Samuel I. Miller

发表

GWAS Analyzer: integrating genotype, phenotype and public annotation data for genome-wide association study analysis

Christine Fong, Matthew Radey, Michael Wasnick, 2010, Bioinform..

Antimicrobial Peptides Activate the Rcs Regulon through the Outer Membrane Lipoprotein RcsF

Samuel I. Miller, R. Pfuetzner, Carol A. Farris, 2010, Journal of bacteriology.

Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean.

Samuel I. Miller, D. Goodlett, S. Shaffer, 2009, Analytical chemistry.

A genome-wide in vitro bacterial-infection screen reveals human variation in the host response associated with inflammatory disease.

Michael Wasnick, Joshua M Akey, Dennis C. Ko, 2009, American journal of human genetics.

Functional genetic screen of human diversity reveals that a methionine salvage enzyme regulates inflammatory cell death

Dennis C. Ko, Samuel I. Miller, R. Pfuetzner, 2012, Proceedings of the National Academy of Sciences.

GUTSS: An Alignment-Free Sequence Comparison Method for Use in Human Intestinal Microbiome and Fecal Microbiota Transplantation Analysis

Samuel I. Miller, H. Hayden, M. Brittnacher, 2016, PloS one.

The Pseudomonas aeruginosa Proteome during Anaerobic Growth

Samuel I. Miller, J. Eng, Manhong Wu, 2005, Journal of bacteriology.

Proteomic analysis of Pseudomonas aeruginosa grown under magnesium limitation

Samuel I. Miller, R. Aebersold, J. Eng, 2003, Journal of the American Society for Mass Spectrometry.

An underlying mechanism for the increased mutagenesis of lagging-strand genes in Bacillus subtilis

Samuel I. Miller, H. Hayden, H. Merrikh, 2015, Proceedings of the National Academy of Sciences.

Salmonellae interplay with host cells

Samuel I. Miller, Andrea Haraga, Maikke B. Ohlson, 2008, Nature Reviews Microbiology.

PhoQ Mutations Promote Lipid A Modification and Polymyxin Resistance of Pseudomonas aeruginosa Found in Colistin-Treated Cystic Fibrosis Patients

Samuel I. Miller, N. Høiby, S. Moskowitz, 2011, Antimicrobial Agents and Chemotherapy.

Role of the Salmonella Pathogenicity Island 1 (SPI-1) Protein InvB in Type III Secretion of SopE and SopE2, Two Salmonella Effector Proteins Encoded Outside of SPI-1

Wolf-Dietrich Hardt, Samuel I. Miller, W. Hardt, 2003, Journal of bacteriology.

Rapid 16S rRNA Next-Generation Sequencing of Polymicrobial Clinical Samples for Diagnosis of Complex Bacterial Infections

Stephen J. Salipante, Jay Shendure, Connor McCoy, 2013, PloS one.

Pseudomonas aeruginosa in vitro phenotypes distinguish cystic fibrosis infection stages and outcomes.

Samuel I. Miller, L. Hoffman, R. Gibson, 2014, American journal of respiratory and critical care medicine.

Recognition of Antimicrobial Peptides by a Bacterial Sensor Kinase

Rachel E. Klevit, Anna R. Schneider, Samuel I. Miller, 2005, Cell.

Lipid A Acylation and Bacterial Resistance against Vertebrate Antimicrobial Peptides

Samuel I. Miller, J. Gunn, M. Hackett, 1998, Cell.

Determination and comparison of the Francisella tularensis subsp.novicida U112 proteome to other bacterial proteomes.

Samuel I. Miller, D. Goodlett, S. Shaffer, 2008, Journal of Proteome Research.

PAcIFIC: how to dive deeper into the proteomics ocean

Alexander Scherl, Scott A. Shaffer, David R. Goodlett, 2009 .

SseJ Deacylase Activity by Salmonella enterica Serovar Typhimurium Promotes Virulence in Mice

Samuel I. Miller, J. Brumell, Maikke B. Ohlson, 2005, Infection and Immunity.

Aminoglycoside antibiotics induce bacterial biofilm formation

Michael J. MacCoss, Roger A. Jones, Zhaoying Zhang, 2005, Nature.

Salmonella sensing of anti‐microbial mechanisms to promote survival within macrophages

Samuel I. Miller, Sarah Sanowar, Lynne R. Prost, 2007, Immunological reviews.

Asymmetrical Distribution of the Second Messenger c-di-GMP upon Bacterial Cell Division

Matthias Christen, Bridget R. Kulasekara, Samuel I. Miller, 2010, Science.

Human and Extracellular DNA Depletion for Metagenomic Analysis of Complex Clinical Infection Samples Yields Optimized Viable Microbiome Profiles

Elhanan Borenstein, Alexander Eng, Samuel I. Miller, 2019, Cell reports.

Lipid A mutant Salmonella with suppressed virulence and TNFα induction retain tumor-targeting in vivo

Samuel I. Miller, Jessica Fischer, J. Platt, 1999, Nature Biotechnology.

Humanized TLR4/MD-2 Mice Reveal LPS Recognition Differentially Impacts Susceptibility to Yersinia pestis and Salmonella enterica

Samuel I. Miller, Christopher B Wilson, A. Hajjar, 2012, PLoS pathogens.

Interactions of the Transmembrane Polymeric Rings of the Salmonella enterica Serovar Typhimurium Type III Secretion System

David Baker, David R. Goodlett, Tamir Gonen, 2010, mBio.

A direct screen for c-di-GMP modulators reveals a Salmonella Typhimurium periplasmic ʟ-arginine–sensing pathway

Bridget R. Kulasekara, Samuel I. Miller, B. Kulasekara, 2015, Science Signaling.

Cell-Contact-Stimulated Formation of Filamentous Appendages by Salmonella typhimurium Does Not Depend on the Type III Secretion System Encoded by SalmonellaPathogenicity Island 1

Mark A. Jepson, Samuel I. Miller, B. Hirst, 1998, Infection and Immunity.

The cellular microbiology of Salmonellae interactions with macrophages

Samuel I. Miller, Erik Petersen, 2019, Cellular microbiology.

S. Typhimurium strategies to resist killing by cationic antimicrobial peptides.

Samuel I. Miller, S. Matamouros, 2015, Biochimica et biophysica acta.

PhoP/PhoQ: Regulating Salmonella Adaptation to Host Microenvironments

Samuel I. Miller, 1995 .

Sahnonella Stimulate Macrophage Macropinocytosis and Persist within Spacious Phagosomes By Celia M. Alpuche-Aranda,* Esther L. gacoosin,~

Samuel I. Miller, J. Swanson, 1994 .

A PhoP-Repressed GenePromotes Salmonella typhimurium

Samuel I. Miller, 1993 .

Yersinia pestis insecticidal-like toxin complex (Tc) family proteins: characterization of expression, subcellular localization, and potential role in infection of the flea vector

Samuel I. Miller, B. J. Hinnebusch, Doris L. LaRock, 2012, BMC Microbiology.

InvB Is a Type III Secretion Chaperone Specific for SspA

Samuel I. Miller, P. Bronstein, E. Miao, 2000, Journal of bacteriology.

c-di-GMP heterogeneity is generated by the chemotaxis machinery to regulate flagellar motility

Paul A. Wiggins, Samuel I. Miller, H. Kulasekara, 2013, eLife.

Salmonella pathogenicity island-2 and anticancer activity in mice

Samuel I. Miller, J. Platt, A. Chakraborty, 2002, Cancer Gene Therapy.

SseBCD Proteins Are Secreted by the Type III Secretion System of Salmonella Pathogenicity Island 2 and Function as a Translocon

Samuel I. Miller, M. Hensel, W. Schröder, 2001, Journal of bacteriology.

Threonine phosphorylation times bacterial secretion

Samuel I. Miller, H. Kulasekara, 2007, Nature Cell Biology.

Transcription of the SsrAB Regulon Is Repressed by Alkaline pH and Is Independent of PhoPQ and Magnesium Concentration

Samuel I. Miller, E. Miao, J. A. Freeman, 2002, Journal of bacteriology.

3-O-Deacylation of Lipid A by PagL, a PhoP/PhoQ-regulated Deacylase of Salmonella typhimurium, Modulates Signaling through Toll-like Receptor 4*

Samuel I. Miller, K. Kawasaki, R. Ernst, 2004, Journal of Biological Chemistry.

PhoPQ-Mediated Regulation Produces a More Robust Permeability Barrier in the Outer Membrane of Salmonella enterica Serovar Typhimurium

Samuel I. Miller, H. Nikaido, T. Murata, 2007, Journal of bacteriology.

Fecal Microbial Transplant Effect on Clinical Outcomes and Fecal Microbiome in Active Crohn's Disease

Samuel I. Miller, H. Hayden, Namita Singh, 2015, Inflammatory bowel diseases.

Analysis of the Genome of the Escherichia coli O157:H7 2006 Spinach-Associated Outbreak Isolate Indicates Candidate Genes That May Enhance Virulence

Samuel I. Miller, H. Hayden, R. Kaul, 2009, Infection and Immunity.

Variation in lipid A structure in the pathogenic yersiniae

Samuel I. Miller, B. J. Hinnebusch, B. Gowen, 2004, Molecular microbiology.

The response threshold of Salmonella PilZ domain proteins is determined by their binding affinities for c‐di‐GMP

Samuel I. Miller, I. S. Pultz, H. Kulasekara, 2012, Molecular microbiology.

Respiratory epithelial cells regulate lung inflammation in response to inhaled endotoxin.

Samuel I. Miller, S. Miller, H. D. Liggitt, 2004, American journal of physiology. Lung cellular and molecular physiology.

Tethered thiazolidinone dimers as inhibitors of the bacterial type III secretion system.

Samuel I. Miller, H. Nguyen, T. Kline, 2009, Bioorganic & medicinal chemistry letters.

