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2022

Microbiome

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Articles 61 - 90 of 103

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Evaluating Sex-Dependent Changes In The Gut Microbiome Caused By Polychlorinated Biphenyl (Pcb) Exposure., Zayna Qaissi May 2022

Evaluating Sex-Dependent Changes In The Gut Microbiome Caused By Polychlorinated Biphenyl (Pcb) Exposure., Zayna Qaissi

College of Arts & Sciences Senior Honors Theses

Polychlorinated biphenyls (PCBs) are persistent organic pollutants that have been associated with fatty liver disease, cardiovascular diseases, and other metabolic dysfunctions. Our laboratory group previously demonstrated that exposures to PCBs led to sex-dependent liver outcomes with female mice showing higher susceptibility to PCB- induced liver toxicity. Some of the underlying mechanisms driving these sex-dependent outcomes that were identified included PCB-modulated endocrine disruption. However, the PCB effects on the gut microbiome and the gut liver axis have not been investigated. Therefore, the objective of the current study is to identify PCB-induced changes in the gut microbiome and identify if this could …

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Alterations Of The Gut Mycobiome In Patients With Ms - A Bioinformatic Approach, Saumya Shah May 2022

Alterations Of The Gut Mycobiome In Patients With Ms - A Bioinformatic Approach, Saumya Shah

Honors Scholar Theses

The mycobiome is the fungal component of the gut microbiome and is implicated in several autoimmune diseases. However, its role in multiple sclerosis (MS) has not been studied. We performed descriptive and formal statistical tests using the R language to characterize the gut mycobiome in people with MS (pwMS) and healthy controls. We found that the microbiome composition of multiple sclerosis patients is different from healthy people. The mycobiome had significantly higher alpha diversity and inter-subject variation in pwMS than controls. Additionally, Saccharomyces and Aspergillus were over-represented in pwMS. Different mycobiome profiles, defined as mycotypes, were associated with different bacterial …

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The Role Of Bacterial Genotype In The Persistence Of The Microbiota Of Drosophila Melanogaster, Sarah J. Gottfredson Apr 2022

The Role Of Bacterial Genotype In The Persistence Of The Microbiota Of Drosophila Melanogaster, Sarah J. Gottfredson

Theses and Dissertations

In this work we use the fruit fly Drosophila melanogaster as a model to identify bacterial genes that help bacteria to persist in their animal hosts. Early work on this model system established that dietary replenishment drives the composition of the D. melanogaster gut microbiota, and subsequent research has shown that some bacterial strains can colonize the fly for much longer than the flow of bulk diet through the gut. In this work we reveal that bacterial genes influence bacterial persistence by studying the correlation between bacterial genotype and persistence in the D. melanogaster gut microbiota. We performed an initial …

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Effect Of Sin Lek Rice Intervention On Cognitive Function, Dietary Patterns, And Fecal Microbiota Of Elementary School Children In Chiang Rai, Thailand, Angie Setthavongsack, Siam Popluechai, Jackilen Shannon, Justin Denny, Eleni Gentekaki, Kongkiat Kespechara, Lucsame Gruneck, Thomas J. Sharpton, Kullawong Niwed, Lisa K. Marriott Apr 2022

Effect Of Sin Lek Rice Intervention On Cognitive Function, Dietary Patterns, And Fecal Microbiota Of Elementary School Children In Chiang Rai, Thailand, Angie Setthavongsack, Siam Popluechai, Jackilen Shannon, Justin Denny, Eleni Gentekaki, Kongkiat Kespechara, Lucsame Gruneck, Thomas J. Sharpton, Kullawong Niwed, Lisa K. Marriott

OHSU-PSU School of Public Health Annual Conference

Thailand has struggled with malnutrition rates in young children. Rice is a key component of Southeast Asian diets and a whole grain rice varietal (Sin Lek) may support improved nutrition. Diet can influence cognitive function and human gut microbiota, which were explored in the context of a rice intervention. We conducted a pilot study using a non-randomized, crossover clinical trial of Sin Lek rice versus traditional white rice consumption in elementary school children in Chiang Rai, Thailand. Outcomes related to diet, anthropological factors, cognitive function (e.g., short-term working memory, attention, impulsivity), and gut microbial populations were measured at baseline and …

