Open Access. Powered by Scholars. Published by Universities.®

Biochemistry, Biophysics, and Structural Biology Commons™

Open Access. Powered by Scholars. Published by Universities.®

University of Arkansas, Fayetteville

Discipline
Keyword
Publication Year
Publication
Publication Type

Articles 151 - 180 of 421

Full-Text Articles in Biochemistry, Biophysics, and Structural Biology

Comprehensive Survey Of The Litter Bacterial Communities In Commercial Turkey Farms, Bishnu Adhikari, Guillermo Tellez-Isaias, Tieshan Jiang, Brian Wooming, Young Min Kwon Dec 2020

Comprehensive Survey Of The Litter Bacterial Communities In Commercial Turkey Farms, Bishnu Adhikari, Guillermo Tellez-Isaias, Tieshan Jiang, Brian Wooming, Young Min Kwon

Poultry Science Faculty Publications and Presentations

The importance of microbiota in the health and diseases of farm animals has been well-documented for diverse animal species. However, studies on microbiotas in turkey and turkey farms are relatively limited as compared to other farm animal species. In this study, we performed a comprehensive survey of the litter microbiotas in 5 commercial turkey farms in the Northwest Arkansas (H, M, V, K, and R farms) including one farm with positive incidence of cellulitis (R farm). Altogether 246 boot swabs were used for 16S rRNA gene profiling of bacterial communities. At phylum level, 11 major bacterial phyla (≥0.01%) were recovered. …

Go to article

Implications Of Lysine Acetylation On The Enzymes Of The Tca Cycle, Sumana Venkat Dec 2020

Implications Of Lysine Acetylation On The Enzymes Of The Tca Cycle, Sumana Venkat

Graduate Theses and Dissertations

The tricarboxylic acid (TCA) cycle is a central route for the energy production via oxidative phosphorylation and is ubiquitous throughout nature. Apart from playing a major role in energy provision, it is also essential for a wide range of physiological functions in any organism. Although an increasing emphasis is laid on the interlinking role of the cycle, its regulation and control are less very less understood. As the field progresses, the consequences of TCA cycle anomalies are shown to be tied to various cancers and other disorders. The matter becomes more complex when considering the varying functions of the isozymes …

Go to article

Design Of Hfgf1 Variant(S) With Increased Stability And Enhanced Bioactivity, Shilpi P. Agrawal Dec 2020

Design Of Hfgf1 Variant(S) With Increased Stability And Enhanced Bioactivity, Shilpi P. Agrawal

Graduate Theses and Dissertations

Fibroblast growth factors (FGFs) are involved in various cellular processes such as cell growth,proliferation, differentiation, migration, angiogenesis, wound healing and embryonic development. Human acidic fibroblast growth factor (hFGF1) binds non-selectively to all the four FGF-receptors and is therefore considered as a powerful mitogen with broadest specificity. However, pharmacological applications of hFGF1 are restricted due to the low thermal stability of the growth factor. hFGF1 has low thermodynamic stability under physiological temperatures which leads to impairment of cellular signaling process thereby preventing its potential mitogenic properties. hFGF1 has a heparin binding pocket at the C-terminus which comprises of positively charges residues. …

Go to article

Molecular Genetic Analysis Of Drought Resistance And Productivity Traits Of Rice Genotypes, Yheni Dwiningsih Dec 2020

Molecular Genetic Analysis Of Drought Resistance And Productivity Traits Of Rice Genotypes, Yheni Dwiningsih

Graduate Theses and Dissertations

Rice (Oryza sativa L.) is the staple food for a majority of the world’s population, and uses 30% of the global fresh water during its life cycle. Drought at the reproductive stage is the most important abiotic stress factor limiting grain yield. The United States is the third largest exporter of rice, and Arkansas is the top rice-producing state. The Arkansas rice-growing region in the Lower Mississippi belt is among the 10 areas with the highest risk of water scarcity. Adapted U.S. rice cultivars were screened for drought resistant (DR) traits to find sources for breeding U.S. rice cultivars for …

