that Wag31 has distinct …

Friends With Benefits: How Picking The Right Partner Pays Off, Patrick T. Stillson

Biology Dissertations - Archive

Animals are highly dependent on microbial symbionts for nutrient supplementation, parasite protection, toxin resistance, and more. While these microbes are important, these associations have the potential to shift from mutualistic to parasitic across environments and over time. Eight insect families from the hemipteran infraorder Pentatomomorpha have evolved a highly specialized relationship with bacteria in the genus Caballeronia. The symbiont is a free-living microbe, acquired from the environment each generation during early host development. By manipulating environmental conditions, I used the bug-Caballeronia model 1) to investigate whether symbionts with greater growth rates at high temperatures prevent hosts from experiencing …

Role Of Extracytoplasmic Function (Ecf) Sigma Factors In The Survival And Symbiosis Of Nitrogen-Fixing Bradyrhizobium Under Desiccation Stress And Comparative Analysis Of Desiccation-Tolerant Rhizobial Isolates, Mohammad Kamruzzaman

Biology Dissertations - Archive

Rhizobia are soil bacteria that facilitate biological nitrogen fixation (BNF) through a symbiotic relationship with legumes such as soybeans. As an eco-friendly alternative to chemical nitrogen fertilizers, rhizobial inoculants can enhance plant growth and yield. However, they face various stresses, including drought (i.e., desiccation). Rhizobia can manage desiccation stress by accumulating trehalose, a disaccharide produced by genes such as otsA, otsB, and treS. Extracytoplasmic function (ECF) sigma factors sense external signals and regulate these desiccation-related genes during the stress. Previous studies have highlighted the importance of EcfG in response to desiccation stress and symbiosis. Based on the protein sequence …

Why Should Early-Career Scientists Publish In Society Journals, Stephen K. Dolan, Lori D. Banks, Wenqi Yu

Molecular Biosciences Faculty Publications

In this editorial, written by early-career scientists, we advocate for the invaluable role of society journals in our scientific community. By choosing to support these journals as authors, peer reviewers, and as editors, we can reinforce our academic growth and benefit from their re-investment back into the scientific ecosystem. Considering the numerous clear merits of this system for future generations of microbiologists and more broadly, society, we argue that early-career researchers should publish our high-quality research in society journals to shape the future of science and scientific publishing landscape.

The Inaugural Mbio Junior Editorial Board—Lessons Learned And The Path Forward Toward Improving The Peer Review Process, Cynthia Ayefoumi Adinortey, Stephen K. Dolan, Sarah Doore, Rebeccah Lijek, Diana Priscila Pires, Wenqi Yu, Elizabeth B. Draganova, Lennart Schada Von Borzyskowski

Molecular Biosciences Faculty Publications

The inaugural Junior Editorial Board (JEB) of mBio consisted of 64 early-career researchers active from 2022 to 2023. The goal of the JEB was to train early-career researchers in the art of peer review under the guidance of experienced editors. JEB members gained hands-on experience in peer review by participating in modules detailing the publishing process through the lenses of the journal, editor, and reviewer. Ultimately, JEB members applied this new knowledge by reviewing mBio manuscripts. Here, we summarize the background, the mission, and the achievements of the first mBio JEB. We also include possible trajectories for the future editions …

Revolutionizing Our Understanding Of Specific Platelet-Pathogen Interactions, Hammodah Rawhi Hammodah Alfar

Theses and Dissertations--Molecular and Cellular Biochemistry

Aside from their classical role in maintaining hemostasis, platelets are considered first-line vascular guardians that influence both the innate and adaptive immune systems. This is mediated by either direct interactions with immune cells or through the release of pre-stored cytokines and chemokines upon interacting with pathogens such as viruses. While this establishes platelets as potential players in the response to pathogens, it remains unclear what platelets can do with pathogens and how important that is to immune responses, especially against viruses. Most systemic viremias, such as HIV-1, present with mild thrombocytopenia, which is mediated through several mechanisms such as a …

Metal-Ion Doped Borate Bioactive Glasses- A Novel Direction In Minimizing Nosocomial Infections And Antibiotic Resistance, Sarah Fakher

Masters Theses

"Nosocomial infections represent a formidable challenge and induce a substantial burden on patients and healthcare systems. These infections result from the interaction of numerous pathogenic microorganisms, particularly bacteria, and lead to increased morbidity, mortality, and healthcare costs. Extensive research has been carried out to devise innovative solutions, mainly focusing on antimicrobial natural and synthetic substances. However, the proclivity of bacterial strains to form biofilms complicates treatment and elevates antibiotic resistance, prompting research into pioneering more effective and versatile antibacterial strategies. Borate bioactive glasses (BBGs) are the latest, remarkable classes of biomaterials with a wide array of medical applications, owing to …

