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Kim M. Handley · SciRah

Researcher profile · Semantic Scholar

Kim M. Handley

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Kim M. Handley — researcher profile on SciRah

h-index: 35
Works: 79
Citations: 10K

Most-cited papers

Programmable base editing of A•T to G•C in genomic DNA without DNA cleavage
L. Thompson, Jon G. Sanders, D. McDonald, Amnon Amir +299 more
2017Nature5,510 citations Open access
Semantic Scholar
Longitudinal analysis of microbial interaction between humans and the indoor environment
S. Lax, Daniel Patrick Smith, J. Hampton-Marcell, S. Owens +16 more
2014Science883 citations Open access
Semantic Scholar
Colonization and Succession of Hospital-Associated Microbiota
S. Lax, N. Sangwan, Daniel Patrick Smith, Peter E. Larsen +16 more
2017Science Translational Medicine311 citations Open access
Semantic Scholar
Small Genomes and Sparse Metabolisms of Sediment-Associated Bacteria from Four Candidate Phyla
Rose S. Kantor, K. Wrighton, Kim M. Handley, Itai Sharon +4 more
2013mBio293 citations Open access
Semantic Scholar
Genome reduction in an abundant and ubiquitous soil bacterium ‘Candidatus Udaeobacter copiosus’
T. Brewer, Kim M. Handley, P. Carini, J. Gilbert +1 more
2016Nature Microbiology206 citations Open access
Semantic Scholar
Short-Read Assembly of Full-Length 16S Amplicons Reveals Bacterial Diversity in Subsurface Sediments
C. Miller, Kim M. Handley, K. Wrighton, K. Frischkorn +2 more
2013PLoS ONE202 citations Open access
Semantic Scholar
Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer
K. Wrighton, C. Castelle, M. Wilkins, L. Hug +10 more
2014The ISME Journal189 citations Open access
Semantic Scholar
Methods for the extraction, storage, amplification and sequencing of DNA from environmental samples
G. Lear, I. Dickie, J. Banks, S. Boyer +14 more
2018185 citations Open access
Semantic Scholar
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
D. Páez-Espino, I-Min A. Chen, K. Palaniappan, A. Ratner +28 more
2016Nucleic Acids Res.184 citations Open access
Semantic Scholar
Nitrogen cycling and microbial cooperation in the terrestrial subsurface
Olivia E. Mosley, Emilie Gios, M. Close, L. Weaver +2 more
2022The ISME Journal177 citations Open access
Semantic Scholar
Phylogenetic Distribution of Plastic-Degrading Microorganisms
V. Gambarini, O. Pantos, J. Kingsbury, L. Weaver +2 more
2021mSystems165 citations Open access
Semantic Scholar
Metabolic Reconstruction and Modeling Microbial Electrosynthesis
C. Marshall, Daniel E. Ross, Kim M. Handley, P. Weisenhorn +5 more
2016bioRxiv128 citations Open access
Semantic Scholar
Biogeochemical implications of the ubiquitous colonization of marine habitats and redox gradients by Marinobacter species
Kim M. Handley, J. Lloyd
2013Frontiers in Microbiology116 citations Open access
Semantic Scholar
Lifestyle Evolution in Cyanobacterial Symbionts of Sponges
I. Burgsdorf, B. M. Slaby, Kim M. Handley, M. Haber +5 more
2015mBio112 citations Open access
Semantic Scholar
Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community
Kim M. Handley, N. Verberkmoes, C. Steefel, K. Williams +9 more
2012The ISME Journal102 citations Open access
Semantic Scholar
Tracing Biosignature Preservation of Geothermally Silicified Microbial Textures into the Geological Record
K. Campbell, B. Lynne, Kim M. Handley, S. Jordan +5 more
2015Astrobiology97 citations Open access
Semantic Scholar
Vanadate and acetate biostimulation of contaminated sediments decreases diversity, selects for specific taxa, and decreases aqueous V5+ concentration.
A. Yelton, K. Williams, J. Fournelle, K. Wrighton +2 more
2013Environmental Science and Technology93 citations
Semantic Scholar
Silicifying Biofilm Exopolymers on a Hot-Spring Microstromatolite: Templating Nanometer-Thick Laminae
