All Stories

  1. Effects of Drought Stress on the Panicum hallii Microbiome over a Growth Cycle
  2. Toward an integrative framework for monitoring biodegradation of environmental contaminants across scales
  3. Unraveling the ecological success of Iodidimonas in a bioreactor treating oil and gas produced water
  4. A call to preserve wild relatives of crop plants and their associated microbes
  5. Legacy Effects of Cropping System and Precipitation Influence the Core Camelina sativa Microbiome
  6. The gut microbiome of the Passalid beetle has high cellulolytic potential and constitutes an unrecognized system for production of greenhouse gasses in neotropical forests
  7. Breeding of microbiomes conferring salt tolerance to plants
  8. Tighter-knit microbial communities associated with stressed plants
  9. Genomic insights into redox-driven microbial processes for carbon decomposition in thawing Arctic soils and permafrost
  10. Microbial Ecology and Site Characteristics Underlie Differences in Salinity‐Methane Relationships in Coastal Wetlands
  11. Disentangling the effects of sulfate and other seawater ions on microbial communities and greenhouse gas emissions in a coastal forested wetland
  12. One Health, climate change, and infectious microbes: a joint effort between AGU and ASM to understand impacts of changing climate and microbes on human well-being across scales
  13. Elevated methane emissions in low-salinity wetlands linked to microbial communities
  14. Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum
  15. Unraveling the functional dark matter through global metagenomics
  16. Conservation of beneficial microbes between the rhizosphere and the cyanosphere
  17. Metagenomics untangles metabolic adaptations of Antarctic endolithic bacteria at the fringe of habitability
  18. Long-Term Persistence of Three Microbial Wildfire Biomarkers in Forest Soils
  19. Correction: Identification of beneficial and detrimental bacteria impacting sorghum responses to drought using multi-scale and multi-system microbiome comparisons
  20. Highly diverse and unknown viruses may enhance Antarctic endoliths’ adaptability
  21. Dataset of 143 metagenome-assembled genomes from the Arctic and Atlantic Oceans, including 21 for eukaryotic organisms
  22. Iodidimonas, a bacterium unable to degrade hydrocarbons, thrives in a bioreactor treating oil and gas produced water
  23. Root associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum
  24. Methyl-Based Methanogenesis: an Ecological and Genomic Review
  25. Poisson hurdle model-based method for clustering microbiome features
  26. Highly diverse and unknown viruses may enhance Antarctic endoliths’ adaptability
  27. High-Quality Draft Genome Sequence of Fischerella thermalis JSC-11, a Siderophilic Cyanobacterium with Bioremediation Potential
  28. Expansion of the global RNA virome reveals diverse clades of bacteriophages
  29. Metagenomes from Arctic Soil Microbial Communities from the Barrow Environmental Observatory, Utqiaġvik, AK, USA
  30. The role of zinc in the adaptive evolution of polar phytoplankton
  31. Thousands of small, novel genes predicted in global phage genomes
  32. A toolkit for microbial community editing
  33. Identification of beneficial and detrimental bacteria impacting sorghum responses to drought using multi-scale and multi-system microbiome comparisons
  34. Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans
  35. Correction: Bueno de Mesquita et al. Methylphosphonate Degradation and Salt-Tolerance Genes of Two Novel Halophilic Marivita Metagenome-Assembled Genomes from Unrestored Solar Salterns. Genes 2022, 13, 148
  36. Defining the Sphagnum Core Microbiome across the North American Continent Reveals a Central Role for Diazotrophic Methanotrophs in the Nitrogen and Carbon Cycles of Boreal Peatland Ecosystems
  37. Membrane Bioreactor Pretreatment of High-Salinity O&G Produced Water
  38. Exploring the roles of microbes in facilitating plant adaptation to climate change
  39. Methylphosphonate Degradation and Salt-Tolerance Genes of Two Novel Halophilic Marivita Metagenome-Assembled Genomes from Unrestored Solar Salterns
  40. Restoring wetlands on intensive agricultural lands modifies nitrogen cycling microbial communities and reduces N2O production potential
  41. Methanogenesis and Salt Tolerance Genes of a Novel Halophilic Methanosarcinaceae Metagenome-Assembled Genome from a Former Solar Saltern
  42. The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole
  43. Peatland microbial community responses to plant functional group and drought are depth‐dependent
  44. Microbial drivers of methane emissions from unrestored industrial salt ponds
  45. Feature selection and causal analysis for microbiome studies in the presence of confounding using standardization
  46. High-Quality Draft Genome Sequence of the Siderophilic and Thermophilic Leptolyngbyaceae Cyanobacterium JSC-12
  47. Different threats, same response
  48. Identification of beneficial and detrimental bacteria that impact sorghum responses to drought using multi-scale and multi-system microbiome comparisons
  49. Author Correction: A genomic catalog of Earth’s microbiomes
  50. Pre-Cambrian roots of novel Antarctic cryptoendolithic bacterial lineages
  51. Microbial Community Field Surveys Reveal Abundant Pseudomonas Population in Sorghum Rhizosphere Composed of Many Closely Related Phylotypes
  52. Author Correction: Plant–microbiome interactions: from community assembly to plant health
  53. Publisher Correction: A genomic catalog of Earth’s microbiomes
  54. A genomic catalog of Earth’s microbiomes
  55. Phototrophic Co-cultures From Extreme Environments: Community Structure and Potential Value for Fundamental and Applied Research
  56. Proteome specialization of anaerobic fungi during ruminal degradation of recalcitrant plant fiber
  57. Emerging Trends in Biological Treatment of Wastewater From Unconventional Oil and Gas Extraction
  58. Plant–microbiome interactions: from community assembly to plant health
  59. Feature selection and causal analysis for microbiome studies in the presence of confounding using standardization
  60. Metagenome-assembled genomes of phytoplankton communities across the Arctic Circle
  61. Geology and climate influence rhizobiome composition of the phenotypically diverse tropical tree Tabebuia heterophylla
  62. Metagenomes in the Borderline Ecosystems of the Antarctic Cryptoendolithic Communities
  63. Antarctic cryptoendolithic bacterial lineages of pre-Cambrian origin as proxy for Mars colonization
  64. Clades of huge phages from across Earth’s ecosystems
  65. Niche differentiation is spatially and temporally regulated in the rhizosphere
  66. Proteome specialization of anaerobic fungi during ruminal degradation of recalcitrant plant fiber
  67. Microbial Community Dynamics of a Membrane Bioreactor Treating Hydraulic Fracturing Wastewater
  68. Community-Driven Metadata Standards for Agricultural Microbiome Research
  69. Unusual Metabolism and Hypervariation in the Genome of a Gracilibacterium (BD1-5) from an Oil-Degrading Community
  70. Diversity, evolution, and classification of virophages uncovered through global metagenomics
  71. Division of labor in honey bee gut microbiota for plant polysaccharide digestion
  72. Hidden diversity in the oomycete genus Olpidiopsis is a potential hazard to red algal cultivation and conservation worldwide
  73. A layered defense against plant pathogens
  74. Interactions between plants and soil shaping the root microbiome under abiotic stress
  75. Complete Genome Sequence of Agrobacterium sp. Strain 33MFTa1.1, Isolated from Thlaspi arvense Roots
  76. Metatranscriptomic Analyses of Diel Metabolic Functions During a Microcystis Bloom in Western Lake Erie (United States)
  77. Metagenomes in the borderline ecosystems of the Antarctic cryptoendolithic communities
  78. Structural dynamics and transcriptomic analysis of Dehalococcoides mccartyi within a TCE-Dechlorinating community in a completely mixed flow reactor
  79. mSphere of Influence: the View from the Microbiologists of the Future
  80. Niche differentiation is spatially and temporally regulated in the rhizosphere
  81. Unusual metabolism and hypervariation in the genome of a Gracilibacteria (BD1-5) from an oil degrading community
  82. Clades of huge phage from across Earth’s ecosystems
  83. Insight into the Bacterial Endophytic Communities of Peach Cultivars Related to Crown Gall Disease Resistance
  84. Metabolomics of sorghum roots during nitrogen stress reveals compromised metabolic capacity for salicylic acid biosynthesis
  85. Completion of an Experiment
  86. Minimum Information about an Uncultivated Virus Genome (MIUViG)
  87. Deforestation impacts network co-occurrence patterns of microbial communities in Amazon soils
  88. Phototrophic co-cultures from extreme environments: community structure and potential value for fundamental and applied research
  89. Meta-omics survey of [NiFe]-hydrogenase genes fails to capture drastic variations in H2-oxidation activity measured in three soils exposed to H2
