ADVANCE ONLINE PUBLICATION
The latest research papers, published online ahead of print. These online versions are definitive and may be cited using the digital object identifier (DOI).
About advance online publication
November 12 2009 |
November 5 2009 |
October 29 2009 |
October 22 2009 |
October 15 2009 |
October 1 2009 |
September 24 2009 |
September 10 2009 |
August 27 2009 |
August 20 2009 |
August 13 2009 |
August 6 2009 |
July 30 2009 |
July 23 2009 |
July 16 2009 |
July 9 2009 |
July 2 2009
November 19 2009
Original Articles
Relative roles of niche and neutral processes in structuring a soil microbial community
Alex J Dumbrell, Michaela Nelson, Thorunn Helgason, Calvin Dytham and Alastair H Fitter
ISME J advance online publication, November 19, 2009; doi:10.1038/ismej.2009.122
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
Community shifts of soybean stem-associated bacteria responding to different nodulation phenotypes and N levels
Seishi Ikeda, Takashi Okubo, Takakazu Kaneko, Shoko Inaba, Tomiya Maekawa, Shima Eda, Shusei Sato, Satoshi Tabata, Hisayuki Mitsui and Kiwamu Minamisawa
ISME J advance online publication, November 19, 2009; doi:10.1038/ismej.2009.119
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
Functioning in situ: gene expression in Methylotenera mobilis in its native environment as assessed through transcriptomics
Marina G Kalyuzhnaya, David AC Beck, Dominic Suciu, Alexander Pozhitkov, Mary E Lidstrom and Ludmila Chistoserdova
ISME J advance online publication, November 19, 2009; doi:10.1038/ismej.2009.117
Abstract | Full Text | PDF | Supplementary information
Subject Category: Integrated genomics and post-genomics approaches in microbial ecology
Diversification of the gut symbiont Lactobacillus reuteri as a result of host-driven evolution
Phaik Lyn Oh, Andrew K Benson, Daniel A Peterson, Prabhu B Patil, Etsuko N Moriyama, Stefan Roos and Jens Walter
ISME J advance online publication, November 19, 2009; doi:10.1038/ismej.2009.123
Abstract | Full Text | PDF | Supplementary information
Subject Category: Evolutionary genetics
Bacteriophage predation regulates microbial abundance and diversity in a full-scale bioreactor treating industrial wastewater
Orr H Shapiro, Ariel Kushmaro and Asher Brenner
ISME J advance online publication, November 19, 2009; doi:10.1038/ismej.2009.118
Subject Category: Microbial population and community ecology
Gut wall bacteria of earthworms: a natural selection process
Dwipendra Thakuria, Olaf Schmidt, Dillon Finan, Damian Egan and Fiona M Doohan
ISME J advance online publication, November 19, 2009; doi:10.1038/ismej.2009.124
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbe-microbe and microbe-host interactions
November 12 2009
Original Articles
Conversion and conservation of light energy in a photosynthetic microbial mat ecosystem
Mohammad A A Al-Najjar, Dirk de Beer, Bo Barker Jørgensen, Michael Kühl and Lubos Polerecky
ISME J advance online publication, November 12, 2009; doi:10.1038/ismej.2009.121
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecosystem impacts
Efficient aquatic bacterial metabolism of dissolved low-molecular-weight compounds from terrestrial sources
Martin Berggren, Hjalmar Laudon, Mahsa Haei, Lena Ström and Mats Jansson
ISME J advance online publication, November 12, 2009; doi:10.1038/ismej.2009.120
Subject Category: Geomicrobiology and microbial contributions to geochemical cycles
Effects of facultative symbionts and heat stress on the metabolome of pea aphids
Gaelen Burke, Oliver Fiehn and Nancy Moran
ISME J advance online publication, November 12, 2009; doi:10.1038/ismej.2009.114
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbe-microbe and microbe-host interactions
November 5 2009
Original Article
Global distribution of cyanobacterial ecotypes in the cold biosphere
Anne D Jungblut, Connie Lovejoy and Warwick F Vincent
ISME J advance online publication, November 5, 2009; doi:10.1038/ismej.2009.113
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
October 29 2009
Original Articles
Bacterial communities of disease vectors sampled across time, space, and species
Ryan T Jones, Rob Knight and Andrew P Martin
ISME J advance online publication, October 29, 2009; doi:10.1038/ismej.2009.111
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbe-microbe and microbe-host interactions
