Persistence and resistance: survival mechanisms of Candidatus Dormibacterota from nutrient‐poor Antarctic soils

Candidatus Eremiobacterota, a metabolically and phylogenetically diverse terrestrial phylum with acid-tolerant adaptations

(2021) Mukan Ji et al.   ISME Journal

Differentiation strategies of soil rare and abundant microbial taxa in response to changing climatic regimes

(2020) Yuting Liang et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial Life Deep Underfoot

(2020) Jay T. Lennon   mBio

A complete domain-to-species taxonomy for Bacteria and Archaea

(2020) Donovan H. Parks et al.   NATURE BIOTECHNOLOGY

Soil Microbiomes With the Genetic Capacity for Atmospheric Chemosynthesis Are Widespread Across the Poles and Are Associated With Moisture, Carbon, and Nitrogen Limitation

(2020) Angelique E. Ray et al.   Frontiers in Microbiology

Roadmap for naming uncultivated Archaea and Bacteria

(2020) Alison E. Murray et al.   Nature Microbiology

Estimate of the sequenced proportion of the global prokaryotic genome

(2020) Zheng Zhang et al.   Microbiome

Crystal structure of bacterial cyclopropane-fatty-acyl-phospholipid synthase with phospholipid

(2019) Yulong Ma et al.   JOURNAL OF BIOCHEMISTRY

Temperature and soil moisture control microbial community composition in an arctic–alpine ecosystem along elevational and micro-topographic gradients

(2019) K. Frindte et al.   ISME Journal

Atmospheric carbon monoxide oxidation is a widespread mechanism supporting microbial survival

(2019) Paul R. F. Cordero et al.   ISME Journal

Ecological and Genomic Attributes of Novel Bacterial Taxa That Thrive in Subsurface Soil Horizons

(2019) Tess E. Brewer et al.   mBio

Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea

(2019) Qiyun Zhu et al.   Nature Communications

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

Insight into heavy metal resistome of soil psychrotolerant bacteria originating from King George Island (Antarctica)

(2018) Krzysztof Romaniuk et al.   POLAR BIOLOGY

Genome-centric view of carbon processing in thawing permafrost

(2018) Ben J. Woodcroft et al.   NATURE

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life

(2018) Donovan H Parks et al.   NATURE BIOTECHNOLOGY

Structural characterization of VapB46 antitoxin from Mycobacterium tuberculosis : insights into VapB46-DNA binding

(2018) Madhurima Roy et al.   FEBS Journal

metaSPAdes: a new versatile metagenomic assembler

(2017) Sergey Nurk et al.   GENOME RESEARCH

Atmospheric trace gases support primary production in Antarctic desert surface soil

(2017) Mukan Ji et al.   NATURE

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

(2017) Robert M Bowers et al.   NATURE BIOTECHNOLOGY

MiSeq HV4 16S rRNA gene analysis of bacterial community composition among the cave sediments of Indo-Burma biodiversity hotspot

(2016) Surajit De Mandal et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem

(2016) Eric R. Johnston et al.   Frontiers in Microbiology

Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database

(2016) Andrew Bissett et al.   GigaScience

HydDB: A web tool for hydrogenase classification and analysis

(2016) Dan Søndergaard et al.   Scientific Reports

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

Microbial diversity at Mitchell Peninsula, Eastern Antarctica: a potential biodiversity “hotspot”

(2015) Mukan Ji et al.   POLAR BIOLOGY

Persistence of the dominant soil phylumAcidobacteriaby trace gas scavenging

(2015) Chris Greening et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Two enzymes with redundant fructose bisphosphatase activity sustain gluconeogenesis and virulence in Mycobacterium tuberculosis

(2015) Uday Ganapathy et al.   Nature Communications

Distinct summer and winter bacterial communities in the active layer of Svalbard permafrost revealed by DNA- and RNA-based analyses

(2015) Morten Schostag et al.   Frontiers in Microbiology

Response of the rare biosphere to environmental stressors in a highly diverse ecosystem (Zodletone spring, OK, USA)

(2015) Suzanne Coveley et al.   PeerJ

Atmospheric Hydrogen Scavenging: from Enzymes to Ecosystems

(2014) Chris Greening et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Mycolic Acids: Structures, Biosynthesis, and Beyond

(2014) Hedia Marrakchi et al.   CHEMISTRY & BIOLOGY

Fate and Bioavailability of Engineered Nanoparticles in Soils: A Review

(2014) Geert Cornelis et al.   CRITICAL REVIEWS IN ENVIRONMENTAL SCIENCE AND TECHNOLOGY

Integration of hydrogenase expression and hydrogen sensing in bacterial cell physiology

(2014) Chris Greening et al.   CURRENT OPINION IN MICROBIOLOGY

Impact of fire on active layer and permafrost microbial communities and metagenomes in an upland Alaskan boreal forest

(2014) Neslihan Taş et al.   ISME Journal

The Growth and Survival of Mycobacterium smegmatis Is Enhanced by Co-Metabolism of Atmospheric H2

