Environmental Microbiology

Article	Citations
Complex co‐evolutionary relationships between cicadas and their symbionts	106
Rhizopine biosensors for plant‐dependent control of bacterial gene expression	81
Sublethal nickel toxicity shuts off manganese oxidation and pellicle biofilm formation in Pseudomonas putidaGB‐1	80
Assembly and comparative analyses of the Geosiphon pyriformis metagenome	77
The distinctive weathering crust habitat of a High Arctic glacier comprises discrete microbial micro‐habitats	77
When the going gets tough, the tough get going—Novel bacterial AAA+ disaggregases provide extreme heat resistance	71
Determinants in the phage life cycle: The dynamic nature of ssDNA phage FLiP and host interactions under varying environmental conditions and growth phases	65
Genome‐based taxonomic analysis of the genus Pseudoalteromonas reveals heterotypic synonyms	65
Genes and enzymes involved in the biodegradation of the quaternary carbon compound pivalate in the denitrifying Thauera humireducens strain PIV‐1	61
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Sequestration and efflux largely account for cadmium and copper resistance in the deep‐sea Nitratiruptor sp. SB155‐2 (phylum Campylobacterota)	59
Tectonic and geological setting influence hot spring microbiology	59
Consequences of light spectra for pigment composition and gene expression in the cryptophyte Rhodomonas salina	55
Ending the era of Haber–Bosch	54
Prescribed fire selects for a pyrophilous soil sub‐community in a northern California mixed conifer forest	52
Ecological processes differ in community assembly of Archaea, Bacteria and Eukaryotes in a biogeographical survey of groundwater habitats in the Quebec region (Canada)	51
Microbiology in India: status, challenges and scope	49
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Polar flagellar wrapping and lateral flagella jointly contribute to Shewanella putrefaciens environmental spreading	46
DNA metabarcoding focused on difficult‐to‐culture protists: An effective approach to clarify biological interactions	45
The RNA virosphere: How big and diverse is it?	45
Distinct bacterial succession and functional response to alginate in the South, Equatorial, and North Pacific Ocean	45
Chemoreceptors from the commensal gut Roseburia rectibacter bind to mucin and trigger chemotaxis	44
Environmental microbiology going computational—Predictive ecology and unpredicted discoveries	44

Here, there and everywhere: Ecology and biology of the Dependentiae phylum	44
Transcriptomes of an oceanic diatom reveal the initial and final stages of acclimation to copper deficiency	43
Communality in microbial stress response and differential metabolic interactions revealed by time‐series analysis of sponge symbionts	42
The size and diversity of microbes determine carbon use efficiency in soil	41
Metatranscriptomes reveal the diverse responses of Thaumarchaeota ecotypes to environmental variations in the northern slope of the South China Sea	39
Endophytic bacterial community of Stellera chamaejasme L. and its role in improving host plants' competitiveness in grasslands	38
Metabolic differences between a wild and a wine strain of Saccharomyces cerevisiae during fermentation unveiled by multi‐omic analysis	38
Comparative genomics reveals a core gene toolbox for lifestyle transitions in Hypocreales fungi	38
Nucleoid‐associated Rok differentially affects chromosomal transformation on Bacillus subtilis recombination‐deficient cells	37
Metabolic reconstruction of the near complete microbiome of the model sponge Ianthella basta	37
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Antidepressants: A new front in the war against antibiotics resistance	37
Plant salt tolerance: ACC deaminase‐producing endophytes change plant proteomic profiles	36
Viral mutations and spread: An annotated selection of World Wide Web sites relevant to the topics in environmental microbiology	36
Genomic differentiation of three pico‐phytoplankton species in the Mediterranean Sea	35
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How has horizontal gene transfer shaped the evolution of insect genomes?	35
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Complex and flexible catabolism in Aromatoleum aromaticum pCyN1	34
A novel methoxydotrophic metabolism discovered in the hyperthermophilic archaeon Archaeoglobus fulgidus	34
Lasiodiplodia theobromae protein LtScp1 contributes to fungal virulence and protects fungal mycelia against hydrolysis by grapevine chitinase	33
