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List of works by Gautam Dantas

1H, 13C and 15N resonance assignments of URNdesign, a computationally redesigned RRM protein

scientific article published in October 2005

A concerted systems biology analysis of phenol metabolism in Rhodococcus opacus PD630

scientific article published on 02 July 2019

A functional metagenomic approach for expanding the synthetic biology toolbox for biomass conversion

scientific article (publication date: 13 April 2010)

A large scale test of computational protein design: folding and stability of nine completely redesigned globular proteins

scientific article

Adaptive Strategies of the Candidate Probiotic E. coli Nissle in the Mammalian Gut

scientific article published on 26 March 2019

Antibiotic perturbation of the preterm infant gut microbiome and resistome

scientific article published on 29 July 2016

Antibiotic-driven intestinal dysbiosis in pediatric short bowel syndrome is associated with persistently altered microbiome functions and gut-derived bloodstream infections

scientific article published on 01 January 2021

Antibiotics and the developing infant gut microbiota and resistome

scientific article published on 31 July 2015

Antibiotics and the resistant microbiome

scientific article published on 27 July 2011

Antimicrobial resistance in enteric bacteria: current state and next-generation solutions

journal article published in 2020

Assessment of the Urinary Microbiota of MSM Using Urine Culturomics Reveals a Diverse Microbial Environment

scientific article published on 10 September 2021

Bacteria subsisting on antibiotics

scientific article published in April 2008

Bacterial phylogeny structures soil resistomes across habitats

scientific article published on 21 May 2014

Bogotá River anthropogenic contamination alters microbial communities and promotes spread of antibiotic resistance genes

scientific article published on 13 August 2019

Characterization of Wild and Captive Baboon Gut Microbiota and Their Antibiotic Resistomes.

scientific article

Checkpoint Checkmate: Microbiota Modulation of Cancer Immunotherapy

scientific article published on 24 April 2018

Close Encounters of Three Kinds: Bacteriophages, Commensal Bacteria, and Host Immunity

scientific article published on 13 June 2018

Comparative Genomics of Borderline Oxacillin-Resistant Staphylococcus aureus Detected during a Pseudo-outbreak of Methicillin-Resistant S. aureus in a Neonatal Intensive Care Unit

scientific article published on 18 January 2022

Comparative transcriptomics elucidates adaptive phenol tolerance and utilization in lipid-accumulating Rhodococcus opacus PD630.

scientific article published on 02 February 2016

Complex interactions between the microbiome and cancer immune therapy

scientific article published on 17 September 2019

Context matters - the complex interplay between resistome genotypes and resistance phenotypes

scientific article published on 03 September 2012

Contextual organismality: Beyond pattern to process in the emergence of organisms.

scientific article published on 5 October 2016

Design of a Novel Globular Protein Fold with Atomic-Level Accuracy

scientific article

Destination shapes antibiotic resistance gene acquisitions, abundance increases, and diversity changes in Dutch travelers

scientific article published on 07 June 2021

Developmental dynamics of the preterm infant gut microbiota and antibiotic resistome

scientific article

Discovery and Characterization of a Nitroreductase Capable of Conferring Bacterial Resistance to Chloramphenicol

scientific article published on 21 February 2019

Draft Genome Sequence of a - and -Harboring Pseudomonas aeruginosa Clinical Isolate from Pakistan

scientific article published on 25 April 2019

Draft Genome Sequence of a Salmonella enterica Serovar Typhi Strain Resistant to Fourth-Generation Cephalosporin and Fluoroquinolone Antibiotics

scientific article published on 19 October 2017

Draft Genome Sequence of the Naturally Competent Bacillus simplex Strain WY10.

scientific article published on 16 November 2017

Draft Genome Sequence of the blaOXA-436- and blaNDM-1-Harboring Shewanella putrefaciens SA70 Isolate

scientific article published on 20 July 2017

Draft Genome Sequences of Three β-Lactam-Catabolizing Soil Proteobacteria

scientific article published on 10 August 2017

Ecological and Clinical Consequences of Antibiotic Subsistence by Environmental Microbes

