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List of works by Jillian Banfield

(15)N- and (2)H proteomic stable isotope probing links nitrogen flow to archaeal heterotrophic activity.

scientific article published on 20 May 2014

A Functional Mini-Integrase in a Two-Protein-type V-C CRISPR System ⬇️

scientific article published on 29 January 2019

A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry.

scientific article

A large colonial choanoflagellate from Mono Lake harbors live bacteria ⬇️

journal article from 'mBio' published in August 2024

A new view of the tree of life

scientific article (publication date: 11 April 2016)

A novel Chromatiales bacterium is a potential sulfide oxidizer in multiple orders of marine sponges.

scientific article

A novel three-unit tRNA splicing endonuclease found in ultrasmall Archaea possesses broad substrate specificity.

scientific article

A portable cryo-plunger for on-site intact cryogenic microscopy sample preparation in natural environments.

scientific article

A scoutRNA Is Required for Some Type V CRISPR-Cas Systems

scientific article published on 30 June 2020

A semi-quantitative, synteny-based method to improve functional predictions for hypothetical and poorly annotated bacterial and archaeal genes

scientific article

A subset of viruses thrives following microbial resuscitation during rewetting of a seasonally dry California grassland soil

scientific article published in 2023

A unified description of attachment-based crystal growth

scientific article published on 7 July 2014

AMD biofilms: using model communities to study microbial evolution and ecological complexity in nature.

scientific article published on 18 February 2010

Accurate and complete genomes from metagenomes

scientific article published on 18 March 2020

Accurate, multi-kb reads resolve complex populations and detect rare microorganisms

scientific article

Acid mine drainage biogeochemistry at Iron Mountain, California.

scientific article published on 30 June 2004

Aggregation-based crystal growth and microstructure development in natural iron oxyhydroxide biomineralization products

scientific article

An archaeal symbiont-host association from the deep terrestrial subsurface

scientific article published on 02 May 2019

Analysis and simulation of the structure of nanoparticles that undergo a surface-driven structural transformation.

scientific article published in June 2004

Analysis of Microbial Communities Associated with Bioremediation Systems for Thiocyanate-Laden Mine Water Effluents

article published in 2017

Analysis of biostimulated microbial communities from two field experiments reveals temporal and spatial differences in proteome profiles

scientific article

Analysis of five complete genome sequences for members of the class Peribacteria in the recently recognized Peregrinibacteria bacterial phylum.

scientific article published on 28 January 2016

Analysis of streptococcal CRISPRs from human saliva reveals substantial sequence diversity within and between subjects over time.

scientific article

Aquifer environment selects for microbial species cohorts in sediment and groundwater

scientific article published on 3 February 2015

Architecture and gene repertoire of the flexible genome of the extreme acidophile Acidithiobacillus caldus.

scientific article

Are Anterior Communicating Aneurysms Truly Anterior Communicating Aneurysms? An Observational Study

scientific article published on 18 February 2019

Arsenic resistance in the archaeon "Ferroplasma acidarmanus": new insights into the structure and evolution of the ars genes.

scientific article published on 16 January 2003

Asgard archaea illuminate the origin of eukaryotic cellular complexity.

scientific article published on 11 January 2017

Assembly-driven community genomics of a hypersaline microbial ecosystem

scientific article

Author Correction: Hydrogen-based metabolism as an ancestral trait in lineages sibling to the Cyanobacteria

scientific article published on 26 March 2019

Bacterial Secondary Metabolite Biosynthetic Potential in Soil Varies with Phylum, Depth, and Vegetation Type

scientific article published on 16 June 2020

Bicarbonate impact on U(VI) bioreduction in a shallow alluvial aquifer

scholarly article

Biological capacities clearly define a major subdivision in Domain Bacteria

Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface

scientific article published on 26 November 2014

Bioreactor microbial ecosystems for thiocyanate and cyanide degradation unravelled with genome-resolved metagenomics.

scientific article published in June 2015

Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community

scientific article published on 29 November 2012

Biosynthetic capacity, metabolic variety and unusual biology in the CPR and DPANN radiations

scientific article published on 01 October 2018

Borg extrachromosomal elements of methane-oxidizing archaea have conserved and expressed genetic repertoires

scientific article published in 2024

CRISPR immunity drives rapid phage genome evolution in Streptococcus thermophilus

scientific article

CRISPR-CasΦ from huge phages is a hypercompact genome editor

scientific article published on 01 July 2020

CRYSTAL GROWTH. Crystallization by particle attachment in synthetic, biogenic, and geologic environments. ⬇️

scientific article

Candidate Phyla Radiation Roizmanbacteria From Hot Springs Have Novel and Unexpectedly Abundant CRISPR-Cas Systems

article

Candidatus Mycoplasma girerdii replicates, diversifies, and co-occurs with Trichomonas vaginalis in the oral cavity of a premature infant

scientific article

Characteristics of attachment and growth of Thiobacillus caldus on sulphide minerals: a chemotactic response to sulphur minerals?

scientific article published on 01 June 2000

Characterization of cytochrome 579, an unusual cytochrome isolated from an iron-oxidizing microbial community

scientific article published on 9 May 2008

Characterization of extracellular polymeric substances from acidophilic microbial biofilms

scientific article

Characterization of titanium dioxide nanoparticles using molecular dynamics simulations

scientific article

Clades of huge phages from across Earth's ecosystems

scientific article published on 12 February 2020

Combined analysis of microbial metagenomic and metatranscriptomic sequencing data to assess in situ physiological conditions in the premature infant gut

scientific article published on 04 March 2020

Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling

scientific article published on 05 August 2013

Community genomic and proteomic analyses of chemoautotrophic iron-oxidizing "Leptospirillum rubarum" (Group II) and "Leptospirillum ferrodiazotrophum" (Group III) bacteria in acid mine drainage biofilms

scientific article

Community genomics in microbial ecology and evolution

scientific article

Community proteogenomics highlights microbial strain-variant protein expression within activated sludge performing enhanced biological phosphorus removal

scientific article

Community proteomics of a natural microbial biofilm

scientific article published on 5 May 2005

Community transcriptomics reveals unexpected high microbial diversity in acidophilic biofilm communities

scientific article

Community-wide analysis of microbial genome sequence signatures

scientific article

Comparative genomics in acid mine drainage biofilm communities reveals metabolic and structural differentiation of co-occurring archaea

scientific article

Comparison of acid mine drainage microbial communities in physically and geochemically distinct ecosystems.

scientific article

Comparison of environmental and isolate Sulfobacillus genomes reveals diverse carbon, sulfur, nitrogen, and hydrogen metabolisms

scientific article

Complete 4.55-Megabase-Pair Genome of "Candidatus Fluviicola riflensis," Curated from Short-Read Metagenomic Sequences

scientific article

Compressibility and structural stability of nanoparticulate goethite

scholarly article in RSC Advances, vol. 2 no. 17, 2012

Computational prediction and experimental validation of signal peptide cleavages in the extracellular proteome of a natural microbial community

scientific article

Concentrations and Sources of Airborne Particles in a Neonatal Intensive Care Unit

scientific article

Consistent Metagenome-Derived Metrics Verify and Delineate Bacterial Species Boundaries

scientific article published on 14 January 2020

Contingency in the direction and mechanics of soil organic matter responses to increased rainfall

article

Correlative TEM and FISH Imaging of Microbial Communities

Correlative cryogenic spectro-microscopy to investigate Selenium bioreduction products.

scientific article published on 15 September 2015

Correlative microscopy for phylogenetic and ultrastructural characterization of microbial communities

scientific article published on 22 August 2011

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

scientific article published in February 2018

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

article

Critical biogeochemical functions in the subsurface are associated with bacteria from new phyla and little studied lineages

scientific article

Cultivating the uncultivated: a community genomics perspective

scientific article

Cultivation and quantitative proteomic analyses of acidophilic microbial communities

scientific article

Cytochrome 572 is a conspicuous membrane protein with iron oxidation activity purified directly from a natural acidophilic microbial community

scientific article published on 28 February 2008

De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities

scientific article

De novo sequences of Haloquadratum walsbyi from Lake Tyrrell, Australia, reveal a variable genomic landscape.

scientific article

Despite strong seasonal responses, soil microbial consortia are more resilient to long-term changes in rainfall than overlying grassland.

scientific article

Determination of the three-dimensional structure of ferrihydrite nanoparticle aggregates

scientific article

Deuterium-exchange metabolomics identifies N-methyl lyso phosphatidylethanolamines as abundant lipids in acidophilic mixed microbial communities

Development of an enhanced metaproteomic approach for deepening the microbiome characterization of the human infant gut.

scientific article

Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface.

scientific article published on 29 January 2018

Digital Subtraction Angiography for CT Angiogram Negative Haemorrhages

scientific article published on 01 September 2018

Direct microbial reduction and subsequent preservation of uranium in natural near-surface sediment

scientific article

Direction-specific interactions control crystal growth by oriented attachment

scientific article published on 01 May 2012

Distribution of Thiobacillus ferrooxidans and Leptospirillum ferrooxidans : Implications for Generation of Acid Mine Drainage ⬇️

scientific article published on March 6, 1998

Disturbances of the Perioperative Microbiome Across Multiple Body Sites in Patients Undergoing Pancreaticoduodenectomy

scientific article published on 11 November 2016

Disturbed subsurface microbial communities follow equivalent trajectories despite different structural starting points.

scientific article

Diverse Microorganisms in Sediment and Groundwater Are Implicated in Extracellular Redox Processes Based on Genomic Analysis of Bioanode Communities

scientific article published on 28 July 2020

Diverse and divergent protein post-translational modifications in two growth stages of a natural microbial community

scientific article

Diverse uncultivated ultra-small bacterial cells in groundwater

scientific article

Diversity of dissimilatory sulfite reductase genes (dsrAB) in a salt marsh impacted by long-term acid mine drainage

scientific article

Dynamic viral populations in hypersaline systems as revealed by metagenomic assembly

scientific article

EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data

scientific article

Early stage formation of iron oxyhydroxides during neutralization of simulated acid mine drainage solutions

scientific article

Ecological and genomic profiling of anaerobic methane-oxidizing archaea in a deep granitic environment.

scientific article published on 8 September 2017

Ecological distribution and population physiology defined by proteomics in a natural microbial community.

scientific article

Effect of rainfall-induced soil geochemistry dynamics on grassland soil microbial communities

scientific article

Electrodic voltages accompanying stimulated bioremediation of a uranium-contaminated aquifer

scholarly article

Elevated temperature alters proteomic responses of individual organisms within a biofilm community.

scientific article

Energetics of nanocrystalline TiO2

scientific article

Enhanced Adsorption of Molecules on Surfaces of Nanocrystalline Particles

article

Enigmatic, ultrasmall, uncultivated Archaea.

scientific article

Environmental Risks of Nanotechnology: National Nanotechnology Initiative Funding, 2000−2004

scientific article published on 01 March 2006

Evidence for persistent and shared bacterial strains against a background of largely unique gut colonization in hospitalized premature infants.

scientific article published on 3 June 2016

Expanded diversity of microbial groups that shape the dissimilatory sulfur cycle

scientific article published on 21 February 2018

Extracellular electron transfer powers flavinylated extracellular reductases in Gram-positive bacteria

scientific article published on 09 December 2019

Extracellular proteins limit the dispersal of biogenic nanoparticles.

scientific article published in June 2007

Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment.

scientific article published on January 2013

Extremely acidophilic protists from acid mine drainage host Rickettsiales-lineage endosymbionts that have intervening sequences in their 16S rRNA genes.

scientific article

Fermentation, hydrogen, and sulfur metabolism in multiple uncultivated bacterial phyla

scientific article published in September 2012

Fluctuations in species-level protein expression occur during element and nutrient cycling in the subsurface

scientific article

Formation of sphalerite (ZnS) deposits in natural biofilms of sulfate-reducing bacteria

scientific article published on 01 December 2000

Functional metagenomic selection of ribulose 1, 5-bisphosphate carboxylase/oxygenase from uncultivated bacteria

scientific article

Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage

scientific article published on 3 March 2016

Galvanic interpretation of self-potential signals associated with microbial sulfate-reduction

scholarly article

Gene Transfer from Bacteria and Archaea Facilitated Evolution of an Extremophilic Eukaryote

scientific article

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

scientific article published on 21 June 2021

Genetic exchange across a species boundary in the archaeal genus ferroplasma

scientific article

Genome dynamics in a natural archaeal population

scientific article

Genome resolved analysis of a premature infant gut microbial community reveals a Varibaculum cambriense genome and a shift towards fermentation-based metabolism during the third week of life

scientific article published on 17 December 2013

Genome-Resolved Meta-Omics Ties Microbial Dynamics to Process Performance in Biotechnology for Thiocyanate Degradation.

scientific article

Genome-Resolved Metagenomic Analysis Reveals Roles for Candidate Phyla and Other Microbial Community Members in Biogeochemical Transformations in Oil Reservoirs.

scientific article published on 19 January 2016

Genome-Resolved Proteomic Stable Isotope Probing of Soil Microbial Communities Using 13CO2 and 13C-Methanol

scientific article published on 06 December 2019

Genome-directed isolation of the key nitrogen fixer Leptospirillum ferrodiazotrophum sp. nov. from an acidophilic microbial community

scientific article

Genome-reconstruction for eukaryotes from complex natural microbial communities.

scientific article published in March 2018

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

scientific article published on 15 May 2020

Genome-resolved metagenomics of a bioremediation system for degradation of thiocyanate in mine water containing suspended solid tailings

scientific article

Genome-resolved metagenomics of an autotrophic thiocyanate-remediating microbial bioreactor consortium

scientific article published on 23 March 2019

Genome-resolved metagenomics of eukaryotic populations during early colonization of premature infants and in hospital rooms

scientific article published in 2019

Genome-resolved metagenomics reveals role of iron metabolism in drought-induced rhizosphere microbiome dynamics

scientific article published on 28 May 2021

Genome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals species-specific metabolic shifts and variabilities during early life.

scientific article published on 10 July 2017

Genomic expansion of domain archaea highlights roles for organisms from new phyla in anaerobic carbon cycling.

scientific article

Genomic resolution of a cold subsurface aquifer community provides metabolic insights for novel microbes adapted to high CO2 concentrations.

scientific article published on 26 April 2016

Geomicrobiology: how molecular-scale interactions underpin biogeochemical systems.

scientific article

Geophysical imaging of stimulated microbial biomineralization.

scientific article published in October 2005

Geophysical monitoring of coupled microbial and geochemical processes during stimulated subsurface bioremediation

scientific article published in September 2009

Glycogen-accumulating organisms in laboratory-scale and full-scale wastewater treatment processes

scientific article

Groundwater Elusimicrobia are metabolically diverse compared to gut microbiome Elusimicrobia and some have a novel nitrogenase paralog

scientific article published on 17 July 2020

Gut bacteria are rarely shared by co-hospitalized premature infants, regardless of necrotizing enterocolitis development.

scientific article

Heterotrophic archaea contribute to carbon cycling in low-pH, suboxic biofilm communities

scientific article

High-density PhyloChip profiling of stimulated aquifer microbial communities reveals a complex response to acetate amendment

scientific article

High-resolution and analytical transmission electron microscopy of mineral disorder and reactions.

scientific article

Homologous Recombination and Transposon Propagation Shape the Population Structure of an Organism from the Deep Subsurface with Minimal Metabolism.

scientific article published in April 2018

Hospitalized Premature Infants Are Colonized by Related Bacterial Strains with Distinct Proteomic Profiles.

scientific article published on 10 April 2018

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

scientific article published on 15 May 2020

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

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

scientific article published in Nature Communications

Identical bacterial populations colonize premature infant gut, skin, and oral microbiomes and exhibit different in situ growth rates

scientific article published on 10 January 2017

Identification of biofilm matrix-associated proteins from an acid mine drainage microbial community.

