OOIR: Observatory of International Research

Papers

(The TQCC of Environmental Microbiology Reports is 5. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-11-01 to 2024-11-01.)

Article	Citations
Polysaccharide degradation by the Bacteroidetes: mechanisms and nomenclature	168
Deciphering bacterial mechanisms of root colonization	94
Strategies of organic phosphorus recycling by soil bacteria: acquisition, metabolism, and regulation	50
Microbiomes in agroecosystem: Diversity, function and assembly mechanisms	36
Bacterial rather than fungal diversity and community assembly drive soil multifunctionality in a subtropical forest ecosystem	32
ANME‐1 archaea may drive methane accumulation and removal in estuarine sediments	32
Above‐ground parts of white grapevine Vitis vinifera cv. Furmint share core members of the fungal microbiome	28
Vegetation richness, species identity and soil nutrients drive the shifts in soil bacterial communities during restoration process	27
Anaerobic oxidation of methane mediated by microbial extracellular respiration	26
Global warming impact on the expansion of fundamental niche of Cryptococcus gattii VGI in Europe	24
Climate change and the aquatic continuum: A cyanobacterial comeback story	24
Hydrostatic pressure is the universal key driver of microbial evolution in the deep ocean and beyond	24
Adaptation of bacteria to glyphosate: a microevolutionary perspective of the enzyme 5‐enolpyruvylshikimate‐3‐phosphate synthase	22
Soil pH and moisture govern the assembly processes of abundant and rare bacterial communities in a dryland montane forest	21
Facility‐specific ‘house’ microbiome ensures the maintenance of functional microbial communities into coffee beans fermentation: implications for source tracking	21
Quantitative acetylome analysis reveals involvement of glucosyltransferase acetylation in Streptococcus mutans biofilm formation	20
Cadmium sulfide nanoparticle biomineralization and biofilm formation mediate cadmium resistance of the deep‐sea bacterium Pseudoalteromonas sp. MT33b	20
Disentangling soil microbiome functions by perturbation	19
The ubiquitous soil verrucomicrobial clade ‘Candidatus Udaeobacter’ shows preferences for acidic pH	18
Cyanobacterial community composition and their functional shifts associated with biocrust succession in the Gurbantunggut Desert	18
Herbivory shapes the rhizosphere bacterial microbiota in potato plants	17
Cloacimonadota metabolisms include adaptations in engineered environments that are reflected in the evolutionary history of the phylum	17
Bacillus thuringiensis RZ2MS9, a tropical plant growth‐promoting rhizobacterium, colonizes maize endophytically and alters the plant's production of volatile organic compounds during	16
Global diversity and distribution of mushroom‐inhabiting bacteria	15
How dead is dead? Viable but non‐culturable versus persister cells	15