Linking environmental heterogeneity and reproductive success at single-cell resolution
Mitja NP Remus-Emsermann and Johan HJ Leveau
ISME J advance online publication, October 29, 2009; doi:10.1038/ismej.2009.110
Subject Category: Microbe-microbe and microbe-host interactions
Interactions between gut microbiota, host genetics and diet relevant to development of metabolic syndromes in mice
Chenhong Zhang, Menghui Zhang, Shengyue Wang, Ruijun Han, Youfang Cao, Weiying Hua, Yuejian Mao, Xiaojun Zhang, Xiaoyan Pang, Chaochun Wei, Guoping Zhao, Yan Chen and Liping Zhao
ISME J advance online publication, October 29, 2009; doi:10.1038/ismej.2009.112
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbe-microbe and microbe-host interactions
October 22 2009
Original Article
Global ecological patterns in uncultured Archaea
Jean-Christophe Auguet, Albert Barberan and Emilio O Casamayor
ISME J advance online publication, October 22, 2009; doi:10.1038/ismej.2009.109
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
October 15 2009
Original Articles
Pyrosequencing reveals contrasting seasonal dynamics of taxa within Baltic Sea bacterioplankton communities
Anders F Andersson, Lasse Riemann and Stefan Bertilsson
ISME J advance online publication, October 15, 2009; doi:10.1038/ismej.2009.108
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
Bacterial diversity and biogeography in deep-sea surface sediments of the South Atlantic Ocean
Regina Schauer, Christina Bienhold, Alban Ramette and Jens Harder
ISME J advance online publication, October 15, 2009; doi:10.1038/ismej.2009.106
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
Variability and abundance of the epiphytic bacterial community associated with a green marine Ulvacean alga
Niina A Tujula, Gregory R Crocetti, Catherine Burke, Torsten Thomas, Carola Holmström and Staffan Kjelleberg
ISME J advance online publication, October 15, 2009; doi:10.1038/ismej.2009.107
Subject Category: Microbial population and community ecology
October 1 2009
Original Article
Archaeal ammonia oxidizers and nirS-type denitrifiers dominate sediment nitrifying and denitrifying populations in a subtropical macrotidal estuary
Guy C J Abell, Andrew T Revill, Craig Smith, Andrew P Bissett, John K Volkman and Stanley S Robert
ISME J advance online publication, October 1, 2009; doi:10.1038/ismej.2009.105
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecology and functional diversity of natural habitats
September 24 2009
Original Articles
Identification of iron-reducing microorganisms in anoxic rice paddy soil by 13C-acetate probing
Tomoyuki Hori, Alexandra Müller, Yasuo Igarashi, Ralf Conrad and Michael W Friedrich
ISME J advance online publication, September 24, 2009; doi:10.1038/ismej.2009.100
Subject Category: Microbial ecology and functional diversity of natural habitats
Gene-targeted-metagenomics reveals extensive diversity of aromatic dioxygenase genes in the environment
Shoko Iwai, Benli Chai, Woo Jun Sul, James R Cole, Syed A Hashsham and James M Tiedje
ISME J advance online publication, September 24, 2009; doi:10.1038/ismej.2009.104
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecology and functional diversity of natural habitats
Successional changes in bacterial communities during the development of black band disease on the reef coral, Montipora hispida
Yui Sato, Bette L Willis and David G Bourne
ISME J advance online publication, September 24, 2009; doi:10.1038/ismej.2009.103
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbe-microbe and microbe-host interactions
Subsurface ecosystem resilience: long-term attenuation of subsurface contaminants supports a dynamic microbial community
Jane M Yagi, Edward F Neuhauser, John A Ripp, David M Mauro and Eugene L Madsen
ISME J advance online publication, September 24, 2009; doi:10.1038/ismej.2009.101
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecology and functional diversity of natural habitats
Short Communication
The opportunistic coral pathogen Aspergillus sydowii contains dddP and makes dimethyl sulfide from dimethylsulfoniopropionate
Mark Kirkwood, Jonathan D Todd, Krystal L Rypien and Andrew W B Johnston
ISME J advance online publication, September 24, 2009; doi:10.1038/ismej.2009.102