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The Cutaneous Microbiome Of The Eastern Red-Spotted Newt (Notophthalmus Viridescens) And Its Role As Defense Against Fungal Pathogens, Joseph Bierbaum Apr 2022

The Cutaneous Microbiome Of The Eastern Red-Spotted Newt (Notophthalmus Viridescens) And Its Role As Defense Against Fungal Pathogens, Joseph Bierbaum

Senior Honors Theses

Chytridiomycosis is a life-threatening disease which infects amphibian species worldwide. Chytrid fungi Batrachochytrium dendrobatidis (Bd) and Batrachochytrium salamandrivorans have been found to be the primary causes of chytridiomycosis. In past research, it has been found that the skin microbiome of certain amphibian species could have fungal inhibition properties, reducing the effects of the chytrid fungi. In this study, 15 eastern red-spotted newts (Notophthalmus viridescens) were collected, to determine if cutaneous bacteria of the newts secrete antifungal compounds. Pure cultures of each bacterium morphotype were produced from mass culture plates, with 188 morphotypes being isolated. The antifungal properties …

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Recently Evolved Francisella-Like Endosymbiont Outcompetes An Ancient And Evolutionarily Associated Coxiella-Like Endosymbiont In The Lone Star Tick (Amblyomma Americanum) Linked To The Alpha-Gal Syndrome, Deepak Kumar, Surendra Raj Sharma, Abdulsalam Adegoke, Ashley Kennedy, Holly C. Tuten, Andrew Y. Li, Shahid Karim Apr 2022

Recently Evolved Francisella-Like Endosymbiont Outcompetes An Ancient And Evolutionarily Associated Coxiella-Like Endosymbiont In The Lone Star Tick (Amblyomma Americanum) Linked To The Alpha-Gal Syndrome, Deepak Kumar, Surendra Raj Sharma, Abdulsalam Adegoke, Ashley Kennedy, Holly C. Tuten, Andrew Y. Li, Shahid Karim

Faculty Publications

Background: Ticks are hematophagous arthropods that transmit various bacterial, viral, and protozoan pathogens of public health significance. The lone star tick (Amblyomma americanum) is an aggressive human-biting tick that transmits bacterial and viral pathogens, and its bites are suspected of eliciting the alpha-gal syndrome, a newly emerged delayed hypersensitivity following consumption of red meat in the United States. While ongoing studies have attempted to investigate the contribution of different tick-inherent factors to the induction of alpha-gal syndrome, an otherwise understudied aspect is the contribution of the tick microbiome and specifically obligate endosymbionts to the establishment of the alpha-gal …

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Evaluating Methods Of Preserving Aquatic Invertebrates For Microbiome Analysis, Stephanie N. Vaughn, Colin R. Jackson Apr 2022

Evaluating Methods Of Preserving Aquatic Invertebrates For Microbiome Analysis, Stephanie N. Vaughn, Colin R. Jackson

Faculty and Student Publications

Research on the microbiomes of animals has increased substantially within the past decades. More recently, microbial analyses of aquatic invertebrates have become of increased interest. The storage method used while collecting aquatic invertebrates has not been standardized throughout the scientific community, and the effects of common storage methods on the microbial composition of the organism is unknown. Using crayfish and dragonfly nymphs collected from a natural pond and crayfish maintained in an aquarium, the effects of two common storage methods, preserving in 95% ethanol and freezing at −20◦C, on the invertebrate bacterial microbiome was evaluated. We found that the bacterial …

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Microbiome Variation Across Populations Of Desert Halophyte Zygophyllum Qatarensis, Abdul Latif Khan, Lucas Dantas Lopes, Saqib Bilal, Sajjad Asaf, Kerri M. Crawford, Venkatesh Balan, Ahmed Al-Rawahi, Ahmed Al-Harrasi, Daniel P. Schachtman Mar 2022

Microbiome Variation Across Populations Of Desert Halophyte Zygophyllum Qatarensis, Abdul Latif Khan, Lucas Dantas Lopes, Saqib Bilal, Sajjad Asaf, Kerri M. Crawford, Venkatesh Balan, Ahmed Al-Rawahi, Ahmed Al-Harrasi, Daniel P. Schachtman

