Iron acquisition by a commensal bacterium modifies host nutritional immunity during Salmonella infection

Outer membrane utilisomes mediate glycan uptake in gut Bacteroidetes

(2023) Joshua B. R. White et al.   NATURE

Human gut bacteria tailor extracellular vesicle cargo for the breakdown of diet- and host-derived glycans

(2023) Mariana G. Sartorio et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Salmonella enterica serovar Typhimurium uses anaerobic respiration to overcome propionate-mediated colonization resistance

(2022) Catherine D. Shelton et al.   Cell Reports

Nutritional immunity: the battle for nutrient metals at the host–pathogen interface

(2022) Caitlin C. Murdoch et al.   NATURE REVIEWS MICROBIOLOGY

Outer Membrane Vesicles of Acinetobacter baumannii DS002 Are Selectively Enriched with TonB-Dependent Transporters and Play a Key Role in Iron Acquisition

(2022) Ganeshwari Dhurve et al.   Microbiology Spectrum

The Proteome of Extracellular Vesicles Produced by the Human Gut Bacteria Bacteroides thetaiotaomicron In Vivo Is Influenced by Environmental and Host-Derived Factors

(2022) Régis Stentz et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Targeted suppression of human IBD-associated gut microbiota commensals by phage consortia for treatment of intestinal inflammation

(2022) Sara Federici et al.   CELL

Complex extracellular biology drives surface competition during colony expansion in Bacillus subtilis

(2022) Theresa Jautzus et al.   ISME Journal

The microbiome and gut homeostasis

(2022) Jee-Yon Lee et al.   SCIENCE

Microenvironmental Factors that Shape Bacterial Metabolites in Inflammatory Bowel Disease

(2022) Lacey R. Lopez et al.   Frontiers in Cellular and Infection Microbiology

Transplantation of bacteriophages from ulcerative colitis patients shifts the gut bacteriome and exacerbates the severity of DSS colitis

(2022) Anshul Sinha et al.   Microbiome

Structure of trimeric pre-fusion rabies virus glycoprotein in complex with two protective antibodies

(2022) Weng M. Ng et al.   Cell Host & Microbe

Clostridioides difficile exploits toxin-mediated inflammation to alter the host nutritional landscape and exclude competitors from the gut microbiota

(2021) Joshua R. Fletcher et al.   Nature Communications

Insights into SusCD-mediated glycan import by a prominent gut symbiont

(2021) Declan A. Gray et al.   Nature Communications

C. difficile exploits a host metabolite produced during toxin-mediated disease

(2021) Kali M. Pruss et al.   NATURE

AutoDock Vina 1.2.0: New Docking Methods, Expanded Force Field, and Python Bindings

(2021) Jerome Eberhardt et al.   Journal of Chemical Information and Modeling

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

Structural insights into a novel family of integral membrane siderophore reductases

(2021) Inokentijs Josts et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The longitudinal and cross-sectional heterogeneity of the intestinal microbiota

(2021) Brittany M Miller et al.   CURRENT OPINION IN MICROBIOLOGY

The extracellular vesicle generation paradox: a bacterial point of view

(2021) Hannah M McMillan et al.   EMBO JOURNAL

Xenosiderophore Utilization Promotes Bacteroides thetaiotaomicron Resilience during Colitis

(2020) Wenhan Zhu et al.   Cell Host & Microbe

Emergence of Ferrichelatase Activity in a Siderophore-Binding Protein Supports an Iron Shuttle in Bacteria

(2020) Nathaniel P. Endicott et al.   ACS Central Science

Beyond Just Bacteria: Functional Biomes in the Gut Ecosystem Including Virome, Mycobiome, Archaeome and Helminths

(2020) Ravichandra Vemuri et al.   Microorganisms

UCSF ChimeraX : Structure visualization for researchers, educators, and developers

(2020) Eric F. Pettersen et al.   PROTEIN SCIENCE

Salmonella versus the Microbiome

(2020) Andrew W. L. Rogers et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Why microbes secrete molecules to modify their environment: the case of iron-chelating siderophores