Environmental remodeling of human gut microbiota and antibiotic resistome in livestock farms

scientific article published on 18 March 2020

Epidemiology of Plasmid Lineages Mediating the Spread of Extended-Spectrum Beta-Lactamases among Clinical Escherichia coli

scientific article published in 2022

Erratum: Gut resistome development in healthy twin pairs in the first year of life

scientific article published on 23 July 2015

Evaluation of Machine Learning and Rules-Based Approaches for Predicting Antimicrobial Resistance Profiles in Gram-negative Bacilli from Whole Genome Sequence Data

scientific article

Experimental approaches for defining functional roles of microbes in the human gut.

scientific article

Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice

scientific article

Functional Metagenomics to Study Antibiotic Resistance

scientific article

Functional characterization of bacteria isolated from ancient arctic soil exposes diverse resistance mechanisms to modern antibiotics

scientific article

Functional characterization of the antibiotic resistance reservoir in the human microflora

scientific article

Functional metagenomic investigations of the human intestinal microbiota

scientific article published on 17 October 2011

Genomic and Metagenomic Approaches for Predictive Surveillance of Emerging Pathogens and Antibiotic Resistance

scientific article published on 22 July 2019

Genomic and functional techniques to mine the microbiome for novel antimicrobials and antimicrobial resistance genes

scientific article

Genomic characterization of emerging bacterial uropathogen Neisseria meningitidis misidentified as Neisseria gonorrhoeae by nucleic acid amplification testing

scientific article published on 11 November 2020

High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED.

scientific article published on 18 December 2015

High-resolution structural and thermodynamic analysis of extreme stabilization of human procarboxypeptidase by computational protein design

scientific article

High-resolution structural validation of the computational redesign of human U1A protein.

scientific article

How to Fight Back Against Antibiotic Resistance

scholarly article by Gautam Dantas & Morten Sommer published 2014 in American Scientist

Identification of Genes Conferring Tolerance to Lignocellulose-Derived Inhibitors by Functional Selections in Soil Metagenomes

scientific article

Impact of Amoxicillin-Clavulanate followed by Autologous Fecal Microbiota Transplantation on Fecal Microbiome Structure and Metabolic Potential

scientific article published on 21 November 2018

Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology

scientific article

In Silico Protein Evolution By Intelligent Design: Creating New and Improved Protein Structures ⬇️

doctoral thesis by Gautam Dantas, University of Washington, 2005

Infant diet and maternal gestational weight gain predict early metabolic maturation of gut microbiomes

scientific article published on 29 October 2018

Insights into How Probiotics Colonize the Healthy Human Gut

scientific article published on 16 January 2019

Interconnected microbiomes and resistomes in low-income human habitats

scientific article

KPC and NDM-1 genes in related Enterobacteriaceae strains and plasmids from Pakistan and the United States

scientific article published on June 2015

Lipid metabolism of phenol-tolerant strains for lignin bioconversion

article

Longitudinal analysis of microbial interaction between humans and the indoor environment

scientific article

Mechanism of High-Level Daptomycin Resistance in

scientific article published on 08 August 2018

Microbiome Restoration by RBX2660 Does Not Preclude Recurrence of Multidrug-Resistant Urinary Tract Infection Following Subsequent Antibiotic Exposure: A Case Report

scientific article published on 11 February 2020

Mis-translation of a computationally designed protein yields an exceptionally stable homodimer: implications for protein engineering and evolution

scientific article published on 4 August 2006

Missing Microbes: How the Overuse of Antibiotics is Fueling our Modern Plagues. By Martin J. Blaser. 288 pp. New York: Henry Holt and Company. 2014. $28.00 (cloth), $16.00 (paper), $14.99 (e-book)

article

Multi-omic elucidation of aromatic catabolism in adaptively evolved Rhodococcus opacus

scientific article published on 27 July 2018

Multidrug-resistant plasmids repress chromosomally encoded T6SS to enable their dissemination

scientific article published on 09 January 2019

Multiscale Evolutionary Dynamics of Host-Associated Microbiomes

scientific article published in March 2018

Next-generation approaches to understand and combat the antibiotic resistome.