Go to article

Functional And Physiological Role Of Extra-Hypothalamic Corticotropin Releasing Hormone Neurons In The Nucleus Of The Hippocampal Commissure In Regulation Of Stress Response, Hakeem Kadhim Dec 2020

Functional And Physiological Role Of Extra-Hypothalamic Corticotropin Releasing Hormone Neurons In The Nucleus Of The Hippocampal Commissure In Regulation Of Stress Response, Hakeem Kadhim

Graduate Theses and Dissertations

Corticotropin releasing hormone (CRH) neurons located within the paraventricular nucleus (PVN) are known to be involved in regulation of stress responses. Recently, CRH neurons were identified above the PVN within the nucleus of the hippocampal commissure (NHpC) that located in the septum. We hypothesized that CRH neurons in the NHpC play a critical role in the stress response due to their rapid activation and could be a part of the traditional hypothalamo-pituitary-adrenal (HPA) axis. The dissertation addresses the role of 1) CRH expressing neurons in the NHpC compared with those within the PVN utilizing two different stressors, food deprivation (FD) …

Go to article

The Effect Of Epa And Dha On Skeletal Muscle Physiology And Energy Balance, Saeed Jebor Ghnaimawi Dec 2020

The Effect Of Epa And Dha On Skeletal Muscle Physiology And Energy Balance, Saeed Jebor Ghnaimawi

Graduate Theses and Dissertations

Eicosapentaenoic acid (EPA) and Docosahexaenoic acid (DHA) supplementation commonly suggested during pregnancy confers many health benefits on offspring and more recently improves fetal BAT development and induces myoblast trans-differentiation into adiopocytes through activating PPARs expression. Embryonic myoblast is a highly flexible cell showing great capacity to change its phenotype into adipocyte in response to EPA and DHA supplementation in many in vitro models. However, a little is known about the identity of derived adipocytes, whether, they change into brown or white adipocyte, and in vivo evidence is still missing. Given that the myogeneis process is initiated at the mid of …

Go to article

Dna Aptamer‑Based Rolling Circle Amplification Product As A Novel Immunological Adjuvant, Adil Sabr Al-Ogaili, Rohana Liyanage, Jack O. Lay Jr., Tieshan Jiang, Christine N. Vuong, Shilpi Agrawal, Thallapuranam Krishnaswamy Suresh Kumar, Luc R. Berghman, Billy M. Hargis, Young Min Kwon Dec 2020

Dna Aptamer‑Based Rolling Circle Amplification Product As A Novel Immunological Adjuvant, Adil Sabr Al-Ogaili, Rohana Liyanage, Jack O. Lay Jr., Tieshan Jiang, Christine N. Vuong, Shilpi Agrawal, Thallapuranam Krishnaswamy Suresh Kumar, Luc R. Berghman, Billy M. Hargis, Young Min Kwon

Chemistry & Biochemistry Faculty Publications and Presentations

Several agonists to CD40 have shown to induce acquired immune responses. Here, we developed and evaluated the rolling circle amplification (RCA) products that are based on anti-CD40 DNA aptamers as a novel vaccine adjuvant. First, we developed DNA aptamers with specific binding affinity to chicken CD40 extra domain (chCD40ED). Next, we prepared the RCA products that consist of these aptamers to increase the spanning space and overall binding affinity to chCD40ED. Using 8 DNA aptamer candidates, 4 aptamer-based RCA products (aptamer RCAs) were generated, each consisting of two distinct aptamers. We demonstrated that all 4 aptamer RCAs significantly induced the …

Go to article

Degree Of Conservation Of Methionines Found To Be Oxidized In The Human Urinary Proteome, Alexis Hall Dec 2020

Degree Of Conservation Of Methionines Found To Be Oxidized In The Human Urinary Proteome, Alexis Hall

Graduate Theses and Dissertations

In previous work from this laboratory, methionine containing peptides from the human urinary proteome were examined by mass spectrometry for the degree of methionine oxidation to the sulfoxide form. While this demonstrated that many of the methionines detected were capable of being oxidized, the question of whether these methionines are important in the structure and/or function of the parent proteins came about. In some proteins, methionine oxidation has been linked to conformational changes and alteration of function and thus can serve as a mechanism for reversible regulation of activity. It is hypothesized that methionines which might serve a regulatory purpose …