  90. Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States
  91. New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes
  92. Erratum: California voters and CIRM—will lightning strike twice?
  93. Large-scale replicated field study of maize rhizosphere identifies heritable microbes
  94. Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy
  95. Discovery of enzymes for toluene synthesis from anoxic microbial communities
  96. Peatland Acidobacteria with a dissimilatory sulfur metabolism
  97. Landscape topography structures the soil microbiome in arctic polygonal tundra
  98. Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil
  99. An overview of a book devoted to metagenomics methods and applications
  100. Genomic features of bacterial adaptation to plants
  101. Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations
  102. Metagenomic analysis of intertidal hypersaline microbial mats from Elkhorn Slough, California, grown with and without molybdate
  103. A compendium of multi-omic sequence information from the Saanich Inlet water column
  104. Taxonomic and Functional Diversity of a Quercus pyrenaica Willd. Rhizospheric Microbiome in the Mediterranean Mountains
  105. PeatlandAcidobacteriawith a dissimilatory sulfur metabolism
  106. Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes
  107. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
  108. A genomic perspective on stoichiometric regulation of soil carbon cycling
  109. Microbiome of burned holm-oak: Arthrobacter's role
  110. Single-cell genomics for the masses
  111. Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism
  112. Patterns and drivers of fungal community depth stratification in Sphagnum peat
  113. Ecophysiology of freshwater Verrucomicrobia inferred from metagenome-assembled genomes
  114. Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach
  115. Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems
  116. The Tale of a Neglected Energy Source: Elevated Hydrogen Exposure Affects both Microbial Diversity and Function in Soil
  117. Genome-Resolved Meta-Omics Ties Microbial Dynamics to Process Performance in Biotechnology for Thiocyanate Degradation
  118. Optimizing genome bins with DAS Tool
  119. Metagenomic and Metatranscriptomic Analyses Reveal the Structure and Dynamics of a Dechlorinating Community Containing Dehalococcoides mccartyi and Corrinoid-Providing Microorganisms under Cobalamin-Limited Conditions
  120. Conversion of Amazon rainforest to agriculture alters community traits of methane-cycling organisms
  121. Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems
  122. Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems
  123. Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone
  124. Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations
  125. Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone
  126. In vitro Characterization of Phenylacetate Decarboxylase, a Novel Enzyme Catalyzing Toluene Biosynthesis in an Anaerobic Microbial Community
  127. Host genotype and age shape the leaf and root microbiomes of a wild perennial plant
  128. ‘Candidatus Adiutrix intracellularis’, an endosymbiont of termite gut flagellates, is the first representative of a deep-branching clade of Deltaproteobacteria and a putative homoacetogen
  129. Consortia of low-abundance bacteria drive sulfate reduction-dependent degradation of fermentation products in peat soil microcosms
  130. H2-saturation of high affinity H2-oxidizing bacteria alters the ecological niche of soil microorganisms unevenly among taxonomic groups
  131. Metagenomic Insights into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines
  132. Assembly and Succession of Iron Oxide Microbial Mat Communities in Acidic Geothermal Springs
  133. The Cacti Microbiome: Interplay between Habitat-Filtering and Host-Specificity
  134. High-resolution phylogenetic microbial community profiling
  135. Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations
  136. Metatranscriptomic insights on gene expression and regulatory controls in Candidatus Accumulibacter phosphatis
  137. Comparative metagenomics reveals impact of contaminants on groundwater microbiomes
  138. Impact of library preparation protocols and template quantity on the metagenomic reconstruction of a mock microbial community
  139. Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species
  140. Primer and platform effects on 16S rRNA tag sequencing
  141. Salicylic acid modulates colonization of the root microbiome by specific bacterial taxa
  142. Ecophysiology of an uncultivated lineage of Aigarchaeota from an oxic, hot spring filamentous ‘streamer’ community
  143. The Joint Genome Institute Offers Resources Beyond a Core Facility
  144. Patterns in Wetland Microbial Community Composition and Functional Gene Repertoire Associated with Methane Emissions
  145. Elviz – exploration of metagenome assemblies with an interactive visualization tool
  146. Genomic Expansion of Domain Archaea Highlights Roles for Organisms from New Phyla in Anaerobic Carbon Cycling
  147. Diverse uncultivated ultra-small bacterial cells in groundwater
  148. Accurate, multi-kb reads resolve complex populations and detect rare microorganisms
  149. Aquifer environment selects for microbial species cohorts in sediment and groundwater
  150. High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
  151. Microbial dark matter ecogenomics reveals complex synergistic networks in a methanogenic bioreactor
  152. Genome Portal, Joint Genome Institute
  153. Corrigendum to Wagneret al.: Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative
  154. Metagenomes from two microbial consortia associated with Santa Barbara seep oil
  155. Convergent Bacterial Microbiotas in the Fungal Agricultural Systems of Insects
  156. Gill bacteria enable a novel digestive strategy in a wood-feeding mollusk
  157. FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus
  158. Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling
  159. Erratum: Microbial ecology of an Antarctic hypersaline lake: genomic assessment of ecophysiology among dominant haloarchaea
  160. Building the crops of tomorrow: advantages of symbiont-based approaches to improving abiotic stress tolerance
  161. Rearrangement of a Large Novel Pseudomonas aeruginosa Gene Island in Strains Isolated from a Patient Developing Ventilator-Associated Pneumonia
  162. Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative
  163. Correction for Howe et al., Tackling soil diversity with the assembly of large, complex metagenomes
  164. Tackling soil diversity with the assembly of large, complex metagenomes
  165. Microbial ecology of an Antarctic hypersaline lake: genomic assessment of ecophysiology among dominant haloarchaea
  166. Metagenomic analysis of microbial consortium from natural crude oil that seeps into the marine ecosystem offshore Southern California
  167. MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm
  168. Predominant Acidilobus-Like Populations from Geothermal Environments in Yellowstone National Park Exhibit Similar Metabolic Potential in Different Hypoxic Microbial Communities
  169. IMG/M 4 version of the integrated metagenome comparative analysis system
  170. High level of intergenera gene exchange shapes the evolution of haloarchaea in an isolated Antarctic lake
  171. Metagenomic Profiling Reveals Lignocellulose Degrading System in a Microbial Community Associated with a Wood-Feeding Beetle
  172. Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment
  173. Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill
  174. Comparative genomics of two ‘Candidatus Accumulibacter’ clades performing biological phosphorus removal
  175. Proteogenomic Analysis of a Thermophilic Bacterial Consortium Adapted to Deconstruct Switchgrass
  176. Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage
  177. Leucoagaricus gongylophorus Produces Diverse Enzymes for the Degradation of Recalcitrant Plant Polymers in Leaf-Cutter Ant Fungus Gardens
  178. Comparative Metagenomic and Metatranscriptomic Analysis of Hindgut Paunch Microbiota in Wood- and Dung-Feeding Higher Termites
  179. Diversity and heritability of the maize rhizosphere microbiome under field conditions
  180. Metagenomes of tropical soil-derived anaerobic switchgrass-adapted consortia with and without iron
  181. A metagenomic insight into freshwater methane-utilizing communities and evidence for cooperation between theMethylococcaceaeand theMethylophilaceae
  182. Community-wide plasmid gene mobilization and selection
  183. Differences in sequencing technologies improve the retrieval of anammox bacterial genome from metagenomes
  184. Genome Portal, Joint Genome Institute
  185. Phylogenetic and Functional Analysis of Metagenome Sequence from High-Temperature Archaeal Habitats Demonstrate Linkages between Metabolic Potential and Geochemistry
  186. Community Structure and Function of High-Temperature Chlorophototrophic Microbial Mats Inhabiting Diverse Geothermal Environments