Structure of an Inner Membrane Protein Required for PhoPQ-Regulated Increases in Outer Membrane Cardiolipin

Samuel I. Miller, N. Zheng, T. Hinds, 2020, mBio.

PmrB Mutations Promote Polymyxin Resistance of Pseudomonas aeruginosa Isolated from Colistin-Treated Cystic Fibrosis Patients

Samuel I. Miller, N. Høiby, S. Moskowitz, 2011, Antimicrobial Agents and Chemotherapy.

during Anaerobic Growth Proteome Pseudomonas aeruginosa The

Samuel I. Miller, J. Eng, Manhong Wu, 2013 .

Pseudomonas aeruginosa lasR mutants are associated with cystic fibrosis lung disease progression.

Samuel I. Miller, L. Hoffman, J. Emerson, 2009, Journal of cystic fibrosis : official journal of the European Cystic Fibrosis Society.

Carrier‐mediated enhancement of cognate T cell help: the basis for enhanced immunogenicity of meningococcal outer membrane protein polysaccharide conjugate vaccine

Samuel I. Miller, P. Linsley, H. Ochs, 2001, European Journal of Immunology.

Inhibiting the Evolution of Antibiotic Resistance Graphical Abstract Highlights

Samuel I. Miller, D. Sherman, H. Merrikh, 2022 .

Evolution of Burkholderia pseudomallei in Recurrent Melioidosis

Samuel I. Miller, H. Hayden, R. Kaul, 2012, PloS one.

Low Level Engraftment and Improvement following a Single Colonoscopic Administration of Fecal Microbiota to Patients with Ulcerative Colitis

Samuel I. Miller, M. Westerhoff, H. Hayden, 2015, PloS one.

The bacterial second messenger c‐di‐GMP: mechanisms of signalling

Samuel I. Miller, I. S. Pultz, H. Kulasekara, 2011, Cellular microbiology.

Measuring Individual Cell Cyclic di-GMP: Identifying Population Diversity and Cyclic di-GMP Heterogeneity

Samuel I. Miller, Erik Petersen, 2020 .

Use of Phage Display To Identify Potential Pseudomonas aeruginosa Gene Products Relevant to Early Cystic Fibrosis Airway Infections

Samuel I. Miller, M. Brittnacher, J. Burns, 2005, Infection and Immunity.

SpiC Is Required for Translocation of Salmonella Pathogenicity Island 2 Effectors and Secretion of Translocon Proteins SseB and SseC

Samuel I. Miller, M. Hensel, V. Kuhle, 2002, Journal of bacteriology.

Identification of a Putative Salmonella enterica Serotype Typhimurium Host Range Factor with Homology to IpaH and YopM by Signature-Tagged Mutagenesis

Samuel I. Miller, S. Miller, T. Ficht, 1999, Infection and Immunity.

PhoPQ regulates acidic glycerophospholipid content of the Salmonella Typhimurium outer membrane

Samuel I. Miller, D. Whittington, R. Bishop, 2014, Proceedings of the National Academy of Sciences.

Fecal dysbiosis in infants with cystic fibrosis is associated with early linear growth failure

Samuel I. Miller, L. Hoffman, E. Borenstein, 2020, Nature Network Boston.

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)1

Mark R. Marten, Erinna F. Lee, Dana L. Miller, 2021, Autophagy.

Pseudomonas aeruginosa lipid A diversity and its recognition by Toll-like receptor 4.

Samuel I. Miller, Christopher B Wilson, A. Hajjar, 2003, Journal of endotoxin research.

A Salmonella enterica Serovar Typhimurium Translocated Leucine-Rich Repeat Effector Protein Inhibits NF-κB-Dependent Gene Expression

Samuel I. Miller, A. Haraga, 2003, Infection and Immunity.

Detection de salmonella

Samuel I. Miller, 1992 .

Purification and characterization of deacylated and/or palmitoylated lipid A species unique to Salmonella enterica serovar Typhimurium

Samuel I. Miller, K. Kawasaki, R. Ernst, 2005 .

Characterization of Late Acyltransferase Genes of Yersinia pestis and Their Role in Temperature-Dependent Lipid A Variation

Samuel I. Miller, B. J. Hinnebusch, R. Rebeil, 2006, Journal of bacteriology.

Xenophagy: Pathogen-Containing Vacuoles Are Hard to Digest

Samuel I. Miller, A. Chaudhary, 2019, Current Biology.

Identification of Small‐Molecule Modulators of Diguanylate Cyclase by FRET‐Based High‐Throughput Screening

Samuel I. Miller, H. Kulasekara, B. Kulasekara, 2018, Chembiochem : a European journal of chemical biology.

Identification of Small Molecule Modulators of Diguanylate Cyclase by FRET-based High-Throughput-Screening

Samuel I. Miller, H. Kulasekara, B. Kulasekara, 2018, bioRxiv.

Genomic Subtraction Identifies Salmonella typhimurium Prophages, F-Related Plasmid Sequences, and a Novel Fimbrial Operon, stf, Which Are Absent inSalmonella typhi

Samuel I. Miller, W. Goebel, C. Hueck, 1999, Journal of bacteriology.

