Hannah Tsunemoto
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View article: Independent component analysis reveals 49 independently modulated gene sets within the global transcriptional regulatory architecture of multidrug-resistant <i>Acinetobacter baumannii</i>
Independent component analysis reveals 49 independently modulated gene sets within the global transcriptional regulatory architecture of multidrug-resistant <i>Acinetobacter baumannii</i> Open
The rise in hospital outbreaks of multidrug-resistant Acinetobacter baumannii infections underscores the urgent need for alternatives to traditional broad-spectrum antibiotic therapies. The success of A. baumannii as a significant nosocomi…
View article: Bacterial cytological profiling reveals interactions between jumbo phage φKZ infection and cell wall active antibiotics in Pseudomonas aeruginosa
Bacterial cytological profiling reveals interactions between jumbo phage φKZ infection and cell wall active antibiotics in Pseudomonas aeruginosa Open
The emergence of antibiotic resistance in bacteria has led to the investigation of alternative treatments, such as phage therapy. In this study, we examined the interactions between the nucleus-forming jumbo phage ФKZ and antibiotic treatm…
View article: Nafcillin Augmentation of Daptomycin and Cathelicidin LL-37 Killing of Methicillin-resistant Staphylococcus epidermidis: Foundations of Successful Therapy of Endocarditis
Nafcillin Augmentation of Daptomycin and Cathelicidin LL-37 Killing of Methicillin-resistant Staphylococcus epidermidis: Foundations of Successful Therapy of Endocarditis Open
View article: Intrinsic Antibacterial Activity of Xeruborbactam <i>In Vitro</i> : Assessing Spectrum and Mode of Action
Intrinsic Antibacterial Activity of Xeruborbactam <i>In Vitro</i> : Assessing Spectrum and Mode of Action Open
Xeruborbactam (formerly QPX7728) is a cyclic boronate inhibitor of numerous serine and metallo-beta-lactamases. At concentrations generally higher than those required for beta-lactamase inhibition, xeruborbactam has direct antibacterial ac…
View article: Advanced transcriptomic analysis reveals the role of efflux pumps and media composition in antibiotic responses of <i>Pseudomonas aeruginosa</i>
Advanced transcriptomic analysis reveals the role of efflux pumps and media composition in antibiotic responses of <i>Pseudomonas aeruginosa</i> Open
Pseudomonas aeruginosa is an opportunistic pathogen and major cause of hospital-acquired infections. The virulence of P. aeruginosa is largely determined by its transcriptional regulatory network (TRN). We used 411 transcription profiles o…
View article: Advanced transcriptomic analysis reveals the role of efflux pumps and media composition in antibiotic responses of<i>Pseudomonas aeruginosa</i>
Advanced transcriptomic analysis reveals the role of efflux pumps and media composition in antibiotic responses of<i>Pseudomonas aeruginosa</i> Open
Pseudomonas aeruginosa is an opportunistic pathogen and major cause of hospital acquired infections. The pathogenicity and virulence of P. aeruginosa is largely determined by its transcriptional regulatory network (TRN). We used 411 transc…
View article: Machine learning from<i>Pseudomonas aeruginosa</i>transcriptomes identifies independently modulated sets of genes associated with known transcriptional regulators
Machine learning from<i>Pseudomonas aeruginosa</i>transcriptomes identifies independently modulated sets of genes associated with known transcriptional regulators Open
The transcriptional regulatory network (TRN) of Pseudomonas aeruginosa coordinates cellular processes in response to stimuli. We used 364 transcriptomes (281 publicly available + 83 in-house generated) to reconstruct the TRN of P. aerugino…
View article: Machine Learning of <i>Pseudomonas aeruginosa</i> transcriptomes identifies independently modulated sets of genes associated with known transcriptional regulators
Machine Learning of <i>Pseudomonas aeruginosa</i> transcriptomes identifies independently modulated sets of genes associated with known transcriptional regulators Open
The transcriptional regulatory network (TRN) of Pseudomonas aeruginosa plays a critical role in coordinating numerous cellular processes. We extracted and quality controlled all publicly available RNA-sequencing datasets for P. aeruginosa …