(2019) Gabriel E. Leventhal et al.   Journal of the Royal Society Interface

1,520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses

(2019) Yuanqiang Zou et al.   NATURE BIOTECHNOLOGY

A new genomic blueprint of the human gut microbiota

(2019) Alexandre Almeida et al.   NATURE

Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

(2019) Jason Lloyd-Price et al.   NATURE

Editing of the gut microbiota reduces carcinogenesis in mouse models of colitis-associated colorectal cancer

(2019) Wenhan Zhu et al.   JOURNAL OF EXPERIMENTAL MEDICINE

First crystal structure of an endo-levanase – the BT1760 from a human gut commensal Bacteroides thetaiotaomicron

(2019) Karin Ernits et al.   Scientific Reports

Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix

(2019) Dorothee Liebschner et al.   Acta Crystallographica Section D-Structural Biology

Microbial Metabolite Signaling Is Required for Systemic Iron Homeostasis

(2019) Nupur K. Das et al.   Cell Metabolism

Bacterial siderophores in community and host interactions

(2019) Jos Kramer et al.   NATURE REVIEWS MICROBIOLOGY

The complex of ferric-enterobactin with its transporter from Pseudomonas aeruginosa suggests a two-site model

(2019) Lucile Moynié et al.   Nature Communications

Microbial bile acid metabolites modulate gut RORγ+ regulatory T cell homeostasis

(2019) Xinyang Song et al.   NATURE

Dysbiosis-Associated Change in Host Metabolism Generates Lactate to Support Salmonella Growth

(2018) Caroline C. Gillis et al.   Cell Host & Microbe

Genetic Ablation of Butyrate Utilization Attenuates Gastrointestinal Salmonella Disease

(2018) Denise N. Bronner et al.   Cell Host & Microbe

Ab initio electron density determination directly from solution scattering data

(2018) Thomas D Grant   NATURE METHODS

Towards a Comparable Quantification of Resilience

(2018) Johannes Ingrisch et al.   TRENDS IN ECOLOGY & EVOLUTION

A Gut Commensal-Produced Metabolite Mediates Colonization Resistance to Salmonella Infection

(2018) Amanda Jacobson et al.   Cell Host & Microbe

Precision editing of the gut microbiota ameliorates colitis

(2018) Wenhan Zhu et al.   NATURE

Human gut Bacteroides capture vitamin B12 via cell surface-exposed lipoproteins

(2018) Aaron G Wexler et al.   eLife

Gut Microbial and Metabolic Responses to Salmonella enterica Serovar Typhimurium and Candida albicans

(2018) Jennifer R. Bratburd et al.   mBio

Surface Exposure and Packing of Lipoproteins into Outer Membrane Vesicles Are Coupled Processes in Bacteroides

(2018) Ezequiel Valguarnera et al.   mSphere

Structural basis for nutrient acquisition by dominant members of the human gut microbiota

(2017) Amy J. Glenwright et al.   NATURE

The resilience of the intestinal microbiota influences health and disease

(2017) Felix Sommer et al.   NATURE REVIEWS MICROBIOLOGY

Follistatin is critical for mouse uterine receptivity and decidualization

(2017) Paul T. Fullerton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Improvements to the APBS biomolecular solvation software suite

(2017) Elizabeth Jurrus et al.   PROTEIN SCIENCE

Anaerobic utilization of Fe(III)-xenosiderophores among Bacteroides species and the distinct assimilation of Fe(III)-ferrichrome by Bacteroides fragilis within the genus

(2017) Edson R. Rocha et al.   MicrobiologyOpen

BioXTAS RAW: improvements to a free open-source program for small-angle X-ray scattering data reduction and analysis

(2017) Jesse Bennett Hopkins et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility

(2016) Mahesh S. Desai et al.   CELL

The microbiota shifts the iron sensing of intestinal cells

(2016) Jean-Christophe Deschemin et al.   FASEB JOURNAL

Iron acquisition pathways and colonization of the inflamed intestine by Salmonella enterica serovar Typhimurium

(2016) Luciana F. Costa et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

The evolution of cooperation within the gut microbiota

(2016) Seth Rakoff-Nahoum et al.   NATURE

Microcins mediate competition among Enterobacteriaceae in the inflamed gut

(2016) Martina Sassone-Corsi et al.   NATURE

SalmonellaTyphimurium utilizes a T6SS-mediated antibacterial weapon to establish in the host gut

(2016) Thibault G. Sana et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Population-level analysis of gut microbiome variation

