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Robert Edwards

After receiving his Ph. D. from the University of Sussex, in England studying nitrogen regulation in bacteria, Dr. Edwards moved to the United States to continue his studies. He worked as a Post-Doctoral Researcher at the University of Pennsylvania, Philadelphia, understanding how a leading cause of traveller’s diarrhea (E. coli)causes disease. Dr. Edwards then moved to the University of Illinois, Urbana Champaign to study another food-borne pathogen, Salmonella. These studies merged the nascent area of genomics with traditional microbial genetics to investigate how a particular type of Salmonella became the leading cause of food-borne illness in the United States. From 2000 to 2004, Dr. Edwards was an Assistant Professor at the University of Tennessee Health Sciences Center in Memphis, TN. Here, Dr. Edwards continued his studies on pathogenic bacteria, notably Salmonella and the bioterrorism weapon Francisella. Dr. Edwards received FBI clearance to work on these bacteria and was invi

Publications

  • Perspective on taxonomic classification of uncultivated viruses
  • Towards Predicting Gut Microbial Metabolism: Integration of Flux Balance Analysis and Untargeted Metabolomics
  • Organizing the bacterial annotation space with amino acid sequence embeddings
  • The StkSR Two-Component System Influences Colistin Resistance in Acinetobacter baumannii
  • Acidobacteria Subgroups and Their Metabolic Potential for Carbon Degradation in Sugarcane Soil Amended With Vinasse and Nitrogen Fertilizers
  • PHANOTATE: a novel approach to gene identification in phage genomes
  • Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages
  • Cystic Fibrosis Rapid Response: Translating Multi-omics Data into Clinically Relevant Information
  • Diel population and functional synchrony of microbial communities on coral reefs
  • Cyanobacterial biodiversity of semiarid public drinking water supply reservoirs assessed via next-generation DNA sequencing technology
  • Prodigious Prevotella phages
  • Ten simple rules and a template for creating workflows-as-applications
  • Coral and Seawater Metagenomes Reveal Key Microbial Functions to Coral Health and Ecosystem Functioning Shaped at Reef Scale
  • The utility of dust for forensic intelligence
  • Latitude and chlorophyll a density drive the distribution of carbohydrate-active enzymes in the planktonic microbial fraction of the epipelagic zone
  • Confidence for exploratory machine learning
  • Abolishment of morphology-based taxa and change to binomial species names
  • Global Whale Shark (Rhincodon typus) microbiome: regional taxonomic flexibility and functional stability
  • Dynamics of infection in a novel group of promiscuous phages and hosts of multiple bacterial genera retrieved from river communities
  • Deep immune profiling of the maternal-fetal interface with mild SARS-CoV-2 infection
  • Phage and bacteria diversification through a prophage acquisition ratchet
  • Hecatomb: An End-to-End Research Platform for Viral Metagenomics
  • Erratum: A Novel Group of Promiscuous Podophages Infecting Diverse Gammaproteobacteria from River Communities Exhibits Dynamic Intergenus Host Adaptation (mSystems (2021) 6:1 (e00773-20) DOI: 10.1128/mSystems.00773-20)
  • RaFAH: Host prediction for viruses of Bacteria and Archaea based on protein content
  • Global phylogeography and ancient evolution of the widespread human gut virus crAssphage
  • MultiPhATE2: Code for Functional Annotation and Comparison of Bacteriophage Genomes
  • A Novel Group of Promiscuous Podophages Infecting Diverse Gammaproteobacteria from River Communities Exhibits Dynamic Intergenus Host Adaptation
  • NCBI’s Virus Discovery Codeathon: Building “FIVE”—The Federated Index of Viral Experiments API Index
  • NCBI's Virus Discovery Hackathon: Engaging Research Communities to Identify Cloud Infrastructure Requirements
  • RaFAH: A superior method for virus-host prediction
  • How Metagenomics Has Transformed Our Understanding of Bacteriophages in Microbiome Research
  • Gut microbiota represent a major thermogenic biomass
  • Gut Microbiota Represent a Major Thermogenic Biomass
  • Single-cell gene expression links SARS-CoV-2 infection and gut serotonin
  • Decoding diversity in a coral reef fish species complex with restricted range using metagenomic sequencing of gut contents
  • The skin microbiome of elasmobranchs follows phylosymbiosis, but in teleost fishes, the microbiomes converge
  • `Genome skimming' with the MinION hand-held sequencer identifies CITES-listed shark species in India's exports market
  • Mitochondrial genome to aid species delimitation and effective conservation of the Sharpnose Guitarfish (Glaucostegus granulatus)
  • Genomic and ecological attributes of marine bacteriophages encoding bacterial virulence genes
  • Predicting the capsid architecture of phages from metagenomic data
  • Fastq-pair: efficient synchronization of paired-end fastq files
  • Modeling of the Coral Microbiome: the Influence of Temperature and Microbial Network
  • Standardized bacteriophage purification for personalized phage therapy
  • A distinct contractile injection system gene cluster found in a majority of healthy adult human microbiomes
  • Utilizing Amino Acid Composition and Entropy of Potential Open Reading Frames to Identify Protein-Coding Genes
  • Philympics 2021: Prophage Predictions Perplex Programs
  • MultiPhATE2
  • No Evidence Known Viruses Play a Role in the Pathogenesis of Onchocerciasis-Associated Epilepsy. An Explorative Metagenomic Case-Control Study
  • hafeZ: Active prophage identification through read mapping
  • Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021
  • Computational approaches to predict bacteriophage-host relationships
  • Aging and Intermittent Fasting Impact on Transcriptional Regulation and Physiological Responses of Adult Drosophila Neuronal and Muscle Tissues
  • Optimizing and evaluating the reconstruction of Metagenome-assembled microbial genomes
  • Kullback Leibler divergence in complete bacterial and phage genomes
  • Bacterial Community Associated with the Reef Coral Mussismilia braziliensis's Momentum Boundary Layer over a Diel Cycle
  • Marine viruses discovered via metagenomics shed light on viral strategies throughout the oceans
  • PARTIE: a partition engine to separate metagenomic and amplicon projects in the Sequence Read Archive
  • Surgical Removal of Gut Bacteria Biomass Promotes Weight Gain via Suppression of Energy Expenditure
  • Biological chlorine cycling in the Arctic Coastal Plain
  • PMAnalyzer: a new web interface for bacterial growth curve analysis
  • Corrigendum: Lytic to temperate switching of viral communities
  • Global microbialization of coral reefs
  • Corrigendum: Allelic variation contributes to bacterial host specificity
  • A diversity-generating retroelement encoded by a globally ubiquitous Bacteroides phage
  • Functional characterization of ligninolytic Klebsiella spp. strains associated with soil and freshwater
  • Reply to: Caution in inferring viral strategies from abundance correlations in marine metagenomes
  • Discovery of an expansive bacteriophage family that includes the most abundant viruses from the human gut
  • Growth Score: a single metric to define growth in 96-well phenotype assays
  • Draft Genome Sequence of Cylindrospermopsis raciborskii (Cyanobacteria) Strain ITEP-A1 Isolated from a Brazilian Semiarid Freshwater Body: Evidence of Saxitoxin and Cylindrospermopsin Synthetase Genes
  • From DNA to FBA: How to Build Your Own Genome-Scale Metabolic Model
  • Dietary Fat and Carbohydrate Content Modulate Energy Expenditure via Gut Bacteria
  • Variability and host density independence in inductions-based estimates of environmental lysogeny
  • Elucidating genomic gaps using phenotypic profiles
  • Using viromes to predict novel immune proteins in non-model organisms
  • Lytic to temperate switching of viral communities
  • Genomics to aid species delimitation and effective conservation of the Sharpnose Guitarfish (Glaucostegus granulatus)
  • Genomic, proteomic, and phylogenetic analysis of spounaviruses indicates paraphyly of the order Caudovirales
  • Taxonomy proposal: To create one (1) new family, Herelleviridae, in the order Caudovirales
  • The biomass and composition of the gut microbiota modify anaerobic metabolism
  • Benchmark data sets, software results and reference data for the first CAMI challenge
  • THEA: A novel approach to gene identification in phage genomes
  • PRINSEQ++, a multi-threaded tool for fast and efficient quality control and preprocessing of sequencing datasets
  • Development of a shark health matrix using metabolomics coupled with metagenomics
  • Suppl Methods for Biogeochemistry paper
  • The skin microbiome of elasmobranchs follows phylosymbosis, but in teleost fishes the microbiomes converge
  • Critical Assessment of Metagenome Interpretation – a benchmark of computational metagenomics software
  • Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Bacteriophages
  • Genomics to aid species delimitation and effective conservation of the Sharpnose Guitarfish (Glaucostegus granulatus).
  • A Distinct Contractile Injection System Found in a Majority of Adult Human Microbiomes
  • linsalrob/fasta_validator
  • multiPhATE: bioinformatics pipeline for functional annotation of phage isolates
  • Charting the diversity of uncultured viruses of Archaea and Bacteria
  • Phage genome annotation using the RAST pipeline
  • Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee
  • Searching the sequence read archive using Jetstream and Wrangler
  • Some of the most interesting CASP11 targets through the eyes of their authors
  • An agile functional analysis of metagenomic data using SUPER-FOCUS
  • Prophage genomics reveals patterns in phage genome organization and replication
  • Critical Assessment of Metagenome Interpretation - a benchmark of metagenomics software
  • ­Growth Score: A single metric to define growth in 96-well phenotype assays
  • Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors
  • The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
  • RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes
  • A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes
  • Microbial genomic taxonomy
  • Metagenomics and metatranscriptomics: windows on CF-associated viral and microbial communities
  • Taxonomic and functional microbial signatures of the endemic marine sponge Arenosclera brasiliensis
  • Real time metagenomics: using k-mers to annotate metagenomes
  • FOCUS: an alignment-free model to identify organisms in metagenomes using non-negative least squares
  • A bioinformatic analysis of ribonucleotide reductase genes in phage genomes and metagenomes
  • Reference-independent comparative metagenomics using cross-assembly: crAss
  • Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis
  • Microbial taxonomy in the post-genomic era: rebuilding from scratch?
  • Metagenomic analysis of healthy and white plague-affected Mussismilia braziliensis corals
  • Multivariate analysis of functional metagenomes
  • Combining de novo and reference-guided assembly with scaffold_builder
  • Explaining microbial phenotypes on a genomic scale: GWAS for microbes
  • Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux
  • Multi-Analytical Approach Reveals Potential Microbial Indicators in Soil for Sugarcane Model Systems
  • Mechanistic model of Rothia mucilaginosa adaptation toward persistence in the CF lung, based on a genome reconstructed from metagenomic data
  • SUPER-FOCUS: a tool for agile functional analysis of shotgun metagenomic data
  • Genomic taxonomy of the genus prochlorococcus
  • Integration of genomic and proteomic analyses in the classification of the Siphoviridae family
  • Multidimensional metrics for estimating phage abundance, distribution, gene density, and sequence coverage in metagenomes
  • Complete Genome Sequencing of a Multidrug-Resistant and Human-Invasive Salmonella enterica Serovar Typhimurium Strain of the Emerging Sequence Type 213 Genotype
  • GenomePeek - An online tool for prokaryotic genome and metagenome analysis
  • Allelic variation contributes to bacterial host specificity
  • Microbial Community Profile and Water Quality in a Protected Area of the Caatinga Biome
  • Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins
  • Genomic Comparison of the Closely-Related Salmonella enterica Serovars Enteritidis, Dublin and Gallinarum
  • Baseline Assessment of Mesophotic Reefs of the Vitória-Trindade Seamount Chain Based on Water Quality, Microbial Diversity, Benthic Cover and Fish Biomass Data
  • Microbes, metagenomes and marine mammals: enabling the next generation of scientist to enter the genomic era
  • Applying Shannon's information theory to bacterial and phage genomes and metagenomes
  • Draft Genome Sequence of the Fish Pathogen Piscirickettsia salmonis
  • Abrolhos bank reef health evaluated by means of water quality, microbial diversity, benthic cover, and fish biomass data
  • Comparative genomics of 274 Vibrio cholerae genomes reveals mobile functions structuring three niche dimensions
  • GenomePeek - An online tool for prokaryotic and metagenome analysis
  • Microfluidic PCR combined with pyrosequencing for identification of allelic variants with phenotypic associations among targeted Salmonella genes
  • SEED servers: high-performance access to the SEED genomes, annotations, and metabolic models
  • Structure and function of a cyanophage-encoded peptide deformylase
  • RAPID RESPONSE: TRANSLATING MULTI-OMICS DATA ON CF EXACERBATIONS IN CLINICALLY RELEVANT TIME FRAMES
  • Computational approaches to predict bacteriophage--host relationships
  • Probiotic bacteria reduce salmonella typhimurium intestinal colonization by competing for iron
  • FORMAL: A model to identify organisms present in metagenomes using Monte Carlo Simulation
  • FOCUS2: agile and sensitive classification of metagenomics data using a reduced database