Asexual reproductive potential trumps virulence as a predictor of competitive ability in mixed infections	33
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A lipopolysaccharide‐dependent phage infects a pseudomonad phytopathogen and can evolve to evade phage resistance	32
Interannual dynamics of putative parasites (Syndiniales Group II) in a coastal ecosystem	32
Overexpressing Pleurotus ostreatus rho1b results in transcriptional upregulation of the putative cellulolytic enzyme‐encoding genes observed in ccl1 disruptants	31
Evidence for an arginine‐dependent route for the synthesis of NO in the model filamentous fungus Aspergillus nidulans	31
IncP‐type plasmids carrying genes for antibiotic resistance or for aromatic compound degradation are prevalent in sequenced Aromatoleum and Thauera strai	31
Iron corrosion by methanogenic archaea characterized by stable isotope effects and crust mineralogy	31
Proteomic responses of the coccolithophore Emiliania huxleyi to zinc limitation and trace metal substitution	30
Virus diversity in metagenomes of a lichen symbiosis (Umbilicaria phaea): complete viral genomes, putative hosts and elevational distributions	30
Connecting environmental and evolutionary microbiology for the development of new agrobiotechnological tools	30
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Microbe–sediment interactions in Great Lakes recreational waters: Implications for human health risk	30
Anaerobic ammonia oxidation: An annotated selection of World Wide Web sites relevant to the topics in environmental microbiology	30
Microbiomes and drug metabolism: An annotated selection of World Wide Web sites relevant to the topics in environmental microbiology	29
Issue Information	28
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Unravelling the genomic and environmental diversity of the ubiquitous Solirubrobacter	28
Responses of dinoflagellate cells to ultraviolet‐C irradiation	28
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Metagenomics reveal the potential for geosmin and 2‐methylisoborneol production across multiple bacterial phyla in recirculating aquaculture systems	28
Degradation of ester linkages in rice straw components by Sphingobium species recovered from the sea bottom using a non‐secretory tannase‐family α/β hydrolase	28
Enhanced ability of freshwater bacteria to secrete extracellular vesicles upon interaction with virus	28
Strong population genomic structure of the toxic dinoflagellate Alexandrium minutum inferred from meta‐transcriptome samples	28
The role of foraging pollinators in assembling the flower microbiota and transmitting the fire blight pathogen Erwinia amylovora	28
Archaeal blooms and busts in an estuarine time series	27
Microbes mediating the sulfur cycle in the Atlantic Ocean and their link to chemolithoautotrophy	27
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Identification of the Flavobacterium johnsoniae cysteate‐fatty acyl transferase required for capnine synthesis and for efficient gliding motility	27
Prokaryotic maintenance respiration and growth efficiency field patterns reproduced by temperature and nutrient control at mesocosm scale	27
Metagenomic stable isotope probing reveals bacteriophage participation in soil carbon cycling	26
Mesoscale oceanographic meanders influence protist community function and structure in the southern Indian Ocean	26
Can we manage microbial systems to enhance carbon storage?	26
The mineral weathering ability of Collimonas pratensis PMB3(1) involves a Malleobactin‐mediated iron acquisition system	26
Sulfidic acetate mineralization at 45°C by an aquifer microbial community: key players and effects of heat changes on activity and community structure	26
Integrons, transposons and IS elements promote diversification of multidrug resistance plasmids and adaptation of their hosts to antibiotic pollutants from pharmaceutical companies	26
Pseudomonas syringae isolated in lichens for the first time: Unveiling Peltigera genus as the exclusive host	26
The secret life of plant‐beneficial rhizosphere bacteria: insects as alternative hosts	25
Low CyaA expression and anti‐cooperative binding of cAMP to CRP frames the scope of the cognate regulon of Pseudomonas putida	25
The effect of methane and methanol on the terrestrial ammonia‐oxidizing archaeon ‘Candidatus Nitrosocosmicus franklandus C13’	25
Simultaneous analysis of seven 16S rRNA hypervariable gene regions increases efficiency in marine bacterial diversity detection	25