View article: Bacterial Cytological Profiling Identifies Rhodanine-Containing PAINS Analogs as Specific Inhibitors of <i>Escherichia coli</i> Thymidylate Kinase <i>In Vivo</i>
Bacterial Cytological Profiling Identifies Rhodanine-Containing PAINS Analogs as Specific Inhibitors of <i>Escherichia coli</i> Thymidylate Kinase <i>In Vivo</i> Open
We demonstrate that bacterial cytological profiling is a powerful tool for directing antibiotic discovery efforts because it can be used to determine the specificity of an antibiotic’s in vivo mechanism of action. By assaying analogs of PA…
View article: Bacterial Cytological Profiling Identifies Rhodanine-containing PAINS Analogs as Specific Inhibitors of<i>E. coli</i>Thymidylate Kinase<i>in Vivo</i>
Bacterial Cytological Profiling Identifies Rhodanine-containing PAINS Analogs as Specific Inhibitors of<i>E. coli</i>Thymidylate Kinase<i>in Vivo</i> Open
In this study, we conducted an activity screen of 31 structural analogs of rhodanine-containing pan-assay interference compounds (PAINS). We identified nine active molecules inhibiting the growth of E. coli and classified them according to…
View article: Identifying the effect of vancomycin on health care–associated methicillin-resistant <i>Staphylococcus aureus</i> strains using bacteriological and physiological media
Identifying the effect of vancomycin on health care–associated methicillin-resistant <i>Staphylococcus aureus</i> strains using bacteriological and physiological media Open
Background The evolving antibiotic-resistant behavior of health care–associated methicillin-resistant Staphylococcus aureus (HA-MRSA) USA100 strains are of major concern. They are resistant to a broad class of antibiotics such as macrolide…
View article: Revealing 29 sets of independently modulated genes in <i>Staphylococcus aureus</i> , their regulators, and role in key physiological response
Revealing 29 sets of independently modulated genes in <i>Staphylococcus aureus</i> , their regulators, and role in key physiological response Open
Significance Staphylococcus aureus infections impose an immense burden on the healthcare system. To establish a successful infection in a hostile host environment, S. aureus must coordinate its gene expression to respond to a wide array of…
View article: Elucidation of environment dependent antibiotic resistance mechanisms
Elucidation of environment dependent antibiotic resistance mechanisms Open
The propensity of pathogens to evolve resistance to antibiotics used in clinical infectious disease therapeutics has been an increasing concern in recent decades. Acquisition of resistance often translates into treatment failure and puts p…
View article: Characterizing the response of <i>Acinetobacter baumannii</i> ATCC 17978 to azithromycin in multiple <i>in vitro</i> growth conditions
Characterizing the response of <i>Acinetobacter baumannii</i> ATCC 17978 to azithromycin in multiple <i>in vitro</i> growth conditions Open
Multi-drug resistant (MDR) Acinetobacter baumannii is one of the most concerning pathogens in hospital infections. A. baumannii is categorized as an urgent threat by the U.S. Centers for Disease Control and the highest priority pathogen by…
View article: Identifying the effect of vancomycin on HA-MRSA strains using bacteriological and physiological media
Identifying the effect of vancomycin on HA-MRSA strains using bacteriological and physiological media Open
Healthcare-associated methicillin-resistant Staphylococcus aureus (HA-MRSA) USA100 strains are of major concern due to their evolving antibiotic resistant. They are resistant to a broad class of antibiotics like macrolides, aminoglycosides…
View article: Profiling the effect of nafcillin on HA-MRSA D592 using bacteriological and physiological media
Profiling the effect of nafcillin on HA-MRSA D592 using bacteriological and physiological media Open
Staphylococcus aureus is a leading human pathogen associated with both hospital-acquired and community-acquired infections. The bacterium has steadily gained resistance to β-lactams and other important first-line antibiotics culminating in…