scientific article

Identification of simultaneous U(VI) sorption complexes and U(IV) nanoprecipitates on the magnetite (111) surface

scientific article

Impacts of ionic strength on three-dimensional nanoparticle aggregate structure and consequences for environmental transport and deposition.

scientific article published on 19 November 2014

Impacts of microbial assemblage and environmental conditions on the distribution of anatoxin-a producing cyanobacteria within a river network

scientific article published on 26 February 2019

Imperfect Oriented Attachment: Dislocation Generation in Defect-Free Nanocrystals

scientific article

Implications of strain- and species-level sequence divergence for community and isolate shotgun proteomic analysis.

scientific article published on 28 June 2007

Improved genome annotation through untargeted detection of pathway-specific metabolites

scientific article

In situ evolutionary rate measurements show ecological success of recently emerged bacterial hybrids.

scientific article published in April 2012

Increased replication of dissimilatory nitrate-reducing bacteria leads to decreased anammox bioreactor performance

scientific article published on 24 January 2020

Influence of surface potential on aggregation and transport of titania nanoparticles.

scientific article

Insights into the diversity of eukaryotes in acid mine drainage biofilm communities.

scientific article

Insights into the ecology, evolution, and metabolism of the widespread Woesearchaeotal lineages.

scientific article

Inter-species interconnections in acid mine drainage microbial communities

scientific article published on 25 July 2014

Interaction between water molecules and zinc sulfide nanoparticles studied by temperature-programmed desorption and molecular dynamics simulations.

scientific article published on 23 May 2007

Investigating processes of nanocrystal formation and transformation via liquid cell TEM.

scientific article

Ion exchange selectivity in clay is controlled by nanoscale chemical-mechanical coupling

scientific article published on 16 October 2019

Iron-reducing bacteria accumulate ferric oxyhydroxide nanoparticle aggregates that may support planktonic growth

scientific article

Kinetics and mechanism of polythionate oxidation to sulfate at low pH by O2 and Fe3+

article

Large freshwater phages with the potential to augment aerobic methane oxidation

scientific article published on 24 August 2020

Lateral Gene Transfer Shapes the Distribution of RuBisCO among Candidate Phyla Radiation Bacteria and DPANN Archaea

scientific article published on 01 March 2019

Leaching and reconstruction at the surfaces of dissolving chain-silicate minerals

scientific article published in Nature

Lineages of acidophilic archaea revealed by community genomic analysis

scientific article published in December 2006

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

scientific article published on 13 March 2020

Machine Learning Leveraging Genomes from Metagenomes Identifies Influential Antibiotic Resistance Genes in the Infant Gut Microbiome.

scientific article

Major New Microbial Groups Expand Diversity and Alter our Understanding of the Tree of Life.

scientific article published in March 2018

Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems

scientific article published on 3 February 2016

Meanders as a scaling motif for understanding of floodplain soil microbiome and biogeochemical potential at the watershed scale

scientific article published on 22 May 2021

Measurement of bacterial replication rates in microbial communities.

scientific article

Mechanism of Ferric Oxalate Photolysis

Mechanism of inhibition of nanoparticle growth and phase transformation by surface impurities

scientific article published on 07 March 2007

Mediterranean grassland soil C-N compound turnover is dependent on rainfall and depth, and is mediated by genomically divergent microorganisms

scientific article published on 20 May 2019

Megaphages infect Prevotella and variants are widespread in gut microbiomes

scientific article published on 28 January 2019

Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer

scientific article

Metabolically active eukaryotic communities in extremely acidic mine drainage.

scientific article published on October 2004

Metabolites associated with adaptation of microorganisms to an acidophilic, metal-rich environment identified by stable-isotope-enabled metabolomics

scientific article published on 12 March 2013

Metabolome-proteome differentiation coupled to microbial divergence

scientific article

Metagenomic analysis of a high carbon dioxide subsurface microbial community populated by chemolithoautotrophs and bacteria and archaea from candidate phyla

scientific article

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

scientific article published in October 2018

Metagenomic and lipid analyses reveal a diel cycle in a hypersaline microbial ecosystem

scientific article published on 28 April 2015

Metagenomic reconstructions of bacterial CRISPR loci constrain population histories.

scientific article published on 22 September 2015

Metagenomic recovery of two distinct comammox Nitrospira from the terrestrial subsurface

scientific article published on 10 June 2019

Metaproteomics reveals functional shifts in microbial and human proteins during a preterm infant gut colonization case

scientific article published on 16 June 2015

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

scientific article published on 26 November 2019

Microbes in the neonatal intensive care unit resemble those found in the gut of premature infants.

scientific article

Microbial Community Structure and the Persistence of Cyanobacterial Populations in Salt Crusts of the Hyperarid Atacama Desert from Genome-Resolved Metagenomics.

scientific article published on 28 July 2017

Microbial Metagenomics Reveals Climate-Relevant Subsurface Biogeochemical Processes

scientific article published on 3 May 2016

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

scientific article published on 13 June 2019

Microbial communities in acid mine drainage.

scientific article

Microbial polysaccharides template assembly of nanocrystal fibers.

scientific article published in March 2004

Microbial populations stimulated for hexavalent uranium reduction in uranium mine sediment.

scientific article

Microbiology. Genomes from metagenomics.

scientific article published in November 2013

Microbiology. Variety--the splice of life--in microbial communities.

scientific article

Microscopic evidence for liquid-liquid separation in supersaturated CaCO3 solutions.

scientific article published in August 2013

Mineralogical biosignatures and the search for life on Mars.

scientific article

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

scientific article

Molecular Dynamics Simulation Study of the Early Stages of Nucleation of Iron Oxyhydroxide Nanoparticles in Aqueous Solutions.

scientific article

Molecular Dynamics Simulations, Thermodynamic Analysis, and Experimental Study of Phase Stability of Zinc Sulfide Nanoparticles

article

NIBBS-search for fast and accurate prediction of phenotype-biased metabolic systems.

scientific article

Nanometre-size products of uranium bioreduction

scientific article published in September 2002

Nanoparticles: strained and stiff.

scientific article published in July 2004

Natural acidophilic biofilm communities reflect distinct organismal and functional organization

scientific article

Necrotizing enterocolitis is preceded by increased gut bacterial replication, Klebsiella, and fimbriae-encoding bacteria

scientific article published on 11 December 2019

New CRISPR-Cas systems from uncultivated microbes.

scientific article

New approaches indicate constant viral diversity despite shifts in assemblage structure in an Australian hypersaline lake

scientific article

New group in the Leptospirillum clade: cultivation-independent community genomics, proteomics, and transcriptomics of the new species "Leptospirillum group IV UBA BS".

scientific article

Niche differentiation is spatially and temporally regulated in the rhizosphere

scientific article published on 17 January 2020

Novel Microbial Diversity and Functional Potential in the Marine Mammal Oral Microbiome

scientific article published on 8 November 2017

Novel bacterial clade reveals origin of form I Rubisco

scientific article published on 31 August 2020

Novel soil bacteria possess diverse genes for secondary metabolite biosynthesis

scientific article published in Nature

Oriented attachment and growth, twinning, polytypism, and formation of metastable phases; insights from nanocrystalline TiO2

scholarly article in American Mineralogist, vol. 83 no. 9-10, October 1998

Particle size effects on transformation kinetics and phase stability in nanocrystalline TiO2

scholarly article in American Mineralogist, vol. 82 no. 7-8, August 1997

Persisting viral sequences shape microbial CRISPR-based immunity

scientific article

Phage mutations in response to CRISPR diversification in a bacterial population

scientific article

Phage-induced expression of CRISPR-associated proteins is revealed by shotgun proteomics in Streptococcus thermophilus

scientific article (publication date: 2012)

Polymorphic Transformations and Particle Coarsening in Nanocrystalline Titania Ceramic Powders and Membranes

article published in 2007

Population genomic analysis of strain variation in Leptospirillum group II bacteria involved in acid mine drainage formation

scientific article (publication date: 22 July 2008)