  187. The epsomitic phototrophic microbial mat of Hot Lake, Washington: community structural responses to seasonal cycling
  188. Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling
  189. Metagenome Sequence Analysis of Filamentous Microbial Communities Obtained from Geochemically Distinct Geothermal Channels Reveals Specialization of Three Aquificales Lineages
  190. The YNP metagenome project: environmental parameters responsible for microbial distribution in the Yellowstone geothermal ecosystem
  191. Anoxic carbon flux in photosynthetic microbial mats as revealed by metatranscriptomics
  192. Geoarchaeota: a new candidate phylum in the Archaea from high-temperature acidic iron mats in Yellowstone National Park
  193. Relationship between Abundance and Specific Activity of Bacterioplankton in Open Ocean Surface Waters
  194. Global distribution of a wild alga revealed by targeted metagenomics
  195. Defining the core Arabidopsis thaliana root microbiome
  196. Mesophilic and Thermophilic Conditions Select for Unique but Highly Parallel Microbial Communities to Perform Carboxylate Platform Biomass Conversion
  197. Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill
  198. Deep‐sea bacteria enriched by oil and dispersant from the Deepwater Horizon spill
  199. The Metagenome of an Anaerobic Microbial Community Decomposing Poplar Wood Chips
  200. The metagenome of the marine anammox bacterium ‘CandidatusScalindua profunda’ illustrates the versatility of this globally important nitrogen cycle bacterium
  201. Metagenomic analysis of a stable trichloroethene-degrading microbial community
  202. Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens
  203. The metagenomic basis of anammox metabolism inCandidatus‘Brocadia fulgida’
  204. Microbial Iron Cycling in Acidic Geothermal Springs of Yellowstone National Park: Integrating Molecular Surveys, Geochemical Processes, and Isolation of Novel Fe-Active Microorganisms
  205. Bioprospecting Metagenomics for New Glycoside Hydrolases
  206. Hydrazine Synthase, a Unique Phylomarker with Which To Study the Presence and Biodiversity of Anammox Bacteria
  207. The metagenomic basis of anammox metabolism inCandidatus‘Brocadia fulgida’
  208. Phage-bacteria relationships and CRISPR elements revealed by a metagenomic survey of the rumen microbiome
  209. Comparative analyses of foregut and hindgut bacterial communities in hoatzins and cows
  210. Isolation of Succinivibrionaceae Implicated in Low Methane Emissions from Tammar Wallabies
  211. The Enduring Legacy of Small Subunit rRNA in Microbiology
  212. Metagenomic Discovery of Biomass-Degrading Genes and Genomes from Cow Rumen
  213. Bioprospecting metagenomics of decaying wood: mining for new glycoside hydrolases
  214. An Insect Herbivore Microbiome with High Plant Biomass-Degrading Capacity
  215. Validation of two ribosomal RNA removal methods for microbial metatranscriptomics
  216. Multiple syntrophic interactions in a terephthalate-degrading methanogenic consortium
  217. Structure and dynamics of the microbial communities underlying the carboxylate platform for biofuel production
  218. Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton
  219. Adaptation to herbivory by the Tammar wallaby includes bacterial and glycoside hydrolase profiles different from other herbivores
  220. Comparative Metagenomics of Freshwater Microbial Communities
  221. A call for standardized classification of metagenome projects
  222. Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community
  223. Metagenome of a Versatile Chemolithoautotroph from Expanding Oceanic Dead Zones
  224. Biocorrosive Thermophilic Microbial Communities in Alaskan North Slope Oil Facilities
  225. Susannah Tringe at the DOE JGI 2009 User Meeting
  226. A renaissance for the pioneering 16S rRNA gene
  227. High-resolution metagenomics targets specific functional types in complex microbial communities
  228. The Airborne Metagenome in an Indoor Urban Environment
  229. Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite
  230. Quantitative Phylogenetic Assessment of Microbial Communities in Diverse Environments
  231. The WTM Genes in Budding Yeast Amplify Expression of the Stress-Inducible Gene RNR3
  232. Metagenomics: DNA sequencing of environmental samples
  233. Comparative Metagenomics of Microbial Communities
  234. p53 Checkpoint-Defective Cells Are Sensitive to X Rays, but Not Hypoxia
  235. PlanarXY-model dynamics in a nematic liquid crystal system
  236. Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic