OOIR: Observatory of International Research

Papers

(The TQCC of Environmental Microbiology Reports is 6. 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 2020-04-01 to 2024-04-01.)

Article	Citations
Polysaccharide degradation by the Bacteroidetes: mechanisms and nomenclature	120
Deciphering bacterial mechanisms of root colonization	75
Temperature impacts community structure and function of phototrophic Chloroflexi and Cyanobacteria in two alkaline hot springs in Yellowstone National Park	52
Strategies of organic phosphorus recycling by soil bacteria: acquisition, metabolism, and regulation	34
ANME‐1 archaea may drive methane accumulation and removal in estuarine sediments	31
Non‐denitrifier nitrous oxide reductases dominate marine biomes	26
Metagenome assembled‐genomes reveal similar functional profiles of CPR/Patescibacteria phyla in soils	26
Above‐ground parts of white grapevine Vitis vinifera cv. Furmint share core members of the fungal microbiome	23
The highly crystalline PET found in plastic water bottles does not support the growth of the PETase‐producing bacterium Ideonella sakaiensis	23
Induction of Escherichia coli O157:H7 into a viable but non‐culturable state by high temperature and its resuscitation	22
Bacterial rather than fungal diversity and community assembly drive soil multifunctionality in a subtropical forest ecosystem	21
Vegetation richness, species identity and soil nutrients drive the shifts in soil bacterial communities during restoration process	21
Autotrophic carbon fixation pathways along the redox gradient in oxygen‐depleted oceanic waters	21
Anaerobic oxidation of methane mediated by microbial extracellular respiration	20
Are we really studying persister cells?	20
Microbiomes in agroecosystem: Diversity, function and assembly mechanisms	20
Soil pH and moisture govern the assembly processes of abundant and rare bacterial communities in a dryland montane forest	20
Development of an electroactive aerobic biocathode for microbial fuel cell applications	20
Global warming impact on the expansion of fundamental niche of Cryptococcus gattii VGI in Europe	19
Cadmium sulfide nanoparticle biomineralization and biofilm formation mediate cadmium resistance of the deep‐sea bacterium Pseudoalteromonas sp. MT33b	19
Quantitative acetylome analysis reveals involvement of glucosyltransferase acetylation in Streptococcus mutans biofilm formation	18
Isolation and characterization of potentially pathogenic Vibrio species in a temperate, higher latitude hotspot	18
Tools to map target genes of bacterial two‐component system response regulators	18
Hydrostatic pressure is the universal key driver of microbial evolution in the deep ocean and beyond	18
Adaptation of bacteria to glyphosate: a microevolutionary perspective of the enzyme 5‐enolpyruvylshikimate‐3‐phosphate synthase	18