Population genomics in natural microbial communities

scientific article published on 20 July 2006

Posterior Reversible Encephalopathy Syndrome: A Review

scientific article published on 25 January 2017

Posttranslational modification and sequence variation of redox-active proteins correlate with biofilm life cycle in natural microbial communities.

scientific article published on 20 May 2010

Potential for microbial H2 and metal transformations associated with novel bacteria and archaea in deep terrestrial subsurface sediments.

scientific article

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

Programmed DNA destruction by miniature CRISPR-Cas14 enzymes

scientific article published in Science

Prokaryotic Super Program Advisory Committee DOE Joint Genome Institute, Walnut Creek, CA, March 27, 2013.

scientific article published on 30 July 2013

Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone

scientific article

Proteogenomic approaches for the molecular characterization of natural microbial communities

scientific article

Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities.

scientific article

Proteogenomic monitoring of Geobacter physiology during stimulated uranium bioremediation

scientific article published on 28 August 2009

Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community

scientific article published on 25 April 2011

Proteomics-inferred genome typing (PIGT) demonstrates inter-population recombination as a strategy for environmental adaptation.

scientific article published on 23 September 2008

Putative Mixotrophic Nitrifying-Denitrifying Gammaproteobacteria Implicated in Nitrogen Cycling Within the Ammonia/Oxygen Transition Zone of an Oil Sands Pit Lake

scientific article published on 24 October 2019

Quantifying Heavy Metals Sequestration by Sulfate-Reducing Bacteria in an Acid Mine Drainage-Contaminated Natural Wetland ⬇️

scientific article published on March 12, 2013

Quantitative metaproteomics: functional insights into microbial communities.

scientific article published in January 2014

Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions

scientific article

Quantitative tracking of isotope flows in proteomes of microbial communities

scientific article

Rapid Arsenite Oxidation byThermus aquaticusandThermus thermophilus: Field and Laboratory Investigations

article

Rapidly evolving CRISPRs implicated in acquired resistance of microorganisms to viruses.

scientific article

Recoding of the stop codon UGA to glycine by a BD1-5/SN-2 bacterium and niche partitioning between Alpha- and Gammaproteobacteria in a tidal sediment microbial community naturally selected in a laboratory chemostat

scientific article

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

scientific article published on 28 May 2018

Reply to Delmont and Eren: Strain variants and population structure during the Deepwater Horizon oil spill

scientific article published on 10 October 2017

Retroelement-guided protein diversification abounds in vast lineages of Bacteria and Archaea.

scientific article published on 3 April 2017

Reversible, Surface-Controlled Structure Transformation in Nanoparticles Induced by an Aggregation State

scientific article

RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria

scientific article published on 03 May 2016

Saccharibacteria harness light energy using type-1 rhodopsins that may rely on retinal sourced from microbial hosts

scientific article published in 2022

Seasonal fluctuations in ionic concentrations drive microbial succession in a hypersaline lake community.

scientific article

Short- and Long-Range Attractive Forces That Influence the Structure of Montmorillonite Osmotic Hydrates.

scientific article published on 10 November 2016

Short-read assembly of full-length 16S amplicons reveals bacterial diversity in subsurface sediments

scientific article

Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders

scientific article

Size-Dependent Bandgap of Nanogoethite

Size-dependent phase transformation kinetics in nanocrystalline ZnS.

scientific article

Small genomes and sparse metabolisms of sediment-associated bacteria from four candidate phyla

scientific article

Soil bacterial populations are shaped by recombination and gene-specific selection across a grassland meadow

scientific article published on 23 April 2020

Soils and sediments host Thermoplasmata archaea encoding novel copper membrane monooxygenases (CuMMOs)

scientific article published on 05 January 2022

Special phase transformation and crystal growth pathways observed in nanoparticles†.

scientific article published on 7 November 2003

Spectral identification of hydrated sulfates on Mars and comparison with acidic environments on Earth

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

scientific article published on 3 July 2018

Stable-isotope probing reveals that hydrogen isotope fractionation in proteins and lipids in a microbial community are different and species-specific.

