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The ISME Journal - Table of Contents alert Volume 11 Issue 12

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The ISME Journal

Volume 11, Issue 12 (December 2017)

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Original Articles
Short Communications

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

Benjamin J Callahan, Paul J McMurdie and Susan P Holmes

ISME J 2017 11: 2639-2643; advance online publication, July 21, 2017; 10.1038/ismej.2017.119

Abstract | Full Text



Network analysis of gut microbiota literature: an overview of the research landscape in non-human animal studies

Emily L Pascoe, Heidi C Hauffe, Julian R Marchesi and Sarah E Perkins

ISME J 2017 11: 2644-2651; advance online publication, August 11, 2017; 10.1038/ismej.2017.133

Abstract | Full Text

Original Articles


A genomic perspective on stoichiometric regulation of soil carbon cycling OPEN

Wyatt H Hartman, Rongzhong Ye, William R Horwath and Susannah G Tringe

ISME J 2017 11: 2652-2665; advance online publication, July 21, 2017; 10.1038/ismej.2017.115

Abstract | Full Text

Role of plant–fungal nutrient trading and host control in determining the competitive success of ectomycorrhizal fungi

Sara Hortal, Krista Lynn Plett, Jonathan Michael Plett, Tom Cresswell, Mathew Johansen, Elise Pendall and Ian Charles Anderson

ISME J 2017 11: 2666-2676; advance online publication, July 21, 2017; 10.1038/ismej.2017.116

Abstract | Full Text

Bacterial transcriptome remodeling during sequential co-culture with a marine dinoflagellate and diatom

Marine Landa, Andrew S Burns, Selena J Roth and Mary Ann Moran

ISME J 2017 11: 2677-2690; advance online publication, July 21, 2017; 10.1038/ismej.2017.117

Abstract | Full Text

Drought and host selection influence bacterial community dynamics in the grass root microbiome OPEN

Dan Naylor, Stephanie DeGraaf, Elizabeth Purdom and Devin Coleman-Derr

ISME J 2017 11: 2691-2704; advance online publication, July 28, 2017; 10.1038/ismej.2017.118

Abstract | Full Text

Nematode grazing promotes bacterial community dynamics in soil at the aggregate level OPEN

Yuji Jiang, Manqiang Liu, Jiabao Zhang, Yan Chen, Xiaoyun Chen, Lijun Chen, Huixin Li, Xue-Xian Zhang and Bo Sun

ISME J 2017 11: 2705-2717; advance online publication, July 25, 2017; 10.1038/ismej.2017.120

Abstract | Full Text

Growth arrest and a persister state enable resistance to osmotic shock and facilitate dissemination of Vibrio cholerae

Cecilia A Silva-Valenzuela, David W Lazinski, Shoshanna C Kahne, Y Nguyen, Roberto C Molina-Quiroz and Andrew Camilli

ISME J 2017 11: 2718-2728; advance online publication, July 25, 2017; 10.1038/ismej.2017.121

Abstract | Full Text

Changes in nutrient stoichiometry, elemental homeostasis and growth rate of aquatic litter-associated fungi in response to inorganic nutrient supply

Vladislav Gulis, Kevin A Kuehn, Louie N Schoettle, Desiree Leach, Jonathan P Benstead and Amy D Rosemond

ISME J 2017 11: 2729-2739; advance online publication, July 21, 2017; 10.1038/ismej.2017.123

Abstract | Full Text

Ice nucleation active bacteria in precipitation are genetically diverse and nucleate ice by employing different mechanisms

K C Failor, D G Schmale, III, B A Vinatzer and C L Monteil

ISME J 2017 11: 2740-2753; advance online publication, July 28, 2017; 10.1038/ismej.2017.124

Abstract | Full Text

Sulfide production and oxidation by heterotrophic bacteria under aerobic conditions OPEN

Yongzhen Xia, Chuanjuan Lü, Ningke Hou, Yufeng Xin, Jihua Liu, Honglei Liu and Luying Xun

ISME J 2017 11: 2754-2766; advance online publication, August 4, 2017; 10.1038/ismej.2017.125