Go to article

Presence Of The Hppd Inhibitor Sensitive 1 Gene And AlsS653n Mutation In Weedy Oryza Sativa Sensitive To Benzobicyclon, Chad Brabham, Jason K. Norsworthy, Fidel Gonzalez-Torralva Nov 2020

Presence Of The Hppd Inhibitor Sensitive 1 Gene And AlsS653n Mutation In Weedy Oryza Sativa Sensitive To Benzobicyclon, Chad Brabham, Jason K. Norsworthy, Fidel Gonzalez-Torralva

Crop, Soil and Environmental Sciences Faculty Publications and Presentations

Benzobicyclon has shown varying results in controlling weedy rice, including those with imidazolinone (IMI) resistance. Tolerance to benzobicyclon in cultivated japonica rice, but not indica or aus-like cultivars, is conferred by a fully functional HPPD Inhibitor Sensitive 1 (HIS1) gene. Herein, a diagnostic Kompetitive Allele Specific PCR (KASP) assay was developed to predict the HIS1 genotype of weedy rice plants from 37 accessions and correlated to their response to benzobicyclon in the field. Two-thirds of the 693 weedy rice plants screened were tolerant to benzobicyclon (371 g ai ha−1, SC formulation) at 30 days after treatment (DAT). …

Go to article

Use Of Florpyrauxifen-Benzyl In Non-Flooded Rice Production Systems, Hannah Wright, Jason K. Norsworthy, Trenton L. Roberts, Robert C. Scott, Jarrod T. Hardke, Edward E. Gbur Nov 2020

Use Of Florpyrauxifen-Benzyl In Non-Flooded Rice Production Systems, Hannah Wright, Jason K. Norsworthy, Trenton L. Roberts, Robert C. Scott, Jarrod T. Hardke, Edward E. Gbur

Crop, Soil and Environmental Sciences Faculty Publications and Presentations

The lack of a flood on rice (Oryza sativa) levees and in furrow-irrigated rice creates a favorable environment for terrestrial weeds like Palmer amaranth (Amaranthus palmeri S. Wats) to emerge and quickly overtake the crop for a longer portion of the year than in flooded rice culture. Florpyrauxifen-benzyl is a new auxin herbicide labeled for use in rice that has activity on both grasses and broadleaf weeds, as well as certain sedges. Field experiments were conducted to determine the efficacy of florpyrauxifen-benzyl in a non-flooded environment. Experiments were conducted in 2017 and 2018 at the Lon Mann …

Go to article

Minimal Structural Elements Required For Midline Repulsive Signaling And Regulation Of Drosophila Robo1, Haley E. Brown, Timonthy A. Evans Oct 2020

Minimal Structural Elements Required For Midline Repulsive Signaling And Regulation Of Drosophila Robo1, Haley E. Brown, Timonthy A. Evans

Biological Sciences Faculty Publications and Presentations

The Roundabout (Robo) family of axon guidance receptors has a conserved ectodomain arrangement of five immunoglobulin-like (Ig) domains plus three fibronectin type III (Fn) repeats. Based on the strong evolutionary conservation of this domain structure among Robo receptors, as well as in vitro structural and domain-domain interaction studies of Robo family members, this ectodomain arrangement is predicted to be important for Robo receptor signaling in response to Slit ligands. Here, we define the minimal ectodomain structure required for Slit binding and midline repulsive signaling in vivo by Drosophila Robo1. We find that the majority of the Robo1 ectodomain is dispensable …

Go to article

Endophyte-Infected Tall Fescue Affects Rumen Microbiota In Grazing Ewes At Gestation And Lactation, Jianmin Chai, Saleh Alrashedi, Ken Coffey, Joan Burke, Kristina M. Feye, Steven C. Ricke, Si Hong Park, J. Lannett Edwards, Jiangchao Zhao Oct 2020

