Microbial network, phylogenetic diversity and community membership in the active layer across a permafrost thaw gradient

Acidicapsa acidisoli sp. nov., from the acidic soil of a deciduous forest

(2017) Heizo Matsuo et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Genomic evidence for distinct carbon substrate preferences and ecological niches of Bathyarchaeota in estuarine sediments

(2016) Cassandre Sara Lazar et al.   ENVIRONMENTAL MICROBIOLOGY

Rapid carbon loss and slow recovery following permafrost thaw in boreal peatlands

(2016) Miriam C. Jones et al.   GLOBAL CHANGE BIOLOGY

Correlation detection strategies in microbial data sets vary widely in sensitivity and precision

(2016) Sophie Weiss et al.   ISME Journal

Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone

(2016) Cristina N. Butterfield et al.   PeerJ

Predicting microbial traits with phylogenies

(2015) Marta Goberna et al.   ISME Journal

Expansion of Cultured Bacterial Diversity by Large-Scale Dilution-to-Extinction Culturing from a Single Seawater Sample

(2015) Seung-Jo Yang et al.   MICROBIAL ECOLOGY

Climate change and the permafrost carbon feedback

(2015) E. A. G. Schuur et al.   NATURE

Differential Assemblage of Functional Units in Paddy Soil Microbiomes

(2015) Yongkyu Kim et al.   PLoS One

Comparative genomics of threeMethanocellalesstrains reveal novel taxonomic and metabolic features

(2015) Zhe Lyu et al.   Environmental Microbiology Reports

Shifts in methanogenic community composition and methane fluxes along the degradation of discontinuous permafrost

(2015) Susanne Liebner et al.   Frontiers in Microbiology

Microbial Metabolic Potential for Carbon Degradation and Nutrient (Nitrogen and Phosphorus) Acquisition in an Ombrotrophic Peatland

(2014) Xueju Lin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Loss of microbial diversity in soils is coincident with reductions in some specialized functions

(2014) Brajesh K. Singh et al.   ENVIRONMENTAL MICROBIOLOGY

The impacts of recent permafrost thaw on land–atmosphere greenhouse gas exchange

(2014) Daniel J Hayes et al.   Environmental Research Letters

A role for biotic filtering in driving phylogenetic clustering in soil bacterial communities

(2014) Marta Goberna et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY

Methane dynamics regulated by microbial community response to permafrost thaw

(2014) Carmody K. McCalley et al.   NATURE

Changes in peat chemistry associated with permafrost thaw increase greenhouse gas production

(2014) S. B. Hodgkins et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Discovery of a novel methanogen prevalent in thawing permafrost

(2014) Rhiannon Mondav et al.   Nature Communications

Deciphering microbial interactions and detecting keystone species with co-occurrence networks

(2014) David Berry et al.   Frontiers in Microbiology

Expanding the boundaries of local similarity analysis

(2013) W Evan Durno et al.   BMC GENOMICS

Phylogenetic distance and species richness interactively affect the productivity of bacterial communities

(2013) