Microbiology Commons^™

Effects Of Organic And Conventional Agricultural Practices On Soil Microbial Communities And Molecular Detection Of Soil Borne Disease, Holli K. Milner

College of Graduate Studies: Theses & Dissertations

Agricultural practices affect soil microbial communities and health through the input of pesticides, herbicides, fertilizers, and cycling of crop rotation. By examining the microbial community structure, we analyzed how microbial species respond to the environment that individual farms create. Early detection of soil borne disease is essential for agricultural success. However, monitoring incidence of disease based on plant growth response to pathogenic inoculation may not reveal the amount of pathogenic DNA in soil. A comparative study of tomato production systems was conducted by analysis of soil microbial community structure from four farms in Southeast Georgia for the years 2012 and …

Detection, Identification And Characterization Of The Novel Campylobacter Species: Campylobacter Ureolyticus And Campylobacter Corcagiensis From Their Reservoirs., Monika Koziel

Theses

Campylobacter ureolyticus has been identified in a large proportion of diarrhoeal samples from patients in Ireland. However, the source of human infections has not been established and little is currently known about the potential reservoirs of C. ureolyticus in nature.

The aim of this project was to investigate a range of environmental and animal samples for the presence of this emerging pathogen using a molecular approach, to support the hypothesis of its zoonotic origin.

During the study, C. ureolyticus was detected in 30 out of 1,254 (2.4%) human diarrheic samples and isolated from 11 patients, describing, to the best of …

Gastroenteritis Viruses In Ireland: Epidemiology And Evolution, Lynda Gunn

Theses

Viral gastroenteritis is a common disease of both humans and animals. This thesis focuses on the use of classical virology, coupled with phylogenetics to study gastroenteritis viruses [Bocavirus (BoV), Coronavirus (CoV), and Rotavirus A (RVA)], isolated from selected samples from humans and animals. RVA was associated with outbreaks in elderly care facilities in Northern Ireland, isolates were genotyped and we reported the first detection of G2 lineage lie RVA in Ireland, with other common human RVA genotypes G1P[8], G2P[4] and G9P[8]. Evolutionary dynamics of human RVA VP7 genotypes was examined using codon models of evolution, results show heterogeneous selective pressure …

Characterisation Of The Enzybiotic Potential Of Selected Staphylococcus Aureus Bacteriophages, Ruth Keary

Theses

The work presented in this thesis focuses on harnessing the bactericidal potential of bacteriophage (phage) encoded peptidoglycan hydrolase enzymes to combat the significant pathogen Staphylococcus aureus. In order to identify novel peptidoglycan hydrolases lytic against S. aureus, the complete genomes of two staphylococcal temperate Siphoviridae bacteriophages, DW2 and CSl, were sequenced and annotated. Screening of these genomes identified genes for several putative peptidoglycan hydrolases including two endolysins and three virion-associated peptidoglycan hydrolases. The identification of putative genes relating to virulence and host fitness lends to the understanding of the role played by such temperate phages in the evolution of this …

Phytoplankton And Nutrient Dynamics In A Tidally Dominated Eutrophic Estuary: Daily Variability And Controls On Bloom Formation, Ryan E. Morse, Margaret R. Mulholland, Todd A. Egerton, Harold G. Marshall

OES Faculty Publications

To better understand nutrient dynamics and factors that promote the initiation of algal blooms, the Lafayette River, a tidal subestuary of Chesapeake Bay that experiences seasonal algal blooms, was sampled daily for a period of 54 d in the fall of 2005. Three phytoplankton blooms (chl a concentrations exceeding twice the average of monthly measurements from 2000 to 2009) occurred during this period: a mixed bloom of Akashiwo sanguinea and Gymnodinium sp., a monospecific Skeletonema costatum bloom, and a monospecific Gymnodinium sp. bloom. Over the sampling period, nutrient concentrations increased following precipitation events and were elevated between bloom periods but …

Emergence Of Algal Blooms: The Effects Of Short-Term Variability In Water Quality On Phytoplankton Abundance, Diversity, And Community Composition In A Tidal Estuary, Todd A. Egerton, Ryan E. Morse, Harold G. Marshall, Margaret R. Mulholland

OES Faculty Publications

Algal blooms are dynamic phenomena, often attributed to environmental parameters that vary on short timescales (e.g., hours to days). Phytoplankton monitoring programs are largely designed to examine long-term trends and interannual variability. In order to better understand and evaluate the relationships between water quality variables and the genesis of algal blooms, daily samples were collected over a 34 day period in the eutrophic Lafayette River, a tidal tributary within Chesapeake Bay's estuarine complex, during spring 2006. During this period two distinct algal blooms occurred; the first was a cryptomonad bloom and this was followed by a bloom of the mixotrophic …