Biotic and abiotic factors shape arbuscular mycorrhizal fungal communities associated with the roots of the widespread fern Botrychium lunaria (Ophioglossaceae)	17
Transmission of the sponge microbiome: moving towards a unified model	16
Disentangling soil microbiome functions by perturbation	16
Herbivory shapes the rhizosphere bacterial microbiota in potato plants	16
Facility‐specific ‘house’ microbiome ensures the maintenance of functional microbial communities into coffee beans fermentation: implications for source tracking	14
Time as a microbial resource	14
Viruses of freshwater bloom‐forming cyanobacteria: genomic features, infection strategies and coexistence with the host	14
Climate change and the aquatic continuum: A cyanobacterial comeback story	14
Oxygen metabolism shapes microbial settlement on photosynthetic kelp blades compared to artificial kelp substrates	14
Clostridium difficile in soil conditioners, mulches and garden mixes with evidence of a clonal relationship with historical food and clinical isolates	13
The ubiquitous soil verrucomicrobial clade ‘Candidatus Udaeobacter’ shows preferences for acidic pH	13
Towards culturing the microbe of your choice	13
Global diversity and distribution of mushroom‐inhabiting bacteria	13
An optimized metaproteomics protocol for a holistic taxonomic and functional characterization of microbial communities from marine particles	12
How dead is dead? Viable but non‐culturable versus persister cells	12
Microbial rhodopsins are increasingly favoured over chlorophyll in High Nutrient Low Chlorophyll waters	11
Bacillus thuringiensis RZ2MS9, a tropical plant growth‐promoting rhizobacterium, colonizes maize endophytically and alters the plant's production of volatile organic compounds during	11
Insights into the cyanosphere: capturing the respective metabolisms of cyanobacteria and chemotrophic bacteria in natural conditions?	11
Characterization of glyphosate‐resistant Burkholderia anthina and Burkholderia cenocepacia isolates from a commercial Roundup® solution	11
Metagenomic and metatranscriptomic analysis reveals enrichment for xenobiotic‐degrading bacterial specialists and xenobiotic‐degrading genes in a Canadian Prairie two‐cell	11
Extracellular DNA builds and interacts with vibrio polysaccharide in the biofilm matrix formed by Vibrio cholerae	11
Novel Chlamydiae and Amoebophilus endosymbionts are prevalent in wild isolates of the model social amoeba Dictyostelium discoideum	10
Microbial diversity and adaptive strategies in the Mars‐like Qaidam Basin, North Tibetan Plateau, China	10
The physiology and metabolic properties of a novel, low‐abundance Psychrilyobacter species isolated from the anoxic Black Sea shed light on its ecological role	10
Bacteriophage therapeutics to confront multidrug‐resistant Acinetobacter baumannii ‐ a global health menace	10
Genotypes and phenotypes of methicillin‐resistant staphylococci isolated from shrimp aquaculture farms	10
Synergistic role of abiotic factors driving viable but non‐culturable Vibrio cholerae	10
Post‐transcriptional deregulation of the tisB/istR‐1 toxin–antitoxin system promotes SOS‐independent persister formation in Escherichia coli	10
Subtle bacterioplankton community responses to elevated CO₂ and warming in the oligotrophic South Pacific gyre	9
Substrate‐dependent incorporation of carbon and hydrogen for lipid biosynthesis by Methanosarcina barkeri	9
A novel, divergent alkane monooxygenase (alkB) clade involved in crude oil biodegradation	9
Heterogeneity of the white truffle Tuber magnatum in a limited geographic area of Central‐Southern Italy	9
Conserved bacterial genomes from two geographically isolated peritidal stromatolite formations shed light on potential functional guilds	9
Thermophilic microbial deconstruction and conversion of natural and transgenic lignocellulose	9
18S rRNA gene amplicon sequencing combined with culture‐based surveys of maize rhizosphere protists reveal dominant, plant‐enriched and culturable community members	9
Phthalate hydrolase: distribution, diversity and molecular evolution	9
Quantitative proteomics provides an insight into germination‐related proteins in the obligate biotrophic plant pathogen Spongospora subterranea	9
Bradyrhizobium sp. strain ORS278 promotes rice growth and its quorum sensing system is required for optimal root colonization	8
Comparative genomics analyses indicate differential methylated amine utilization trait within members of the genus Gemmobacter	8
Short‐term microbialite resurgence as indicator of ecological resilience against crises (Catamarca, Argentine Puna)	8
Cyanobacterial community composition and their functional shifts associated with biocrust succession in the Gurbantunggut Desert	8
Theß‐ketoadipate pathway ofAcinetobacter baumanniiis involved in complement resistance and affects resistance against aromatic antibiotics	8
Effects of different short‐term tillage managements on rhizosphere soil autotrophic CO₂‐fixing bacteria in a double‐cropping rice paddy field	8
Different patterns of belowground fungal diversity along altitudinal gradients with respect to microhabitat and guild types	8
What do we mean by viability in terms of ‘viable but non‐culturable’ cells?	8
‘Candidatus Gromoviella agglomerans’, a novel intracellular Holosporaceae parasite of the ciliate Paramecium showing marked genome reduction	8
Variation of bacterial communities along the vertical gradient in Lake Issyk Kul, Kyrgyzstan	8
Multiple plant hormone catabolism activities: an adaptation to a plant‐associated lifestyle by Achromobacter spp.	8
Cloacimonadota metabolisms include adaptations in engineered environments that are reflected in the evolutionary history of the phylum	7
Soil exposure accelerates recovery of the gut microbiota in antibiotic‐treated mice	7