Subject Category: Geomicrobiology and microbial contributions to geochemical cycles
September 10 2009
Original Articles
Horizontal transfer of the nitrogen fixation gene cluster in the cyanobacterium Microcoleus chthonoplastes
Henk Bolhuis, Ina Severin, Veronique Confurius-Guns, Ute I A Wollenzien and Lucas J Stal
ISME J advance online publication, September 10, 2009; doi:10.1038/ismej.2009.99
Subject Category: Microbial ecology and functional diversity of natural habitats
The complete genome sequence of the algal symbiont Dinoroseobacter shibae: a hitchhiker's guide to life in the sea
Irene Wagner-Döbler, Britta Ballhausen, Martine Berger, Thorsten Brinkhoff, Ina Buchholz, Boyke Bunk, Heribert Cypionka, Rolf Daniel, Thomas Drepper, Gunnar Gerdts, Sarah Hahnke, Cliff Han, Dieter Jahn, Daniela Kalhoefer, Hajnalka Kiss, Hans-Peter Klenk, Nikos Kyrpides, Wolfgang Liebl, Heiko Liesegang, Linda Meincke, Amrita Pati, Jörn Petersen, Tanja Piekarski, Claudia Pommerenke, Silke Pradella, Rüdiger Pukall, Ralf Rabus, Erko Stackebrandt, Sebastian Thole, Linda Thompson, Petra Tielen, Jürgen Tomasch, Mathias von Jan, Nittaya Wanphrut, Antje Wichels, Hajo Zech and Meinhard Simon
ISME J advance online publication, September 10, 2009; doi:10.1038/ismej.2009.94
Abstract | Full Text | PDF | Supplementary information
Subject Category: Integrated genomics and post-genomics approaches in microbial ecology
August 27 2009
Original Articles
Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data
Micah Hamady, Catherine Lozupone and Rob Knight
ISME J advance online publication, August 27, 2009; doi:10.1038/ismej.2009.97
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
Convergent temporal dynamics of the human infant gut microbiota
Pål Trosvik, Nils Christian Stenseth and Knut Rudi
ISME J advance online publication, August 27, 2009; doi:10.1038/ismej.2009.96
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
Phase variation has a role in Burkholderia ambifaria niche adaptation
Ludovic Vial, Marie-Christine Groleau, Martin G Lamarche, Geneviève Filion, Josée Castonguay-Vanier, Valérie Dekimpe, France Daigle, Steve J Charette and Eric Déziel
ISME J advance online publication, August 27, 2009; doi:10.1038/ismej.2009.95
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbe-microbe and microbe-host interactions
Short Communication
Identification of genes for dimethyl sulfide production in bacteria in the gut of Atlantic Herring (Clupea harengus)
Andrew R J Curson, Matthew J Sullivan, Jonathan D Todd and Andrew W B Johnston
ISME J advance online publication, August 27, 2009; doi:10.1038/ismej.2009.93
Subject Category: Geomicrobiology and microbial contributions to geochemical cycles
August 20 2009
Original Articles
Microbial community genomics in eastern Mediterranean Sea surface waters
Roi Feingersch, Marcelino T Suzuki, Michael Shmoish, Itai Sharon, Gazalah Sabehi, Frédéric Partensky and Oded Béjà
ISME J advance online publication, August 20, 2009; doi:10.1038/ismej.2009.92
Abstract | Full Text | PDF | Supplementary information
Subject Category: Integrated genomics and post-genomics approaches in microbial ecology
Polymerase chain reaction primers miss half of rRNA microbial diversity
SunHee Hong, John Bunge, Chesley Leslin, Sunok Jeon and Slava S Epstein
ISME J advance online publication, August 20, 2009; doi:10.1038/ismej.2009.89
Subject Category: Microbial ecology and functional diversity of natural habitats
August 13 2009
Original Article
Linking phylogenetic and functional diversity to nutrient spiraling in microbial mats from Lower Kane Cave (USA)
Annette Summers Engel, Daniela B Meisinger, Megan L Porter, Robert A Payn, Michael Schmid, Libby A Stern, K H Schleifer and Natuschka M Lee
ISME J advance online publication, August 13, 2009; doi:10.1038/ismej.2009.91
Abstract | Full Text | PDF | Supplementary information
Subject Category: Geomicrobiology and microbial contributions to geochemical cycles
August 6 2009
Original Article
A Dehalococcoides-containing co-culture that dechlorinates tetrachloroethene to trans-1,2-dichloroethene
Dan Cheng, Wai Ling Chow and Jianzhong He
ISME J advance online publication, August 6, 2009; doi:10.1038/ismej.2009.90
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial engineering
July 30 2009
Original Articles