Department of Agronomy and Horticulture: Faculty Publications

Microbial symbionts play a significant role in plant health and stress tolerance. However, few studies exist that address rare species of core-microbiome function during abiotic stress. In the current study, we compared the microbiome composition of succulent dwarf shrub halophyte Zygophyllum qatarensis Hadidi across desert populations. The results showed that rhizospheric and endosphere microbiome greatly varied due to soil texture (sandy and gravel). No specific bacterial amplicon sequence variants were observed in the core-microbiome of bulk soil and rhizosphere, however, bacterial genus Alcaligenes and fungal genus Acidea were abundantly distributed across root and shoot endospheres. We also analyzed major nutrients …

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Microbiome Variation Across Populations Of Desert Halophyte Zygophyllum Qatarensis, Abdul Latif Khan, Lucas Dantas Lopes, Saqib Bilal, Sajjad Asaf, Kerri M. Crawford, Venkatesh Balan, Ahmed Al-Rawahi, Ahmed Al-Harrasi, Daniel P. Schachtman Mar 2022

Microbiome Variation Across Populations Of Desert Halophyte Zygophyllum Qatarensis, Abdul Latif Khan, Lucas Dantas Lopes, Saqib Bilal, Sajjad Asaf, Kerri M. Crawford, Venkatesh Balan, Ahmed Al-Rawahi, Ahmed Al-Harrasi, Daniel P. Schachtman

Department of Agronomy and Horticulture: Faculty Publications

Microbial symbionts play a significant role in plant health and stress tolerance. However, few studies exist that address rare species of core-microbiome function during abiotic stress. In the current study, we compared the microbiome composition of succulent dwarf shrub halophyte Zygophyllum qatarensis Hadidi across desert populations. The results showed that rhizospheric and endosphere microbiome greatly varied due to soil texture (sandy and gravel). No specific bacterial amplicon sequence variants were observed in the core-microbiome of bulk soil and rhizosphere, however, bacterial genus Alcaligenes and fungal genus Acidea were abundantly distributed across root and shoot endospheres. We also analyzed major nutrients …

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An Investigation To Corroborate Volatile And Biological Profiles Of Human Odor For Forensic Subject Identification, Chantrell J.G. Frazier Mar 2022

An Investigation To Corroborate Volatile And Biological Profiles Of Human Odor For Forensic Subject Identification, Chantrell J.G. Frazier

FIU Electronic Theses and Dissertations

Hands are an integral part in transferring complex microbial communities to and from our surroundings. As a result, hands are significant in provenance investigations as specific microbiota can be deposited on everyday objects through touch interactions. Skin microbiome, including bacteria, fungi, and viruses, are unique to each person, and this ‘uniqueness’ can be exploited and applied to forensic identification. Skin microbiota and volatile organic compounds (VOCs) are closely related due to specific bacteria breaking down non-volatile organic compounds to volatile organic compounds that are characteristically present in human scent. However, analyses of microbiota from touch interactions have proven to be …

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Ohio Anuran Gut Microbiomes, Serena Hoffman Mar 2022

Ohio Anuran Gut Microbiomes, Serena Hoffman

Undergraduate Honors Thesis Projects

Recent studies focusing on the skin and gut microbiome of vertebrates have found how important microbiomes are to maintaining host health. Understanding the role the gut microbiome plays to host health is of great importance for conservation. Less is known about the gut microbiome than the skin microbiome for amphibians. Literature is especially lacking for local Ohio anuran species. The purpose of this study was to establish the baseline composition of the gut microbiome for local Ohio anurans and to determine whether host species or habitat is the best predictor of gut microbiome composition. Tadpoles were collected from seven different …

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A Multi-Taxa Metagenomic Evaluation Of The Everglades Soil Microbiome And The Impact Of Salinity On Community Structure And Biogeochemical Cycles With A Soil Forensic Application, Deidra Christina Jordan Mar 2022

A Multi-Taxa Metagenomic Evaluation Of The Everglades Soil Microbiome And The Impact Of Salinity On Community Structure And Biogeochemical Cycles With A Soil Forensic Application, Deidra Christina Jordan

FIU Electronic Theses and Dissertations

Coastal wetlands, such as the Everglades, are increasingly being exposed to stressors that have the potential to modify their existing ecological processes because of global climate change. Their soil microbiomes include a population of organisms that are important for biogeochemical cycling, but continual stresses can disturb the community's composition, causing functional changes. The Everglades features wetlands with varied salinity levels, implying that they contain microbial communities with a variety of salt tolerances and microbial functions. Therefore, it's critical to track the effects of stresses on these populations in both freshwater and brackish marshes. The study addressed this by first constructing …

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Isolation Of Oral Bacterial Dna For 16s Rrna Sequencing To Determine Nitrate-Sensitive Oral Microbiota Following Acute Beetroot Juice Supplementation, Luka Sharabidze, Leah Stiemsma, Courtney Merrill, Chandler Riley, Maya Hammer, Ryan Kenney, Alyssa Riley, Katie Price, Adam Pennell, Rachel Tan Mar 2022

Isolation Of Oral Bacterial Dna For 16s Rrna Sequencing To Determine Nitrate-Sensitive Oral Microbiota Following Acute Beetroot Juice Supplementation, Luka Sharabidze, Leah Stiemsma, Courtney Merrill, Chandler Riley, Maya Hammer, Ryan Kenney, Alyssa Riley, Katie Price, Adam Pennell, Rachel Tan

Seaver College Research And Scholarly Achievement Symposium

Dietary nitrate (NO3-) supplementation, provided as beetroot juice, improves cardiovascular, cognitive, and contractile function by augmenting nitric oxide (NO) biosynthesis; however, the specific taxa responsible, and whether NO3- ingestion can promote a favorable microbial composition to produce NO is yet to be established. To determine whether acute NO3- supplementation is associated with specific microbial taxa in females, 15 healthy adult females consumed an acute dose of NO3--depleted beetroot juice (PL) and NO3--rich beetroot juice (BR). Bacterial DNA from the buccal cells were isolated for subsequent 16s DNA sequencing for preserved regions in their 16s rRNA gene. Concentrations were assessed with …

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Gingival Transcriptome Of Innate Antimicrobial Factors And The Oral Microbiome With Aging And Periodontitis, Jeffrey L. Ebersole, Sreenatha S. Kirakodu, Linh Nguyen, Octavio A. Gonzalez Mar 2022

Gingival Transcriptome Of Innate Antimicrobial Factors And The Oral Microbiome With Aging And Periodontitis, Jeffrey L. Ebersole, Sreenatha S. Kirakodu, Linh Nguyen, Octavio A. Gonzalez

Center for Oral Health Research Faculty Publications

The epithelial barrier at mucosal sites comprises an important mechanical protective feature of innate immunity, and is intimately involved in communicating signals of infection/tissue damage to inflammatory and immune cells in these local environments. A wide array of antimicrobial factors (AMF) exist at mucosal sites and in secretions that contribute to this innate immunity. A non-human primate model of ligature-induced periodontitis was used to explore characteristics of the antimicrobial factor transcriptome (n = 114 genes) of gingival biopsies in health, initiation and progression of periodontal lesions, and in samples with clinical resolution. Age effects and relationship of AMF to …

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Understanding The Microbial Biogeography Of Ancient Human Dentitions To Guide Study Design And Interpretation, Zandra Fagernäs, Domingo C. Salazar-Garcia, Maria Hadar Uriarte, Azucena Avilés Fernández, Amanda G. Henry, Joaquín Lomba Maurandi, Andrew T. Ozga, Irina M. Velsko, Christina Warinner Mar 2022

Understanding The Microbial Biogeography Of Ancient Human Dentitions To Guide Study Design And Interpretation, Zandra Fagernäs, Domingo C. Salazar-Garcia, Maria Hadar Uriarte, Azucena Avilés Fernández, Amanda G. Henry, Joaquín Lomba Maurandi, Andrew T. Ozga, Irina M. Velsko, Christina Warinner

Biology Faculty Articles

The oral cavity is a heterogeneous environment, varying in factors such as pH, oxygen levels, and salivary flow. These factors affect the microbial community composition and distribution of species in dental plaque, but it is not known how well these patterns are reflected in archaeological dental calculus. In most archaeological studies, a single sample of dental calculus is studied per individual and is assumed to represent the entire oral cavity. However, it is not known if this sampling strategy introduces biases into studies of the ancient oral microbiome. Here, we present the results of a shotgun metagenomic study of a …