(2016) Gwen Falony et al.   SCIENCE

Siderophores in Iron Metabolism: From Mechanism to Therapy Potential

(2016) Briana R. Wilson et al.   TRENDS IN MOLECULAR MEDICINE

The Pyromaniac Inside You:SalmonellaMetabolism in the Host Gut

(2015) Fabian Rivera-Chávez et al.   Annual Review of Microbiology

Outer-membrane vesicles from Gram-negative bacteria: biogenesis and functions

(2015) Carmen Schwechheimer et al.   NATURE REVIEWS MICROBIOLOGY

Antimicrobial peptide resistance mediates resilience of prominent gut commensals during inflammation

(2015) T. W. Cullen et al.   SCIENCE

Interplay between enterobactin, myeloperoxidase and lipocalin 2 regulates E. coli survival in the inflamed gut

(2015) Vishal Singh et al.   Nature Communications

Type VI Secretion System Transports Zn2+ to Combat Multiple Stresses and Host Immunity

(2015) Tietao Wang et al.   PLoS Pathogens

The Gut Commensal Bacteroides thetaiotaomicron Exacerbates Enteric Infection through Modification of the Metabolic Landscape

(2014) Meredith M. Curtis et al.   Cell Host & Microbe

Human Gut Microbes Use Multiple Transporters to Distinguish Vitamin B12 Analogs and Compete in the Gut

(2014) Patrick H. Degnan et al.   Cell Host & Microbe

The Cytokine IL-22 Promotes Pathogen Colonization by Suppressing Related Commensal Bacteria

(2014) Judith Behnsen et al.   IMMUNITY

Intrinsic Tryptophan Fluorescence in the Detection and Analysis of Proteins: A Focus on Förster Resonance Energy Transfer Techniques

(2014) Amar Ghisaidoobe et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Preferential Packing of Acidic Glycosidases and Proteases into Bacteroides Outer Membrane Vesicles

(2014) W. Elhenawy et al.   mBio

Iron in Infection and Immunity

(2013) James E. Cassat et al.   Cell Host & Microbe

Probiotic Bacteria Reduce Salmonella Typhimurium Intestinal Colonization by Competing for Iron

(2013) Elisa Deriu et al.   Cell Host & Microbe

Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation

(2013) Nicholas Arpaia et al.   NATURE

Microbiota-liberated host sugars facilitate post-antibiotic expansion of enteric pathogens

(2013) Katharine M. Ng et al.   NATURE

Bacterial colonization factors control specificity and stability of the gut microbiota

(2013) S. Melanie Lee et al.   NATURE

Diversity, stability and resilience of the human gut microbiota

(2012) Catherine A. Lozupone et al.   NATURE

Data processing and analysis with theautoPROCtoolbox

(2011) Clemens Vonrhein et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Features and development ofCoot

(2010) P. Emsley et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

TonB-Dependent Transporters: Regulation, Structure, and Function

(2010) Nicholas Noinaj et al.   Annual Review of Microbiology

TheStaphylococcus aureusSiderophore Receptor HtsA Undergoes Localized Conformational Changes to Enclose Staphyloferrin A in an Arginine-rich Binding Pocket

(2010) Jason C. Grigg et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Lipocalin-2 Resistance Confers an Advantage to Salmonella enterica Serotype Typhimurium for Growth and Survival in the Inflamed Intestine

(2009) Manuela Raffatellu et al.   Cell Host & Microbe

AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility

(2009) Garrett M. Morris et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Long-Distance Delivery of Bacterial Virulence Factors by Pseudomonas aeruginosa Outer Membrane Vesicles

(2009) Jennifer M. Bomberger et al.   PLoS Pathogens

T Cells Help To Amplify Inflammatory Responses Induced by Salmonella enterica Serotype Typhimurium in the Intestinal Mucosa

(2008) I. Godinez et al.   INFECTION AND IMMUNITY

Starch Catabolism by a Prominent Human Gut Symbiont Is Directed by the Recognition of Amylose Helices

(2008) Nicole M. Koropatkin et al.   STRUCTURE

Structural biology of bacterial iron uptake

(2007) Karla D. Krewulak et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

The Vi-capsule prevents Toll-like receptor 4 recognition of Salmonella

(2007) R. Paul Wilson et al.   CELLULAR MICROBIOLOGY