(2014) Chris Greening et al.   PLoS One

A soil actinobacterium scavenges atmospheric H2 using two membrane-associated, oxygen-dependent [NiFe] hydrogenases

(2014) C. Greening et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Soil fertility is associated with fungal and bacterial richness, whereas pH is associated with community composition in polar soil microbial communities

(2014) Steven D. Siciliano et al.   SOIL BIOLOGY & BIOCHEMISTRY

Homeostasis and Catabolism of Choline and Glycine Betaine: Lessons from Pseudomonas aeruginosa

(2013) Matthew J. Wargo   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Synthesis of poly- and oligo(hydroxyalkanoate)s by deep-sea bacteria, Colwellia spp., Moritella spp. and Shewanella spp

(2013) Keiji Numata et al.   POLYMER JOURNAL

Bacterial Persistence and Toxin-Antitoxin Loci

(2012) Kenn Gerdes et al.   Annual Review of Microbiology

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

(2012) Elmar Pruesse et al.   BIOINFORMATICS

Role of trehalose in heat and desiccation tolerance in the soil bacterium Rhizobium etli

(2012) Mercedes Reina-Bueno et al.   BMC MICROBIOLOGY

A novel F420-dependent anti-oxidant mechanism protectsMycobacterium tuberculosisagainst oxidative stress and bactericidal agents

(2012) Meera Gurumurthy et al.   MOLECULAR MICROBIOLOGY

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Soil pH drives the spatial distribution of bacterial communities along elevation on Changbai Mountain

(2012) Congcong Shen et al.   SOIL BIOLOGY & BIOCHEMISTRY

The cytochrome bd respiratory oxygen reductases

(2011) Vitaliy B. Borisov et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Community genomic analysis of an extremely acidophilic sulfur-oxidizing biofilm

(2011) Daniel S Jones et al.   ISME Journal

Bacterioopsin-Mediated Regulation of Bacterioruberin Biosynthesis in Halobacterium salinarum

(2011) A. M. Dummer et al.   JOURNAL OF BACTERIOLOGY

Strategies for Enhancing the Effectiveness of Metagenomic-based Enzyme Discovery in Lignocellulolytic Microbial Communities

(2010) Kristen M. DeAngelis et al.   BioEnergy Research

Increase in Oxidative Stress at Low Temperature in an Antarctic Bacterium

(2010) M. K. Chattopadhyay et al.   CURRENT MICROBIOLOGY

Glucose 6-Phosphate Accumulation in Mycobacteria

(2010) Mohammad Rubayet Hasan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Land Use Intensity Controls Actinobacterial Community Structure

(2010) Patrick Hill et al.   MICROBIAL ECOLOGY

A phylum level perspective on bacterial cell envelope architecture

(2010) Iain C. Sutcliffe   TRENDS IN MICROBIOLOGY

Assessment of the Diversity, Abundance, and Ecological Distribution of Members of Candidate Division SR1 Reveals a High Level of Phylogenetic Diversity but Limited Morphotypic Diversity

(2009) J. P. Davis et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Streptomycetes contributing to atmospheric molecular hydrogen soil uptake are widespread and encode a putative high-affinity [NiFe]-hydrogenase

(2009) Philippe Constant et al.   ENVIRONMENTAL MICROBIOLOGY

Arsenate Reductase, Mycothiol, and Mycoredoxin Concert Thiol/Disulfide Exchange

(2009) Efrén Ordóñez et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Comprehensive Functional Analysis of Mycobacterium tuberculosis Toxin-Antitoxin Systems: Implications for Pathogenesis, Stress Responses, and Evolution

(2009) Holly R. Ramage et al.   PLoS Genetics

Cellular Defenses against Superoxide and Hydrogen Peroxide

(2008) James A. Imlay   Annual Review of Biochemistry

Fumarole-Supported Islands of Biodiversity within a Hyperarid, High-Elevation Landscape on Socompa Volcano, Puna de Atacama, Andes

(2008) E. K. Costello et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Three Mycobacterium tuberculosis Rel Toxin-Antitoxin Modules Inhibit Mycobacterial Growth and Are Expressed in Infected Human Macrophages

(2008) S. B. Korch et al.   JOURNAL OF BACTERIOLOGY

Biosynthesis and Functions of Mycothiol, the Unique Protective Thiol of Actinobacteria

(2008) G. L. Newton et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Mycothiol regulates and is regulated by a thiol-specific antisigma factor RsrA and σRin Streptomyces coelicolor

(2008) Joo-Hong Park et al.   MOLECULAR MICROBIOLOGY

Cultivating previously uncultured soil bacteria using a soil substrate membrane system

(2008) Belinda C Ferrari et al.   Nature Protocols

Regulation of extracellular protease activity in soil in response to different sources and concentrations of nitrogen and carbon

(2008) D GEISSELER et al.   SOIL BIOLOGY & BIOCHEMISTRY