Endophyte-Infected Tall Fescue Affects Rumen Microbiota In Grazing Ewes At Gestation And Lactation, Jianmin Chai, Saleh Alrashedi, Ken Coffey, Joan Burke, Kristina M. Feye, Steven C. Ricke, Si Hong Park, J. Lannett Edwards, Jiangchao Zhao

Animal Science Faculty Publications and Presentations

Tall fescue (Schedonorus arundinaceus) is a cool-season perennial grass that is widely used as a forage for many livestock species including sheep. An endophyte (Neotyphodium coenophialum) in tall fescue produces ergot alkaloids that enhance plant survival but produce toxicosis in animals. The objective of this study was to investigate the rumen microbiota from gestation and lactation in ewes grazing tall fescue pastures with high (HA) or moderate (MA) levels of endophyte infection, and their relationship with serum parameters. Data were collected at the beginning of the study (d1), the week before initiation of lambing (d51), and at …

Go to article

Microbiota Analysis Of Chickens Raised Under Stressed Conditions, Rabindra Kumar Mandal, Tieshan Jiang, Robert Wideman Jr, Troy Lohrmann, Young Min Kwon Oct 2020

Microbiota Analysis Of Chickens Raised Under Stressed Conditions, Rabindra Kumar Mandal, Tieshan Jiang, Robert Wideman Jr, Troy Lohrmann, Young Min Kwon

Poultry Science Faculty Publications and Presentations

A substantial progress has been made toward understanding stress-associated gut and extraintestinal microbiota. However, a comprehensive understanding of the extraintestinal microbiota of chickens raised under stressed conditions is lacking. In this study, chickens were raised on a wire-floor model to induce stress, and the microbiota in the gut (ceca) and extraintestinal sites (blood, femur, and tibia) were characterized at different ages (1, 17, and 56 days) using 16S rRNA gene microbiota profiling. Open reference OTU picking showed extraintestinal sites had a significantly higher number of unassigned OTUs compared to ceca across all ages of chickens. Extraintestinal sites of all ages, …

Go to article

Defining Relictual Biodiversity: Conservation Units In Speckled Dace (Leuciscidae: Rhinichthys Osculus) Of The Greater Death Valley Ecosystem, Steven M. Mussmann, Marlis R. Douglas, David D. Oakey, Michael E. Douglas Sep 2020

Defining Relictual Biodiversity: Conservation Units In Speckled Dace (Leuciscidae: Rhinichthys Osculus) Of The Greater Death Valley Ecosystem, Steven M. Mussmann, Marlis R. Douglas, David D. Oakey, Michael E. Douglas

Biological Sciences Faculty Publications and Presentations

The tips in the tree of life serve as foci for conservation and management, yet clear delimitations are masked by inherent variance at the species–population interface. Analyses using thousands of nuclear loci can potentially sort inconsistencies, yet standard categories applied to this parsing are themselves potentially conflicting and/or subjective [e.g., DPS (distinct population segments); DUs (Diagnosable Units-Canada); MUs (management units); SSP (subspecies); ESUs (Evolutionarily Significant Units); and UIEUs (uniquely identified evolutionary units)]. One potential solution for consistent categorization is to create a comparative framework by accumulating statistical results from independent studies and evaluating congruence among data sets. Our study illustrates …

Go to article

Pollen-Mediated Gene Flow And Transfer Of Resistance Alleles From Herbicide-Resistant Broadleaf Weeds, Amit J. Jhala, Jason K. Norsworthy, Zahoor A. Ganie, Lynn M. Sosnoskie, Hugh J. Beckie, Carol A. Mallory-Smith, Jun Liu, Wei Wei, Junming Wang, David E. Stoltenberg Sep 2020

Pollen-Mediated Gene Flow And Transfer Of Resistance Alleles From Herbicide-Resistant Broadleaf Weeds, Amit J. Jhala, Jason K. Norsworthy, Zahoor A. Ganie, Lynn M. Sosnoskie, Hugh J. Beckie, Carol A. Mallory-Smith, Jun Liu, Wei Wei, Junming Wang, David E. Stoltenberg