Lack of In Vitro and In Vivo Recognition of Francisella tularensis Subspecies Lipopolysaccharide by Toll-Like Receptors

Samuel I. Miller, D. Goodlett, A. Sjöstedt, 2006, Infection and Immunity.

Multidrug-Resistant Acinetobacter baumannii Chloramphenicol Resistance Requires an Inner Membrane Permease

Samuel I. Miller, A. Karalewitz, 2018, Antimicrobial Agents and Chemotherapy.

Constitutive Expression ofthePhoPRegulon Attenuates Salmonella Virulence andSurvival within Macrophages

Samuel I. Miller, 1990 .

PmrA(Con) Confers pmrHFIJKL-Dependent EGTA and Polymyxin Resistance on msbB Salmonella by Decorating Lipid A with Phosphoethanolamine

Samuel I. Miller, R. Ernst, K. B. Low, 2007, Journal of bacteriology.

Bacterial Vesicle Formation as a Mechanism of Protein Transfer to Animals

Samuel I. Miller, M. Bader, T. Guina, 2003, Cell.

Genomic Analysis of Salmonella enterica Serovar Typhimurium Characterizes Strain Diversity for Recent U.S. Salmonellosis Cases and Identifies Mutations Linked to Loss of Fitness under Nitrosative and Oxidative Stress

Samuel I. Miller, H. Hayden, M. Brittnacher, 2016, mBio.

Host–microbe interaction: Inflammation for growth

Samuel I. Miller, 2010, Nature.

Inhibition of Salmonella enterica Serovar Typhimurium Lipopolysaccharide Deacylation by Aminoarabinose Membrane Modification

Samuel I. Miller, K. Kawasaki, R. Ernst, 2005, Journal of bacteriology.

Deacylation and palmitoylation of lipid A by Salmonellae outer membrane enzymes modulate host signaling through Toll-like receptor 4

Samuel I. Miller, K. Kawasaki, R. Ernst, 2004 .

Deacylation and palmitoylation of lipid A by Salmonellae outer membrane enzymes modulate host signaling through Toll-like receptor 4.

Samuel I. Miller, K. Kawasaki, R. Ernst, 2004, Journal of endotoxin research.

A divergent Pseudomonas aeruginosa palmitoyltransferase essential for cystic fibrosis‐specific lipid A

Samuel I. Miller, D. Goodlett, D. Rasko, 2014, Molecular microbiology.

Salmonella-Induced Filament Formation Is a Dynamic Phenotype Induced by Rapidly Replicating Salmonella enterica Serovar Typhimurium in Epithelial Cells

Samuel I. Miller, Xiuju Jiang, J. Brumell, 2005, Infection and Immunity.

Homeostatic Regulation of Salmonella-Induced Mucosal Inflammation and Injury by IL-23

Samuel I. Miller, Kelly D. Smith, Christopher B Wilson, 2012, PloS one.

Unique lipid a modifications in Pseudomonas aeruginosa isolated from the airways of patients with cystic fibrosis.

Samuel I. Miller, J. Emerson, B. Ramsey, 2007, The Journal of infectious diseases.

The Pseudomonas aeruginosa Lipid A Deacylase: Selection for Expression and Loss within the Cystic Fibrosis Airway

Samuel I. Miller, M. Trent, K. Kawasaki, 2006, Journal of bacteriology.

Did bacterial sensing of host environments evolve from sensing within microbial communities?

Samuel I. Miller, L. Hoffman, Sarah Sanowar, 2007, Cell host & microbe.

SspA Is Required for Lethal Salmonella enterica Serovar Typhimurium Infections in Calves but Is Not Essential for Diarrhea

Samuel I. Miller, T. Kimbrough, R. Kingsley, 2000, Infection and Immunity.

PmrAB, a Two-Component Regulatory System of Pseudomonas aeruginosa That Modulates Resistance to Cationic Antimicrobial Peptides and Addition of Aminoarabinose to Lipid A

Samuel I. Miller, S. Moskowitz, R. Ernst, 2004, Journal of bacteriology.

Structure and lipid dynamics in the A. baumannii maintenance of lipid asymmetry (MLA) inner membrane complex

Samuel I. Miller, S. Khalid, D. Mann, 2020, bioRxiv.

Structural basis for lipid transport by the MLA complex

Samuel I. Miller, S. Khalid, D. Mann, 2020 .

Temporal and Anatomical Host Resistance to Chronic Salmonella Infection Is Quantitatively Dictated by Nramp1 and Influenced by Host Genetic Background

Samuel I. Miller, B. Cookson, A. Hajjar, 2014, PloS one.

Regulation of Salmonella typhimurium virulence gene expression by cationic antimicrobial peptides

Samuel I. Miller, F. Fang, H. Nikaido, 2003, Molecular microbiology.

Microbial recognition of antibiotics

Samuel I. Miller, L. Hoffman, M. Bader, 2007 .