Quorum sensing disruption regulates hydrolytic enzyme and biofilm production in estuarine bacteria	25
Verticillium dahliae Asp1 regulates the transition from vegetative growth to asexual reproduction by modulating microtubule dynamic organization	25
Regulation of zinc homeostatic genes by environmental pH in the filamentous fungus Aspergillus fumigatus	25
What is truth – in science and beyond	25
Particle‐associated and free‐living bacterial communities in an oligotrophic sea are affected by different environmental factors	25
RNase1 can modulate gut microbiota and metabolome after Aeromonas hydrophila infection in blunt snout bream	24
Beyond purified dietary fibre supplements: Compositional variation between cell wall fibre from different plants influences human faecal microbiota activity and growth in vitro	24
Microbial biofilms are shaped by the constant dialogue between biological and physical forces in the extracellular matrix	24
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Impact ofMtrAon phosphate metabolism genes and the response to altered phosphate conditions inStreptomyces	24
SARS‐CoV‐2 biology and variants: anticipation of viral evolution and what needs to be done	24
Metabolic history and metabolic fitness as drivers of anabolic heterogeneity in isogenic microbial populations	24
Nontarget impacts of neonicotinoids on nectar‐inhabiting microbes	24
How multiple farming conditions correlate with the composition of the raw cow's milk lactic microbiome	24
PeMetR‐mediated sulfur assimilation is essential for virulence and patulin biosynthesis in Penicillium expansum	24
The exometabolome of microbial communities inhabiting bare ice surfaces on the southern Greenland Ice Sheet	24
The Bacillus phage SPβ and its relatives: a temperate phage model system reveals new strains, species, prophage integration loci, conserved proteins and lysogeny management component	24
Selective and differential feeding on marine prokaryotes by mucous mesh feeders	23
Land use alters bacterial growth dynamics in soil	23
Single‐amplified genomes reveal most streamlined free‐living marine bacteria	23
A major checkpoint for protein expression in Rhodobacter sphaeroides during heat stress response occurs at the level of translation	23
Endolithic microbial composition in Helliwell Hills, a newly investigated Mars‐like area in Antarctica	23
A designed plasmid‐transition strategy enables rapid construction of robust and versatile synthetic exoelectrogens for environmental applications	23
Structural and functional microbial diversity in deadwood respond to decomposition dynamics	23
Evidence of a selective and bi‐directional relationship between arbuscular mycorrhizal fungal and bacterial communities co‐inhabiting plant roots	23
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Decoding the RNA virome of the tree parasite Armillaria provides new insights into the viral community of soil‐borne fungi	23
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How does metal soil pollution change the plant mycobiome?	22
Gene Expression by a Model Fungus in the Ascomycota Provides Insight Into the Decay of Fungal Necromass	22
Identification of novel catabolic genes involved in 17β‐estradiol degradation by Novosphingobium sp. ES2‐1	22
The two‐component system RstAB regulates production of a polysaccharide capsule with a role in virulence in the marine pathogen Photobacterium damselae subsp. damselae<	22
Adaptive Responses of Cyanobacteria to Phosphate Limitation: A Focus on Marine Diazotrophs	22
Microbial communities from weathered outcrops of a sulfide‐rich ultramafic intrusion, and implications for mine waste management	22
Complex interactions between diverse mobile genetic elements drive the evolution of metal‐resistant bacterial genomes	22
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Comprehensive single‐PCR 16S and 18S rRNA community analysis validated with mock communities, and estimation of sequencing bias against 18S	22
Sub‐lithic photosynthesis in hot desert habitats	21
Interactions between soil properties, agricultural management and cultivar type drive structural and functional adaptations of the wheat rhizosphere microbiome to drought	21
Growth of the acetogenic bacterium Acetobacterium woodii on glycerol and dihydroxyacetone	21
Nutritional inter‐dependencies and a carbazole‐dioxygenase are key elements of a bacterial consortium relying on a Sphingomonas for the degradation of the fungicide thiabendazole	21