Crop, Soil and Environmental Sciences Faculty Publications and Presentations

Pollen-mediated gene flow (PMGF) refers to the transfer of genetic information (alleles) from one plant to another compatible plant. With the evolution of herbicide-resistant (HR) weeds, PMGF plays an important role in the transfer of resistance alleles from HR to susceptible weeds; however, little attention is given to this topic. The objective of this work was to review reproductive biology, PMGF studies, and interspecific hybridization, as well as potential for herbicide resistance alleles to transfer in the economically important broadleaf weeds including common lambsquarters, giant ragweed, horseweed, kochia, Palmer amaranth, and waterhemp. The PMGF studies involving these species reveal that …

Go to article

Berry Phenolic And Volatile Extracts Inhibit Pro-Inflammatory Cytokine Secretion In Lps-Stimulated Raw264.7 Cells Through Suppression Of Nf-Κb Signaling Pathway, Inah Gu, Cindi Brownmiller, Nathan Blaine Stebbins, Andy Mauromostakos, Luke Howard, Sun-Ok Lee Sep 2020

Berry Phenolic And Volatile Extracts Inhibit Pro-Inflammatory Cytokine Secretion In Lps-Stimulated Raw264.7 Cells Through Suppression Of Nf-Κb Signaling Pathway, Inah Gu, Cindi Brownmiller, Nathan Blaine Stebbins, Andy Mauromostakos, Luke Howard, Sun-Ok Lee

Food Science Faculty Publications and Presentations

Berries are a rich source of phytochemicals, especially phenolics well known for protective activity against many chronic diseases. Berries also contain a complex mixture of volatile compounds that are responsible for the unique aromas of berries. However, there is very limited information on the composition and potential health benefits of berry volatiles. In this study, we isolated phenolic and volatile fractions from six common berries and characterized them by HPLC/HPLC-MS and GC/GC-MS, respectively. Berry phenolic and volatile fractions were evaluated for an anti-inflammatory effect using lipopolysaccharide (LPS)-stimulated RAW264.7 macrophage cells by measuring levels of pro-inflammatory cytokines and the nuclear factor-kappa …

Go to article

In Ovo Administration Of Defined Lactic Acid Bacteria Previously Isolated From Adult Hens Induced Variations In The Cecae Microbiota Structure And Enterobacteriaceae Colonization On A Virulent Escherichia Coli Horizontal Infection Model In Broiler Chickens, Margarita A. Arreguin-Nava, Brittany D. Graham, Bishnu Adhikari, Melissa Agnello, Callie M. Selby, Xochitl Hernandez-Velasco, Christine N. Vuong, Bruno Solis-Cruz, Daniel Hernandez-Patlan, Juan David Latorre, Guillermo Tellez Jr., Billy M. Hargis, Guillermo Tellez-Isaias Aug 2020

In Ovo Administration Of Defined Lactic Acid Bacteria Previously Isolated From Adult Hens Induced Variations In The Cecae Microbiota Structure And Enterobacteriaceae Colonization On A Virulent Escherichia Coli Horizontal Infection Model In Broiler Chickens, Margarita A. Arreguin-Nava, Brittany D. Graham, Bishnu Adhikari, Melissa Agnello, Callie M. Selby, Xochitl Hernandez-Velasco, Christine N. Vuong, Bruno Solis-Cruz, Daniel Hernandez-Patlan, Juan David Latorre, Guillermo Tellez Jr., Billy M. Hargis, Guillermo Tellez-Isaias

Poultry Science Faculty Publications and Presentations

The effects of in ovo administration of a defined lactic acid microbiota (LAM), previously isolated from adult hens, in the cecae microbiota structure and Enterobacteriaceae colonization after exposure to virulent Escherichia coli during the hatching phase of broiler chickens were evaluated. Embryos inoculated with LAM showed a significant (P < 0.05) reduction of Enterobacteriaceae colonization at day-of-hatch (DOH) and day (d) 7. Furthermore, there was a significant increase in total lactic acid bacteria on DOH, body weight (BW) DOH, BW d7, and d0–d7 BW gain and reduced mortality d0–d7 was observed in the LAM group compared with that in phosphate-buffered saline (PBS) control. …