Design and Synthesis of bis-carbamate Analogs of Cyclic bis-(3′-5′)-Diguanylic Acid (c-di-GMP) and the Acyclic Dimer PGPG

Samuel I. Miller, C. Verlinde, T. Kline, 2008, Nucleosides, nucleotides & nucleic acids.

Cyclic-di-GMP regulation promotes survival of a slow-replicating subpopulation of intracellular Salmonella Typhimurium

Samuel I. Miller, Erik Petersen, Erez Mills, 2019, Proceedings of the National Academy of Sciences.

Substituted 2-imino-5-arylidenethiazolidin-4-one inhibitors of bacterial type III secretion.

Samuel I. Miller, H. Nguyen, T. Kline, 2008, Journal of medicinal chemistry.

An inhibitor of gram-negative bacterial virulence protein secretion.

Samuel I. Miller, R. Pfuetzner, P. Bronstein, 2008, Cell host & microbe.

HAMP Domain Rotation and Tilting Movements Associated with Signal Transduction in the PhoQ Sensor Kinase

Samuel I. Miller, Kyle R. Hager, S. Matamouros, 2015, mBio.

Expression of the Salmonella Spp. Virulence Factor SifA in Yeast Alters Rho1 Activity on Peroxisomes

Dennis C. Ko, Samuel I. Miller, J. Aitchison, 2010, Molecular biology of the cell.

Salmonella Species, Including Salmonella Typhi

Samuel I. Miller, D. Pegues, 2010 .

The Microbiome and Inflammatory Bowel Disease: Is There a Therapeutic Role for Fecal Microbiota Transplantation?

Samuel I. Miller, C. Surawicz, C. Damman, 2012, The American Journal of Gastroenterology.

CHAPTER 7 – Molecular Pathogenesis of Salmonellae

Samuel I. Miller, C. Scherer, 2001 .

Salmonellae interactions with host processes

Samuel I. Miller, A. Chaudhary, Doris L. LaRock, 2015, Nature Reviews Microbiology.

Antibiotic Resistance and Regulation of the Gram-Negative Bacterial Outer Membrane Barrier by Host Innate Immune Molecules

Samuel I. Miller, 2016, mBio.

Pseudomonas aeruginosa lipid A diversity and its recognition by Toll-like receptor 4

Samuel I. Miller, Christopher B Wilson, A. Hajjar, 2003 .

Genetic adaptation by Pseudomonas aeruginosa to the airways of cystic fibrosis patients.

David A. D'Argenio, Samuel I. Miller, L. Hoffman, 2006, Proceedings of the National Academy of Sciences of the United States of America.

Human Toll-like receptor 4 recognizes host-specific LPS modifications

Samuel I. Miller, Christopher B Wilson, A. Hajjar, 2002, Nature Immunology.

Structural characterization of the molecular platform for type III secretion system assembly

Samuel I. Miller, T. Kimbrough, R. Pfuetzner, 2005, Nature.

The gram-negative bacterial periplasm: Size matters

Samuel I. Miller, N. Salama, 2018, PLoS biology.

Salmonellae PhoPQ regulation of the outer membrane to resist innate immunity.

Samuel I. Miller, Zachary D Dalebroux, Samuel I Miller, 2014, Current opinion in microbiology.

Transfer of palmitate from phospholipids to lipid A in outer membranes of Gram‐negative bacteria

Samuel I. Miller, C. Raetz, M. Trent, 2000, The EMBO journal.

A PhoP-Regulated Outer Membrane Protease of Salmonella enterica Serovar Typhimurium Promotes Resistance to Alpha-Helical Antimicrobial Peptides

Samuel I. Miller, M. Hackett, T. Guina, 2000, Journal of bacteriology.

Structure and lipid dynamics in the maintenance of lipid asymmetry inner membrane complex of A. baumannii

Samuel I. Miller, S. Khalid, D. Mann, 2021, Communications biology.

Delivery of cardiolipins to the Salmonella outer membrane is necessary for survival within host tissues and virulence.

Samuel I. Miller, R. Pfuetzner, B. Kulasekara, 2015, Cell host & microbe.

Growth phenotypes of Pseudomonas aeruginosa lasR mutants adapted to the airways of cystic fibrosis patients

David A. D'Argenio, Samuel I. Miller, L. Hoffman, 2007, Molecular microbiology.

β-Barrel outer membrane proteins suppress mTORC2 activation and induce autophagic responses

Samuel I. Miller, Guoxing Wang, H. Kulasekara, 2018, Science Signaling.

Mouse Paneth Cell Secretory Responses to Cell Surface Glycolipids of Virulent and Attenuated Pathogenic Bacteria

Samuel I. Miller, A. Ouellette, H. Tanabe, 2005, Infection and Immunity.

The Acinetobacter baumannii Mla system and glycerophospholipid transport to the outer membrane

Samuel I. Miller, J. Kollman, H. Kulasekara, 2018, bioRxiv.

Cytoplasmic flagellin activates caspase-1 and secretion of interleukin 1β via Ipaf

Alan Aderem, Samuel I. Miller, A. Aderem, 2006, Nature Immunology.