Redefining the phylogenetic and metabolic diversity of phylum Omnitrophota	21
Ability of phages to infect Acinetobacter calcoaceticus‐Acinetobacter baumannii complex species through acquisition of different pectate lyase depolymerase domains	21
Unmasking photogranulation in decreasing glacial albedo and net autotrophic wastewater treatment	21
Vaginotypes of the human vaginal microbiome	21
Functional redundancy of seasonal vitamin B12 biosynthesis pathways in coastal marine microbial communities	21
Tree phyllospheres are a habitat for diverse populations of CO‐oxidizing bacteria	21
Salinity‐driven ecology and diversity changes of heterocytous cyanobacteria in Australian freshwater and coastal‐marine microbial mats	21
Microbial community origin and fate through a rural wastewater treatment plant	21
Microbial community composition controls carbon flux across litter types in early phase of litter decomposition	21
Bacteria associated with wood tissues of Esca‐diseased grapevines: functional diversity and synergy with Fomitiporia mediterranea to degrade wood components	21
Campylobacterota dominate the microbial communities in a tropical karst subterranean estuary, with implications for cycling and export of nitrogen to coastal waters	21
The two‐component system TarR–TarS is regulated by c‐di‐GMP/FleQ and FliA and modulates antibiotic susceptibility in Pseudomonas putida	20
Pseudomonas aeruginosa isolates defective in function of the LasR quorum sensing regulator are frequent in diverse environmental niches	20
Current distribution and potential expansion of the harmful benthic dinoflagellateOstreopsiscf.siamensistowards the warming waters of the Bay of Biscay,North‐EastAt	20
What are the options for treating infections by persister‐forming pathogens?	20
Characterization of the molecular mechanisms of silicon uptake in coccolithophores	20
FurC (PerR) from Anabaena sp. PCC7120: a versatile transcriptional regulator engaged in the regulatory network of heterocyst development and nitrogen fixation	20
Characterization of the juvenile koala gut microbiome across wild populations	20
Environmental role of aromatic carboxylesterases	20
Metagenomic insights into the environmental adaptation and metabolism of Candidatus Haloplasmatales, one archaeal order thriving in saline lakes	20
Prevalence of genetically similar Flavobacterium columnare phages across aquaculture environments reveals a strong potential for pathogen control	19
Household environmental microbiota influences early‐life eczema development	19
Rhodopsin driven microbial CO2 fixation using synthetic biology design	19
Enrichment of nosZ‐type denitrifiers by arbuscular mycorrhizal fungi mitigates N2O emissions from soybean stubbles	19
Intra‐genomic rRNA gene variability of Nassellaria and Spumellaria (Rhizaria, Radiolaria) assessed by Sanger, MinION and Illumina sequencing	19
Mycenaspecies can be opportunist‐generalist plant root invaders	19

The consensus Nglyco‐X‐S/T motif and a previously unknown Nglyco‐N‐linked glycosylation are necessary for growth and pathogenicity of Phytophthora	19
The carnitine degradation pathway ofAcinetobacter baumanniiand its role in virulence	19
Local environment shapes milk microbiomes while evolutionary history constrains milk macronutrients in captive cercopithecine primates	19
Membrane adaptation in the hyperthermophilic archaeon Pyrococcus furiosus relies upon a novel strategy involving glycerol monoalkyl glycerol tetraether lipids	19
Disentangle genus microdiversity within a complex microbial community by using a multi‐distance long‐read binning method: example of Candidatus Accumulibacter	19
Into the darkness: the ecologies of novel ‘microbial dark matter’ phyla in an Antarctic lake	19
The toxicological spectrum of the Bacillus cereus toxin cereulide points towards niche‐specific specialisation	19
Evolution and function of nitrogen fixation gene clusters in sugarcane associated Bradyrhizobium strains	19
Hunting for pigments in bacterial settlers of the Great Pacific Garbage Patch	19
Specificity and genetic polymorphism in the Vfm quorum sensing system of plant pathogenic bacteria of the genus Dickeya	19
ArsV and ArsW provide synergistic resistance to the antibiotic methylarsenite	19
Viral diversity in Phytophthora cactorum population infecting strawberry	18
Is biofilm formation intrinsic to the origin of life?	18
The catabolic pathways of in situ rhizosphere PAH degraders and the main factors driving PAH rhizoremediation in oil‐contaminated soil	18
Experimental evidence of d‐glutamate racemase activity in the uncultivated bacterium Candidatus Saccharimonas aalborgensis	18
Biogeochemical characterization of four depleted gas reservoirs for conversion into underground hydrogen storage	18
Novel Alcaligenes ammonioxydans sp. nov. from wastewater treatment sludge oxidizes ammonia to N2 with a previously unknown pathway	18
Prevalence, complete genome, and metabolic potentials of a phylogenetically novel cyanobacterial symbiont in the coral‐killing sponge, Terpios hoshinota	18
Late Pleistocene‐dated divergence between South Hemisphere populations of the non‐conventional yeast L. cidri	18
Assembly processes and source tracking of planktonic and benthic bacterial communities in the Yellow River estuary	18
Soil actinobacteria tend to have neutral interactions with other co‐occurring microorganisms, especially under oligotrophic conditions	17
Initiation of efficient C4 pathway in response to low ambient CO2 during the bloom period of a marine dinoflagellate	17
Beyond the theory: From holobiont concept to microbiome engineering	17
Microplastic polymer properties as deterministic factors driving terrestrial plastisphere microbiome assembly and succession in the field	17
Substrate composition influences amino acid carbon isotope profiles of fungi: implications for tracing fungal contributions to food webs	17
Genetically related Clostridium difficile from water sources and human CDI cases revealed by whole‐genome sequencing	17
Termite mound formation reduces the abundance and diversity of soil resistomes	17
Expansion of bilin‐based red light sensors in the subaerial desert cyanobacterium Nostoc flagelliforme	17
An atlas of bacterial secondary metabolite biosynthesis gene clusters	17
Distinctive features of the Gac‐Rsm pathway in plant‐associated Pseudomonas	17
Insights into the monkeypox virus: Making of another pandemic within the pandemic?	17
Evolution under low antibiotic concentrations: a risk for the selection of Pseudomonas aeruginosa multidrug‐resistant mutants in nature	17
A lesson from polybutylene succinate plastisphere to the discovery of novel plastic degrading enzyme genes in marine vibrios	17
Physiology and genetics of ethanologenesis in the acetogenic bacterium Acetobacterium woodii	17
Whole‐genome analysis of Klebsiella pneumoniae from bovine mastitis milk in the U.S.	17
Slope aspect determines the abundance and composition of nitrogen‐cycling microbial communities in an alpine ecosystem	16
Diversity of archaea and niche preferences among putative ammonia‐oxidizing Nitrososphaeria dominating across European arable soils	16
Environmental formation of methylmercury is controlled by synergy of inorganic mercury bioavailability and microbial mercury‐methylation capacity	16
Continental‐scale niche differentiation of dominant topsoil archaea in drylands	16
Root microbiome assembly of As‐hyperaccumulator Pteris vittata and its efficacy in arsenic requisition	16
One substrate, many fates: different ways of methanol utilization in the acetogen Acetobacterium woodii	16
Microplastics reduce soil microbial network complexity and ecological deterministic selection	16
Contribution of stochastic processes to the microbial community assembly on field‐collected microplastics	16
Short‐term plastisphere colonization dynamics across six plastic types	16
A PadR family transcriptional repressor controls transcription of a trivalent metalloid resistance operon of Azospirillum halopraeferens strain Au 4	16
Diversity of dimethylsulfide‐degrading methanogens and sulfate‐reducing bacteria in anoxic sediments along the Medway Estuary, UK	16
Stochastic processes regulate belowground community assembly in alpine grasslands on the Tibetan Plateau	16
The rice foot rot pathogen Dickeya zeae alters the in‐field plant microbiome	16
Arsenic pollution from human activities drives changes in soil microbial community characteristics	16
Growth of nitrite‐oxidizing Nitrospira and ammonia‐oxidizing Nitrosomonas in marine recirculating trickling biofilter reactors	16
Identification of putative coral pathogens in endangered Caribbean staghorn coral using machine learning	16
Mechanisms of resistance to glyphosate: an example of bacterial adaptability to anthropogenic substances	15
Adding experimental precision to the realism of field observations: Plant communities structure bacterial communities in a glacier forefield	15
Defence systems and horizontal gene transfer in bacteria	15
