Index Catalog // ScholarsArchive@OSU

Microbiology of soil aggregates recovered from different crop management systems

Creator:: Mendes, Iêda de Carvalho
Resource Type:: Dissertation
Full Text:: Microbiology of soil aggregates recovered from different crop

Microbiology of basalts targeted for deep geological carbon sequestration : field observations and laboratory experiments

Creator:: Lavalleur, Heather J.
Abstract:: With rising concentrations of CO₂ in the Earth's atmosphere causing concern about climate change, many solutions are being presented to decrease emissions. One of the proposed solutions is to sequester excess CO₂ in geological formations such as basalt. The deep subsurface is known to harbor much of the microbial biomass...
Resource Type:: Masters Thesis
Full Text:: ABSTRACT OF THE THESIS OF Heather J. Lavalleur for the degree of Master of Science in Microbiology

Under the microscope: One hundred years of microbiology at Oregon State University

Creator:: Fisher, Jim
Resource Type:: Book
Full Text:: YEARS OF MICROBIOLOGY AT OREGON STATE UNIVERSITY Published by: Department of Microbiology

Salinity and temperature interactions and their relationship to the microbiology of the estuarine environment

Creator:: Morita, Richard Y., Jones, Larry P., Griffiths, Robert P., and Staley, Thomas E.
Abstract:: An estuary, unlike the open ocean, is a dynamic system that is continuously undergoing changes in its physical and chemical properties. Marked fluctuations in the levels and kinds of nutrients, temperature, and salinity are normally found in estuarine environments. These changes occur principally as a result of freshwater intrusions, tidal...
Resource Type:: Conference Proceeding and Technical Report
Full Text:: Microbiology of the Estuarine Environment' .11. Stevenson and R. R. Colwell. Estuarine Microbial Ecology. So

Characterization of the inflammatory phenotype of Mycobacterium avium subspecies paratuberculosis using a novel cell culture passage model

Creator:: Everman, Jamie L., Eckstein, Torsten M., Roussey, Jonathan, Coussens, Paul, Bannantine, John P., and Bermudez, Luiz E.
Abstract:: Understanding the pathogenic mechanisms of Mycobacterium avium subspecies paratuberculosis (MAP) and the host responses to Johne's disease is complicated by the multi-faceted disease progression, late-onset host reaction and the lack of available ex vivo infection models. We describe a novel cell culture passage model that mimics the course of infection...
Resource Type:: Article
Full Text:: paratuberculosis using a novel cell culture passage model. Microbiology, 161(7), 1420-1434. doi:10.1099/mic

Microorganisms and soil fertility

Creator:: Bollen, Walter Beno, 1896-
Resource Type:: Book
Full Text:: and microbologist are more correctly de- scriptive terms. Microbiology and microbiologist, strictly

Adherence of Clostridium difficile spores to Caco-2 cells in culture

Creator:: Paredes-Sabja, Daniel and Sarker, Mahfuzur R.
Abstract:: Clostridium difficile is the causative agent of the majority of antibiotic associated diarrheas. C. difficile spores are recognized as the morphotype of transmission, infection and persistence. However, there is a lack of knowledge on how C. difficile spores interact with the host’s epithelial surfaces. In this context, we have characterized...
Resource Type:: Article
Full Text:: , cDepartment of 7 Microbiology, Oregon State University, Corvallis, OR 97331. 8 9 Running Title

NhaP1 is a K+(Na+)/H+ antiporter required for growth and internal pH homeostasis of Vibrio cholerae at low extracellular pH

Creator:: Quinn, Matthew J., Resch, Craig T., Sun, Jonathan, Lind, Erin J., Dibrov, Pavel, and Hase, Claudia C.
Abstract:: Vibrio cholerae has adapted to a wide range of salinity, pH and osmotic conditions, enabling it to survive passage through the host and persist in the environment. Among the many proteins responsible for bacterial survival under these diverse conditions, we have identified Vc-NhaP1 as a K+(Na+)/H+ antiporter essential for V....
Resource Type:: Article
Full Text:: Revised 16 December 2011 Accepted 5 January 2012 1Department of Microbiology, Oregon State University

Differential decay of human faecal Bacteroides in marine and freshwater

Creator:: Green, Hyatt C., Shanks, Orin C., Sivaganesan, Mano, Haugland, Richard A., and Field, Katharine G.
Abstract:: Genetic markers from Bacteroides and other faecal bacteria are being tested for inclusion in regulations to quantify aquatic faecal contamination and estimate public health risk. For the method to be used quantitatively across environments, persistence and decay of markers must be understood. We measured concentrations of contaminant molecular markers targeting...
Resource Type:: Article
Full Text:: . Field1* 1Oregon State University, Dept. of Microbiology, Corvallis, OR 97331, USA. 2USEPA, Office of

