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Author: Jillian F. Banfield

Rankings

  • All-time downloads: 41,363 (rank: 892 out of 383,759)
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    • bioinformatics: 4,035 (rank: 2,364 (tie) out of 32,830)
    • biophysics: 1,035 (rank: 2,877 (tie) out of 15,858)
    • genomics: 1,200 (rank: 14,891 (tie) out of 40,849)
    • microbiology: 35,093 (rank: 205 out of 43,341)

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Preprints

Transporter genes in biosynthetic gene clusters predict metabolite characteristics and siderophore activity

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Clades of huge phage from across Earth's ecosystems

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Accurate and Complete Genomes from Metagenomes

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Recovery of genomes from metagenomes via a dereplication, aggregation, and scoring strategy

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In situ replication rates for uncultivated bacteria in microbial communities

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Metagenomic analysis with strain-level resolution reveals fine-scale variation in the human pregnancy microbiome

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Consistent metagenome-derived metrics verify and define bacterial species boundaries

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Megaphage infect Prevotella and variants are widespread in gut microbiomes

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dRep: A tool for fast and accurate genome de-replication that enables tracking of microbial genotypes and improved genome recovery from metagenomes

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Genome-reconstruction for eukaryotes from complex natural microbial communities

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Necrotizing enterocolitis is preceded by increased gut bacterial replication, Klebsiella, and fimbriae-encoding bacteria that may stimulate TLR4 receptors

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InStrain enables population genomic analysis from metagenomic data and rigorous detection of identical microbial strains

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Structure of the Bacterial Ribosome at 2 Å Resolution

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Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil

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Biological capacities clearly define a major subdivision in Domain Bacteria

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The developing premature infant gut microbiome is a major factor shaping the microbiome of neonatal intensive care unit rooms

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Dramatic expansion of microbial groups that shape the global sulfur cycle

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Candidate Phyla Radiation Roizmanbacteria from hot springs have novel, unexpectedly abundant, and potentially alternatively functioning CRISPR-Cas systems

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An archaeal symbiont-host association from the deep terrestrial subsurface

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Bacterial secondary metabolite biosynthetic potential in soil varies with phylum, depth, and vegetation type

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Machine learning leveraging genomes from metagenomes identifies influential antibiotic resistance genes in the infant gut microbiome

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Strain-level overlap between infant and hospital fungal microbiomes revealed through de novo assembly of eukaryotic genomes from metagenomes

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Stable isotope informed genome-resolved metagenomics reveals that Saccharibacteria utilize microbially processed plant derived carbon

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Hospitalized premature infants are colonized by related bacterial strains with distinct proteomic profiles

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Lateral gene transfer shapes the distribution of RuBisCO among Candidate Phyla Radiation bacteria and DPANN archaea

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Hydrogen-based metabolism - An ancestral trait in lineages sibling to the Cyanobacteria

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Wide distribution of phage that infect freshwater SAR11 bacteria

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Microbial diversity and metabolic potential in cyanotoxin producing cyanobacterial mats throughout a river network

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Aquatic Elusimicrobia are metabolically diverse compared to gut microbiome Elusimicrobia and some have novel nitrogenase-like gene clusters

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Increased Replication of Dissimilatory Nitrate-Reducing Bacteria Leads to Decreased Anammox Bioreactor Performance

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Huge and variable diversity of episymbiotic CPR bacteria and DPANN archaea in groundwater ecosystems

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Processing of grassland soil C-N compounds into soluble and volatile molecules is depth stratified and mediated by genomically novel bacteria and archaea

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Lipid analysis of CO2-rich subsurface aquifers suggests an autotrophy-based deep biosphere with lysolipids enriched in CPR bacteria

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Functional potential of bacterial strains in the premature infant gut microbiome is associated with gestational age

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Unusual metabolism and hypervariation in the genome of a Gracilibacteria (BD1-5) from an oil degrading community

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Large Freshwater Phages with the Potential to Augment Aerobic Methane Oxidation

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Homologous recombination and transposon propagation shapes the population structure of an organism from the deep subsurface with minimal metabolism

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The rise of diversity in metabolic platforms across the Candidate Phyla Radiation

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Genome-resolved metagenomics and detailed geochemical speciation analyses yield new insights into microbial mercury cycling in geothermal springs

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Differential gene expression and the importance of regulatory ncRNAs in acidophilic microorganisms

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Shifts in microbial transcription patterns prior to onset of Necrotizing enterocolitis may indicate low oxygen levels in the gut

microbiology more details view paper
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Taxonomically and metabolically distinct microbial communities with depth and across a hillslope to riparian zone transect

bioinformatics more details view paper
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Microbial communities across a hillslope-riparian transect shaped by proximity to the stream, groundwater table, and weathered bedrock

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Genetic and behavioral adaptation of Candida parapsilosis to the microbiome of hospitalized infants revealed by in situ genomics, transcriptomics and proteomics

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Thiocyanate and organic carbon inputs drive convergent selection for specific autotrophic Afipia and Thiobacillus strains within complex microbiomes

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Subsurface carbon monoxide oxidation capacity revealed through genome-resolved metagenomics of a carboxydotroph

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