Publications by authors named "Adam Arkin"

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Construction of a randomly barcoded insertional mutant library in the filamentous fungus .
Lori B Huberman, José M Villalobos-Escobedo, Jeffrey M Skerker, Ran Shi, Adriana M Rico-Ramírez, Adam P Arkin

bioRxiv· December 2025

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Dual transposon sequencing profiles the genetic interaction landscape in bacteria.
Justin J Zik, Morgan N Price, Keisha Hanifa Alma Mayra, Audrey A Santoso, Adam P Arkin

Science· September 2025

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Sediment and groundwater metagenomes from subsurface microbial communities from the Oak Ridge National Laboratory Oak Ridge Reservation, Oak Ridge, Tennessee, USA.
Lauren M Lui, Torben N Nielsen, Heidi J Smith, John-Marc Chandonia, Jennifer V Kuehl, Adam P Arkin

Microbiol Resour Announc· August 2025

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Modest functional diversity decline and pronounced composition shifts of microbial communities in a mixed waste-contaminated aquifer.
Yupeng Fan, Dongyu Wang, Joy X Yang, Daliang Ning, Zhili He, Adam P Arkin

Microbiome· April 2025

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Bridging the gap: pathway programs for inclusion and persistence in microbiology.
Archana Anand, Adam Arkin, Faith Dukes, Catherine Mageeney, Harshini Mukundan

Trends Microbiol· February 2025

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Acetaminophen production in the edible, filamentous cyanobacterium Arthrospira platensis.
Jacob M Hilzinger, Skyler Friedline, Divya Sivanandan, Ya-Fang Cheng, Shunsuke Yamazaki, Adam P Arkin

Biotechnol Bioeng· January 2025

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Emergence and disruption of cooperativity in a denitrifying microbial community.
Alex V Carr, Anne E Otwell, Kristopher A Hunt, Yan Chen, James Wilson, Adam P Arkin

ISME J· January 2025

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High-throughput protein characterization by complementation using DNA barcoded fragment libraries.
Bradley W Biggs, Morgan N Price, Dexter Lai, Jasmine Escobedo, Yuridia Fortanel, Adam P Arkin

Mol Syst Biol· November 2024

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High-throughput genetics enables identification of nutrient utilization and accessory energy metabolism genes in a model methanogen.
Leslie A Day, Hans K Carlson, Dallas R Fonseca, Adam P Arkin, Morgan N Price

mBio· September 2024

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Interactive tools for functional annotation of bacterial genomes.
Morgan N Price, Adam P Arkin

Database (Oxford)· September 2024

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Nitrogen accountancy in space agriculture.
Kevin Yates, Aaron J Berliner, Georgios Makrygiorgos, Farrah Kaiyom, Matthew J McNulty, Adam P Arkin

NPJ Microgravity· September 2024

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Potential applications of microbial genomics in nuclear non-proliferation.
Heather MacGregor, Isis Fukai, Kurt Ash, Adam Paul Arkin, Terry C Hazen

Front Microbiol· September 2024

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Barcoded overexpression screens in gut Bacteroidales identify genes with roles in carbon utilization and stress resistance.
Yolanda Y Huang, Morgan N Price, Allison Hung, Omree Gal-Oz, Surya Tripathi, Adam P Arkin

Nat Commun· August 2024

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A fast comparative genome browser for diverse bacteria and archaea.
Morgan N Price, Adam P Arkin

PLoS One· April 2024

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Contribution of Microorganisms with the Clade II Nitrous Oxide Reductase to Suppression of Surface Emissions of Nitrous Oxide.
Kristopher A Hunt, Alex V Carr, Anne E Otwell, Jacob J Valenzuela, Kathleen S Walker, Adam P Arkin

Environ Sci Technol· April 2024

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Genomic and environmental controls on Castellaniella biogeography in an anthropogenically disturbed subsurface.
Jennifer L Goff, Elizabeth G Szink, Konnor L Durrence, Lauren M Lui, Torben N Nielsen, Adam P Arkin

Environ Microbiome· April 2024

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Environmental stress mediates groundwater microbial community assembly.
Daliang Ning, Yajiao Wang, Yupeng Fan, Jianjun Wang, Joy D Van Nostrand, Adam P Arkin

Nat Microbiol· February 2024

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A bacterial sensor taxonomy across earth ecosystems for machine learning applications.
Helen Park, Marcin P Joachimiak, Sean P Jungbluth, Ziming Yang, William J Riehl, Adam P Arkin

mSystems· January 2024

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Mixed waste contamination selects for a mobile genetic element population enriched in multiple heavy metal resistance genes.
Jennifer L Goff, Lauren M Lui, Torben N Nielsen, Farris L Poole, Heidi J Smith, Adam P Arkin

ISME Commun· January 2024

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Molecular mechanisms and environmental adaptations of flagellar loss and biofilm growth of Rhodanobacter under environmental stress.
Mingfei Chen, Valentine V Trotter, Peter J Walian, Yan Chen, Romario Lopez, Adam P Arkin

ISME J· January 2024

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Fitness factors impacting survival of a subsurface bacterium in contaminated groundwater.
Michael P Thorgersen, Jennifer L Goff, Valentine V Trotter, Farris L Poole Ii, Adam P Arkin

ISME J· January 2024

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Mixed nitrate and metal contamination influences operational speciation of toxic and essential elements.
Michael P Thorgersen, Jennifer L Goff, Farris L Poole, Kathleen F Walker, Andrew D Putt, Adam P Arkin

Environ Pollut· December 2023

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Evaluating E. coli genome-scale metabolic model accuracy with high-throughput mutant fitness data.
David B Bernstein, Batu Akkas, Morgan N Price, Adam P Arkin

Mol Syst Biol· December 2023

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Systematic and scalable genome-wide essentiality mapping to identify nonessential genes in phages.
Denish Piya, Nicholas Nolan, Madeline L Moore, Luis A Ramirez Hernandez, Brady F Cress, Adam P Arkin

PLoS Biol· December 2023

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