Featured
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Article
| Open Access
Widespread and largely unknown prophage activity, diversity, and function in two genera of wheat phyllosphere bacteria
- Peter Erdmann Dougherty
- , Tue Kjærgaard Nielsen
- & Lars Hestbjerg Hansen
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Article
| Open Access
Coordinated proteome change precedes cell lysis and death in a mat-forming cyanobacterium
- Jackie Zorz
- , Alexandre J. Paquette
- & Agasteswar Vadlamani
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Article
| Open Access
Strain-level diversity of symbiont communities between individuals and populations of a bioluminescent fish
- A. L. Gould
- , S. A. Donohoo
- & E. E. Neff
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Article
| Open Access
Amino acid auxotrophies in human gut bacteria are linked to higher microbiome diversity and long-term stability
- Svenja Starke
- , Danielle M. M. Harris
- & Silvio Waschina
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Article
| Open Access
Predation-resistant Pseudomonas bacteria engage in symbiont-like behavior with the social amoeba Dictyostelium discoideum
- Margaret I. Steele
- , Jessica M. Peiser
- & David C. Queller
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Article
| Open Access
Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium
- Elizabeth A. McDaniel
- , Matthew Scarborough
- & Ryan M. Ziels
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Article
| Open Access
Microbial drivers of DMSO reduction and DMS-dependent methanogenesis in saltmarsh sediments
- Dennis Alexander Tebbe
- , Charlotte Gruender
- & Hendrik Schäfer
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Article
| Open Access
Genomic and transcriptomic insights into complex virus–prokaryote interactions in marine biofilms
- Kun Zhou
- , Tin Yan Wong
- & Pei-Yuan Qian
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Article
| Open Access
Mutualism reduces the severity of gene disruptions in predictable ways across microbial communities
- Jonathan N. V. Martinson
- , Jeremy M. Chacón
- & William R. Harcombe
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Review Article
| Open Access
Progress and challenges in exploring aquatic microbial communities using non-targeted metabolomics
- Monica Thukral
- , Andrew E. Allen
- & Daniel Petras
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Soil bacterium manipulates antifungal weapons by sensing intracellular type IVA secretion system effectors of a competitor
- Bingxin Wang
- , Zeyu Zhang
- & Guoliang Qian
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Brief Communication
| Open Access
Human milk oligosaccharides modify the strength of priority effects in the Bifidobacterium community assembly during infancy
- Martin F. Laursen
- & Henrik M. Roager
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Article
| Open Access
Single cell dynamics and nitrogen transformations in the chain forming diatom Chaetoceros affinis
- Rickard Stenow
- , Elizabeth K. Robertson
- & Helle Ploug
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Article
| Open Access
Frequency of change determines effectiveness of microbial response strategies
- Shengjie Li
- , Damon Mosier
- & Muhe Diao
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Trophic interactions shape the spatial organization of medium-chain carboxylic acid producing granular biofilm communities
- Pieter Candry
- , Grayson L. Chadwick
- & Korneel Rabaey
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Oxytetracycline and heavy metals promote the migration of resistance genes in the intestinal microbiome by plasmid transfer
- Xiaojun Lin
- , Chaonan Zhang
- & Yanbin Xu
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Article
| Open Access
Syntrophic entanglements for propionate and acetate oxidation under thermophilic and high-ammonia conditions
- Abhijeet Singh
- , Anna Schnürer
- & Maria Westerholm
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Article
| Open Access
Host and microbiome jointly contribute to environmental adaptation
- Carola Petersen
- , Inga K. Hamerich
- & Hinrich Schulenburg
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Article
| Open Access
Starvation responses impact interaction dynamics of human gut bacteria Bacteroides thetaiotaomicron and Roseburia intestinalis
- Bin Liu
- , Daniel Rios Garza
- & Karoline Faust
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Perspective
| Open Access
Impact of intraspecific variation in insect microbiomes on host phenotype and evolution
- Claudia Lange
- , Stéphane Boyer
- & Martin Kaltenpoth
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Article
| Open Access
Hydrogenotrophic methanogenesis is the key process in the obligately syntrophic consortium of the anaerobic ameba Pelomyxa schiedti
- Sebastian C. Treitli
- , Pavla Hanousková
- & Vladimír Hampl
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Comment
| Open Access
Novel T4ASS effector with quorum quenching activity
- Vittorio Venturi
- & Cristina Bez
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Conversion of steppe to cropland increases spatial heterogeneity of soil functional genes
- Junjie Liu
- , Yaping Guo
- & Guanghua Wang
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Article
| Open Access
Palmitoleic acid as a coordinating molecule between the invasive pinewood nematode and its newly associated fungi
- Jing Ning
- , Xiaoting Gu
- & Lilin Zhao
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Perspective
| Open Access
Rethinking CSR theory to incorporate microbial metabolic diversity and foraging traits
- J. L. Wood
- , A. A. Malik
- & A. E. Franks
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Article
| Open Access
Nitrogen and phosphorous acquisition strategies drive coexistence patterns among archaeal lineages in soil
- Jun Zhao
- , Laibin Huang
- & Willm Martens-Habbena
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Article
| Open Access
Interspecific competition can drive plasmid loss from a focal species in a microbial community
- David Sünderhauf
- , Uli Klümper
- & Stineke van Houte
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Physiological and evolutionary contexts of a new symbiotic species from the nitrogen-recycling gut community of turtle ants
- Benoît Béchade
- , Christian S. Cabuslay
- & Jacob A. Russell
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Comment
| Open Access
Diversification during cross-kingdom microbial experimental evolution
Experimental evolution in a laboratory helps researchers to understand the genetic and phenotypic background of adaptation under a particular condition. Simultaneously, the simplified environment that represents certain aspects of a complex natural niche permits the dissection of relevant parameters behind the selection, including temperature, oxygen availability, nutrients, and biotic factors. The presence of other microorganisms or a host has a major influence on microbial evolution that often differs from the adaptation paths observed in response to abiotic conditions. In the current issue of the ISME Journal, Cosetta and colleagues reveal how cross-kingdom interaction representing the cheese microbiome succession promotes distinct evolution of the food- and animal-associated bacterium, Staphylococcus xylosus. The authors also identified a global regulator-dependent adaption that leads to evolved derivatives exhibiting reduced pigment production and colony morphologies in addition to altered differentiation phenotypes that potentially contribute to increased fitness.
- Ákos T. Kovács
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Article
| Open Access
Atlantic water influx and sea-ice cover drive taxonomic and functional shifts in Arctic marine bacterial communities
- Taylor Priest
- , Wilken-Jon von Appen
- & Matthias Wietz
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Article
| Open Access
Antibiotic-degrading resistance changes bacterial community structure via species-specific responses
- Ayush Pathak
- , Daniel C. Angst
- & Alex R. Hall
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Environmental influences on Streptococcus sanguinis membrane vesicle biogenesis
- Emily Helliwell
- , Dongseok Choi
- & Jens Kreth
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Article
| Open Access
Metabolic resource overlap impacts competition among phyllosphere bacteria
- Rudolf O. Schlechter
- , Evan J. Kear
- & Mitja N. P. Remus-Emsermann
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Quorum quenching by a type IVA secretion system effector
- Jinxing Liao
- , Zihan Li
- & Guoliang Qian
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Review Article
| Open Access
Pesticide exposure and the microbiota-gut-brain axis
- Rie Matsuzaki
- , Eoin Gunnigle
- & John F. Cryan
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Article
| Open Access
Growth rate is a dominant factor predicting the rhizosphere effect
- José L. López
- , Arista Fourie
- & Bas E. Dutilh
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Article
| Open Access
Delivery mechanism can enhance probiotic activity against honey bee pathogens
- Brendan A. Daisley
- , Andrew P. Pitek
- & Elina Niño
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Article
| Open Access
High speciation rate of niche specialists in hot springs
- Qing He
- , Shang Wang
- & Ye Deng
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Article
| Open Access
Inter-kingdom interactions and stability of methanogens revealed by machine-learning guided multi-omics analysis of industrial-scale biogas plants
- Roland Wirth
- , Zoltán Bagi
- & Gergely Maróti
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Distinct bacterial population dynamics and disease dissemination after biofilm dispersal and disassembly
- Yeping Ma
- , Yanlin Deng
- & Song Lin Chua
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Brief Communication
| Open Access
Species-specific relationships between deep sea sponges and their symbiotic Nitrosopumilaceae
- Alessandro N. Garritano
- , Marwan E. Majzoub
- & Torsten Thomas
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Reduced trace gas oxidizers as a response to organic carbon availability linked to oligotrophs in desert fertile islands
- Shuyue Li
- , Shanshan Yang
- & Gehong Wei
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Review Article |
Holobiont perspectives on tripartite interactions among microbiota, mosquitoes, and pathogens
- Ronger Zheng
- , Qiqi Wang
- & Guan-Hong Wang
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Article
| Open Access
Sulfur cycling connects microbiomes and biogeochemistry in deep-sea hydrothermal plumes
- Zhichao Zhou
- , Patricia Q. Tran
- & Karthik Anantharaman
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Article
| Open Access
Metabolic influence of core ciliates within the rumen microbiome
- Thea O. Andersen
- , Ianina Altshuler
- & Phillip B. Pope
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Glycerol metabolism supports oral commensal interactions
- Puthayalai Treerat
- , David Anderson
- & Jens Kreth
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Article
| Open Access
Marine phytoplankton downregulate core photosynthesis and carbon storage genes upon rapid mixed layer shallowing
- Ben P. Diaz
- , Ehud Zelzion
- & Kay D. Bidle
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Article
| Open Access
Collective protection against the type VI secretion system in bacteria
- Elisa T. Granato
- , William P. J. Smith
- & Kevin R. Foster
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Article
| Open Access
Benzo[a]pyrene stress impacts adaptive strategies and ecological functions of earthworm intestinal viromes
- Rong Xia
- , Mingming Sun
- & Pedro J. J. Alvarez
Ginsenoside Rg3 enriches SCFA-producing commensal bacteria to confer protection against enteric viral infection via the cGAS-STING-type I IFN axis