CURRENT PREPRINTS
RECENT PUBLICATIONS
2025
Long-read metagenomics reveals phage dynamics in the human gut microbiome.
Nature, 2025
Age-related microbiome metabolites alter RNA splicing and chromatin accessibility in the brain.
bioRxiv, 2025
A systematic literature review and bayesian meta-analysis of oral vancomycin primary prophylaxis for Clostridioides difficile infection in stem cell transplant patients.
Antimicrob Steward Healthc Epidemiol, 2025
Clostridium cuniculi is associated with chronic high-morbidity low-mortality diarrhea in NSG and NSG-related mouse strains.
Vet Pathol, 2025
A peptide display system identifies a potent mutant β-melanocyte-stimulating hormone agonist of melanocortin-4 receptor.
Cell Genom, 2025
Illumina complete long read assay yields contiguous bacterial genomes from human gut metagenomes.
mSystems, 2025
Absolute quantification of prokaryotes in the microbiome by 16S rRNA qPCR or ddPCR.
Nat Protoc, 2025
Discovering Broader Host Ranges and an IS-bound Prophage Class Through Long-Read Metagenomics.
bioRxiv, 2025
Impact of Post-Transplant Cyclophosphamide-Based GVHD Prophylaxis in Patients 70 years and Older: An Update from BMT CTN 1703.
Blood Adv, 2025
Accurate prediction of absolute prokaryotic abundance from DNA concentration.
Cell Rep Methods, 2025
Unraveling the tempo and mode of horizontal gene transfer in bacteria.
Trends Microbiol, 2025
Contiguous and complete assemblies of Blastocystis gut microbiome-associated protists reveal evolutionary diversification to host ecology.
Genome Res, 2025
Gut metagenomes reveal interactions between dietary restriction, ageing and the microbiome in genetically diverse mice.
Nat Microbiol, 2025
Mind the gap: Intergenic regions in bacteria encode numerous small proteins.
Mol Cell, 2025
Replicative selfish genetic elements are driving rapid pathogenic adaptation of Enterococcus faecium.
bioRxiv, 2025
Comprehensive profiling of genomic invertons in defined gut microbial community reveals associations with intestinal colonization and surface adhesion.
Microbiome, 2025
Graft-versus-host disease prophylaxis shapes T cell biology and immune reconstitution after hematopoietic cell transplant.
medRxiv, 2025
Improved Patient-Reported Outcomes With Post-Transplant Cyclophosphamide: A Quality-of-Life Evaluation and 2-Year Outcomes of BMT CTN 1703.
J Clin Oncol, 2025
2024
Mining human microbiomes reveals an untapped source of peptide antibiotics.
Cell, 2024.
Dual quorum-sensing control of purine biosynthesis drives pathogenic fitness of Enterococcus faecalis.
bioRxiv, 2024
Author Correction: Quantifying bias introduced by sample collection in relative and absolute microbiome measurements.
Nat Biotechnol, 2024
Nirmatrelvir-Ritonavir and Symptoms in Adults With Postacute Sequelae of SARS-CoV-2 Infection: The STOP-PASC Randomized Clinical Trial.
JAMA Intern Med, 2024
Transcatheter Pulmonary Valve Replacement With Balloon-Expandable Valves: Utilization and Procedural Outcomes From the IMPACT Registry.
JACC Cardiovasc Interv, 2024.
2023
Metabolic diversity in commensal protists regulates intestinal immunity and trans-kingdom competition.
Cell, 2023
Hybrid assemblies of microbiome Blastocystis protists reveal evolutionary diversification reflecting host ecology.
bioRxiv, 2023
Acute steroid-refractory GI GVHD is not associated with significant differences in gut taxonomic composition compared to steroid-sensitive GI GVHD immediately prior to onset of disease: GI GVHD is not characterized by gut microbial differences preceding symptom onset.
Transplant Cell Ther, 2023
Identification of over ten thousand candidate structured RNAs in viruses and phages.
Comput Struct Biotechnol J, 2023
Phage diversity in cell-free DNA identifies bacterial pathogens in human sepsis cases.
Nat Microbiol, 2023
The Tomato Brown Rugose Fruit Virus Movement Protein Gene Is a Novel Microbial Source Tracking Marker.
Appl Environ Microbiol, 2023.
The TaxUMAP atlas: Efficient display of large clinical microbiome data reveals ecological competition in protection against bacteremia.
Cell Host Microbe, 2023
Post-Transplantation Cyclophosphamide-Based Graft-versus-Host Disease Prophylaxis.
N Engl J Med, 2023
Chemoproteomic identification of a DPP4 homolog in Bacteroides thetaiotaomicron.
Nat Chem Biol, 2023
Quantifying bias introduced by sample collection in relative and absolute microbiome measurements.
Nat Biotechnol, 2023
Systematic discovery of recombinases for efficient integration of large DNA sequences into the human genome.
Nat Biotechnol, 2023
2022
Human β-defensin 2 ameliorates acute GVHD by limiting ileal neutrophil infiltration and restraining T cell receptor signaling.
Sci Transl Med, 2022
Equitable partnerships and the path to inclusive, innovative and impactful human microbiome research.
Nat Rev Gastroenterol Hepatol, 2022
From genome structure to function: insights into structural variation in microbiology.
Curr Opin Microbiol, 2022
Cardiovascular Risk Management in the South Asian Patient: A Review.
Health Sci Rev (Oxf), 2022
Near-fatal Legionella pneumonia in a neonate linked to home humidifier by metagenomic next generation sequencing.
Med, 2022
Gastrointestinal symptoms and fecal shedding of SARS-CoV-2 RNA suggest prolonged gastrointestinal infection.
Med, 2022
Identification of covalent inhibitors that disrupt M. tuberculosis growth by targeting multiple serine hydrolases involved in lipid metabolism.
Cell Chem Biol, 2022
A compilation of fecal microbiome shotgun metagenomics from hematopoietic cell transplantation patients.
Sci Data. 2022
Microbiota dynamics in a randomized trial of gut decontamination during allogeneic hematopoietic cell transplantation.
JCI Insight, 2022
Short- and long-read metagenomics of urban and rural South African gut microbiomes reveal a transitional composition and undescribed taxa.
Nat Commun, 2022
Rare transmission of commensal and pathogenic bacteria in the gut microbiome of hospitalized adults.
Nat Commun, 2022
2021
Publisher Correction: Standardized preservation, extraction and quantification techniques for detection of fecal SARS-CoV-2 RNA.
Nat Commun, 2021
Comparative genomics of Enterobacter cloacae complex before and after acquired clinical resistance to Ceftazidime-Avibactam.
Diagn Microbiol Infect Dis, 2021
Reporting guidelines for human microbiome research: the STORMS checklist.
Nat Med, 2021
A Fructo-Oligosaccharide Prebiotic Is Well Tolerated in Adults Undergoing Allogeneic Hematopoietic Stem Cell Transplantation: A Phase I Dose-Escalation Trial.
Transplant Cell Ther, 2021
Standardized preservation, extraction and quantification techniques for detection of fecal SARS-CoV-2 RNA.
Nat Commun, 2021
Simultaneous ribosome profiling of hundreds of microbes from the human microbiome.
Nat Protoc, 2021
Invariant natural killer T-cell subsets have diverse graft-versus-host-disease-preventing and antitumor effects.
Blood, 2021
Implementing Patient-Directed Cancer Education Materials Across Nigeria.
JCO Glob Oncol, 2021
Metagenomic compendium of 189,680 DNA viruses from the human gut microbiome.
Nat Microbiol, 2021
Standardized and optimized preservation, extraction and quantification techniques for detection of fecal SARS-CoV-2 RNA.
medRxiv, 2021
Comparative genomics identifies thousands of candidate structured RNAs in human microbiomes.
Genome Biol, 2021
The gut microbiome: a missing link in understanding the gastrointestinal manifestations of COVID-19?
Cold Spring Harb Mol Case Stud, 2021
Peginterferon Lambda-1a for treatment of outpatients with uncomplicated COVID-19: a randomized placebo-controlled trial.
Nat Commun, 2021
Automated Prediction and Annotation of Small Open Reading Frames in Microbial Genomes.
Cell Host Microbe, 2021
Improved high-molecular-weight DNA extraction, nanopore sequencing and metagenomic assembly from the human gut microbiome.
Nat Protoc, 2021
2020
Assessing and Addressing the Need for Cancer Patient Education in a Resource-Limited Setting in Haiti.
Oncologist, 2020
Recommendations from the ASCO Academic Global Oncology Task Force.
JCO Glob Oncol, 2020
Glucagon-like peptide 2 for intestinal stem cell and Paneth cell repair during graft-versus-host disease in mice and humans.
Blood, 2020
Characteristics of Adults With Congenital Heart Defects in the United States.
J Am Coll Cardiol, 2020
Complete, closed bacterial genomes from microbiomes using nanopore sequencing.
Nat Biotechnol, 2020
Strain-resolved microbiome sequencing reveals mobile elements that drive bacterial competition on a clinical timescale.
Genome Med, 2020
Author Correction: Acquisition, transmission and strain diversity of human gut-colonizing crAss-like phages.
Nat Commun, 2020
Acquisition, transmission and strain diversity of human gut-colonizing crAss-like phages.
Nat Commun, 2020
A Bioinformatic Analysis of Integrative Mobile Genetic Elements Highlights Their Role in Bacterial Adaptation.
Cell Host Microbe, 2020
Other Years
A Bioinformatic Analysis of Integrative Mobile Genetic Elements Highlights Their Role in Bacterial Adaptation
Durrant et al, Cell Host & Microbe, 2018
Large-Scale Analyses of Human Microbiomes Reveal Thousands of Small, Novel Genes
Sberro, et al. Cell, 2019
Precision identification of diverse bloodstream pathogens in the gut microbiome
Tamburini, Andermann et al, Nature Medicine 2018
High-quality genome sequences of uncultured microbes by assembly of read clouds
Bishara, Moss et al, Nature Biotech, 2018
REVIEWS
Surveying Gut Microbiome Research in Africans
Brewster, Tamburini, Asiimwe, Oduaran, Hazelhurst & Bhatt, Trends in Microbiology 2019
Microbiome genome structure drives function
Durrant & Bhatt, Nature Microbiology, 2019
If you are interested in philanthropically supporting the work of The Bhatt Lab, please contact:
Evelyn Klass-Rodewald
Senior Associate Director, Major Gifts
Stanford Medicine, Medical Center Development
evelyn.rodewald@stanford.edu