  • Qudaich: A smart sequence aligner
  • Computational Science and Engineering
  • GenomePeek—an online tool for prokaryotic genome and metagenome analysis
  • Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition
  • PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies
  • Quality control and preprocessing of metagenomic datasets
  • Viral diversity and dynamics in an infant gut
  • The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes
  • The minimum information about a genome sequence (MIGS) specification
  • Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities
  • Viral and microbial community dynamics in four aquatic environments
  • Phylogenetic classification of short environmental DNA fragments
  • Bacterial carbon processing by generalist species in the coastal ocean
  • Comparative metagenomics reveals host specific metavirulomes and horizontal gene transfer elements in the chicken cecum microbiome
  • Insights into antibiotic resistance through metagenomic approaches
  • TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets
  • Taxonomic composition and gene content of a methane-producing microbial community isolated from a biogas reactor
  • Identification and removal of ribosomal RNA sequences from metatranscriptomes
  • Transposases are the most abundant, most ubiquitous genes in nature
  • The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes
  • Metagenomic analysis indicates that stressors induce production of herpes-like viruses in the coral Porites compressa
  • Accessing the SEED genome databases via Web services API: tools for programmers
  • Metagenomic analysis of stressed coral holobionts
  • PHACTS, a computational approach to classifying the lifestyle of phages
  • Viral communities associated with healthy and bleaching corals
  • Coastal bacterioplankton community diversity along a latitudinal gradient in Latin America by means of V6 tag pyrosequencing
  • MetaBase--the wiki-database of biological databases
  • Connecting genotype to phenotype in the era of high-throughput sequencing
  • PhiSiGns: an online tool to identify signature genes in phages and design PCR primers for examining phage diversity
  • Functional metagenomic profiling of nine biomes
  • Genome sequence of the human pathogen Vibrio cholerae Amazonia
  • Phage-bacteria relationships and CRISPR elements revealed by a metagenomic survey of the rumen microbiome
  • Phage Eco-Locator: a web tool for visualization and analysis of phage genomes in metagenomic data sets
  • Fast identification and removal of sequence contamination from genomic and metagenomic datasets
  • Chromosomal rearrangements formed by rrn recombination do not improve replichore balance in host-specific Salmonella enterica serovars
  • Lysogeny and sporulation in Bacillus isolates from the Gulf of Mexico
  • The Microbiome and Virome of CF
  • Towards richer descriptions of our collection of genomes and metagenomes
  • Characterization of the ELPhiS prophage from Salmonella enterica serovar Enteritidis strain LK5
  • Draft genome sequence of the shrimp pathogen Vibrio harveyi CAIM 1792
  • The smallest cells pose the biggest problems: high-performance computing and the analysis of metagenome sequence data
  • Genome sequence of the bacterioplanktonic, mixotrophic Vibrio campbellii strain PEL22A, isolated in the Abrolhos Bank
  • Genome sequences of the ethanol-tolerant Lactobacillus vini strains LMG 23202T and JP7.8.9
  • Genome-wide study of the defective sucrose fermenter strain of Vibrio cholerae from the Latin American cholera epidemic
  • Deviations from Ultrametricity in Phage Protein Distances
  • Real-Time Metagenomics
  • THE MICROBIOME AND VIROME OF CF: 277★
  • Benthic community composition affects O2 availability and variability in a Northern Red Sea fringing reef
  • Phage--bacteria relationships and CRISPR elements revealed by a metagenomic survey of the rumen microbiome
  • MetaBase—the wiki-database of biological databases
  • Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases
  • Biodiversity and biogeography of phages in modern stromatolites and thrombolites
  • Diversification of the Salmonella fimbriae: a model of macro- and microevolution
  • Metagenomic and stable isotopic analyses of modern freshwater microbialites in Cuatro Ciénegas, Mexico
  • Erratum
  • Experimental and computational assessment of conditionally essential genes in Escherichia coli
  • The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes
  • The RAST Server: rapid annotations using subsystems technology
  • Inside or outside: detecting the cellular location of bacterial pathogens
  • Evolution of microbial pathogens: Microbial Pathogenesis and Host Response, Cold Spring Harbor Laboratory, NY, USA, 22--26 September 1999
  • Community genomics among stratified microbial assemblages in the ocean's interior