Comparison of Francisella tularensis genomes reveals evolutionary events associated with the emergence of human pathogenic strains

Byron Gallis, David R Goodlett, Eric Haugen, 2007, Genome Biology.

A PhoP/PhoQ-induced Lipase (PagL) That Catalyzes 3-O-Deacylation of Lipid A Precursors in Membranes ofSalmonella typhimurium *

Samuel I. Miller, C. Raetz, M. Trent, 2001, The Journal of Biological Chemistry.

Maintenance tobramycin primarily affects untargeted bacteria in the CF sputum microbiome

Samuel I. Miller, L. Hoffman, E. Borenstein, 2020, Thorax.

Human and Extracellular DNA Depletion for Metagenomic Analysis of Complex Clinical Infection Samples Yields Optimized Viable Microbiome Profiles

Samuel I. Miller, L. Hoffman, E. Borenstein, 2019, Cell reports.

Escherichia coli dysbiosis correlates with gastrointestinal dysfunction in children with cystic fibrosis.

Samuel I. Miller, L. Hoffman, E. Borenstein, 2014, Clinical Infectious Diseases.

Infants with cystic fibrosis have altered fecal functional capacities with potential clinical and metabolic consequences

Samuel I. Miller, L. Hoffman, E. Borenstein, 2021, BMC Microbiology.

Cyclic di-GMP as a bacterial second messenger.

David A. D'Argenio, Samuel I. Miller, D. D'Argenio, 2004, Microbiology.

Expression level of human TLR4 rather than sequence is the key determinant of LPS responsiveness

Samuel I. Miller, A. Hajjar, R. Ernst, 2017, PloS one.

LPS, TLR4 and infectious disease diversity

Samuel I. Miller, M. Bader, R. Ernst, 2005, Nature Reviews Microbiology.

Salmonella Translocated Effectors Recruit OSBP1 to the Phagosome to Promote Vacuolar Membrane Integrity.

Samuel I. Miller, P. Brzovic, Erik Petersen, 2019, Cell reports.

Salmonella modulation of the phagosome membrane, role of SseJ

Samuel I. Miller, A. Kolodziejek, 2015, Cellular microbiology.

A Salmonella typhimurium-translocated Glycerophospholipid:Cholesterol Acyltransferase Promotes Virulence by Binding to the RhoA Protein Switch Regions*

Samuel I. Miller, P. Brzovic, Itay Levin, 2012, The Journal of Biological Chemistry.

Activation of a Bacterial Virulence Protein by the GTPase RhoA

Megha, Samuel I. Miller, R. Pfuetzner, 2009, Science Signaling.

Structure and function of Salmonella SifA indicate that its interactions with SKIP, SseJ, and RhoA family GTPases induce endosomal tubulation.

Samuel I. Miller, J. Dixon, J. Chai, 2008, Cell host & microbe.

The Salmonella enterica Serovar Typhimurium Translocated Effectors SseJ and SifB Are Targeted to the Salmonella-Containing Vacuole

Samuel I. Miller, Jeremy A. Freeman, M. Ohl, 2003, Infection and Immunity.

Visualization of vacuolar acidification-induced transcription of genes of pathogens inside macrophages.

Samuel I. Miller, S. Grinstein, B. Finlay, 2005, Molecular biology of the cell.

Salmonella effectors translocated across the vacuolar membrane interact with the actin cytoskeleton

Samuel I. Miller, M. Brittnacher, M. Welch, 2003, Molecular microbiology.

Adaptation of commensal proliferating Escherichia coli to the intestinal tract of young children with cystic fibrosis

Samuel I. Miller, L. Hoffman, E. Borenstein, 2018, Proceedings of the National Academy of Sciences.

Metagenomic evidence for taxonomic dysbiosis and functional imbalance in the gastrointestinal tracts of children with cystic fibrosis

Samuel I. Miller, L. Hoffman, E. Borenstein, 2016, Scientific Reports.

Fecal dysbiosis in infants with cystic fibrosis is associated with early linear growth failure

Samuel I. Miller, L. Hoffman, E. Borenstein, 2019, Nature Medicine.

Gastrointestinal Factors Associated With Hospitalization in Infants With Cystic Fibrosis: Results From the Baby Observational and Nutrition Study

Samuel I. Miller, L. Hoffman, E. Borenstein, 2021, Journal of pediatric gastroenterology and nutrition.

CFTR dysregulation drives active selection of the gut microbiome

Samuel I. Miller, L. Hoffman, H. Hayden, 2020, PLoS pathogens.

Gastrointestinal pathology in juvenile and adult CFTR-knockout ferrets.

Samuel I. Miller, L. Hoffman, H. Hayden, 2014, The American journal of pathology.

Potential Source of Francisella tularensis Live Vaccine Strain Attenuation Determined by Genome Comparison

Samuel I. Miller, H. Hayden, R. Kaul, 2006, Infection and Immunity.

Backbone chemical shift assignments for the sensor domain of the Burkholderia pseudomallei histidine kinase RisS: “missing” resonances at the dimer interface

Samuel I. Miller, P. Myler, G. W. Buchko, 2015, Biomolecular NMR assignments.

