For most up to date publications, visit our google scholar page.
Green highlighting denotes Wrighton lab led publications.
2023
M. A. Borton, et al. Targeted curation of the gut microbial gene content modulating human cardiovascular disease. mBio (in press). 
J. A. Rodríguez-Ramos, et al. Spatial and temporal metagenomics of river compartments reveals viral community dynamics in an urban impacted stream. Frontiers in Microbiomes (in press).
M. A. Borton, et al. A functional microbiome catalog crowdsourced from North American rivers. (in review).
I. Leleiwi, et al. Exposing New Taxonomic Variation with Inflammation – A Murine Model-Specific Genome Database for Gut Microbiome Researchers. Microbiome (in press).
J. B. Ellenbogen, et al. Methylotrophy in the Mire: direct and indirect routes for methane production in thawing permafrost. (in review).
M. Shaffer, et al. kb_DRAM: annotation and metabolic profiling of genomes with DRAM in KBase. Bioinformatics (2023).
2022
J. A. Rodríguez-Ramos & M. A. Borton, et al. Genome-Resolved Metaproteomics Decodes the Microbial and Viral Contributions to Coupled Carbon and Nitrogen Cycling in River Sediments. mSystems (2022).
V. A. Seitz & B. B. McGivern, et al. Variation in Root Exudate Composition Influences Soil Microbiome Membership and Function. Applied and Environmental Microbiology (2022). 
K. K. Amundson, et al. Microbial colonization and persistence in deep fractured shales is guided by metabolic exchanges and viral predation. Microbiome (2022).
R. L. Rubinstein, et al. ORT: a workflow linking genome-scale metabolic models with reactive transport codes. Bioinformatics (2022).
M. Baniasad, et al. Optimization of proteomics sample preparation for identification of host and bacterial proteins in mouse feces. Analytical and Bioanalytical Chemistry (2022).
A. Yerlan, et al. Draft Metagenome-Assembled Genome Sequences of Three Novel Ammonia-Oxidizing Nitrososphaera Strains Recovered from Agricultural Soils in Western Colorado. Microbiology Resource Announcements (2022).
2021
B. B. McGivern, et al. Decrypting bacterial polyphenol metabolism in an anoxic wetland soil. Nature Communications (2021).
S. Ewens, et al. The diversity and evolution of microbial dissimilatory phosphite oxidation. PNAS (2021).
J. Villa, et al. Ebullition dominates methane fluxes from the water surface across different ecohydrological patches in a temperate freshwater marsh at the end of the growing season. Science of the Total Environment (2021).
S. A. Welch, et al. Comparative geochemistry of flowback chemistry from the Utica/Point Pleasant and Marcellus formations. Chemical Geology (2021).
S. Pérez Castro, et al. Degradation of biological macromolecules supports uncultured microbial populations in Guaymas Basin hydrothermal sediments. The ISME Journal (2021).
2020
M. Shaffer & M.A. Borton, et al. DRAM for distilling microbial metabolism to automate the curation of microbiome function. Nucleic Acids Research. (2020).
S. Reeves, et al. Proanthocyanidin Structural Details Revealed by Ultrahigh Resolution FT-ICR MALDI-Mass Spectrometry, 1H–13C HSQC NMR, and Thiolysis-HPLC–DAD. J. Agric. Food Chem. (2020).
J. North, et al. A nitrogenase-like enzyme system catalyzes methionine, ethylene, and methane biogenesis. Science. (2020).
J. Villa, et al. Plant‐mediated methane transport in emergent and floating‐leaved species of a temperate freshwater mineral‐soil wetland. Limnol Oceanogr (2020).
J. Villa, et al. Methane and nitrous oxide porewater concentrations and surface fluxes of a regulated river. Science of the Total Environment (2020).
H. Miller, et al., Reusing Oil and Gas Produced Water for Agricultural Irrigation: Effects on Soil Health and the Soil Microbiome. Science of the Total Environment (2020).
B. Al-Shayeb, et al., Clades of huge phage from across Earth’s ecosystems. Nature (2020).
L. Cliffe, et al., Identification of persistent sulfidogenic bacteria in shale gas produced waters. Front. Microbiol (2020).
R.E. Danczak, et al., Ecological assembly processes are coordinated between bacterial and viral communities in fractured shale ecosystems. mSystems (2020).
2019
S.L. Nixon, et al., Genome-Resolved Metagenomics Extends the Environmental Distribution of the Verrucomicrobia Phylum to the Deep Terrestrial Subsurface. mSphere (2019).
A.B. Narrowe, et al., Uncovering the diversity and activity of methylotrophic methanogens in freshwater wetland soils. mSystems (2019).
G.J. Smith and K.C. Wrighton. Metagenomic Approaches Unearth Methanotroph Phylogenetic and Metabolic Diversity (Book Chapter). Methylotrophs and Methylotroph Communities (2019).
G.J. Smith and K.C. Wrighton. Metagenomic approaches unearth methanotroph phylogenetic and metabolic diversity. Current Issues in Molecular Biology (2019).
R.A. Daly, et al., Viruses control dominant bacteria colonizing the terrestrial deep biosphere after hydraulic fracturing. Nature Microbiology (2019).
J. Villa, et al. Relationship between methane and carbon dioxide fluxes in a temperate cattail-dominated freshwater wetland. JGR Biosciences (2019).
S. Roux, et al., Cryptic invoviruses revealed as pervasive in bacteria and archaea across Earth’s biomes. Nature Microbiology (2019).