Host serum factor triggers germination of Clostridium perfringens spores lacking the cortex hydrolysis machinery

Creator:: Paredes-Sabja, Daniel and Sarker, Mahfuzur R.
Abstract:: Clostridium perfringens type A is the causative agent of a variety of histotoxic and enteric diseases. The ability of C. perfringens spores to germinate in vivo might be due to the presence of nutrient germinants in the host tissue and blood. In the current study, we investigated the ability of...
Resource Type:: Article
Full Text:: 97331, USA 2Department of Microbiology, College of Science, Oregon State University, Corvallis, OR

Density of the Waterborne Parasite Ceratomyxa shasta and Its Biological Effects on Salmon

Creator:: Hallett, Sascha L., Ray, R. Adam, Hurst, Charlene N., Holt, Richard A., Buckles, Gerri R., Atkinson, Stephen D., and Bartholomew, Jerri L.
Abstract:: The myxozoan parasite Ceratomyxa shasta is a significant pathogen of juvenile salmonids in the Pacific Northwest of North America and is limiting recovery of Chinook (Oncorhynchus tshawytscha) and coho (O. kisutch) salmon populations in the Klamath River. We conducted a 5-year monitoring program that comprised concurrent sentinel fish exposures and...
Resource Type:: Article
Full Text:: . Holt,a Gerri R. Buckles,a Stephen D. Atkinson,a and Jerri L. Bartholomewa Department of Microbiology

Bacterial Resistance to Antisense Peptide-Phosphorodiamidate Morpholino Oligomers

Creator:: Puckett, Susan E., Reese, Kaleb A., Mitev, Georgi M., Mullen, Valerie, Johnson, Rudd C., Pomraning, Kyle R., Mellbye, Brett L., Tilley, Lucas D., Iversen, Patrick L., Freitag, Michael, and Geller, Bruce L.
Abstract:: Peptide phosphorodiamidate morpholino oligomers (PPMO) are synthetic DNA mimics that bind complementary RNA and inhibit bacterial gene expression. (RFF)₃RXB- AcpP PPMO (R, arginine; F, phenylalanine; X, 6-aminohexanoic acid; B, β-alanine) is complementary to 11 bases of the essential gene acpP (encodes acyl carrier protein). The MIC of (RFF)₃RXB-AcpP was 2.5...
Resource Type:: Article
Full Text:: 1 Department of Microbiology, 2Department of Biochemistry and Biophysics, Oregon State 9

Streamlining and Core Genome Conservation among Highly Divergent Members of the SAR11 Clade

Creator:: Grote, Jana, Thrash, J. Cameron, Huggett, Megan J., Landry, Zachary C., Carini, Paul, Giovannoni, Stephen J., and Rappe, Michael S.
Abstract:: SAR11 is an ancient and diverse clade of heterotrophic bacteria that are abundant throughout the world's oceans, where they play a major role in the ocean carbon cycle. Correlations between the phylogenetic branching order and spatiotemporal patterns in cell distributions from planktonic ocean environments indicate that SAR11 has evolved into...
Resource Type:: Article
Full Text:: Microbiology, Oregon State University, Corvallis, Oregon, USAc ABSTRACT SAR11 is an ancient and diverse clade

The Genome of Pseudomonas fluorescens Strain R124 Demonstrates Phenotypic Adaptation to the Mineral Environment

Creator:: Barton, Michael D., Petronio, Michael, Giarrizzo, Juan G., Bowling, Bethany V., and Barton, Hazel A.
Abstract:: Microbial adaptation to environmental conditions is a complex process, including acquisition of positive traits through horizontal gene transfer or the modification of existing genes through duplication and/or mutation. In this study, we examined the adaptation of a Pseudomonas fluorescens isolate (R124) from the nutrient-limited mineral environment of a silica cave...
Resource Type:: Article
Full Text:: microbiology and geology, comparative genomics has yet to examine how the interaction between microbes and

Improved HF183 Quantitative Real-Time PCR Assay for Characterization of Human Fecal Pollution in Ambient Surface Water Samples