Selection for Staphylococcus aureus small-colony variants due to growth in the presence of Pseudomonas aeruginosa

David A. D'Argenio, Samuel I. Miller, L. Hoffman, 2006, Proceedings of the National Academy of Sciences.

CHAPTER 17 – Nontyphoidal Salmonellosis

Samuel I. Miller, D. Pegues, P. Banura, 2011 .

Burkholderia thailandensis as a Model System for the Study of the Virulence-Associated Type III Secretion System of Burkholderia pseudomallei

Samuel I. Miller, T. West, M. Brittnacher, 2008, Infection and Immunity.

Clinical and Fecal Microbial Changes With Diet Therapy in Active Inflammatory Bowel Disease

Samuel I. Miller, H. Hayden, M. Brittnacher, 2016, Journal of clinical gastroenterology.

mig-14 Is a Salmonella Gene That Plays a Role in Bacterial Resistance to Antimicrobial Peptides

Samuel I. Miller, S. Falkow, I. Brodsky, 2002, Journal of bacteriology.

Next-Generation High-Throughput Functional Annotation of Microbial Genomes

Samuel I. Miller, R. Baric, S. Crosson, 2016, mBio.

Human Diversity in a Cell Surface Receptor that Inhibits Autophagy

Samuel I. Miller, J. Akey, Wenqing Fu, 2016, Current Biology.

Large-insert genome analysis technology detects structural variation in Pseudomonas aeruginosa clinical strains from cystic fibrosis patients.

David A. D'Argenio, Samuel I. Miller, H. Hayden, 2008, Genomics.

Inhibiting the Evolution of Antibiotic Resistance

Samuel I. Miller, D. Sherman, H. Merrikh, 2019, Molecular cell.

Nutrient Availability as a Mechanism for Selection of Antibiotic Tolerant Pseudomonas aeruginosa within the CF Airway

Samuel I. Miller, L. Hoffman, D. Stahl, 2010, PLoS pathogens.

Pyomelanin-producing Pseudomonas aeruginosa selected during chronic infections have a large chromosomal deletion which confers resistance to pyocins.

Samuel I. Miller, L. Hoffman, H. Kulasekara, 2016, Environmental microbiology.

Are pathogenic bacteria just looking for food? Metabolism and microbial pathogenesis.

Didier Hocquet, Laurence Rohmer, Samuel I. Miller, 2011, Trends in microbiology.

In vivo protein interaction network analysis reveals porin-localized antibiotic inactivation in Acinetobacter baumannii strain AB5075

Devin K Schweppe, Chunxiang Zheng, Chad R Weisbrod, 2016, Nature Communications.

The systems biology of infection in animal models bears fruit.

Samuel I. Miller, L. Hoffman, 2006, Proceedings of the National Academy of Sciences of the United States of America.

A Cellular GWAS Approach to Define Human Variation in Cellular Pathways Important to Inflammation

Samuel I. Miller, A. Chaudhary, 2016, Pathogens.

Identification of an unconventional E3 binding surface on the UbcH5 ∼ Ub conjugate recognized by a pathogenic bacterial E3 ligase.

Samuel I. Miller, P. Brzovic, R. Klevit, 2010, Proceedings of the National Academy of Sciences.

Microbial Recognition of Antibiotics: Ecological, Physiological, and Therapeutic Implications

Samuel I. Miller, L. Hoffman, M. Bader, 2007 .

Genomic analysis of the emergence of 20th century epidemic dysentery

Samuel I. Miller, H. Hayden, Christine Fong, 2014, BMC Genomics.

Multi-drug resistant non-typhoidal Salmonella associated with invasive disease in western Kenya

Samuel I. Miller, H. Hayden, J. Montgomery, 2018, PLoS neglected tropical diseases.

Pseudomonas aeruginosa phenotypes associated with eradication failure in children with cystic fibrosis.

Samuel I. Miller, L. Hoffman, R. Gibson, 2014, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.

Type IV pili‐mediated secretion modulates Francisella virulence

Samuel I. Miller, R. Kaul, D. Bolton, 2006, Molecular microbiology.

Transcriptional activation of Salmonella typhimurium invasion genes by a member of the phosphorylated response‐regulator superfamily

Samuel I. Miller, Catherine A. Lee, D. Pegues, 1996, Molecular microbiology.

Acidic pH and divalent cation sensing by PhoQ are dispensable for systemic salmonellae virulence

Samuel I. Miller, R. Klevit, E. Sancho-Vaello, 2015, eLife.

A HilA-Independent Pathway to Salmonella typhimurium Invasion Gene Transcription

Samuel I. Miller, J. Rakeman, Heather R. Bonifield, 1999, Journal of bacteriology.

Role for Myosin II in Regulating Positioning of Salmonella-Containing Vacuoles and Intracellular Replication

Samuel I. Miller, W. Trimble, J. Brumell, 2008, Infection and Immunity.

Assembly of the type III secretion needle complex of Salmonella typhimurium.

Samuel I. Miller, T. Kimbrough, 2002, Microbes and infection.