Comparative microbial antibiotic resistome between urban and deep forest environments	7
Diversity dynamics of aerobic anoxygenic phototrophic bacteria in a freshwater lake	7
Global 16S rRNA diversity of provannid snail endosymbionts from Indo‐Pacific deep‐sea hydrothermal vents	7
Contrasting influences on bacterial symbiont specificity by co‐occurring deep‐sea mussels and tubeworms	7
In it together: Candida–bacterial oral biofilms and therapeutic strategies	7
A first response to osmostress inAcinetobacter baumannii: transient accumulation of K⁺and its replacement by compatible solutes	7
Current perspectives on the occurrence of Q fever: highlighting the need for systematic surveillance for a neglected zoonotic disease in Indian subcontinent	7
Unique bacterial communities and potential function along the vertical gradient in the deepest marine blue hole	7
Complete genome assembly of the levan‐positive strain PVFi1 of Pseudomonas savastanoi pv. savastanoi isolated from olive knots in Central Italy	7
Pressure effects on sulfur‐oxidizing activity of Thiobacillus thioparus	7
Two co‐dominant nitrogen‐fixing cyanobacteria demonstrate distinct acclimation and adaptation responses to cope with ocean warming	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
Physical connections: prokaryotes parasitizing their kin	7
Sulfur assimilation in corals with aposymbiotic and symbiotic zooxanthellae	7
Spatiotemporal dynamics of marine microbial communities following a Phaeocystis bloom: biogeography and co‐occurrence patterns	7
Pan‐genome analysis of Exiguobacterium reveals species delineation and genomic similarity with Exiguobacterium profundum PHM 11	7
The potential of Pseudomonas for bioremediation of oxyanions	6
Plant‐associatedmicrobiota as a source of antagonistic bacteria against the phytopathogenErwinia amylovora	6
Unique phage–bacterium interplay in sponge holobionts from the southern Okinawa Trough hydrothermal vent	6
Sources of protein diet differentially stimulate the gut and water microbiota under freshwater crayfish, marron (Cherax cainii, Austin 2002) culture	6
The growth‐survival trade‐off is hard‐wired in the Lactococcus lactis gene regulation network	6
Microbial diversity and associated metabolic potential in the supraglacial habitat of a fast‐retreating glacier: a case study of Patsio glacier, North‐western Himalaya	6
Functional genome mining and taxono‐genomics reveal eco‐physiological traits and species distinctiveness of aromatic‐degrading Pseudomonas bharatica sp. nov.	6
Genome analysis of Streptomyces sp. UH6 revealed the presence of potential chitinolytic machinery crucial for chitosan production	6
Saltmarsh rhizosphere fungal communities vary by sediment type and dominant plant species cover in Nova Scotia, Canada	6
Exploration on the Cr(VI) resistance mechanism of a novel thermophilic Cr(VI)‐reducing bacteria Anoxybacillus flavithermusABF1 isolated from Tengchong geotherma	6
The contribution of microbiology toward attainment of sustainable development goals: the need to conserve soil health while maximizing its productivity	6
Melanin protects Cryptococcus neoformans from spaceflight effects	6
Light‐dependent niche differentiation in two mixotrophic bacterivores	6
Providing octane degradation capability to Pseudomonas putidaKT2440 through the horizontal acquisition of oct genes located on an integrative and conjugative element	6
Biodegradation of textile waste by marine bacterial communities enhanced by light	6
Occurrence and phylogenetic analysis of Pseudanabaena sp. producing 2‐methylisoborneol in drinking water source of South Korea	6
Molecular diversity of Extended‐spectrum β‐lactamase‐producing Escherichia coli from vultures in Canary Islands	6
The use of different 16S rRNA gene variable regions in biogeographical studies	6
Darwinian individuality of extrachromosomal genetic elements calls for population genetics tinkering	6