Bacteriophage therapeutics to confront multidrug‐resistant Acinetobacter baumannii ‐ a global health menace	15
Multiple plant hormone catabolism activities: an adaptation to a plant‐associated lifestyle by Achromobacter spp.	14
Current perspectives on the occurrence of Q fever: highlighting the need for systematic surveillance for a neglected zoonotic disease in Indian subcontinent	14
Post‐transcriptional deregulation of the tisB/istR‐1 toxin–antitoxin system promotes SOS‐independent persister formation in Escherichia coli	14
Oxygen metabolism shapes microbial settlement on photosynthetic kelp blades compared to artificial kelp substrates	14
Insights into the cyanosphere: capturing the respective metabolisms of cyanobacteria and chemotrophic bacteria in natural conditions?	14
Characterization of glyphosate‐resistant Burkholderia anthina and Burkholderia cenocepacia isolates from a commercial Roundup® solution	13
Heterogeneity of the white truffle Tuber magnatum in a limited geographic area of Central‐Southern Italy	13
Genotypes and phenotypes of methicillin‐resistant staphylococci isolated from shrimp aquaculture farms	12
Phthalate hydrolase: distribution, diversity and molecular evolution	12
Thermophilic microbial deconstruction and conversion of natural and transgenic lignocellulose	12
In it together: Candida–bacterial oral biofilms and therapeutic strategies	12
Conserved bacterial genomes from two geographically isolated peritidal stromatolite formations shed light on potential functional guilds	12
Metagenomic and metatranscriptomic analysis reveals enrichment for xenobiotic‐degrading bacterial specialists and xenobiotic‐degrading genes in a Canadian Prairie two‐cell	12
Novel Chlamydiae and Amoebophilus endosymbionts are prevalent in wild isolates of the model social amoeba Dictyostelium discoideum	12
The physiology and metabolic properties of a novel, low‐abundance Psychrilyobacter species isolated from the anoxic Black Sea shed light on its ecological role	12
Microbial diversity and adaptive strategies in the Mars‐like Qaidam Basin, North Tibetan Plateau, China	12
‘Candidatus Gromoviella agglomerans’, a novel intracellular Holosporaceae parasite of the ciliate Paramecium showing marked genome reduction	11
Variation of bacterial communities along the vertical gradient in Lake Issyk Kul, Kyrgyzstan	11
18S rRNA gene amplicon sequencing combined with culture‐based surveys of maize rhizosphere protists reveal dominant, plant‐enriched and culturable community members	11
Microbial rhodopsins are increasingly favoured over chlorophyll in High Nutrient Low Chlorophyll waters	11
The potential of Pseudomonas for bioremediation of oxyanions	11
Diversity dynamics of aerobic anoxygenic phototrophic bacteria in a freshwater lake	10
Effect of magnetite addition on transcriptional profiles of syntrophic Bacteria and Archaea during anaerobic digestion of propionate in wastewater sludge	10
Theß‐ketoadipate pathway ofAcinetobacter baumanniiis involved in complement resistance and affects resistance against aromatic antibiotics	10
What do we mean by viability in terms of ‘viable but non‐culturable’ cells?	10
Quantitative proteomics provides an insight into germination‐related proteins in the obligate biotrophic plant pathogen Spongospora subterranea	9
Microbial diversity and associated metabolic potential in the supraglacial habitat of a fast‐retreating glacier: a case study of Patsio glacier, North‐western Himalaya	9
Functional genome mining and taxono‐genomics reveal eco‐physiological traits and species distinctiveness of aromatic‐degrading Pseudomonas bharatica sp. nov.	9
Different patterns of belowground fungal diversity along altitudinal gradients with respect to microhabitat and guild types	9
Novel virocell metabolic potential revealed in agricultural soils by virus‐enriched soil metagenome analysis	9
A novel, divergent alkane monooxygenase (alkB) clade involved in crude oil biodegradation	9
Soil exposure accelerates recovery of the gut microbiota in antibiotic‐treated mice	9
Effects of different short‐term tillage managements on rhizosphere soil autotrophic CO₂‐fixing bacteria in a double‐cropping rice paddy field	9
Short‐term microbialite resurgence as indicator of ecological resilience against crises (Catamarca, Argentine Puna)	9
Spatiotemporal dynamics of marine microbial communities following a Phaeocystis bloom: biogeography and co‐occurrence patterns	9
O‐acetylesterase activity of Bifidobacterium bifidum sialidase facilities the liberation of sialic acid and encourages the proliferation of sialic acid scavenging Bifidobacterium brev	9
Comparative genomics analyses indicate differential methylated amine utilization trait within members of the genus Gemmobacter	9
Trophic interrelationships of bacteria are important for shaping soil protist communities	9
Two co‐dominant nitrogen‐fixing cyanobacteria demonstrate distinct acclimation and adaptation responses to cope with ocean warming	8
Unique bacterial communities and potential function along the vertical gradient in the deepest marine blue hole	8
Complete genome assembly of the levan‐positive strain PVFi1 of Pseudomonas savastanoi pv. savastanoi isolated from olive knots in Central Italy	8
Production and composition of extracellular polymeric substances by a unicellular strain and natural colonies of Microcystis: Impact of salinity and nutrient stress	8
Occurrence and phylogenetic analysis of Pseudanabaena sp. producing 2‐methylisoborneol in drinking water source of South Korea	8
Melanin protects Cryptococcus neoformans from spaceflight effects	8
Light‐dependent niche differentiation in two mixotrophic bacterivores	8
Plant‐associatedmicrobiota as a source of antagonistic bacteria against the phytopathogenErwinia amylovora	8
Who is in the driver's seat? Parvimonas micra: An understudied pathobiont at the crossroads of dysbiotic disease and cancer	8
Molecular and metabolic characteristics of wastewater associated Escherichia coli strains	8
Comparative microbial antibiotic resistome between urban and deep forest environments	7