A chemical biology approach to interrogate quorum-sensing regulated behaviors at the molecular and cellular level.

Samuel I. Miller, Sherry L. Niessen, B. Cravatt, 2013, Chemistry & biology.

A cellular genome-wide association study reveals human variation in microtubule stability and a role in inflammatory cell death

Dennis C. Ko, Samuel I. Miller, D. Ko, 2014, Molecular biology of the cell.

Quantitative proteomic analysis indicates increased synthesis of a quinolone by Pseudomonas aeruginosa isolates from cystic fibrosis airways

Samuel I. Miller, R. Aebersold, J. Eng, 2003, Proceedings of the National Academy of Sciences of the United States of America.

Genome mosaicism is conserved but not unique in Pseudomonas aeruginosa isolates from the airways of young children with cystic fibrosis.

David A. D'Argenio, Samuel I. Miller, S. Lory, 2003, Environmental microbiology.

Comparative Genomic Analysis of Two Multidrug-Resistant Clinical Isolates of ST395 Epidemic Strain of Pseudomonas aeruginosa Obtained 12 Years Apart

Samuel I. Miller, B. Valot, D. Hocquet, 2014, Genome Announcements.

Activation of the bacterial sensor kinase PhoQ by acidic pH.

Samuel I. Miller, R. Klevit, H. Le Moual, 2007, Molecular cell.

Differentiation and Distribution of Colistin- and Sodium Dodecyl Sulfate-Tolerant Cells in Pseudomonas aeruginosa Biofilms

Samuel I. Miller, S. Molin, T. Tolker-Nielsen, 2006, Journal of bacteriology.

Metal bridges between the PhoQ sensor domain and the membrane regulate transmembrane signaling.

Samuel I. Miller, R. Klevit, Wenqing Xu, 2006, Journal of molecular biology.

A conserved structural motif mediates formation of the periplasmic rings in the type III secretion system

David Baker, Ingemar André, Wanyin Deng, 2009, Nature Structural &Molecular Biology.

A Refined Model of the Prototypical Salmonella SPI-1 T3SS Basal Body Reveals the Molecular Basis for Its Assembly

Samuel I. Miller, D. Baker, R. Pfuetzner, 2013, PLoS pathogens.

Structural analysis of the essential self-cleaving type III secretion proteins EscU and SpaS

Samuel I. Miller, S. Miller, B. Finlay, 2008, Nature.

Evidence for Induction of Integron-Based Antibiotic Resistance by the SOS Response in a Clinical Setting

Samuel I. Miller, H. Kulasekara, D. Mazel, 2012, PLoS pathogens.

Genome-specific gas-phase fractionation strategy for improved shotgun proteomic profiling of proteotypic peptides.

Samuel I. Miller, D. Goodlett, S. Shaffer, 2008, Analytical chemistry.

The type III secretion system as a source of novel antibacterial drug targets.

Samuel I. Miller, Sarah Sanowar, T. Kline, 2012, Current drug targets.

A Salmonella enterica serovar typhimurium translocated leucine-rich repeat effector protein inhibits NF-kappa B-dependent gene expression.

Samuel I. Miller, A. Haraga, 2003, Infection and immunity.

The Salmonellae PhoQ sensor: mechanisms of detection of phagosome signals

Samuel I. Miller, Lynne R. Prost, Lynne R. Prost, 2008, Cellular microbiology.

Structure of a Burkholderia pseudomallei Trimeric Autotransporter Adhesin Head

Samuel I. Miller, P. Myler, L. Stewart, 2010, PloS one.

Comparison of a Salmonella typhimurium proteome defined by shotgun proteomics directly on an LTQ-FT and by proteome pre-fractionation on an LCQ-DUO.

Samuel I. Miller, B. Nunn, D. Goodlett, 2006, Briefings in functional genomics & proteomics.

Expression of microbial virulence proteins in Saccharomyces cerevisiae models mammalian infection

Samuel I. Miller, S. Miller, C. Lesser, 2001, The EMBO journal.

Purification and characterization of deacylated and/or palmitoylated lipid A species unique to Salmonella enterica serovar Typhimurium

Samuel I. Miller, K. Kawasaki, R. Ernst, 2005, Journal of endotoxin research.

How intracellular bacteria survive: surface modifications that promote resistance to host innate immune responses.

Samuel I. Miller, S. Miller, T. Guina, 1999, The Journal of infectious diseases.

Bacteriophages in the evolution of pathogen-host interactions.

Samuel I. Miller, S. Miller, E. Miao, 1999, Proceedings of the National Academy of Sciences of the United States of America.

Cryo-EM structure of the A. baumannii MLA complex at 8.7 A resolution

Samuel I. Miller, J. Kollman, H. Kulasekara, 2019 .

Synthesis of and evaluation of lipid A modification by 4-substituted 4-deoxy arabinose analogs as potential inhibitors of bacterial polymyxin resistance.

Samuel I. Miller, S. Miller, H. Nguyen, 2008, Bioorganic & medicinal chemistry letters.