  • The marine viromes of four oceanic regions
  • Viral metagenomics
  • Using pyrosequencing to shed light on deep mine microbial ecology
  • The Phage Proteomic Tree: a genome-based taxonomy for phage
  • Metagenomic and small-subunit rRNA analyses reveal the genetic diversity of bacteria, archaea, fungi, and viruses in soil
  • Metagenomic analysis of the microbial community associated with the coral Porites astreoides
  • Microbial ecology of four coral atolls in the Northern Line Islands
  • Comparative genomics of closely related salmonellae
  • Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation
  • Salmonella enterica serovar Typhi possesses a unique repertoire of fimbrial gene sequences
  • An application of statistics to comparative metagenomics
  • A role for Salmonella fimbriae in intraperitoneal infections
  • The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation
  • Low-molecular-weight protein tyrosine phosphatases of Bacillus subtilis
  • A glimpse into the expanded genome content of Vibrio cholerae through identification of genes present in environmental strains
  • Fimbrial expression in enteric bacteria: a critical step in intestinal pathogenesis
  • Transcriptional profiling of Mycoplasma hyopneumoniae during heat shock using microarrays
  • Mosaic prophages with horizontally acquired genes account for the emergence and diversification of the globally disseminated M1T1 clone of Streptococcus pyogenes
  • In vitro characterization of the Bacillus subtilis protein tyrosine phosphatase YwqE
  • Microbial Genome Sequencing
  • Genomic analysis and growth-phase-dependent regulation of the SEF14 fimbriae of Salmonella enterica serovar Enteritidis
  • Indirect effects of algae on coral: algae-mediated, microbe-induced coral mortality
  • Increasing DNA transfer efficiency by temporary inactivation of host restriction
  • Draft sequencing and comparative genomics of Xylella fastidiosa strains reveal novel biological insights
  • Finding novel genes in bacterial communities isolated from the environment
  • Essential genes on metabolic maps
  • The importance of complete genome sequences
  • Metagenomic and stable isotopic analyses of modern freshwater microbialites in Cuatro Cienegas, Mexico
  • Metagenomic and small-subunit RNA surveys reveal the high genetic diversity of bacteria, archaea, fungi, and viruses in soil
  • Genome analysis of the obligately lytic bacteriophage 4268 of Lactococcus lactis provides insight into its adaptable nature
  • Hidden messages within the genetic code
  • Eye of newt and toe of frog
  • An old dog learns new tricks
  • TeraGrid Open Life Science Gateway
  • Automated analysis of ARISA data using ADAPT system
  • The metagenomics RAST server--a public resource for the automatic phylogenetic and functional analysis of metagenomes
  • Random Community Genomics
  • The Role of Microbes in the Precipitation of Microbialites in Cuatro Cienegas, Mexico: A Genomic and Stable Isotopic Perspective
  • Increasing DNA transfer efficiency by temporary inactivation of host restriction.
  • Bacterial select agents and antibiotic resistance genes.
  • The National Microbial Pathogen Data Resource
  • Eye of newt and toe of frog: Recombinant DNA Principles and Methodologies, edited by James J. Greene and Venigalla B. Rao, and Molecular Biomethods Handbook, edited by Ralph Rapley and John M. Walker
  • Genome of staphylococcal phage K: a new lineage of Myoviridae infecting gram-positive bacteria with a low G+C content
  • Marine environmental genomics: Unlocking the ocean's secrets
  • PhANNs, a fast and accurate tool and web server to classify phage structural proteins
  • Nitrogen control in bacteria
  • Improved allelic exchange vectors and their use to analyze 987P fimbria gene expression
  • Differential regulation of fasA and fasH expression of Escherichia coli 987P fimbriae by environmental cues
  • The role of uridylyltransferase in the control of Klebsiella pneumoniae nif gene regulation
  • Identification of major and minor chaperone proteins involved in the export of 987P fimbriae
  • Tools for Fast Sequence Alignment
  • Escherichia coli: Mechanisms of Virulence
  • Programmatic Access to the SEED Data Via the Network
  • NMPDR-National Microbial Pathogen Data Resource
  • Nitrogen control in bacteria.
  • Scoring Amino Acid Substitutions In $Φ$hage Genomes
  • High-throughput phenotype profiling for bacterial flux-balance model optimization
  • Genomics and Bioinformatics: A Practical Course in Sequence Data Analysis
  • Search SRA Gateway for Metagenomics Data
  • Shannon's Uncertainty and Kullback-Leibler Divergence in Microbial Genome
  • Programmed ribosomal frameshifts, and how to find them
  • The Promise and Pitfalls of Prophages
  • Prophage rates in the human microbiome vary by body site and host health.