Creator:: Green, Hyatt C., Haugland, Richard A., Varma, Manju, Millen, Hana T., Borchardt, Mark A., Field, Katharine G., Walters, William A., Knight, R., Sivaganesan, Mano, Kelty, Catherine A., and Shanks, Orin C.
Abstract:: Quantitative real-time PCR (qPCR) assays that target the human-associated HF183 bacterial cluster within members of the genus Bacteroides are among the most widely used methods for the characterization of human fecal pollution in ambient surface waters. In this study, we show that a current TaqMan HF183 qPCR assay (HF183/BFDrev) routinely...
Resource Type:: Article
Full Text:: in ambient surface water samples. Applied and Environmental Microbiology, 80(10), 3086-3094. doi

Core Principles of Bacterial Autoinducer Systems

Creator:: Hense, Burkhard A. and Schuster, Martin
Abstract:: Autoinduction (AI), the response to self-produced chemical signals, is widespread in the bacterial world. This process controls vastly different target functions, such as luminescence, nutrient acquisition, and biofilm formation, in different ways and integrates additional environmental and physiological cues. This diversity raises questions about unifying principles that underlie all AI...
Resource Type:: Article
Full Text:: Bacterial Autoinducer Systems. Microbiology and Molecular Biology Reviews, 79(1), 153-169. doi:10.1128

Simultaneous Host-Pathogen Transcriptome Analysis during Granulibacter bethesdensis Infection of Neutrophils from Healthy Subjects and Patients with Chronic Granulomatous Disease

Creator:: Greenberg, David E., Sturdevant, Daniel E., Marshall-Batty, Kimberly R., Chu, Jessica, Pettinato, Anthony M., Virtaneva, Kimmo, Lane, John, Geller, Bruce L., Porcella, Stephen F., Gallin, John I., Holland, Steven M., and Zarember, Kol A.
Abstract:: Polymorphonuclear leukocytes (PMN) from patients with chronic granulomatous disease (CGD) fail to produce microbicidal concentrations of reactive oxygen species (ROS) due to mutations in NOX2. Patients with CGD suffer from severe, life-threatening infections and inflammatory complications. Granulibacter bethesdensis is an emerging Gram-negative pathogen in CGD that resists killing by PMN...
Resource Type:: Article
Full Text:: for Microbiology Version of Record http://cdss.library.oregonstate.edu/sa-termsofuse

Proteomic and Transcriptomic Analyses of “Candidatus Pelagibacter ubique” Describe the First P[subscript II]-Independent Response to Nitrogen Limitation in a Free-Living Alphaproteobacterium

Creator:: Smith, Daniel P., Thrash, J. Cameron, Nicora, Carrie D., Lipton, Mary S., Burnum-Johnson, Kristin E., Carini, Paul, Smith, Richard D., and Giovannoni, Stephen J.
Abstract:: Nitrogen is one of the major nutrients limiting microbial productivity in the ocean, and as a result, most marine microorganisms have evolved systems for responding to nitrogen stress. The highly abundant alphaproteobacterium “Candidatus Pelagibacter ubique,” a cultured member of the order Pelagibacterales (SAR11), lacks the canonical GlnB, GlnD, GlnK, and...
Resource Type:: Article

CodY Is a Global Regulator of Virulence-Associated Properties for Clostridium perfringens Type D Strain CN3718

Creator:: Li, Jihong, Ma, Menglin, Sarker, Mahfuzur R., and McClane, Bruce A.
Abstract:: CodY is known to regulate various virulence properties in several Gram-positive bacteria but has not yet been studied in the important histotoxic and intestinal pathogen Clostridium perfringens. The present study prepared an isogenic codY-null mutant in C. perfringens type D strain CN3718 by insertional mutagenesis using the Targetron system. Western...
Resource Type:: Article

Transcriptional Profile during Deoxycholate-Induced Sporulation in a Clostridium perfringens Isolate Causing Foodborne Illness

Creator:: Yasugi, Mayo, Okuzaki, Daisuke, Kuwana, Ritsuko, Takamatsu, Hiromu, Fujita, Masaya, Sarker, Mahfuzur R., and Miyake, Masami
Abstract:: Clostridium perfringens type A is a common source of foodborne illness (FBI) in humans. Vegetative cells sporulate in the small intestinal tract and produce the major pathogenic factor C. perfringens enterotoxin. Although sporulation plays a critical role in the pathogenesis of FBI, the mechanisms inducing sporulation remain unclear. Bile salts...
Resource Type:: Article
Full Text:: Microbiology,f Oregon State University, Corvallis, Oregon, USA ABSTRACT Clostridium perfringens type A is a