Sulfur assimilation in corals with aposymbiotic and symbiotic zooxanthellae	7
Nectar compounds impact bacterial and fungal growth and shift community dynamics in a nectar analog	7
Pressure effects on sulfur‐oxidizing activity of Thiobacillus thioparus	7
Physiological response mechanism of heavy metal‐resistant endophytic fungi isolated from the roots of Polygonatum kingianum	7
Physical connections: prokaryotes parasitizing their kin	7
Sources of protein diet differentially stimulate the gut and water microbiota under freshwater crayfish, marron (Cherax cainii, Austin 2002) culture	7
Antibiotic resistance in mucosal bacteria from high Arctic migratory salmonids	7
Global 16S rRNA diversity of provannid snail endosymbionts from Indo‐Pacific deep‐sea hydrothermal vents	7
Scaling down the microbial loop: data‐driven modelling of growth interactions in a diatom–bacterium co‐culture	7
Unique phage–bacterium interplay in sponge holobionts from the southern Okinawa Trough hydrothermal vent	7
The use of different 16S rRNA gene variable regions in biogeographical studies	7
Contrasting influences on bacterial symbiont specificity by co‐occurring deep‐sea mussels and tubeworms	7
Microbial community associated with the crustose lichen Rhizocarpon geographicum L. (DC.) living on oceanic seashore: A large source of diversity revealed by using multiple isolation	7
The growth‐survival trade‐off is hard‐wired in the Lactococcus lactis gene regulation network	6
Global expansion of Vibrio spp. in hot water	6
Salmonella Newport outbreak in Brazilian parrots: confiscated birds from the illegal pet trade as possible zoonotic sources	6
A Bacillus subtilis ΔpdxT mutant suppresses vitamin B6 limitation by acquiring mutations enhancing pdxS gene dosage and ammonium assimilation	6
Type‐specific quantification of particulate methane monooxygenase gene of methane‐oxidizing bacteria at the oxic–anoxic interface of a surface paddy soil by digitalPCR	6
Microbial community succession in steam‐sterilized greenhouses infected with Fusarium oxysporum	6
Biogeographic structure of fungal communities in seagrass Halophilia ovalis across the Malay Peninsula	6
Providing octane degradation capability to Pseudomonas putidaKT2440 through the horizontal acquisition of oct genes located on an integrative and conjugative element	6
The ‘microbiome counterattack’: Insights on the soil and root‐associated microbiome in diverse chickpea and lentil genotypes after an erratic rainfall event	6
Impairment of a cyanobacterial glycosyltransferase that modifies a pilin results in biofilm development	6
Exploration on the Cr(VI) resistance mechanism of a novel thermophilic Cr(VI)‐reducing bacteria Anoxybacillus flavithermusABF1 isolated from Tengchong geotherma	6
A novel host of MCR‐5 belonging to Enterobacter spp. isolated from hospital sewage water	6
Genome analysis of Streptomyces sp. UH6 revealed the presence of potential chitinolytic machinery crucial for chitosan production	6
Alveolates (dinoflagellates, ciliates and apicomplexans) and Rhizarians are the most common microbial eukaryotes in temperate Appalachian karst caves	6
Two‐component system in Rahnella aquatilis is impacted by the hyphosphere of the arbuscular mycorrhizal fungus Rhizophagus irregularis	6
Saltmarsh rhizosphere fungal communities vary by sediment type and dominant plant species cover in Nova Scotia, Canada	6
Microbiome analysis in Lascaux Cave in relation to black stain alterations of rock surfaces and collembola	6
Chances and limitations when uncovering essential and non‐essential genes of Bacillus subtilis phages with CRISPR‐Cas9	5
Prevalence, diversity and genetic structure of Escherichia coli isolates from septic tanks	5
Acidophilic methanotrophs: Occurrence, diversity, and possible bioremediation applications	5
Mutualistic relationship between Nitrospira and concomitant heterotrophs	5
The bacterial signature offers vision into the machinery of coral fitness across high‐latitude coral reef in the South China Sea	5
Conserved infections and reproductive phenotypes of Wolbachia symbionts in Asian tortrix moths	5
Niche differentiation of atmospheric methane‐oxidizing bacteria and their community assembly in subsurface karst caves	5
SAR11 clade microdiversity and activity during the early spring blooms off Kerguelen Island, Southern Ocean	5
Sessile bacterium unlocks ability of surface motility through mutualistic interspecies interaction	5
High‐throughput sequencing reveals soil bacterial community structure and their interactions with environmental factors of the grassland fairy ring	5