  • Host Association and Spatial Proximity Shape but Do Not Constrain Population Structure in the Mutualistic Symbiont Xenorhabdus bovienii
  • Prophage rates in the human microbiome vary by body site and host health
  • Towards the biogeography of butyrate-producing bacteria
  • Philympics 2021
  • The human gut virome
  • Statement in Support of
  • Classification Confidence in Exploratory Learning: A User’s Guide
  • Compounding Achromobacter Phages for Therapeutic Applications
  • Guidelines for public database submission of uncultivated virus genome sequences for taxonomic classification
  • linsalrob/fast-adapter-trimming
  • linsalrob/PyFBA
  • linsalrob/pyctv
  • linsalrob/py_fasta_validator
  • linsalrob/primer-trimming
  • linsalrob/partie
  • linsalrob/PhiSpy
  • linsalrob/mgi-adapters
  • linsalrob/genbank_to
  • linsalrob/atavide_lite
  • linsalrob/sam
  • linsalrob/fastq-pair
  • linsalrob/ComputationalGenomicsManual
  • linsalrob/CompareReferences
  • linsalrob/atavide
  • Prophage Prediction Comparisons
  • linsalrob/PPPF
  • linsalrob/SearchSRAToolKit
  • linsalrob/SearchSRA
  • linsalrob/BacterialProteins
  • linsalrob/pbj_placer
  • linsalrob/partie_hat
  • linsalrob/crAssphage
  • Surgical Removal of Gut Bacteria Biomass Promotes Weight Gain via Suppression of Energy Expenditure
  • Dietary Fat and Carbohydrate Content Modulate Energy Expenditure via Gut Bacteria
  • Emergent community architecture despite distinct diversity in the global whale shark (Rhincodon typus) epidermal microbiome
  • Phables
  • Host interactions of novel Crassvirales species belonging to multiple families infecting bacterial host, Bacteroides cellulosilyticus WH2
  • THE MICROBIOME AND VIROME OF CF
  • RAPID RESPONSE
  • The Role of Microbes in the Precipitation of Microbialites in Cuatro Cienegas, Mexico
  • The Biomass and Composition of the Gut Microbiota Modify Anaerobic Metabolism
  • Qudaich
  • Abolish the order Caudovirales and the families Myoviridae, Siphoviridae and Podoviridae (Caudoviricetes)
  • Knowing and Naming: Phage Annotation and Nomenclature for Phage Therapy
  • Author Correction
  • The secret hidden in dust
  • Phables: from fragmented assemblies to high-quality bacteriophage genomes
  • PRFect: A tool to predict programmed ribosomal frameshifts in prokaryotic and viral genomes
  • Heat-stressed coral microbiomes are stable and potentially beneficial at the level of taxa and functional genes
  • The human gut virome: Composition, colonisation, interactions, and impacts on human health
  • Estimating Classification Confidence Using Kernel Densities
  • ­ Growth Score : A single metric to define growth in 96-well phenotype assays
  • Bioenergetic mapping of 'healthy microbiomes' via compound processing potential imprinted in gut and soil metagenomes
  • Bioenergetic mapping of ‘healthy microbiomes’ via compound processing potential imprinted in gut and soil metagenomes
  • Hybracter: Enabling Scalable, Automated, Complete and Accurate Bacterial Genome Assemblies
  • Predicting stop codon reassignment improves functional annotation of bacteriophages
  • Prophages: an integral but understudied component of the human microbiome
  • The macroecology of butyrate-producing bacteria
  • Koverage: Read-coverage analysis for massive (meta)genomics datasets
  • How low can you go? Short-read polishing of Oxford Nanopore bacterial genome assemblies
  • The macroecology of butyrate-producing bacteria via metagenomic assessment of butyrate production capacity
  • Hybracter
  • Pre-Bleaching Coral Microbiome Is Enriched in Beneficial Taxa and Functions
  • Hecatomb: an integrated software platform for viral metagenomics
  • ICP miniseries: ICP – could there be a virus in the works?
  • Draft genomes of 12 Bifidobacterium isolates from human IBD fecal samples
  • ICP – could there be a virus in the works?
  • Driving through stop signs: predicting stop codon reassignment improves functional annotation of bacteriophages

Robert Edwards's public data