scientific article published on 5 June 2013

Strain-resolved analysis of hospital rooms and infants reveals overlap between the human and room microbiome.

scientific article

Strain-resolved community genomic analysis of gut microbial colonization in a premature infant

scientific article

Strain-resolved community proteomics reveals recombining genomes of acidophilic bacteria.

scientific article published on 7 March 2007

Strain-resolved microbial community proteomics reveals simultaneous aerobic and anaerobic function during gastrointestinal tract colonization of a preterm infant ⬇️

scientific article published on July 2015

Strainer: software for analysis of population variation in community genomic datasets.

scientific article

Strong bias in the bacterial CRISPR elements that confer immunity to phage.

scientific article

Structural characteristics and mechanical and thermodynamic properties of nanocrystalline TiO2.

scientific article published on 15 July 2014

Structure of the bacterial ribosome at 2 Å resolution

scientific article published on 14 September 2020

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

scientific article published on 06 July 2020

Sulfate requirement for heterotrophic growth of "Ferroplasma acidarmanus" strain fer1.

scientific article published on 19 February 2005

Sulfate-reducing bacteria-dominated biofilms that precipitate ZnS in a subsurface circumneutral-pH mine drainage system.

scientific article

Surface chemistry controls crystallinity of ZnS nanoparticles.

scientific article published in April 2006

Systems biology: Functional analysis of natural microbial consortia using community proteomics

scientific article published on March 2009

Tetraether-linked membrane monolayers in Ferroplasma spp: a key to survival in acid.

scientific article

The East River, Colorado, Watershed: A Mountainous Community Testbed for Improving Predictive Understanding of Multiscale Hydrological-Biogeochemical Dynamics

article published in 2018

The Source and Evolutionary History of a Microbial Contaminant Identified Through Soil Metagenomic Analysis

scientific article published on 21 February 2017

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

scientific article published on 20 June 2018

The distinction of CPR bacteria from other bacteria based on protein family content

scientific article published on 13 September 2019

The dynamic genetic repertoire of microbial communities

scientific article (publication date: 2009)

The effect of Fe-oxidizing bacteria on Fe-silicate mineral dissolution

scholarly article

The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria

scientific article

The size dependence of the surface free energy of titania nanocrystals.

scientific article published on 11 February 2009

Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system.

scientific article published on 24 October 2016

Three-dimensional analysis of the structure and ecology of a novel, ultra-small archaeon.

scientific article

Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization

scientific article

Titania nanorods curve to lower their energy.

scientific article

U(VI) sorption and reduction kinetics on the magnetite (111) surface.

scientific article published on 14 March 2012

Unravelling ancient microbial history with community proteogenomics and lipid geochemistry.

scientific article

Unusual Metabolism and Hypervariation in the Genome of a Gracilibacterium (BD1-5) from an Oil-Degrading Community

scientific article published on 12 November 2019

Unusual biology across a group comprising more than 15% of domain Bacteria.

scientific article

Unusual respiratory capacity and nitrogen metabolism in a Parcubacterium (OD1) of the Candidate Phyla Radiation

scientific article published on 09 January 2017

Vanadate and acetate biostimulation of contaminated sediments decreases diversity, selects for specific taxa, and decreases aqueous V5+ concentration.

scientific article published on 10 June 2013

Virus population dynamics and acquired virus resistance in natural microbial communities

scientific article

Virus-host and CRISPR dynamics in Archaea-dominated hypersaline Lake Tyrrell, Victoria, Australia

scientific article

Water-driven structure transformation in nanoparticles at room temperature

scientific article (publication date: 28 August 2003)

Wide Distribution of Phage That Infect Freshwater SAR11 Bacteria

scientific article published on 22 October 2019

Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea

scientific article published on 04 March 2019

X-ray structure of the fourth type of archaeal tRNA splicing endonuclease: insights into the evolution of a novel three-unit composition and a unique loop involved in broad substrate specificity

scientific article

dRep: a tool for fast and accurate genomic comparisons that enables improved genome recovery from metagenomes through de-replication.

scientific article

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