Borate-Based Bioactive Glasses Properties: Clinical And Biomedical Applications, Sarah Fakher, David J. Westenberg

Biological Sciences Faculty Research & Creative Works

Borate bioactive glasses (BBGs) constitute the recently produced bioactive glasses (BGs) in the domain of bioactive materials, offering enhanced functionalities over conventional silicate and phosphate BGs. This advancement is primarily characterized by BBGs' rapid yet controllable degradation rates, superior bioactivity, and the ability to swiftly form a hydroxyapatite layer (HAP) upon interaction with physiological fluids. A distinguishing feature of BBGs lies in their customizability; doping with therapeutic metal ions tailors their bioactivity towards specific physiological responses, including promoting angiogenesis, antibacterial activity, and osteogenesis. This versatility of BBGs' applications extends to bone regeneration, wound healing, drug delivery systems, and potentially nerve …

In Vitro Assessment Of The Anti-Biofilm Effectiveness Of Copper And Zinc Enhanced Borate Bioactive Glass Using Processed Microscopic Images, Sarah Fakher, David J. Westenberg

Biological Sciences Faculty Research & Creative Works

The escalating burden of nosocomial infections presents a formidable challenge to healthcare systems worldwide, leading to increased morbidity, prolonged hospital stays, and elevated healthcare costs. These infections are often resistant to conventional antibiotic therapies due to their association with biofilms which contribute to the persistence and resistance of pathogens. In addressing the challenge of biofilm-associated nosocomial infections, borate bioactive glasses (BBGs) have emerged as promising biomaterials. Doping these glasses with antimicrobial metals could potentially harness their antibacterial properties to prevent biofilm formation. This study undertakes a rigorous evaluation of the anti-biofilm efficacy of copper and zinc-doped BBGs by employing processed …

Investigating The Development Of Alcohol Tolerance In The Eskape Pathogens, Hannah Durkee

West Chester University Master’s Theses

Antiseptics and disinfectants are used globally to kill or inhibit the growth of bacteria to prevent infection. Considering the well-documented development of antibiotic resistance, the potential for evolved tolerance to alcohol-based antimicrobial agents raises concern. The ESKAPE bacterial pathogens (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, and Enterobacter spp.) are a major cause of healthcare-associated mortality and present a threat to public health due to the progression of multi-drug resistance. We conducted an experiment to determine if the ESKAPE pathogens develop an increased tolerance to ethanol upon repeated exposure by selecting for survivors after a …

Parametric Study Of The Effect Of Increased Magnetic Field Exposure On Microalgae Chlorella Vulgaris Growth And Bioactive Compound Production, Sharanabasaweshwara Asundi, Sanurag Rout, Simone Stephen, Sanghamitra Khandual, Sandipan Dutta, Sandeep Kumar

Mechanical & Aerospace Engineering Faculty Publications

This parametric study aimed to analyze the effects of increased magnetic field exposure (MFE) on the growth and production of the bioactive compounds of Chlorella (C.) vulgaris. With the intent of studying the effect of an increased MFE, the magnetic field typically experienced by life on Earth was amplified by an order of magnitude. In the increased-MFE environment, six treatments of C. vulgaris with two repetitions for each treatment were exposed to a magnetic field of 5 Gauss (500 µT) about each axis, which was generated in a state-of-the-art Helmholtz cage. The treatments and the control were characterized by the …

Genomic Analysis And Antimicrobial Resistance Of Vibrio Parahaemolyticus Isolated From Seawater At Bang Pu Recreational Center, Samut Prakan Province, Thailand, Chinnawat Assana

Chulalongkorn University Theses and Dissertations (Chula ETD)

Vibrio parahaemolyticus is a foodborne bacterium that is widely distributed in worldwide marine environments including seawater, marine animals, and soils. This study aimed to identify genetic and antimicrobial resistance (AMR) of V. parahaemolyticus (n=46) isolated from seawater at Bang Pu recreational center, Samut Prakan province, Thailand. Genetic analysis from multi-locus sequence typing (MLST) classified the seawater isolates into 42 sequence types (STs) in total, with 29 being novel STs and 13 STs matched with previously reported strains in worldwide including clinical strains (ST356, ST303, STST320, and ST1919) and environmental strains (ST222, ST1083, ST1089, ST969, ST2965, ST2249 and ST233). A phylogenetic …