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Gut Microbial Trimethylamine Is Elevated In Alcohol-Associated Hepatitis And Contributes To Ethanol-Induced Liver Injury In Mice, Robert N. Helsley, Tatsunori Miyata, Anagha Kadam, Venkateshwari Varadharajan, Naseer Sangwan, Emily C. Huang, Rakhee Banerjee, Amanda L. Brown, Kevin K. Fung, William J. Massey, Chase Neumann, Danny Orabi, Lucas J. Osborn, Rebecca C. Schugar, Megan R. Mcmullen, Annette Bellar, Kyle L. Poulsen, Adam Kim, Vai Pathak, Marko Mrdjen Jan 2022

Gut Microbial Trimethylamine Is Elevated In Alcohol-Associated Hepatitis And Contributes To Ethanol-Induced Liver Injury In Mice, Robert N. Helsley, Tatsunori Miyata, Anagha Kadam, Venkateshwari Varadharajan, Naseer Sangwan, Emily C. Huang, Rakhee Banerjee, Amanda L. Brown, Kevin K. Fung, William J. Massey, Chase Neumann, Danny Orabi, Lucas J. Osborn, Rebecca C. Schugar, Megan R. Mcmullen, Annette Bellar, Kyle L. Poulsen, Adam Kim, Vai Pathak, Marko Mrdjen

Pediatrics Faculty Publications

There is mounting evidence that microbes residing in the human intestine contribute to diverse alcohol-associated liver diseases (ALD) including the most deadly form known as alcohol-associated hepatitis (AH). However, mechanisms by which gut microbes synergize with excessive alcohol intake to promote liver injury are poorly understood. Furthermore, whether drugs that selectively target gut microbial metabolism can improve ALD has never been tested. We used liquid chromatography tandem mass spectrometry to quantify the levels of microbe and host choline co-metabolites in healthy controls and AH patients, finding elevated levels of the microbial metabolite trimethylamine (TMA) in AH. In subsequent studies, we …

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An Exploratory Study On The Microbiome Of Northern And Southern Populations Of Ixodes Scapularis Ticks Predicts Changes And Unique Bacterial Interactions, Deepak Kumar, Latoyia P. Downs, Abdulsalam Adegoke, Erika Machtinger, Kelly Oggenfuss, Richard S. Ostfeld, Monica Embers, Shahid Karim Jan 2022

An Exploratory Study On The Microbiome Of Northern And Southern Populations Of Ixodes Scapularis Ticks Predicts Changes And Unique Bacterial Interactions, Deepak Kumar, Latoyia P. Downs, Abdulsalam Adegoke, Erika Machtinger, Kelly Oggenfuss, Richard S. Ostfeld, Monica Embers, Shahid Karim

Faculty Publications

The black-legged tick (Ixodes scapularis) is the primary vector of Borrelia burgdorferi, the causative agent of Lyme disease in North America. However, the prevalence of Lyme borreliosis is clustered around the Northern States of the United States of America. This study utilized a metagenomic sequencing approach to compare the microbial communities residing within Ix. scapularis populations from northern and southern geographic locations in the USA. Using a SparCC network construction model, we performed potential interactions between members of the microbial communities from Borrelia burgdorferi–infected tissues of unfed and blood-fed ticks. A significant difference in bacterial composition …

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An Exploratory Study On The Microbiome Of Northern And Southern Populations Of Ixodes Scapularis Ticks Predicts Changes And Unique Bacterial Interactions, Deepak Kumar, Latoyia P. Downs, Abdulsalam Adegoke, Erika Machtinger, Kelly Oggenfuss, Richard S. Ostfeld, Monica Embers, Shahid Karim Jan 2022

An Exploratory Study On The Microbiome Of Northern And Southern Populations Of Ixodes Scapularis Ticks Predicts Changes And Unique Bacterial Interactions, Deepak Kumar, Latoyia P. Downs, Abdulsalam Adegoke, Erika Machtinger, Kelly Oggenfuss, Richard S. Ostfeld, Monica Embers, Shahid Karim

Faculty Publications

The black-legged tick (Ixodes scapularis) is the primary vector of Borrelia burgdorferi, the causative agent of Lyme disease in North America. However, the prevalence of Lyme borreliosis is clustered around the Northern States of the United States of America. This study utilized a metagenomic sequencing approach to compare the microbial communities residing within Ix. scapularis populations from northern and southern geographic locations in the USA. Using a SparCC network construction model, we performed potential interactions between members of the microbial communities from Borrelia burgdorferi–infected tissues of unfed and blood-fed ticks. A significant difference in bacterial composition …

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Using Metabolic Potential Within The Airway Microbiome As Predictors Of Clinical State In Persons With Cystic Fibrosis, Gabriella Shumyatsky, Aszia Burrell, Hollis Chaney, Iman Sami, Anastassios C Koumbourlis, Robert J Freishtat, Keith A Crandall, Edith T Zemanick, Andrea Hahn Jan 2022

Using Metabolic Potential Within The Airway Microbiome As Predictors Of Clinical State In Persons With Cystic Fibrosis, Gabriella Shumyatsky, Aszia Burrell, Hollis Chaney, Iman Sami, Anastassios C Koumbourlis, Robert J Freishtat, Keith A Crandall, Edith T Zemanick, Andrea Hahn

Department of Medical Laboratory Sciences & Biotechnology Faculty Papers

Introduction: Pulmonary exacerbations (PEx) in persons with cystic fibrosis (CF) are primarily related to acute or chronic inflammation associated with bacterial lung infections, which may be caused by several bacteria that activate similar bacterial genes and produce similar by-products. The goal of our study was to perform a stratified functional analysis of bacterial genes at three distinct time points in the treatment of a PEx in order to determine the role that specific airway microbiome community members may play within each clinical state (i.e., PEx, end of antibiotic treatment, and follow-up). Our secondary goal was to compare the change between …

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Investigating The Bactericidal Activity Of Lactobacillus Crispatus Cell-Free-Supernatant, Omar Majed Abdul-Rahim Jan 2022

Investigating The Bactericidal Activity Of Lactobacillus Crispatus Cell-Free-Supernatant, Omar Majed Abdul-Rahim

Dissertations

Antimicrobial-resistant (AMR) microorganisms are an increasingly seriousproblem worldwide, accounting for thousands of fatalities annually. The current literature on combating AMR pathogens often centers on commensal microbes such as Lactobacillus species, which are most frequently found in asymptomatic ‘healthy’ patients and are believed to elicit protective effects. In this dissertation, I sought to investigate the protective effect of Lactobacillus crispatus, utilizing our vast collection of clinical isolates. Previous work from our lab had found that cell-free-supernatant (CFS) of L. crispatus is robustly bactericidal, and that this killing activity does not depend on hydrogen peroxide or lactic acid. We identified phenyl-lactic acid …

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Phenotypic And Genomic Diversification In Complex Carbohydrate-Degrading Human Gut Bacteria, Nicholas A. Pudlo, Karthik Urs, Ryan Crawford, Ali Pirani, Todd Atherly, Roberto Jimenez, Nicolas Terrapon, Bernard Henrissat, Daniel Peterson, Cherie Ziemer, Evan Snitkin, Eric C. Martens Jan 2022

Phenotypic And Genomic Diversification In Complex Carbohydrate-Degrading Human Gut Bacteria, Nicholas A. Pudlo, Karthik Urs, Ryan Crawford, Ali Pirani, Todd Atherly, Roberto Jimenez, Nicolas Terrapon, Bernard Henrissat, Daniel Peterson, Cherie Ziemer, Evan Snitkin, Eric C. Martens

Department of Food Science and Technology: Faculty Publications

Symbiotic bacteria are responsible for the majority of complex carbohydrate digestion in the human colon. Since the identities and amounts of dietary polysaccharides directly impact the gut microbiota, determining which microorganisms consume specific nutrients is central for defining the relationship between diet and gut microbial ecology. Using a custom phenotyping array, we determined carbohydrate utilization profiles for 354 members of the Bacteroidetes, a dominant saccharolytic phylum. There was wide variation in the numbers and types of substrates degraded by individual bacteria, but phenotype-based clustering grouped members of the same species indicating that each species performs characteristic roles. The ability …

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The Microbiome Of The Equine Roundworm, Parascaris Spp., Jennifer Lynn Cain Jan 2022

The Microbiome Of The Equine Roundworm, Parascaris Spp., Jennifer Lynn Cain

Theses and Dissertations--Veterinary Science

Parasitic nematodes, including the large roundworms colloquially known as ascarids, affect the health and well-being of livestock animals worldwide. The equine ascarid, Parascaris spp., was the first ascarid parasite to develop wide-spread anthelmintic drug resistance, with other species slowly following suit. There are no new classes of anthelmintics currently in development, and a solution to the ever-increasing prevalence of resistance is desperately needed. The microbiome has been shown to be an important factor in the fitness and health of many organisms and changes to microbiome composition have been associated with a plethora of diseases. The microbiome is also important to …

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Metabolic Synergy Between Human Symbionts Bacteroides And Methanobrevibacter, Jennie L. Catlett, Sean Carr, Mikaela Cashman, Megan D. Smith, Mary Walter, Zahmeeth Sakkaff, Christine A. Kelley, Massimiliano Pierobon, Myra B. Cohen, Nicole R. Buan Jan 2022

Metabolic Synergy Between Human Symbionts Bacteroides And Methanobrevibacter, Jennie L. Catlett, Sean Carr, Mikaela Cashman, Megan D. Smith, Mary Walter, Zahmeeth Sakkaff, Christine A. Kelley, Massimiliano Pierobon, Myra B. Cohen, Nicole R. Buan

Department of Biochemistry: Faculty Publications

ABSTRACT Trophic interactions between microbes are postulated to determine whether a host microbiome is healthy or causes predisposition to disease. Two abundant taxa, the Gram-negative heterotrophic bacterium Bacteroides thetaiotaomicron and the methanogenic archaeon Methanobrevibacter smithii, are proposed to have a synergistic metabolic relationship. Both organisms play vital roles in human gut health; B. thetaiotaomicron assists the host by fermenting dietary polysaccharides, whereas M. smithii consumes end-stage fermentation products and is hypothesized to relieve feedback inhibition of upstream microbes such as B. thetaiotaomicron. To study their metabolic interactions, we defined and optimized a coculture system and used software testing …

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A Systems Approach To Dissecting The Role Of The Mucosal Microbiome In Disease, Lexie Christine Blalock Jan 2022

A Systems Approach To Dissecting The Role Of The Mucosal Microbiome In Disease, Lexie Christine Blalock

Theses, Dissertations and Capstones

The microbial community harbored by the mammalian gastrointestinal tract, collectively called the gut microbiota, plays a critical role in host health, metabolism, and immunity. Quantifiable changes in the gut microbiota have been implicated in a myriad of pathologies, including autoimmune, metabolic, and neurodegenerative diseases. Because of the gut microbiota’s plasticity, manipulating this community for therapeutic benefit presents as a novel strategy to combat modern diseases. Yet, only a fraction of the total microbial diversity that exists within the gut has been successfully cultured in a laboratory, leaving the clinical implications and functional attributes of many gut microbes undetermined. To address …

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Before And After: Investigating The Effect Of Thaw On The Permafrost Microbiome, Joy M. O'Brien Jan 2022

Before And After: Investigating The Effect Of Thaw On The Permafrost Microbiome, Joy M. O'Brien

Master's Theses and Capstones

Arctic systems are experiencing warming at more than twice the rate of the global average, causing permafrost—permanently frozen soil—to thaw. Permafrost thaw exposes previously unavailable soil carbon and nutrients to decomposition—a process mediated by microbes—which releases greenhouse gases such as carbon dioxide and methane into the atmosphere. Permafrost is thawing at an accelerated rate, and while there is evidence that the composition and function of the permafrost microbiome changes with thaw, there is still much unknown about the taxa that increase with thaw, particularly among different types of permafrost. Here, I address how permafrost thaw impacts the microbiome, particularly the …

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The Use Of Probiotic Applications In Early Life Stages To Mitigate Batrachochytrium Dendrobatidis Infections In Rana Luteiventris (Columbia Spotted Frogs), Autumn N. Holley Jan 2022

The Use Of Probiotic Applications In Early Life Stages To Mitigate Batrachochytrium Dendrobatidis Infections In Rana Luteiventris (Columbia Spotted Frogs), Autumn N. Holley