Data Acceptance Criteria for Standardized Human-Associated Fecal Source Identification Quantitative Real-Time PCR Methods

Creator:: Shanks, Orin C., Kelty, Catherine A., Oshiro, Robin, Haugland, Richard A., Madi, Tania, Brooks, Lauren, Field, Katharine G., and Sivaganesan, Mano
Abstract:: There is growing interest in the application of human-associated fecal source identification quantitative real-time PCR (qPCR) technologies for water quality management. The transition from a research tool to a standardized protocol requires a high degree of confidence in data quality across laboratories. Data quality is typically determined through a series...
Resource Type:: Article
Full Text:: Molecular Corporation, Miami, Florida, USAc; Department of Microbiology, Oregon State University, Corvallis

Mycobacterium avium Biofilm Attenuates Mononuclear Phagocyte Function by Triggering Hyperstimulation and Apoptosis during Early Infection

Creator:: Rose, Sasha J. and Bermudez, Luiz E.
Abstract:: Mycobacterium avium subsp. hominissuis is an opportunistic human pathogen that has been shown to form biofilm in vitro and in vivo. Biofilm formation in vivo appears to be associated with infections in the respiratory tract of the host. The reasoning behind how M. avium subsp. hominissuis biofilm is allowed to...
Resource Type:: Article
Full Text:: Microbiology Version of Record http://hdl.handle.net/1957/47894 http://cdss.library.oregonstate.edu/sa

Chloroflexi CL500-11 Populations That Predominate Deep-Lake Hypolimnion Bacterioplankton Rely on Nitrogen-Rich Dissolved Organic Matter Metabolism and C₁ Compound Oxidation

Creator:: Denef, Vincent J., Mueller, Ryan S., Chiang, Edna, Liebig, James R., and Vanderploeg, Henry A.
Abstract:: The Chloroflexi CL500-11 clade contributes a large proportion of the bacterial biomass in the oxygenated hypolimnia of deep lakes worldwide, including the world's largest freshwater system, the Laurentian Great Lakes. Traits that allow CL500-11 to thrive and its biogeochemical role in these environments are currently unknown. Here, we found that...
Resource Type:: Article

The Environment of “Mycobacterium avium subsp. hominissuis” Microaggregates Induces Synthesis of Small Proteins Associated with Efficient Infection of Respiratory Epithelial Cells

Creator:: Babrak, Lmar, Danelishvili, Lia, Rose, Sasha J., Kornberg, Tiffany, and Bermudez, Luiz E.
Abstract:: “Mycobacterium avium subsp. hominissuis” is an opportunistic environmental pathogen that causes respiratory illness in immunocompromised patients, such as those with cystic fibrosis as well as other chronic respiratory diseases. Currently, there is no efficient approach to prevent or treat M. avium subsp. hominissuis infection in the lungs. During initial colonization...
Resource Type:: Article

Does Aqueous Fullerene Inhibit the Growth of Saccharomyces cerevisiae or Escherichia coli?

Creator:: Hadduck, Alex N., Hindagolla, Vihangi, Contreras, Alison E., Li, Qilin, and Bakalinsky, Alan T.
Abstract:: Studies reporting on potentially toxic interactions between aqueous fullerene nanoparticles (nC₆₀) and microorganisms have been contradictory. When known confounding factors were avoided, growth yields of Saccharomyces cerevisiae and Escherichia coli cultured in the presence and absence of independently prepared lots of underivatized nC₆₀ were found not to be significantly different.
Resource Type:: Article
Full Text:: ?. Applied and Environmental Microbiology, 76(24), 8239-8242. doi:10.1128/AEM.01925-10 10.1128/AEM.01925-10

Steady-State Growth under Inorganic Carbon Limitation Conditions Increases Energy Consumption for Maintenance and Enhances Nitrous Oxide Production in Nitrosomonas europaea

Creator:: Mellbye, Brett L., Giguere, Andrew, Chaplen, Frank, Bottomley, Peter J., and Sayavedra-Soto, Luis A.
Abstract:: Nitrosomonas europaea is a chemolithoautotrophic bacterium that oxidizes ammonia (NH₃) to obtain energy for growth on carbon dioxide (CO₂) and can also produce nitrous oxide (N₂O), a greenhouse gas. We interrogated the growth, physiological, and transcriptome responses of N. europaea to conditions of replete (>5.2 mM) and limited inorganic carbon...
Resource Type:: Article