Molecular characterization of the spatial diversity and novel lineages of mycoplankton in Hawaiian coastal waters
Zheng Gao, Zackary I Johnson and Guangyi Wang
ISME J advance online publication, July 30, 2009; doi:10.1038/ismej.2009.87
Subject Category: Microbial ecology and functional diversity of natural habitats
Water stress impacts on bacterial carbon monoxide oxidation on recent volcanic deposits
Carolyn F Weber and Gary M King
ISME J advance online publication, July 30, 2009; doi:10.1038/ismej.2009.70
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecology and functional diversity of natural habitats
July 23 2009
Original Article
Microbial community structure in the North Pacific ocean
Mark V Brown, Gayle K Philip, John A Bunge, Matthew C Smith, Andrew Bissett, Federico M Lauro, Jed A Fuhrman and Stuart P Donachie
ISME J advance online publication, July 23, 2009; doi:10.1038/ismej.2009.86
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
July 16 2009
Original Articles
Manipulation of the microbiota of mass-reared Mediterranean fruit flies Ceratitis capitata (Diptera: Tephritidae) improves sterile male sexual performance
Eyal Ben Ami, Boaz Yuval and Edouard Jurkevitch
ISME J advance online publication, July 16, 2009; doi:10.1038/ismej.2009.82
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbe-microbe and microbe-host interactions
Diversity of aerobic and anaerobic ammonia-oxidizing bacteria in marine sponges
Naglaa M Mohamed, Keiko Saito, Yossi Tal and Russell T Hill
ISME J advance online publication, July 16, 2009; doi:10.1038/ismej.2009.84
Subject Category: Microbe-microbe and microbe-host interactions
July 9 2009
Original Articles
Investigation of archaeal and bacterial diversity in fermented seafood using barcoded pyrosequencing
Seong Woon Roh, Kyoung-Ho Kim, Young-Do Nam, Ho-Won Chang, Eun-Jin Park and Jin-Woo Bae
ISME J advance online publication, July 9, 2009; doi:10.1038/ismej.2009.83
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial population and community ecology
Novel organization of aromatic degradation pathway genes in a microbial community as revealed by metagenomic analysis
Hikaru Suenaga, Yoshinori Koyama, Masatoshi Miyakoshi, Ryo Miyazaki, Hirokazu Yano, Masahiro Sota, Yoshiyuki Ohtsubo, Masataka Tsuda and Kentaro Miyazaki
ISME J advance online publication, July 9, 2009; doi:10.1038/ismej.2009.76
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecology and functional diversity of natural habitats
July 2 2009
Original Articles
ClassII peroxidase-encoding genes are present in a phylogenetically wide range of ectomycorrhizal fungi
Inga T M Bödeker, Cajsa M R Nygren, Andy F S Taylor, Åke Olson and Björn D Lindahl
ISME J advance online publication, July 2, 2009; doi:10.1038/ismej.2009.77
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecosystem impacts
Metabolic rate links density to demography in Tetrahymena pyriformis
John P DeLong and David T Hanson
ISME J advance online publication, July 2, 2009; doi:10.1038/ismej.2009.81
Subject Category: Microbial population and community ecology
Isotope array analysis of Rhodocyclales uncovers functional redundancy and versatility in an activated sludge
Martin Hesselsoe, Stephanie Füreder, Michael Schloter, Levente Bodrossy, Niels Iversen, Peter Roslev, Per Halkjær Nielsen, Michael Wagner and Alexander Loy
ISME J advance online publication, July 2, 2009; doi:10.1038/ismej.2009.78
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecology and functional diversity of natural habitats
Experimental design and environmental parameters affect Rhodospirillum rubrum S1H response to space flight
Felice Mastroleo, Rob Van Houdt, Baptiste Leroy, M Abderrafi Benotmane, Ann Janssen, Max Mergeay, Filip Vanhavere, Larissa Hendrickx, Ruddy Wattiez and Natalie Leys
ISME J advance online publication, July 2, 2009; doi:10.1038/ismej.2009.74
Abstract | Full Text | PDF | Supplementary information
Subject Category: Integrated genomics and post-genomics approaches in microbial ecology
Short Communication
Abundant transposases encoded by the metagenome of a hydrothermal chimney biofilm
William J Brazelton and John A Baross
ISME J advance online publication, July 2, 2009; doi:10.1038/ismej.2009.79
Abstract | Full Text | PDF | Supplementary information
Subject Category: Microbial ecology and functional diversity of natural habitats
