Biological techniques articles within The ISME Journal

Featured

• Article
  02 November 2023 | 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

• Brief Communication
  10 October 2023 | Open Access

  Human milk oligosaccharides modify the strength of priority effects in the Bifidobacterium community assembly during infancy

  • Martin F. Laursen
  •  & Henrik M. Roager

• Article
  11 May 2023 | Open Access

  Metabolic influence of core ciliates within the rumen microbiome

  • Thea O. Andersen
  • , Ianina Altshuler
  •  & Phillip B. Pope

• Article
  11 April 2023 | Open Access

  Thermophilic Dehalococcoidia with unusual traits shed light on an unexpected past

  • Marike Palmer
  • , Jonathan K. Covington
  •  & Brian P. Hedlund

• Article | 24 September 2022

  Gastric acid and escape to systemic circulation represent major bottlenecks to host infection by Citrobacter rodentium

  • Sarah E. Woodward
  • , Stefanie L. Vogt
  •  & B. Brett Finlay

• Article
  09 September 2022 | Open Access

  Plant-associated fungi support bacterial resilience following water limitation

  • Rachel Hestrin
  • , Megan Kan
  •  & Jennifer Pett-Ridge

• Article
  08 June 2022 | Open Access

  Identification of nosZ-expressing microorganisms consuming trace N₂O in microaerobic chemostat consortia dominated by an uncultured Burkholderiales

  • Daehyun D. Kim
  • , Heejoo Han
  •  & Sukhwan Yoon

• Article | 08 April 2022

  Active lithoautotrophic and methane-oxidizing microbial community in an anoxic, sub-zero, and hypersaline High Arctic spring

  • Elisse Magnuson
  • , Ianina Altshuler
  •  & Lyle G. Whyte

• Article
  05 January 2022 | Open Access

  Soils and sediments host Thermoplasmata archaea encoding novel copper membrane monooxygenases (CuMMOs)

  • Spencer Diamond
  • , Adi Lavy
  •  & Jillian F. Banfield

• Article
  13 December 2021 | Open Access

  Mammalian gut metabolomes mirror microbiome composition and host phylogeny

  • Rachel Gregor
  • , Maraike Probst
  •  & Itzhak Mizrahi

• Article
  06 November 2021 | Open Access

  Universal activity-based labeling method for ammonia- and alkane-oxidizing bacteria

  • Dimitra Sakoula
  • , Garrett J. Smith
  •  & Sebastian Lücker

• Article | 25 October 2021

  Heterotrophic bacterial diazotrophs are more abundant than their cyanobacterial counterparts in metagenomes covering most of the sunlit ocean

  • Tom O. Delmont
  • , Juan José Pierella Karlusich
  •  & Eric Pelletier

• Article
  12 July 2021 | Open Access

  Biosynthetic potential of uncultured Antarctic soil bacteria revealed through long-read metagenomic sequencing

  • Valentin Waschulin
  • , Chiara Borsetto
  •  & Elizabeth Wellington

• Article
  25 May 2021 | Open Access

  Novel strain-level resolution of Crohn’s disease mucosa-associated microbiota via an ex vivo combination of microbe culture and metagenomic sequencing

  • J. J. Teh
  • , E. M. Berendsen
  •  & M. Morrison

• Article
  19 May 2021 | Open Access

  Metaplasmidome-encoded functions of Siberian low-centered polygonal tundra soils

  • Adrian Gorecki
  • , Stine Holm
  •  & Fabian Horn

• Article
  17 May 2021 | Open Access

  Distinct composition and metabolic functions of human gut microbiota are associated with cachexia in lung cancer patients

  • Yueqiong Ni
  • , Zoltan Lohinai
  •  & Gianni Panagiotou

• Article | 28 April 2021

  Functional genome-centric view of the CO-driven anaerobic microbiome

  • Haowen Duan
  • , Pinjing He
  •  & Fan Lü

• Article | 29 March 2021

  Variable influences of soil and seed-associated bacterial communities on the assembly of seedling microbiomes

  • Corinne M. Walsh
  • , Isadore Becker-Uncapher
  •  & Noah Fierer

• Article
  21 March 2021 | Open Access

  The soil microbial food web revisited: Predatory myxobacteria as keystone taxa?

  • Sebastian Petters
  • , Verena Groß
  •  & Tim Urich

• Brief Communication | 22 February 2021

  Specific inactivation of an antifungal bacterial siderophore by a fungal plant pathogen

  • Ying-Ning Ho
  • , Sin Yong Hoo
  •  & Yu-Liang Yang

• Article
  15 February 2021 | Open Access

  Resolving cryptic species complexes in marine protists: phylogenetic haplotype networks meet global DNA metabarcoding datasets

  • Daniele De Luca
  • , Roberta Piredda
  •  & Wiebe H.C.F. Kooistra

• Brief Communication
  02 September 2020 | Open Access

  Flow-through stable isotope probing (Flow-SIP) minimizes cross-feeding in complex microbial communities

  • Maria Mooshammer
  • , Katharina Kitzinger
  •  & Michael Wagner

• Article
  01 June 2020 | Open Access

  Parallel reductive genome evolution in Desulfovibrio ectosymbionts independently acquired by Trichonympha protists in the termite gut

  • Mariko Takeuchi
  • , Hirokazu Kuwahara
  •  & Yuichi Hongoh

• Article
  18 May 2020 | Open Access

  Non-antibiotic pharmaceuticals enhance the transmission of exogenous antibiotic resistance genes through bacterial transformation

  • Yue Wang
  • , Ji Lu
  •  & Jianhua Guo

• Article
  28 January 2020 | Open Access

  Iron competition triggers antibiotic biosynthesis in Streptomyces coelicolor during coculture with Myxococcus xanthus