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A meta‐analysis study of the robustness and universality of gut microbiota–shrimp diseases relationship	15
ChlOR, a GMC family oxidoreductase that evolved independently from the actinomycete, confers resistance to amphenicol antibiotics	15
Ero1‐Pdi1 module‐catalysed dimerization of a nucleotide sugar transporter, FonNst2, regulates virulence of Fusarium oxysporum on watermelon	15
Gene expression in the microbial consortia of colonial Microcystis aeruginosa‐a potential buoyant particulate biofilm	15
Validation of key sponge symbiont pathways using genome‐centric metatranscriptomics	15
Adaptive Laboratory Evolution Uncovers Potential Role of a DNA Helicase Mutation in Torulaspora delbrueckii Increased Sulphite Resistance	15
Characterization of a dszEABC operon providing fast growth on dibenzothiophene and construction of broad‐host‐range biodesulfurization catalysts	15
A multi‐study analysis of gut microbiome data from the blue mussel (Mytilus edulis) emphasises the impact of depuration on biological interpretation	15
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Antarctic Geothermal Soils Exhibit an Absence of Regional Habitat Generalist Microorganisms	15
Damming river shapes distinct patterns and processes of planktonic bacterial and microeukaryotic communities	15
Identifying Bacteria Responsible for Non‐Sulphate‐Based Hydrogen Sulphide Production in Aquaculture	15
Microbial transformation of distinct exogenous substrates into analogous composition of recalcitrant dissolved organic matter	15
Periphytic biofilms function as a double‐edged sword influencing nitrogen cycling in paddy fields	15
RepC_soli: a novel promiscuous plasmid type of Rhodobacteraceae mediates horizontal transfer of antibiotic resistances in the ocean	14
The Pareto principle: To what extent does it apply to resource acquisition in stable microbial communities and thereby steer their geno−/ecotype compositions and interactions between their members?	14
Bacterial dynamics of sugarcane silage in the tropics	14
Environmental filtering governs consistent vertical zonation in sedimentary microbial communities across disconnected mountain lakes	14
Wsp system oppositely modulates antibacterial activity and biofilm formation via FleQ‐FleN complex in Pseudomonas putida	14
The ‘oxygen’ in oxygen minimum zones	14
PahT regulates carbon fluxes in Novosphingobium sp. HR1a and influences its survival in soil and rhizospheres	14
Physiological stage drives fungal community dynamics and diversity in Leptospermum scoparium (mānuka) flowers	14
Punch in the gut: parasite tolerance of phytochemicals reflects host diet	14
Landscape context and substrate characteristics shape fungal communities of dead spruce in urban and semi‐natural forests	14
A new dimethylsulfoniopropionate lyase of the cupin superfamily in marine bacteria	14
The catalase‐peroxidase PiCP1 plays a critical role in abiotic stress resistance, pathogenicity and asexual structure development in Phytophthora infestans	14
Lysobacter enzymogenes antagonizes soilborne bacteria using the type IV secretion system	14
Prokaryotic community dynamics and nitrogen‐cycling genes in an oxygen‐deficient upwelling system during La Niña and El Niño conditions	14
Metabolism of key atmospheric volatile organic compounds by the marine heterotrophic bacterium Pelagibacter HTCC1062 (SAR11)	14
Is an archaeon the ancestor of eukaryotes?	14
Reduction of the resistome risk from cow slurry and manure microbiomes to soil and vegetable microbiomes	14
Is an azole‐resistant Aspergillus hotspot emerging in South‐East Asia?	14
Vertical community patterns of Labyrinthulomycetes protists reveal their potential importance in the oceanic biological pump	14
Geochemical factors impacting nitrifying communities in sandy sediments	14
Genotypic and phenotypic characterization of hydrogenotrophic denitrifiers	14
Genetic variation of Batrachochytrium dendrobatidis is linked to skin bacterial diversity in the Pacific treefrog Hyliola regilla (hypochondriaca)	14
The pan‐genome of Splendidus clade species in the familyVibrionaceae: Insights into evolution, adaptation, and pathogenicity	13
PrbP modulates biofilm formation in Liberibacter crescens	13
Comparative genomics reveals the adaptation of ammonia‐oxidising Thaumarchaeota to arid soils	13
The acetoin assimilation pathway of Pseudomonas putida KT2440 is regulated by overlapping global regulatory elements that respond to nutritional cues	13