Examining The Nutritional Requirements Of Acidophilic Archaea "Ferroplasma Acidarmanus" Strain Fer1, Yudong Qu

Masters Theses

Ferroplasma acidarmanus strain fer1 (fer1) is an archaeal microaerophilic acidophile (pH 0 to pH 3) with a chemolithotrophic metabolism. As an efficient consumer of sulfate, fer1 plays an important role in the biogeochemical process of pyrite dissolution at acidic site. Confirming the genomic prediction of metabolic gene functions in this organism requires functional assays, which cannot be carried out until a defined medium is obtained. The objective of the current study was to replace the 0.1% (w/v) yeast extract component in the growth medium, mfer, with defined components for carbon, nitrogen, and vitamin needs. In order to replace the 0.1% …

Recombinant Interleukin-21 Plus Sorafenib For Metastatic Renal Cell Carcinoma: A Phase 1/2 Study, Shailender Bhatia, Brendan, Marc S. Ernstoff, Michael, Elisabeth I. Heath, Wilson H. Miller Jr, Igor Puzanov, David I. Quinn, Thomas, Peter Vanveldhuizen, Kelly, Jeremy, Rachel, Naomi, Sonia, John A. Thompson

Wayne State University Associated BioMed Central Scholarship

Abstract

Background

Despite the positive impact of targeted therapies on metastatic renal cell carcinoma (mRCC), durable responses are infrequent and an unmet need exists for novel therapies with distinct mechanisms of action. We investigated the combination of recombinant Interleukin 21 (IL-21), a cytokine with unique immunostimulatory properties, plus sorafenib, a VEGFR tyrosine kinase inhibitor.

Methods

In this phase 1/2 study, 52 mRCC patients received outpatient treatment with oral sorafenib 400 mg twice daily plus intravenous IL-21 (10–50 mcg/kg) on days 1–5 and 15–19 of each 7-week treatment course. The safety, antitumor activity, pharmacokinetic and pharmacodynamic effects of the combination were …

Characterization Of Bacteriophages From Environmental Water Samples And The Potential Of Bacteriophages Tailspike Proteins (Tsp) In Bacteria Detection, Gayathri Upeksha Gunathilaka

Wayne State University Theses

ABSTRACT

CHARACTERIZATION OF BACTERIOPHAGES FROM ENVIRONMENTAL WATER SAMPLES AND THE POTENTIAL OF BACTERIOPHAGES TAILSPIKE PROTEINS (TSP) IN BACTERIA DETECTION

by

GAYATHRI UPEKSHA GUNATHILAKA

May 2014

Advisor: Dr. Yifan Zhang

Major: Nutrition and Food Science

Degree: Master of Science

The high abundance of phage in the environment and their specificity with the bacteria host make them an excellent tool for bacteria detection. To characterize phage specific to Salmonella and E. coli from water samples in the Southeastern Michigan and to develop a novel bacterial detection method using phage, environmental water samples were collected from rivers and waste water treatment plant (WWTP) …

Investigating The Interactions Between Cyanobacteria And Vibrio Parahaemolyticus, Caroline E. Ward

Honors Theses and Capstones

One well-known pathogen that has been the topic of many recent studies is Vibrio parahaemolyticus, which causes thousands of foodborne illnesses a year, mostly from the ingestion of raw or undercooked oysters. It has been shown cyanobacteria can act as a long-term reservoir of Vibrio cholerae, another pathogenic Vibrio, by encasing the cells within mucilaginous sheaths during which Vibrios enter a viable but non-culturable state. In this study we investigated the interaction of V. parahaemolyticus with cyanobacteria to determine whether cyanobacteria aid in the longevity and survival of V. parahaemolyticus. We found that non-pathogenic V. parahaemolyticus …

Characterization Of Ns1 Sumoylation And Its Effect On Influenza A Viral Infection, Katherine Anne Meraz

Open Access Theses & Dissertations

Influenza virus is a contagious respiratory virus responsible for seasonal epidemics and several catastrophic pandemics in the last century. Its genome is comprised of negative sense, single-stranded RNA and, after entering the cell, it is capable of hijacking the host cellular machinery for reproducing its own genetic material. The activation of cellular defenses against influenza viral infection are triggered upon viral entry and help regulate the course of viral infection. This study focused on the interplay between the influenza A virus and the cellular SUMOylation system during viral infection. The first part of this Dissertation deals with the relevance of …

The Movement Of Escherichia Coli And Enterococci Among Beach Sand, Lyngbya Wollei, And The Water Column: Implications For Human Health, Krystal Ann Bakkila

Wayne State University Theses

Occurrence of the filamentous cyanobacteria Lyngbya wollei has become an increasing concern in the Great Lakes region. Prior to the early 1900's, L. wollei had been occasionally documented in the Great Lakes region, but in the last decade it has been observed with increasing frequency. In the Great Lakes L. wollei has been proliferating, fragmenting, and accumulating ashore, where it decays forming thick detrital mats harboring potentially harmful bacteria such as Escherichia coli and enterococci. While the filamentous green algae species Cladophora glomerata has been well studied in this region, very little research has been done on the cyanobacteria L. …

Ribavirin-Resistant St. Louis Encephalitis Virus Populations Display Phenotypic And Genotypic Characteristics Of High-Fidelity Rna Polymerase Variants, Sara B. Griesemer

Legacy Theses & Dissertations (2009 - 2024)

St. Louis encephalitis virus (SLEV) is mosquito-borne member of the family Flaviviridae, genus Flavivirus that is closely related to West Nile virus (WNV). Both viruses have potential to cause neuroinvasive disease in humans, and currently there is no vaccine or approved antiviral therapy. SLEV is maintained in nature through transmission between mosquitoes and birds, with humans acting as dead-end hosts. Despite their genetic and antigenic similarities, WNV and SLEV display different characteristics. WNV is known as a "generalist"; it is geographically widespread and can infect a wide variety of hosts, causing over 37,000 human cases in 48 U.S. states since …

Novel Partner Notification Approaches In New York State, And Antibiotic Resistance In The Management Of Chlamydia Trachomatis Infections, Christopher Frank Davis

Legacy Theses & Dissertations (2009 - 2024)

Chlamydia trachomatis (chlamydia) is the most frequently reported notifiable disease in the United States. This dissertation provides an evaluation of chlamydia treatment and control through three different lenses: 1) patient views on a novel strategy to facilitate treatment, 2) student perceptions about materials to promote treatment of sexual partners, and 3) evidence regarding recurrent infection etiology.

A Structural And Functional Comparison Of Human Immunodeficiency Virus Type 1 Nucleocapsid Protein (Ncp7) And Other Retroviral Nucleocapsid Proteins, Christopher Richard Cavender

Legacy Theses & Dissertations (2009 - 2024)

Human immunodeficiency virus type 1 (HIV-1) is a retrovirus belonging to the lentivirus genus of the orthoretrovirinae family. HIV-1 is widely known for causing acquired immunodeficiency syndrome (AIDS) in humans and being responsible for 1.8 million deaths due to AIDS associated illnesses in 201016.

Screening Of Natural Antimicrobial Agents And Antimicrobial-Resistant Bacteria Using A Soleris System, Mingyang Huang

Wayne State University Theses

ABSTRACT

SCREENING OF NATURAL ANTIMICROBIAL AGENTS AND ANTIMICROBIAL - RESISTANT BACTERIA USING A SOLERIS SYSTEM

by

MINGYANG HUANG

May 2014

Advisor: Dr. Yifan Zhang

Major: Food Science and Nutrition

Degree: Master of Science

Traditional broth micro-dilution method is a common assay of measuring Minimum Inhibitory Concentration (MIC) to determine the antimicrobial activity of an antimicrobial agent. However, this method is generally time-consuming and labor intensive. Alternatively, an automated optical method using the Soleris system was applied in this study. The system was compared to the traditional broth micro-dilution 96-well assay to test the antimicrobial activity of 11 essential oils and …

The Pleiotropic Effects Of Beneficial Mutations Of Adapted Escherichia Coli Populations, Brian Scott Van Dam

Honors Theses and Capstones

Mutations that improve fitness in one environment can often be beneficial, deleterious, or neutral in alternative environments. When a single mutation effects fitness in multiple environments, it is said to be a pleiotropic, which can have important consequences for niche specialization, niche expansion, speciation, and even extinction in the face of environmental change. While previous studies have revealed that pleiotropy is nearly universal, the role of adaptive history in the spectrum of pleiotropic effects has yet to undergo detailed experimental observation. Using experimental evolution we gathered beneficial mutations in a previously adapted strain of Escherichia coli growing in the same …

การแยกหัวเชื้อแลกติกแอซิดแบคทีเรียเพื่อเตรียมขนมจีนแป้งหมัก, ชนากานต์ พิสิษฐ์กุล

Chulalongkorn University Theses and Dissertations (Chula ETD)

