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Diversity and abundance of the functional genes and bacteria associated with RDX degradation at a contaminated site pre- and post-biostimulation
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August 2021 |
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Translational recoding in archaea
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September 2012 |
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Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations
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October 2015 |
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Potential for microbial H2 and metal transformations associated with novel bacteria and archaea in deep terrestrial subsurface sediments
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March 2017 |
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Asgard archaea illuminate the origin of eukaryotic cellular complexity
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January 2017 |
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High-throughput generation, optimization and analysis of genome-scale metabolic models
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August 2010 |
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Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
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October 2016 |
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Hydrogen and dark oxygen drive microbial productivity in diverse groundwater ecosystems
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June 2023 |
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Integrating taxonomic signals from MAGs and contigs improves read annotation and taxonomic profiling of metagenomes
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April 2024 |
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Unveiling the unknown viral world in groundwater
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August 2024 |
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RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes
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February 2015 |
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Identifying bacterial genes and endosymbiont DNA with Glimmer
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January 2007 |
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QUAST: quality assessment tool for genome assemblies
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February 2013 |
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Icarus: visualizer for de novo assembly evaluation
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July 2016 |
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Mixed waste contamination selects for a mobile genetic element population enriched in multiple heavy metal resistance genes
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January 2024 |
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Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
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September 1997 |
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PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies
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May 2012 |
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The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
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November 2013 |
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DNA–DNA hybridization values and their relationship to whole-genome sequence similarities
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journal
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January 2007 |
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High-throughput ANI Analysis of 90K Prokaryotic Genomes Reveals Clear Species Boundaries
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posted_content
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October 2017 |
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CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
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journal
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May 2015 |
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BLAT---The BLAST-Like Alignment Tool
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journal
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March 2002 |
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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
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June 2025 |
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Metabolic Diversity and Aero-Tolerance in Anammox Bacteria from Geochemically Distinct Aquifers
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February 2022 |
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Prodigal: prokaryotic gene recognition and translation initiation site identification
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March 2010 |
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Efficiently gap-filling reaction networks
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June 2014 |
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Identification, variation and transcription of pneumococcal repeat sequences
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February 2011 |
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The RAST Server: Rapid Annotations using Subsystems Technology
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January 2008 |
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Metagenomic and culture-dependent approaches unveil active microbial community and novel functional genes involved in arsenic mobilization and detoxification in groundwater
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journal
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August 2023 |
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Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity
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journal
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April 2020 |
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The economical lifestyle of CPR bacteria in groundwater allows little preference for environmental drivers
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journal
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December 2021 |
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Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM
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July 2013 |
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FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
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journal
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March 2010 |
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Capability for arsenic mobilization in groundwater is distributed across broad phylogenetic lineages
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journal
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September 2019 |
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Analysis of five complete genome sequences for members of the class Peribacteria in the recently recognized Peregrinibacteria bacterial phylum
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journal
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January 2016 |