scientific article published on 10 April 2017

Novel resistance functions uncovered using functional metagenomic investigations of resistance reservoirs

scientific article published on 7 June 2013

Pediatric fecal microbiota harbor diverse and novel antibiotic resistance genes

scientific article published in 2013

Persistent metagenomic signatures of early-life hospitalization and antibiotic treatment in the infant gut microbiota and resistome

scientific article published on 09 September 2019

Plasticity, dynamics, and inhibition of emerging tetracycline resistance enzymes

scientific article published on 8 May 2017

Population Structure, Antibiotic Resistance, and Uropathogenicity of Klebsiella variicola

scientific article published on 18 December 2018

Prairie plants harbor distinct and beneficial root-endophytic bacterial communities

scientific article published on 23 June 2020

Publisher Correction: Shared strategies for β-lactam catabolism in the soil microbiome

scientific article published on 01 February 2019

Semisynthetic Analogues of Anhydrotetracycline as Inhibitors of Tetracycline Destructase Enzymes

scientific article published on 05 March 2019

Sequencing-based methods and resources to study antimicrobial resistance

scientific article published on 01 June 2019

Shared strategies for β-lactam catabolism in the soil microbiome.

scientific article

Simulating Serial-Target Antibacterial Drug Synergies Using Flux Balance Analysis

scientific article

Simulating serial-target antibacterial drug synergies using flux balance analysis

Spatiotemporal dynamics of multidrug resistant bacteria on intensive care unit surfaces

scientific article published on 08 October 2019

Staphylococcus aureus injection drug use-associated bloodstream infections are propagated by community outbreaks of diverse lineages

scientific article published on 30 November 2021

Structural and Functional Survey of Environmental Aminoglycoside Acetyltransferases Reveals Novel Functionality of Resistance Enzymes.

scientific article

Superficieibacter electus gen. nov., sp. nov., an Extended-Spectrum β-Lactamase Possessing Member of the Enterobacteriaceae Family, Isolated From Intensive Care Unit Surfaces

scientific article published on 20 July 2018

Synergistic, collaterally sensitive β-lactam combinations suppress resistance in MRSA.

scientific article

Synthesis of Polyazamacrocyclic Compounds via Modified Richman−Atkins Cyclization of β-Trimethylsilylethanesulfonamides

scientific article published on 01 April 2001

Tackling antibiotic resistance

scientific article

Tetracycline-inactivating enzymes from environmental, human commensal, and pathogenic bacteria cause broad-spectrum tetracycline resistance

scientific article published on 15 May 2020

The Tetracycline Destructases: A Novel Family of Tetracycline-Inactivating Enzymes

scientific article published on 18 June 2015

The effects of antibiotics on the microbiome throughout development and alternative approaches for therapeutic modulation

scientific article

The gut microbiome defines social group membership in honey bee colonies

scientific article published on 14 October 2020

The human microbiome harbors a diverse reservoir of antibiotic resistance genes

scientific article

The microbiome and resistome of chimpanzees, gorillas, and humans across host lifestyle and geography

scientific article published on 20 March 2020

The rapid spread of carbapenem-resistant Enterobacteriaceae

scientific article published on 19 September 2016

The shared antibiotic resistome of soil bacteria and human pathogens

scientific article

The yin and yang of bacterial resilience in the human gut microbiota

scientific article

Transcriptomic analysis illuminates genes involved in chlorophyll synthesis after nitrogen starvation in Acaryochloris sp. CCMEE 5410.

scientific article

Urinary tract colonization is enhanced by a plasmid that regulates uropathogenic Acinetobacter baumannii chromosomal genes

scientific article published on 24 June 2019

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