M.V. Evans, et al., Hydraulically Fractured Natural-Gas Well Microbial Communities Contain Genomic Halogenation and Dehalogenation Potential. Environmental Science & Technology (2019).
S. Roux, et al., Minimum information about uncultivated virus genomes (MIUViG): a community consensus on standards and best practices for describing genome sequences from uncultivated viruses. Nature Biotechnology (2019).
2018
M.A. Borton, et al., Comparative genomics and physiology of the genus Methanohalophilus, a prevalent methanogen in hydraulically fractured shale. Environmental Microbiology (2018). 
G.S. Smith, et al., Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland. Mbio (2018).
L.M. Solden, et al., Interspecies cross-feedings orchestrate carbon degradation in the rumen ecosystem. Nature Microbiology (2018).
M.A. Borton, et al., Coupled laboratory and field investigations resolve microbial interactions that underpin persistence in hydraulically fractured shales. Proceedings of the National Academy of Sciences (2018).
R.A. Daly, K.C. Wrighton, and M.J. Wilkins. Characterizing the deep terrestrial subsurface microbiome (Book Chapter). Microbiome analysis, Methods in Molecular Biology (2018).
M.V. Evans, et al., Influence of Marinobacter and Arcobacter taxa on system biogeochemistry during early production of hydraulically fractured shale gas wells in the Appalachian Basin. Frontiers in Microbiology (2018).
A.E. Naas et al., “Candidatus Paraporphyromonas polyenzymogenes” encodes multi-modular cellulases linked to the type IX secretion system. Microbiome (2018).
J.B. Emerson et al., Host-linked soil viral ecology along a permafrost thaw gradient. Nature Microbiology (2018).
J. Panescu, et al., Draft genome sequences of two chemosynthetic Arcobacter strains isolated from hydraulically fractured wells in Marcellus and Utica shales. Genome announcements (2018).
A. C. Rey-Sanchez, et al., Determining total emissions and environmental drivers of methane flux in a Lake Erie estuarine marsh. Ecological Engineering (2018).
S. Tummings, et al., Draft genome sequences of Marinobacter strains recovered from Utica shale produced fluids. Genome announcements (2018).
J. Wu et al., Salmonella-mediated inflammation eliminates competitors for fructose-asparagine in the gut. Infection and immunity (2018).
G. Trubl et al., Soil viruses are underexplored players in ecosystem carbon processing. bioRxiv (2018).
J. S. McLean et al., Evidence of independent acquisition and adaption of ultra-small bacteria to human hosts across the highly diverse yet reduced genomes of the phylum Saccharibacteria. bioRxiv (2018).
2017
M.A. Borton, et al., Chemical and pathogen-induced inflammation disrupt the murine intestinal microbiome. Microbiome (2017).
J.C. Angle, et al., Methanogenesis in oxygenated soils is a substantial fraction of wetland methane emissions. Nature Communications (2017).
L.M. Solden and K.C. Wrighton, Finding life’s missing pieces. Nature microbiology (2017).
L.M. Solden, et al., New roles in hemicellulosic sugar fermentation for the uncultivated Bacteroidetes family BS11. The ISME journal (2017).
A. Sabag-Daigle, et al., Identification of bacterial species that can utilize fructose-asparagine. Applied and environmental microbiology (2017).
R. E. Danczak, et al., Members of the Candidate Phyla Radiation are functionally differentiated by carbon-and nitrogen-cycling capabilities. Microbiome (2017).
A.E. Booker, et al., Sulfide generation by dominant Halanaerobium microorganisms in hydraulically fractured shales. mSphere (2017).
A.E. Booker, et al., Draft genome sequences of multiple Frackibacter strains isolated from hydraulically fractured shale environments. Genome announcements, (2017).
A.B. Narrowe, et al., High‐resolution sequencing reveals unexplored archaeal diversity in freshwater wetland soils. Environmental microbiology (2017).
2016
K.C. Wrighton, et al., RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria. The ISME journal (2016).
R.A. Daly, et al., Microbial metabolisms in a 2.5-km-deep ecosystem created by hydraulic fracturing in shales. Nature microbiology (2016).
L.M. Solden, et al., The bright side of microbial dark matter: lessons learned from the uncultivated majority. Current opinion in microbiology (2016).
P.J. Mouser, et al., Hydraulic fracturing offers view of microbial life in the deep terrestrial subsurface. FEMS microbiology ecology (2016).
2015
C.T. Brown, et al., Unusual biology across a group comprising more than 15% of domain Bacteria. Nature (2015).
C.J. Castelle, et al., Genomic expansion of domain archaea highlights roles for organisms from new phyla in anaerobic carbon cycling. Current biology (2015).
K.M. Handley, et al., Disturbed subsurface microbial communities follow equivalent trajectories despite different structural starting points. Environmental microbiology (2015).
B. Luef, et al., Diverse uncultivated ultra-small bacterial cells in groundwater. Nature communications (2015).
E.D. Merkley, et al.,Changes in protein expression across laboratory and field experiments in Geobacter bemidjiensis. Journal of Proteome Research (2015).
D.E. Holmes, et al. Evidence of Geobacter-associated phage in a uranium-contaminated aquifer. The ISME journal (2015).
2014
M.J. Wilkins, et al., Trends and future challenges in sampling the deep terrestrial biosphere. Frontiers in microbiology (2014).
K.C. Wrighton, et al., Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer. ISMEJ (2014).
For publications from Dr. Wrighton’s post doctoral and graduate work, visit her google scholar page.