Identification and Characterization of Human Cytomegalovirus-Encoded MicroRNAs

Creator:: Grey, Finn, Antoniewicz, Andy, Allen, Edwards, Saugstad, Julie, McShea, Andy, Carrington, James C., and Nelson, Jay
Abstract:: MicroRNAs (miRNAs) are an extensive class of noncoding genes that regulate gene expression through posttranscriptional repression. Given the potential for large viral genomes to encode these transcripts, we examined the human cytomegalovirus AD169 genome for miRNAs using a bioinformatics approach. We identified 406 potential stem-loops, of which 110 were conserved...
Resource Type:: Article
Full Text:: for Microbiology. All Rights Reserved. Identification and Characterization of Human Cytomegalovirus

Mycobacterium tuberculosis Alters the Metalloprotease Activity of the COP9 Signalosome

Creator:: Danelishvili, Lia, Babrak, Lmar, Rose, Sasha J., Everman, Jamie, and Bermudez, Luiz E.
Abstract:: Inhibition of apoptotic death of macrophages by Mycobacterium tuberculosis represents an important mechanism of virulence that results in pathogen survival both in vitro and in vivo. To identify M. tuberculosis virulence determinants involved in the modulation of apoptosis, we previously screened a transposon bank of mutants in human macrophages, and...
Resource Type:: Article
Full Text:: Microbiology Version of Record http://cdss.library.oregonstate.edu/sa-termsofuse Mycobacterium

Virus-Derived Gene Expression and RNA Interference Vector for Grapevine

Creator:: Kurth, Elizabeth G., Peremyslov, Valera V., Prokhnevsky, Alexey I., Kasschau, Kristin D., Miller, Marilyn, Carrington, James C., and Dolja, Valerian V.
Abstract:: The improvement of the agricultural and wine-making qualities of the grapevine (Vitis vinifera) is hampered by adherence to traditional varieties, the recalcitrance of this plant to genetic modifications, and public resistance to genetically modified organism (GMO) technologies. To address these challenges, we developed an RNA virus-based vector for the introduction...
Resource Type:: Article
Full Text:: , American Society for Microbiology. All Rights Reserved. doi:10.1128/JVI.00436-12 The authors have paid a

Noninvasive Quantitative Measurement of Bacterial Growth in Porous Media under Unsaturated-Flow Conditions

Creator:: Yarwood, R. R., Rockhold, M. L., Niemet, M. R., Selker, J. S., and Bottomley, P. J.
Abstract:: Glucose-dependent growth of the luxCDABE reporter bacterium Pseudomonas fluorescens HK44 was monitored noninvasively in quartz sand under unsaturated-flow conditions within a 45- by 56- by 1-cm two-dimensional light transmission chamber. The spatial and temporal development of growth were mapped daily over 7 days by quantifying salicylate-induced bioluminescence. A nonlinear model...
Resource Type:: Article
Full Text:: APPLIED AND ENVIRONMENTAL MICROBIOLOGY, July 2002, p. 3597

Attached and unattached bacterial communities in a 120-meter corehole in an acidic, crystalline rock aquifier

Creator:: Lehman, R. Michael, Roberto, Francisco F., Early, Drummond, Bruhn, Debby F., Brink, Susan E., O'Connell, Sean P., Delwiche, Mark. E, and Colwell, Frederick
Abstract:: The bacteria colonizing geologic core sections (attached) were contrasted with those found suspended in the groundwater (unattached) by examining the microbiology of 16 depth-paired core and groundwater samples using a suite of culture-independent and culture-dependent analyses. One hundred twenty-two meters was continuously cored from a buried chalcopyrite ore hosted in...
Resource Type:: Article
Full Text:: APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 0099-2240/01

Diversity of oxygenase genes from Methane- and Ammonia-oxidizing bacteria in the Eastern Snake River Plain aquifier

Creator:: Erwin, Daniel P., Erickson, Issac K., Delwiche, Mark E., Colwell, Fredrick, Strap, Janice L., and Crawford, Ronald L.
Abstract:: PCR amplification, restriction fragment length polymorphism, and phylogenetic analysis of oxygenase genes were used for the characterization of in situ methane- and ammonia-oxidizing bacteria from free-living and attached communities in the Eastern Snake River Plain aquifer. The following three methane monooxygenase (MMO) PCR primer sets were used: A189-A682, which amplifies...
Resource Type:: Article
Full Text:: APPLIED AND ENVIRONMENTAL MICROBIOLOGY, Apr. 2005, p. 2016