  • Namil Lee
  • , Woori Kim
  •  & Byung-Kwan Cho

• Article
  02 January 2020 | Open Access

  Novel syntrophic bacteria in full-scale anaerobic digesters revealed by genome-centric metatranscriptomics

  • Liping Hao
  • , Thomas Yssing Michaelsen
  •  & Morten Simonsen Dueholm

• Article
  21 November 2019 | Open Access

  Function-driven single-cell genomics uncovers cellulose-degrading bacteria from the rare biosphere

  • Devin F. R. Doud
  • , Robert M. Bowers
  •  & Tanja Woyke

• Article | 11 November 2019

  Unlinked rRNA genes are widespread among bacteria and archaea

  • Tess E. Brewer
  • , Mads Albertsen
  •  & Noah Fierer

• Article
  11 November 2019 | Open Access

  Microbial succession during wheat bran fermentation and colonisation by human faecal microbiota as a result of niche diversification

  • Kim De Paepe
  • , Joran Verspreet
  •  & Tom Van de Wiele

• Article
  01 November 2019 | Open Access

  Spatial and temporal axes impact ecology of the gut microbiome in juvenile European lobster (Homarus gammarus)

  • Corey C. Holt
  • , Mark van der Giezen
  •  & David Bass

• Comment | 24 September 2019

  The ‘1% culturability paradigm’ needs to be carefully defined

  • Adam C. Martiny

• Article
  24 June 2019 | Open Access

  The potential of sedimentary ancient DNA for reconstructing past sea ice evolution

  • Stijn De Schepper
  • , Jessica L. Ray
  •  & Aud Larsen

• Article | 07 May 2019

  A novel outer membrane β-1,6-glucanase is deployed in the predation of fungi by myxobacteria

  • Zhoukun Li
  • , Xianfeng Ye
  •  & Zhengguang Zhang

• Brief Communication
  01 April 2019 | Open Access

  Single cell fluorescence imaging of glycan uptake by intestinal bacteria

  • Jan-Hendrik Hehemann
  • , Greta Reintjes
  •  & D. Wade Abbott

• Article | 20 February 2019

  Microbial residence time is a controlling parameter of the taxonomic composition and functional profile of microbial communities

  • Cresten Mansfeldt
  • , Stefan Achermann
  •  & Kathrin Fenner

• Article | 25 September 2018

  Rhythmicity of coastal marine picoeukaryotes, bacteria and archaea despite irregular environmental perturbations

  • Stefan Lambert
  • , Margot Tragin
  •  & Pierre E. Galand

• Article
  26 July 2018 | Open Access

  Comparative metatranscriptomics reveals extracellular electron transfer pathways conferring microbial adaptivity to surface redox potential changes

  • Shun’ichi Ishii
  • , Shino Suzuki
  •  & Orianna Bretschger

• Brief Communication | 24 July 2018

  Quantitative stable isotope probing with H₂¹⁸O reveals that most bacterial taxa in soil synthesize new ribosomal RNA

  • Katerina Papp
  • , Rebecca L. Mau
  •  & Egbert Schwartz

• Article
  16 July 2018 | Open Access

  Metagenomics reveals functional synergy and novel polysaccharide utilization loci in the Castor canadensis fecal microbiome

  • Zachary Armstrong
  • , Keith Mewis
  •  & Steven J. Hallam

• Article
  12 February 2018 | Open Access

  Elevated circulating levels of succinate in human obesity are linked to specific gut microbiota

  • Carolina Serena
  • , Victoria Ceperuelo-Mallafré
  •  & Sonia Fernández-Veledo

• Article | 07 February 2018

  Lysogeny is prevalent and widely distributed in the murine gut microbiota

  • Min-Soo Kim
  •  & Jin-Woo Bae

• Article | 17 January 2018

  Novel hydrogenases from deep-sea hydrothermal vent metagenomes identified by a recently developed activity-based screen

  • Nicole Adam
  •  & Mirjam Perner

• Article | 05 January 2018

  The fungus that came in from the cold: dry rot’s pre-adapted ability to invade buildings

  • S. V. Balasundaram
  • , J. Hess
  •  & I. Skrede

• Original Article
  12 September 2017 | Open Access

  DNA-SIP based genome-centric metagenomics identifies key long-chain fatty acid-degrading populations in anaerobic digesters with different feeding frequencies

  • Ryan M Ziels
  • , Diana Z Sousa
  •  & David A C Beck

• Original Article | 11 August 2017

  Chemical dispersants enhance the activity of oil- and gas condensate-degrading marine bacteria

  • Julien Tremblay
  • , Etienne Yergeau
  •  & Charles W Greer

• Original Article
  11 August 2017 | Open Access

  Feathermoss and epiphytic Nostoc cooperate differently: expanding the spectrum of plant–cyanobacteria symbiosis

  • Denis Warshan
  • , Josh L Espinoza
  •  & Ulla Rasmussen

• Original Article | 28 July 2017

  Biogeography and organic matter removal shape long-term effects of timber harvesting on forest soil microbial communities

  • Roland C Wilhelm
  • , Erick Cardenas
  •  & William W Mohn

• Short Communication | 25 July 2017

  dRep: a tool for fast and accurate genomic comparisons that enables improved genome recovery from metagenomes through de-replication

  • Matthew R Olm
  • , Christopher T Brown
  •  & Jillian F Banfield

• Perspective
  21 July 2017 | Open Access

  Exact sequence variants should replace operational taxonomic units in marker-gene data analysis

  • Benjamin J Callahan
  • , Paul J McMurdie
  •  & Susan P Holmes

• Original Article | 12 May 2017

  Genomic exploration of individual giant ocean viruses

  • William H Wilson
  • , Ilana C Gilg
  •  & Steven W Wilhelm