ขนมจีนแป้งหมักเป็นผลิตภัณฑ์อาหารหมักพื้นบ้านที่ทำจากข้าวเจ้าของประเทศไทย มีรสชาติและกลิ่นที่เป็นเอกลักษณ์จากกระบวนการหมักที่เกิดจากแลกติกแอซิดแบคทีเรียที่มีบทบาทสำคัญในการผลิตสารหอมระเหยและกรดแลกติก ดังนั้นเพื่อให้ได้ผลิตภัณฑ์ที่มีคุณสมบัติสม่ำเสมองานวิจัยนี้จึงได้คัดแยก homofermentative lactic acid bacteria ทั้งหมด 268 ไอโซเลตจากวัตถุดิบเช่น ข้าว แป้งหมัก และขนมจีนเพื่อนำไปเป็นกล้าเชื้อขนมจีนแป้งหมัก โดยศึกษาลักษณะสมบัติต่างๆของแลกติกแอซิดแบคทีเรีย ได้แก่ การสร้างเอ็กโซพอลิแซ็กคาไรด์ การสร้างไบโอเอมีน(ฮีสตามีน) การผลิตกรดแลกติก การย่อยแป้งและโปรตีน รวมทั้งความสามารถในการยับยั้งแบคทีเรียก่อโรค สามารถคัดแยกแลกติกแอซิดแบคทีเรีย 3 ไอโซเลตที่มีลักษณะดังนี้ Lactobacillus paracasei FF12 สามารถสร้างพอลิแซ็กคาไรด์ได้ดี ผลิตกรดแลกติก 1.8% v/v ยับยั้งเชื้อ Bacillus subtilis, Escherichia coli, Listeria monocytogenes, Salmonella Typhimurium และ Staphylococsus aurues ไอโซเลตที่สอง Lactobacillus amylovorus FF206 ย่อยแป้งและโปรตีนได้ดี ผลิตกรดแลกติกได้ 1.6% v/v และสามารถยับยั้ง B. subtilis และ L. monocytogenes ไอโซเลตที่สาม Lactobacillus plantarum FF213 สร้างเอ็กโซพอลิแซ็กคาไรด์ได้เล็กน้อย ผลิตกรดแลกติกได้มากที่สุดคือ 2.17% v/v และสามารถยับยั้ง B. subtilis เมื่อเปรียบเทียบขนมจีนแป้งหมักหลังจากเตรียมด้วยกล้าเชื้อ พบว่าขนมจีนเตรียมจากกล้าเชื้อเดี่ยวๆจากไอโซเลตที่แยกได้และกล้าเชื้อทางการค้ามีค่าแรงในการตัดอยู่ในช่วง 0.006-0.011ใกล้เคียงกัน แต่เมื่อใช้กล้าเชื้อผสมพบว่ามีค่าแรงตัดของขนมจีนมากขึ้น (0.155-0.231) การวัดค่าสีของเส้นขนมจีนที่เตรียมจากกล้าเชื้อทางการค้าและกล้าเชื้อเดี่ยวมีค่าความสว่างใกล้เคียงกัน (71.27 และ 71.31-71.65, ตามลำดับ) ส่วนเส้นขนมจีนเตรียมจากกล้าเชื้อผสมมีค่าความสว่างมากกว่า (72.85-73.34) นอกจากนี้แลกติกแอซิดแบคทีเรียที่คัดเลือกยังสามารถยับยั้งแบคทีเรียก่อโรคได้หลายชนิดและดีกว่า ดังนั้นแลกติกแอซิดแบคทีเรียที่คัดเลือกได้นี้สามารถนำไปพัฒนาใช้ในการเตรียมขนมจีนแป้งหมักได้

The Sumoylation Of The Non-Structural Protein 1 Of The Influenza A Virus Plays A Dual Role During Viral Infection, Jason Michael Chacon

Open Access Theses & Dissertations

The potential for a highly pathogenic influenza pandemic remains a concern for global health. The ability of the influenza virus to undergo antigenic shift and genetic drift give circulating strains of influenza the high probability of developing resistance to current antiviral therapies. Emerging strains of higher virulence, to which the infected person has not had any previous exposure to viral antigens, pose a greater threat of serious illness and death. Currently, there is no antiviral therapy that is effective against all strains of influenza, emphasizing the need to develop new strategies that target cellular systems required for viral replication to …

The Role Of Intestinal Sweet Taste Receptors (Strs) In The Regulation Of Glucose Absorption: Effects Of Short Term High Sucrose Diet (Hsd), Tania Hussain

HIM 1990-2015

Sweet taste receptors are primarily found in the oral cavity of the mammalian species. However, recent studies have shown that sweet taste receptors can be found in extraoral tissues such as the pancreas, intestines, and adipose tissue. Our lab has previously found that sweet taste receptors are down-regulated on the pancreas in the presence of high plasma glucose levels. In order to assess the possibility that sweet taste receptors respond to high levels of glucose by suppressing its expression, we wanted to see if they reacted similarly on the intestines. We found that intestinal sweet taste receptors are down regulated …