Identification of B Cells as a Major Site for Cyprinid Herpesvirus 3 Latency

Creator:: Reed, Aimee N., Izume, Satoko, Dolan, Brian P., LaPatra, Scott, Kent, Michael, Dong, Jing, and Jin, Ling
Abstract:: Cyprinid herpesvirus 3 (CyHV-3), commonly known as koi herpesvirus (KHV), is a member of the Alloherpesviridae, and is a recently discovered emerging herpesvirus that is highly pathogenic for koi and common carp. Our previous study demonstrated that CyHV-3 becomes latent in peripheral white blood cells (WBC). In this study, CyHV-3...
Resource Type:: Article
Full Text:: Microbiology Version of Record http://cdss.library.oregonstate.edu/sa-termsofuse Identification of B

Host-Specific Involvement of the HC Protein in the Long-Distance Movement of Potyviruses

Creator:: Sáenz, Pilar, Salvador, Beatriz, Simón-Mateo, Carmen, Kasschau, Kristin D., Carrington, James C., and García, Juan Antonio
Abstract:: Plum pox virus (PPV) is a member of the Potyvirus genus that, in nature, infects trees of the Prunus genus. Although PPV infects systemically several species of the Nicotiana genus, such as N. clevelandii and N. benthamiana, and replicates in the inoculated leaves of N. tabacum, it is unable to...
Resource Type:: Article
Full Text:: Microbiology. All Rights Reserved. Host-Specific Involvement of the HC Protein in the Long-Distance Movement

Use of aliphatic n-alkynes to discriminate soil nitrification activities of ammonia-oxidizing thaumarchaea and bacteria

Creator:: Taylor, Anne E., Vajrala, Neeraja, Giguere, Andrew T., Gitelman, Alix I., Arp, Daniel J., Myrold, David D., Sayavedra-Soto, Luis, and Bottomley, Peter J.
Abstract:: Ammonia (NH₃)-oxidizing bacteria (AOB) and thaumarchaea (AOA) co-occupy most soils, yet no short-term growth-independent method exists to determine their relative contributions to nitrification in situ. Microbial monooxygenases differ in their vulnerability to inactivation by aliphatic n-alkynes, and we found that NH₃ oxidation by the marine thaumarchaeon Nitrosopumilus maritimus was unaffected...
Resource Type:: Article
Full Text:: dDepartment of Microbiology, 220 Nash Hall, Oregon State University, Corvallis, OR #Corresponding

A Metalloprotease Secreted by the Type II Secretion System Links Vibrio cholerae with Collagen

Creator:: Park, Bo R., Zielke, Ryszard A., Wierzbicki, Igor H., Mitchell, Kristie C., Withey, Jeffrey H., and Sikora, Aleksandra E.
Abstract:: Vibrio cholerae is autochthonous to various aquatic niches and is the etiological agent of the life-threatening diarrheal disease cholera. The persistence of V. cholerae in natural habitats is a crucial factor in the epidemiology of cholera. In contrast to the well-studied V. cholerae-chitin connection, scarce information is available about the...
Resource Type:: Article

Physiological Framework for the Regulation of Quorum Sensing-Dependent Public Goods in Pseudomonas aeruginosa

Creator:: Mellbye, Brett and Schuster, Martin
Abstract:: Many bacteria possess cell density-dependent quorum-sensing (QS) systems that often regulate cooperative secretions involved in host-microbe or microbe-microbe interactions. These secretions, or “public goods,” are frequently coregulated by stress and starvation responses. Here we provide a physiological rationale for such regulatory complexity in the opportunistic pathogen Pseudomonas aeruginosa. Using minimal-medium...
Resource Type:: Article

Quorum-Dependent Mannopine-Inducible Conjugative Transfer of an Agrobacterium Opine-Catabolic Plasmid

Creator:: Wetzel, Margaret E., Kim, Kun-Soo, Miller, Marilyn, Olsen, Gary J., and Farrand, Stephen K.
Abstract:: The Ti plasmid in Agrobacterium tumefaciens strain 15955 carries two alleles of traR that regulate conjugative transfer. The first is a functional allele, called traR, that is transcriptionally induced by the opine octopine. The second, trlR, is a nonfunctional, dominant-negative mutant located in an operon that is inducible by the...
Resource Type:: Article

Thauera butanivorans sp. nov., a C₂–C₉ alkane-oxidizing bacterium previously referred to as ‘Pseudomonas butanovora’