Go to article

Dissecting The Cellular Control Of Septin Organization In A Global Cereal Killer, Nawaraj Dulal Jul 2020

Dissecting The Cellular Control Of Septin Organization In A Global Cereal Killer, Nawaraj Dulal

Graduate Theses and Dissertations

Rice blast disease, caused by the filamentous fungus Magnaporthe oryzae, destroys sufficient rice each year to feed 60 million people, and is a serious threat to global food security. A wheat-adapted lineage of M. oryzae now poses threat to global wheat production. Rice blast disease is currently controlled using limited fungicides, and the emergence of fungicide resistance within M. oryzae populations is a growing concern. There is a pressing need to identify new classes of fungicides to control the disease, which requires better understanding of the basic biology of the pathogen. To establish disease, M. oryzae forms a specialized dome …

Go to article

Taxonomic And Genetic Diversity, And Pathogenicity Of Diaporthe Species Associated With Soybean, Fakhir Eraheem Hameed Al Shuwaili Jul 2020

Taxonomic And Genetic Diversity, And Pathogenicity Of Diaporthe Species Associated With Soybean, Fakhir Eraheem Hameed Al Shuwaili

Graduate Theses and Dissertations

Diaporthe species (anamorph: Phomopsis) are associated with a wide range of plant hosts as plant pathogens, asymptomatic endophytes, and saprobes. One of these hosts is soybean, which is one of the most important crops in U.S. agriculture. Several Diaporthe species cause important diseases on soybean in the U.S., and specifically in Arkansas. The taxonomy, genetic diversity, and pathogenicity of Diaporthe species associated with asymptomatic infection of soybean are rarely studied with accurate molecular tools. Therefore, this dissertation aimed to assess the diversity and boundaries of Diaporthe associated with soybean in Arkansas. Furthermore, pathogenicity and alternative lifestyles were assessed among Diaporthe …

Go to article

Elucidating Collagen Degradation Synergy Between Col G And Col H From Hathewaya (Clostridium) Histolytica And Identifying Novel Structural Features In Hpt And Rec Domains From Vars Histidine Kinase In V. Alginolyticus, Perry Caviness Jul 2020

Elucidating Collagen Degradation Synergy Between Col G And Col H From Hathewaya (Clostridium) Histolytica And Identifying Novel Structural Features In Hpt And Rec Domains From Vars Histidine Kinase In V. Alginolyticus, Perry Caviness

Graduate Theses and Dissertations

In this research the mechanisms by which Hathewaya (Clostridia) histolytica collagenases are secreted and work together to degrade collagens are investigated. While H. histolytica collagenases Col G and Col H have similar multi-domain structures the difference in number of and orientation of the domains hint that the two target different regions in collagen. Study small angle x-ray scattering (SAXS) was used to give a low-resolution envelope of full-length Col G and Col H and Col G/Col H non-catalytic domains bound to a collagen-like peptide (mini-collagen). SAXS derived envelopes along with structural information was used to tease out the mechanisms by …

Go to article

Metatranscriptomics Analysis Of Ileum Microbial Communities In Necrotic Enteritis Chickens, Ruchita Uttarwar Jul 2020

Metatranscriptomics Analysis Of Ileum Microbial Communities In Necrotic Enteritis Chickens, Ruchita Uttarwar

Graduate Theses and Dissertations

Necrotic enteritis (NE) is a recognized multifactorial disease that causes an annual loss of $6 billion to the poultry industry. Thus, it has become essential to carry a comprehensive study of the composition of chicken gut which hosts this disease. The objective of this research is to measure the changes occurring in microbiome inside intestinal ilium of NE affected broilers which were treated with tributyrin supplement. This supplement is an anti-inflammatory metabolite that stabilizes intestinal integrity. The experimental design consisted of two challenge groups (No -Challenge, Clostridium Perfringens (CP) - Challenge) and one treatment group (tributyrin). To our knowledge, this …

Go to article

Investigation Of The Role Of Heparin-Binding Pocket In Amyloid Fibrils Formation Of Fgf-1, I Gusti Ayu Agung Septiari Jul 2020

Investigation Of The Role Of Heparin-Binding Pocket In Amyloid Fibrils Formation Of Fgf-1, I Gusti Ayu Agung Septiari

Graduate Theses and Dissertations

Human acidic fibroblast growth factor (aFGF/hFGF-1) is one of the promising molecules to be investigated to generate an in-depth understanding of the pathological mechanism of Alzheimer's disease (AD) neurodegenerative disorder characterized by the presence of amyloid fibrils. Some in vivo and human brain tissue studies proved the correlation of high-level expression of FGF-1-induced neuroinflammation and the occurrence of AD. The presence of amyloid fibrils as a hallmark of AD can be related to the generic property of the proteins to form amyloid fibrils; High level of FGF-1, in this case, may contribute to the formation of amyloid fibrils. As a …

Go to article

Phenotypic Switching Of Bacterial Cells In Extreme Environments, Sudip Nepal Jul 2020

Phenotypic Switching Of Bacterial Cells In Extreme Environments, Sudip Nepal

Graduate Theses and Dissertations

A large number of terrestrial microbial lives thrive in extremes of environmental conditions, including extremes of pressure, temperature, salinity, pH, and a combination of them. For example, all the marine biomass thrive at high hydrostatic pressure depending on depth. The temperature in the ocean can be very high near the hydrothermal vents and salinity and pH depends on the composition of salt in the surrounding areas. On the surface, hot springs, lakes and geysers provide high temperature conditions, while many places are permafrost regions with subzero temperatures. There is an emerging body of work on the viability, genomics, and metagenomics …

Go to article

Structural Analysis Of The Multifunctional Spoiie Regulatory Protein Of Clostridioides Difficile., Blythe Emily Bunkers Jul 2020

Structural Analysis Of The Multifunctional Spoiie Regulatory Protein Of Clostridioides Difficile., Blythe Emily Bunkers

Graduate Theses and Dissertations

Clostridioides (formally Clostridium) difficile is a medically relevant pathogen pertinent to infectious disease research. C. difficile is distinctly known for its ability to produce two toxins, enterotoxin A and cytotoxin B, and the propensity to colonize the mammalian gastrointestinal tract. It is known that metabolism is tightly correlated with sporulation in endospore producers such as C. difficile, but an interesting and novel regulatory relationship found by the Ivey lab has yet to be understood. The relationship explored in this study is observed between the sporulation factor, SpoIIE, which represses expression of an ABC peptide transporter, app. In this study, two …

Go to article

Mitochondrial Deletions And Their Disease-Causing Effects, Austin Bell May 2020

Mitochondrial Deletions And Their Disease-Causing Effects, Austin Bell

Biological Sciences Undergraduate Honors Theses

The mitochondria perform a plethora of important functions within the cell, with one of the most paramount being ATP production. Deregulation of its function can have dire consequences on cellular functions. Mutations such as deletions within the mitochondrial DNA (mtDNA) can cause disease within the patients affected. These diseases often affect children, causing symptoms such as gradual loss of eyesight and hearing, diabetes, and other problems that lower the quality of life. The mitochondria are also very dynamic organelles that undergo rounds of fission and fusion to keep up with the metabolic needs of cells, necessitating a homeostatic balance between …

Go to article

Effect Of Charged Lipids On The Ionization Behavior Of Glutamic Acid Containing Transmembrane Helices, Brooke Nunn May 2020

Effect Of Charged Lipids On The Ionization Behavior Of Glutamic Acid Containing Transmembrane Helices, Brooke Nunn

Chemistry & Biochemistry Undergraduate Honors Theses

Transmembrane proteins make up critical components of living cells. Protein function can be greatly impacted by the charged state of its respective components, the side chains of amino acid residues. Thus far, in the lipid membrane, little is known about the properties of residues such as glutamic acid. To explore these properties, I have included glutamic acid in a suitable model peptide-lipid system for fundamental biophysical experiments. Within the system, I have placed a glutamic acid residue instead of leucine in the L14 position of the helical hydrophobic peptide GWALP23 (acetyl-GGALWLALALALAL14ALALWLAGA-amide). Substitutions of glutamine and aspartic acid serve …

Go to article

A Putative Cystathionine Beta-Synthase Homolog Of Mycolicibacterium Smegmatis Is Involved In De Novo Cysteine Biosynthesis, Saroj Kumar Mahato May 2020

A Putative Cystathionine Beta-Synthase Homolog Of Mycolicibacterium Smegmatis Is Involved In De Novo Cysteine Biosynthesis, Saroj Kumar Mahato

Graduate Theses and Dissertations

Mycobacteria include serious pathogens of humans and animals. Mycolicibacterium smegmatis is a non-pathogenic model that is widely used to study core mycobacterial metabolism. This thesis explores mycobacterial pathways of cysteine biosynthesis by generating and study of genetic mutants of M. smegmatis. Published in vitro biochemical studies had revealed three independent routes to cysteine synthesis in mycobacteria involving separate homologs of cysteine synthase, namely CysK1, CysK2, and CysM. However, in vivo data were lacking. The M. smegmatis genome encodes only a CysM homolog and lacks orthologs for CysK1 or CysK2. The gene that codes for CysM is a part of an …

Go to article

Cloning, Protein Expression, And Characterization Of Interleukin 1 Alpha, Musaab Habeeb Ali Al Ameer May 2020

Cloning, Protein Expression, And Characterization Of Interleukin 1 Alpha, Musaab Habeeb Ali Al Ameer

Graduate Theses and Dissertations

Recombinant DNA technology and the ability to produce recombinant proteins have significantly changed the world of pharmaceutical market. Recombinant DNA technology using E. coli cells has successfully produced many therapeutic proteins. In this study, the designed tag Ark-RUBY-tag facilitates rapid, and reproducible purification of recombinant proteins expressed as inclusion bodies in E. coli cells. Purification of Ark-RUBY-fused recombinant protein(s) can be obtained by using imidazole fractions. Target protein can be easily removed from the Ark-RUBY-tag by enzymatic cleavage. Ark-RUBY-fused recombinant proteins can be quantitatively detected using polyclonal antibodies. Ark-RUBY-tag can be used to purify small peptides. By using Ark-RUBY-tag, purified …

Go to article

Effect Of Ph And Lipid Composition On Membrane-Spanning Helices With Glutamic Acid Examined By Solid-State Nmr, Kelsey Marr May 2020

Effect Of Ph And Lipid Composition On Membrane-Spanning Helices With Glutamic Acid Examined By Solid-State Nmr, Kelsey Marr

Chemistry & Biochemistry Undergraduate Honors Theses

Transmembrane proteins constitute about 30% of the proteins in a mammalian cell and are involved in major biological processes. The dynamic properties of membrane proteins and the ionization states of particular side chains are important for biological function. The biophysical properties of membrane proteins nevertheless can be difficult to decode, particularly for glutamic acid in the lipid environment of cell membranes. To study the ionization of glutamic acid in transmembrane peptides, guest glutamic acid residues were substituted into the well-defined model helix of GWALP23 (acetyl-GGAL4WLALALALALAL16ALWLAGA-amide). These guest residues were placed at position L16 or L4 and specific 2H-labeled alanine residues …

Go to article

Understanding Cytochrome C Maturation In Anaerobic Archaea, Blake Wojciechowski May 2020

Understanding Cytochrome C Maturation In Anaerobic Archaea, Blake Wojciechowski

Biological Sciences Undergraduate Honors Theses

Methanoperedens nitroreducens (MPEBLZ), an archaeal methanotroph and close relative of Methanosarcina acetivorans, contain numerous cytochrome c proteins. However, difficulty in using these organisms as a model for cytochrome cresearch has created a pressure to express cytochrome c proteins in an organism that is much easier to work with. A punitive cytochrome c protein (MPEBLZ_04274) from M. nitroreducens was attempted to be cloned into a model methanogen M. acetivorans as well as Escherichia coli. Cytochrome c proteins are important for many metabolic processes within anaerobic archaea. In order for a mature cytochrome c to be formed heme must …

Go to article

First Prev Next Last