View article: Genetic Determinants Enabling Medium-Dependent Adaptation to Nafcillin in Methicillin-Resistant Staphylococcus aureus
Genetic Determinants Enabling Medium-Dependent Adaptation to Nafcillin in Methicillin-Resistant Staphylococcus aureus Open
The ability of pathogens such as Staphylococcus aureus to evolve resistance to antibiotics used in the treatment of infections has been an important concern in the last decades. Resistant acquisition usually translates into treatment failu…
View article: Revealing 29 sets of independently modulated genes in<i>Staphylococcus aureus</i>, their regulators and role in key physiological responses
Revealing 29 sets of independently modulated genes in<i>Staphylococcus aureus</i>, their regulators and role in key physiological responses Open
The ability of Staphylococcus aureus to infect many different tissue sites is enabled, in part, by its Transcriptional Regulatory Network (TRN) that coordinates its gene expression to respond to different environments. We elucidated the or…
View article: Azithromycin Exerts Bactericidal Activity and Enhances Innate Immune Mediated Killing of MDR Achromobacter xylosoxidans
Azithromycin Exerts Bactericidal Activity and Enhances Innate Immune Mediated Killing of MDR Achromobacter xylosoxidans Open
Azithromycin (AZM), the most commonly prescribed antibiotic in the United States, is thought to have no activity against multidrug-resistant Gram-negative pathogens such as Achromobacter xylosoxidans (AX) per standard minimum inhibitory co…
View article: Profiling the effect of nafcillin on HA-MRSA D712 using bacteriological and physiological media
Profiling the effect of nafcillin on HA-MRSA D712 using bacteriological and physiological media Open
Staphylococcus aureus strains have been continuously evolving resistance to numerous classes of antibiotics including methicillin, vancomycin, daptomycin and linezolid, compounding the enormous healthcare and economic burden of the pathoge…
View article: Surprising synergy of dual translation inhibition vs. Acinetobacter baumannii and other multidrug-resistant bacterial pathogens
Surprising synergy of dual translation inhibition vs. Acinetobacter baumannii and other multidrug-resistant bacterial pathogens Open
View article: Characterization of CA-MRSA TCH1516 exposed to nafcillin in bacteriological and physiological media
Characterization of CA-MRSA TCH1516 exposed to nafcillin in bacteriological and physiological media Open
View article: Avibactam Sensitizes Carbapenem-Resistant NDM-1–Producing Klebsiella pneumoniae to Innate Immune Clearance
Avibactam Sensitizes Carbapenem-Resistant NDM-1–Producing Klebsiella pneumoniae to Innate Immune Clearance Open
Infections caused by New Delhi metallo-β-lactamase (NDM)–producing strains of multidrug-resistant Klebsiella pneumoniae are a global public health threat lacking reliable therapies. NDM is impervious to all existing β-lactamase inhibitor (…
View article: Bacterial Cytological Profiling as a Tool To Study Mechanisms of Action of Antibiotics That Are Active against Acinetobacter baumannii
Bacterial Cytological Profiling as a Tool To Study Mechanisms of Action of Antibiotics That Are Active against Acinetobacter baumannii Open
An increasing number of multidrug-resistant Acinetobacter baumannii (MDR- AB ) infections have been reported worldwide, posing a threat to public health. The establishment of methods to elucidate the mechanism of action (MOA) of A. baumann…
View article: A computational knowledge-base elucidates the response of Staphylococcus aureus to different media types
A computational knowledge-base elucidates the response of Staphylococcus aureus to different media types Open
S. aureus is classified as a serious threat pathogen and is a priority that guides the discovery and development of new antibiotics. Despite growing knowledge of S. aureus metabolic capabilities, our understanding of its systems-level resp…
View article: The Mla pathway is critical for Pseudomonas aeruginosa resistance to outer membrane permeabilization and host innate immune clearance
The Mla pathway is critical for Pseudomonas aeruginosa resistance to outer membrane permeabilization and host innate immune clearance Open