2022 Symposium

Chytridiomycosis, an amphibian skin disease caused by a chytrid fungal pathogen, Batrachochytrium dendrobatidis (Bd), has been linked to global amphibian declines. Some amphibian populations are resistant to severe infection due to symbiotic antifungal skin bacteria, but attempts to develop probiotics from these bacteria have been inconsistently successful because bacteria fail to persist on the skin. Studies have largely been conducted on adult and juvenile amphibians, despite amphibians having fewer known mechanisms for microbiome regulation prior to metamorphosis. We hypothesize that probiotics will persist longer and thus be more effective against pathogen infection if they are applied at an early life …

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Cross-Kingdom Interactions Shape Soil Biogeochemistry In Natural And Agricultural Ecosystems, Jennifer Lynne Kane Jan 2022

Cross-Kingdom Interactions Shape Soil Biogeochemistry In Natural And Agricultural Ecosystems, Jennifer Lynne Kane

Graduate Theses, Dissertations, and Problem Reports

Microorganisms influence life on earth in innumerable ways, including in medical, industrial, environmental, and agricultural contexts. Given the increasingly apparent consequences of climate warming, interest in how to better predict and manage Earth’s carbon sinks has never been greater. Soil, the largest terrestrial carbon sink, harbors an incredibly taxonomically and functionally diverse microbial community. These soil-dwelling microbes govern the fate of soil carbon and nutrients by cycling organic matter as they live, grow, and die. It has only been relatively recently that technological advancement has allowed for in-depth surveys of the vast diversity of soil microbes. High throughput analytical capabilities …

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Recolonization Of Microbiomes’ Influence On Autism Spectrum Disorder, Hattie Cole Jan 2022

Recolonization Of Microbiomes’ Influence On Autism Spectrum Disorder, Hattie Cole

Capstone Showcase

In recent years, there has been an increase in the number of studies conducted on the complications of gastrointestinal (GI) comorbidities associated with autism spectrum disorder (ASD) in children. Some of these GI issues include irritable bowel syndrome (IBS), diarrhea and constipation. The causes of these disorders are poorly understood. The dominant gut phyla are Firmicutes and Bacteroidetes, Actinobacteria, Proteobacteria, Fusobacteria and Verrucomicrobia. Research conducted on children with ASD compared with typical developing (TD) children showed higher ratios of Firmicutes/Bacteroidetes in the ASD group. Biflobacterium, Actinobacteria phyla, has been shown to be a good intestinal bacterium that may help with …

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Essential Factors For A Healthy Microbiome: A Scoping Review, Patricia Grace-Farfaglia, Heather Frazier, Maura D. Iversen Jan 2022

Essential Factors For A Healthy Microbiome: A Scoping Review, Patricia Grace-Farfaglia, Heather Frazier, Maura D. Iversen

Health Science Faculty Publications

Recent discoveries of the purpose and potential of microbial interactions with humans have broad implications for our understanding of metabolism, immunity, the host–microbe genetic interactions. Bioavailability and bioaccessibility of phytonutrients in foods not only enrich microbial diversity in the lower human gastrointestinal tract (GIT) but also direct the functioning of the metagenome of the microbiota. Thus, healthy choices must include foods that contain nutrients that satisfy both the needs of humans and their microbes. Physical activity interventions at a moderate level of intensity have shown positive effects on metabolism and the microbiome, while intense training (>70% VO2max) …

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Understanding The Environmental Implications Of The Microbiome Of Canals In Bangkok, Thailand, Emma Tao Jan 2022

Understanding The Environmental Implications Of The Microbiome Of Canals In Bangkok, Thailand, Emma Tao

Scripps Senior Theses

The canals of Bangkok, Thailand hold significant economic and social value, yet the increasing urbanization of the city has resulted in increased water pollution. Agricultural runoff and urban waste contribute to the degradation of the water quality, which has impaired its safe usage by the people of the city. This study focused on analyzing the microbiome of the water in the canals in correlation with the surrounding environment, both in and out of the water. Ten sites along the Bangkok canals were analyzed. DNA was isolated for the sequencing of the 16s rRNA gene to determine the microbial diversity of …

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