Kim M. Handley, S. Turner, K. Campbell, B. Mountain
2008Astrobiology87 citations
Semantic Scholar
PlasticDB: a database of microorganisms and proteins linked to plastic biodegradation
V. Gambarini, O. Pantos, J. Kingsbury, L. Weaver +2 more
2022Database J. Biol. Databases Curation78 citations Open access
Semantic Scholar
Metabolic potential of fatty acid oxidation and anaerobic respiration by abundant members of Thaumarchaeota and Thermoplasmata in deep anoxic peat
Xue-Ju Lin, Kim M. Handley, J. Gilbert, J. Kostka
2015The ISME Journal76 citations Open access
Semantic Scholar
Marinobacter santoriniensis sp. nov., an arsenate-respiring and arsenite-oxidizing bacterium isolated from hydrothermal sediment.
Kim M. Handley, M. Héry, J. Lloyd
2009International Journal of Systematic and Evolutionary Microbiology73 citations Open access
Semantic Scholar
The complete genome sequence for putative H₂- and S-oxidizer Candidatus Sulfuricurvum sp., assembled de novo from an aquifer-derived metagenome.
Kim M. Handley, D. Bartels, E. O'Loughlin, K. Williams +10 more
2014Environmental Microbiology72 citations
Semantic Scholar
Responses of Microbial Communities to Hydrocarbon Exposures
S. Joye, S. Kleindienst, J. Gilbert, Kim M. Handley +3 more
201668 citations Open access
Semantic Scholar
Speciation and Reactivity of Uranium Products Formed during in Situ Bioremediation in a Shallow Alluvial Aquifer
D. Alessi, J. Lezama-Pacheco, N. Janot, E. Suvorova +9 more
2014Environmental Science and Technology67 citations Open access
Semantic Scholar
Bicarbonate impact on U(VI) bioreduction in a shallow alluvial aquifer
P. Long, K. Williams, James A. Davis, P. Fox +13 more
201565 citations Open access
Semantic Scholar
Redox cycling of arsenic by the hydrothermal marine bacterium Marinobacter santoriniensis.
Kim M. Handley, M. Héry, J. Lloyd
2009Environmental Microbiology58 citations
Semantic Scholar
Functional diversity of bacteria in a ferruginous hydrothermal sediment
Kim M. Handley, C. Boothman, R. Mills, R. Pancost +1 more
2010The ISME Journal54 citations Open access
Semantic Scholar
High-density PhyloChip profiling of stimulated aquifer microbial communities reveals a complex response to acetate amendment.
Kim M. Handley, K. Wrighton, Y. Piceno, G. Andersen +8 more
2012FEMS Microbiology Ecology53 citations Open access
Semantic Scholar
Genomic adaptations enabling Acidithiobacillus distribution across wide-ranging hot spring temperatures and pHs
C. Sriaporn, K. Campbell, M. Van Kranendonk, Kim M. Handley
2021Microbiome41 citations Open access
Semantic Scholar
Divalent metal adsorption by the thermophile Anoxybacillus flavithermus in single and multi-metal systems
P. G. Burnett, Kim M. Handley, D. Peak, C. Daughney
200741 citations
Semantic Scholar
Metabolic and spatio-taxonomic response of uncultivated seafloor bacteria following the Deepwater Horizon oil spill
Kim M. Handley, Y. Piceno, P. Hu, L. Tom +4 more
2016The ISME Journal40 citations Open access
Semantic Scholar
Disturbed subsurface microbial communities follow equivalent trajectories despite different structural starting points.
Kim M. Handley, K. Wrighton, C. Miller, M. Wilkins +6 more
2015Environmental Microbiology40 citations
Semantic Scholar
Ultra-small bacteria and archaea exhibit genetic flexibility towards groundwater oxygen content, and adaptations for attached or planktonic lifestyles
Emilie Gios, Olivia E. Mosley, L. Weaver, M. Close +2 more
2023ISME Communications37 citations Open access
Semantic Scholar
Characterization of sponge-associated Verrucomicrobia: microcompartment-based sugar utilization and enhanced toxin-antitoxin modules as features of host-associated Opitutales.
S. Sizikov, I. Burgsdorf, Kim M. Handley, Matan Lahyani +2 more
2020Environmental Microbiology36 citations
Semantic Scholar
Bacterial and archaeal community distributions and cosmopolitanism across physicochemically diverse hot springs
C. Sriaporn, K. Campbell, M. Van Kranendonk, Kim M. Handley
2023ISME Communications35 citations Open access
Semantic Scholar
Following Rapoport's Rule: the geographic range and genome size of bacterial taxa decline at warmer latitudes
G. Lear, Kelvin E. M. Lau, A. Perchec, H. Buckley +6 more
2017Environmental Microbiology35 citations Open access
Semantic Scholar
Stromatolitic digitate sinters form under wide‐ranging physicochemical conditions with diverse hot spring microbial communities
C. Sriaporn, K. Campbell, M. Millan, S. Ruff +2 more
2020Geobiology34 citations Open access
Semantic Scholar
Effect of iron redox transformations on arsenic solid-phase associations in an arsenic-rich, ferruginous hydrothermal sediment
Kim M. Handley, J. McBeth, J. Charnock, D. Vaughan +3 more
201334 citations
Semantic Scholar
Genomic Insights Into the Lifestyles of Thaumarchaeota Inside Sponges
M. Haber, I. Burgsdorf, Kim M. Handley, Maxim Rubin‐Blum +1 more
2021Frontiers in Microbiology30 citations Open access
Semantic Scholar
Estuarine microbial diversity and nitrogen cycling increase along sand-mud gradients independent of salinity and distance.
J. S. Boey, R. Mortimer, Agathe Couturier, Katie Worrallo +1 more
2021Environmental Microbiology29 citations
Semantic Scholar
Metabolic Diversity and Aero-Tolerance in Anammox Bacteria from Geochemically Distinct Aquifers
Olivia E. Mosley, Emilie Gios, L. Weaver, M. Close +4 more
2021bioRxiv26 citations Open access
Semantic Scholar
A New N-Acyl Homoserine Lactone Synthase in an Uncultured Symbiont of the Red Sea Sponge Theonella swinhoei
M. Britstein, G. Devescovi, Kim M. Handley, Assaf Malik +9 more
2015Applied and Environmental Microbiology26 citations Open access
Semantic Scholar
Genome Streamlining, Plasticity, and Metabolic Versatility Distinguish Co-occurring Toxic and Nontoxic Cyanobacterial Strains of Microcoleus
H. S. Tee, S. Wood, Keith Bouma-Gregson, G. Lear +1 more
2021mBio25 citations Open access
Semantic Scholar
Character, Analysis, and Preservation of Biogenicity in Terrestrial Siliceous Stromatolites from Geothermal Settings
Kim M. Handley, K. Campbell
201125 citations
Semantic Scholar
Termite gas emissions select for hydrogenotrophic microbial communities in termite mounds
E. Chiri, P. Nauer, R. Lappan, Thanavit Jirapanjawat +6 more
2021Proceedings of the National Academy of Sciences of the United States of America24 citations Open access
Semantic Scholar
Substrate degradation pathways, conserved functions and community composition of the hindgut microbiota in the herbivorous marine fish Kyphosus sydneyanus.
Sam J.R. Stevenson, Kevin C. Lee, Kim M. Handley, Esther R. Angert +2 more
2022Comparative biochemistry and physiology. Part A, Molecular & integrative physiology22 citations
Semantic Scholar
Life at Home and on the Roam: Genomic Adaptions Reflect the Dual Lifestyle of an Intracellular, Facultative Symbiont
I. Burgsdorf, Kim M. Handley, R. Bar-Shalom, P. Erwin +1 more
2019mSystems22 citations Open access
Semantic Scholar
From pine to pasture: Land use history has long-term impacts on soil bacterial community composition and functional potential.
S. Hermans, M. Taylor, G. Grelet, F. Curran-Cournane +3 more
2020FEMS Microbiology Ecology19 citations
Semantic Scholar
Fluctuations in Species-Level Protein Expression Occur during Element and Nutrient Cycling in the Subsurface
M. Wilkins, K. Wrighton, C. Nicora, K. Williams +9 more
2013PLoS ONE16 citations Open access
Semantic Scholar
Functional predictions from inference and observation in sequence-based inflammatory bowel disease research
Folker Meyer, W. Trimble, E. Chang, Kim M. Handley
2012Genome Biology16 citations Open access
Semantic Scholar

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