Abstract | Full Text

Grape pomace compost harbors organohalide-respiring Dehalogenimonas species with novel reductive dehalogenase genes

Yi Yang, Steven A Higgins, Jun Yan, Burcu Şimşir, Karuna Chourey, Ramsunder Iyer, Robert L Hettich, Brett Baldwin, Dora M Ogles and Frank E Löffler

ISME J 2017 11: 2767-2780; advance online publication, August 15, 2017; 10.1038/ismej.2017.127

Abstract | Full Text

Phylogenetically conserved resource partitioning in the coastal microbial loop OPEN

Samuel Bryson, Zhou Li, Francisco Chavez, Peter K Weber, Jennifer Pett-Ridge, Robert L Hettich, Chongle Pan, Xavier Mayali and Ryan S Mueller

ISME J 2017 11: 2781-2792; advance online publication, August 11, 2017; 10.1038/ismej.2017.128

Abstract | Full Text

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

Julien Tremblay, Etienne Yergeau, Nathalie Fortin, Susan Cobanli, Miria Elias, Thomas L King, Kenneth Lee and Charles W Greer

ISME J 2017 11: 2793-2808; advance online publication, August 11, 2017; 10.1038/ismej.2017.129

Abstract | Full Text

Bacterial volatile ammonia regulates the consumption sequence of d-pinitol and d-glucose in a fungus associated with an invasive bark beetle OPEN

Fangyuan Zhou, Letian Xu, Shanshan Wang, Bo Wang, Qiaozhe Lou, Min Lu and Jianghua Sun

ISME J 2017 11: 2809-2820; advance online publication, August 11, 2017; 10.1038/ismej.2017.131

Abstract | Full Text

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

Denis Warshan, Josh L Espinoza, Rhona K Stuart, R Alexander Richter, Sea-Yong Kim, Nicole Shapiro, Tanja Woyke, Nikos C Kyrpides, Kerrie Barry, Vasanth Singan, Erika Lindquist, Charles Ansong, Samuel O Purvine, Heather M Brewer, Philip D Weyman, Christopher L Dupont and Ulla Rasmussen

ISME J 2017 11: 2821-2833; advance online publication, August 11, 2017; 10.1038/ismej.2017.134

Abstract | Full Text

Unveiling bifidobacterial biogeography across the mammalian branch of the tree of life

Christian Milani, Marta Mangifesta, Leonardo Mancabelli, Gabriele A Lugli, Kieran James, Sabrina Duranti, Francesca Turroni, Chiara Ferrario, Maria C Ossiprandi, Douwe van Sinderen and Marco Ventura

ISME J 2017 11: 2834-2847; advance online publication, August 22, 2017; 10.1038/ismej.2017.138

Abstract | Full Text

Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome OPEN

Francesco Beghini, Edoardo Pasolli, Tin Duy Truong, Lorenza Putignani, Simone M Cacciò and Nicola Segata

ISME J 2017 11: 2848-2863; advance online publication, August 22, 2017; 10.1038/ismej.2017.139

Abstract | Full Text

Short Communications


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, Brandon Brooks and Jillian F Banfield

ISME J 2017 11: 2864-2868; advance online publication, July 25, 2017; 10.1038/ismej.2017.126

Abstract | Full Text

Phaeoviruses discovered in kelp (Laminariales) OPEN

Dean A McKeown, Kim Stevens, Akira F Peters, Peter Bond, Glenn M Harper, Colin Brownlee, Murray T Brown and Declan C Schroeder

ISME J 2017 11: 2869-2873; advance online publication, July 25, 2017; 10.1038/ismej.2017.130

Abstract | Full Text

Microbial functional trait of rRNA operon copy numbers increases with organic levels in anaerobic digesters

Linwei Wu, Yunfeng Yang, Si Chen, Zhou Jason Shi, Mengxin Zhao, Zhenwei Zhu, Sihang Yang, Yuanyuan Qu, Qiao Ma, Zhili He, Jizhong Zhou and Qiang He

ISME J 2017 11: 2874-2878; advance online publication, August 25, 2017; 10.1038/ismej.2017.135

Abstract | Full Text

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