Creator:: Dubbels, Bradley L., Sayavedra-Soto, Luis A., Bottomley, Peter J., and Arp, Daniel J.
Abstract:: The placement of ‘Pseudomonas butanovora’ in the genus Thauera was proposed previously, based on 16S rRNA gene sequence analysis, upon further studies of taxonomical characteristics. In this study, physiological characteristics and DNA–DNA reassociation data are presented and the transfer of ‘P. butanovora’ to the genus Thauera is proposed. The original...
Resource Type:: Article
Full Text:: -2902, USA 2Department of Microbiology, 220 Nash Hall, Oregon State University, Corvallis, OR 97331

Inhibitory Effects of C₂ to C₁₀ 1-Alkynes on Ammonia Oxidation in Two Nitrososphaera Species

Creator:: Taylor, A. E., Taylor, K., Tennigkeit, B., Palatinszky, M., Stieglmeier, M., Myrold, D. D., Schleper, C., Wagner, M., and Bottomley, P. J.
Abstract:: A previous study showed that ammonia oxidation by the Thaumarchaeota Nitrosopumilus maritimus (group 1.1a) was resistant to concentrations of the C₈ 1-alkyne, octyne, which completely inhibits activity by ammonia-oxidizing bacteria. In this study, the inhibitory effects of octyne and other C₂ to C₁₀ 1-alkynes were evaluated on the nitrite production...
Resource Type:: Article
Full Text:: Environmental Microbiology, 81(6), 1942-1948. doi:10.1128/AEM.03688-14 10.1128/AEM.03688-14 American Society

Effect of Tannic Acid on the Transcriptome of the Soil Bacterium Pseudomonas protegens Pf-5

Creator:: Lim, Chee Kent, Penesyan, Anahit, Hassan, Karl A., Loper, Joyce E., and Paulsen, Ian T.
Abstract:: Tannins are a diverse group of plant-produced, polyphenolic compounds with metal-chelating and antimicrobial properties that are prevalent in many soils. Using transcriptomics, we determined that tannic acid, a form of hydrolysable tannin, broadly affects the expression of genes involved in iron and zinc homeostases, sulfur metabolism, biofilm formation, motility, and...
Resource Type:: Article

Mortalities of Eastern and Pacific Oyster Larvae Caused by the Pathogens Vibrio coralliilyticus and Vibrio tubiashii

Creator:: Richards, Gary P., Watson, Michael A., Needleman, David S., Church, Karlee M., and Häse, Claudia C.
Abstract:: Vibrio tubiashii is reported to be a bacterial pathogen of larval Eastern oysters (Crassostrea virginica) and Pacific oysters (Crassostrea gigas) and has been associated with major hatchery crashes, causing shortages in seed oysters for commercial shellfish producers. Another bacterium, Vibrio coralliilyticus, a well-known coral pathogen, has recently been shown to...
Resource Type:: Article
Full Text:: Environmental Microbiology, 81(1), 292-297. doi:10.1128/AEM.02930-14 10.1128/AEM.02930-14 American Society

Kinetic characterization of the soluble butane monooxygenase from Thauera butanivorans, formerly ‘Pseudomonas butanovora’

Creator:: Cooley, Richard B., Dubbels, Bradley L., Sayavedra-Soto, Luis A., Bottomley, Peter J., and Arp, Daniel J.
Abstract:: Soluble butane monooxygenase (sBMO), a three-component di-iron monooxygenase complex expressed by the C2–C9 alkane-utilizing bacterium Thauera butanivorans, was kinetically characterized by measuring substrate specificities for C1–C5 alkanes and product inhibition profiles. sBMO has high sequence homology with soluble methane monooxygenase (sMMO) and shares a similar substrate range, including gaseous and...
Resource Type:: Article
Full Text:: 97331, USA 3Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA Received 9

Virus World as an Evolutionary Network of Viruses and Capsidless Selfish Elements

Creator:: Koonin, Eugene V. and Dolja, Valerian V.
Abstract:: Viruses were defined as one of the two principal types of organisms in the biosphere, namely, as capsid-encoding organisms in contrast to ribosome-encoding organisms, i.e., all cellular life forms. Structurally similar, apparently homologous capsids are present in a huge variety of icosahedral viruses that infect bacteria, archaea, and eukaryotes. These...
Resource Type:: Article
Full Text:: Capsidless Selfish Elements. Microbiology and Molecular Biology Reviews, 78(2), 278-303. doi:10.1128/MMBR

D-Lactate metabolism and the obligate requirement for CO2 during growth on nitrite by the facultative lithoautotroph Nitrobacter hamburgensis

Creator:: Starkenburg, Shawn R., Arp, Daniel J., and Bottomley, Peter J.
Abstract:: Nitrobacter hamburgensis X14 is a facultative lithoautotroph that conserves energy from the oxidation of nitrite (NO 2 ) and fixes carbon dioxide (CO2) as its sole source of carbon. The availability of the N. hamburgensis X14 genome sequence initiated a re-examination of its mixotrophic and organotrophic potential, as genes encoding...
Resource Type:: Article
Full Text:: @onid.orst.edu 1Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA 2Department of

Genome Sequence of Nitrosomonas sp. Strain AL212, an Ammonia-Oxidizing Bacterium Sensitive to High Levels of Ammonia

Creator:: Yuichi, Suwa, Norton, Jeanette M., Bollmann, Annette, Klotz, Martin G., Stein, Lisa Y., Laanbroek, Hendrikus J., Arp, Daniel J., Goodwin, Lynne A., Chertkov, Olga, Held, Brittany, Bruce, David, Detter, J. Chris, Detter, Janine C., Tapia, Roxanne, and Han, Cliff S.
Abstract:: Nitrosomonas sp. strain AL212 is an obligate chemolithotrophic ammonia-oxidizing bacterium (AOB) that was originally isolated in 1997 by Yuichi Suwa and colleagues. This organism belongs to Nitrosomonas cluster 6A, which is characterized by sensitivity to high ammonia concentrations, higher substrate affinity (lower K[subscript m]), and lower maximum growth rates than...
Resource Type:: Article

Microbiological comparison of surface soil and unsaturated subsurface soil from a semiarid high desert

Creator:: Colwell, Frederick
Abstract:: Thirty-two chemoheterotrophic bacteria were isolated from unsaturated subsurface soil samples obtained from ca. 70 m below land surface in a high desert in southeastern Idaho. Most isolates were gram positive (84%) and strict aerobes (79%). Acridine orange direct counts of microbes in one subsurface sample showed lower numbers than similar...
Resource Type:: Article
Full Text:: Vol. 55, No. 9APPLIED AND ENVIRONMENTAL MICROBIOLOGY, Sept. 1989, p

Diffusion through a double-sided plate: Development of a method to study alga-bacterium interactions

Creator:: Colwell, Frederick and Speidel, Harold K.
Abstract:: Bacteria and algae isolated from a wastewater oxidation pond were inoculated onto opposing surfaces of double-layer agar plates (Lutri plates) to determine the usefulness of such plates for studying microbial interactions. The altered growth characteristics of various algae depending on the species of bacteria on the adjacent medium surface indicated...
Resource Type:: Article
Full Text:: Vol. 50, No. 6APPLIED AND ENVIRONMENTAL MICROBIOLOGY, Dec. 1985, p

Examining the Use of Ceftaroline in the Treatment of Streptococcus pneumoniae Meningitis with Reference to Human Cathelicidin LL-37

Creator:: Sakoulas, George, Nonejuie, Poochit, Kullar, Ravina, Pogliano, Joseph, Rybak, Michael J., and Nizet, Victor
Abstract:: Five cases of bacterial meningitis treated with ceftaroline (4 Streptococcus pneumoniae and 1 Staphylococcus aureus) are summarized here. The pharmacodynamics of human cathelicidin LL-37 and ceftaroline were evaluated against S. pneumoniae. Patients who received ceftaroline 600 mg every 8 h (q8h) (1 S. aureus and 3 S. pneumoniae) were successfully...
Resource Type:: Article
Full Text:: .04965-14 10.1128/AAC.04965-14 American Society for Microbiology Version of Record http

Na +/H + Antiport Is Essential for Yersinia pestis Virulence

Creator:: Minato, Yusuke, Ghosh, Amit, Faulkner, Wyatt J., Lind, Erin J., Schesser Bartra, Sara, Plano, Gregory V., Jarrett, Clayton O., Hinnebusch, B. Joseph, Winogrodzki, Judith, Dibrov, Pavel, and Hase, Claudia C.
Abstract:: Na⁺/H⁺ antiporters are ubiquitous membrane proteins that play a central role in the ion homeostasis of cells. In this study, we examined the possible role of Na⁺/H⁺ antiport in Yersinia pestis virulence and found that Y. pestis strains lacking the major Na⁺/H⁺ antiporters, NhaA and NhaB, are completely attenuated in...
Resource Type:: Article
Full Text:: Microbiology, College of Science,b Oregon State University, Corvallis, Oregon, USA; Department of Microbiology

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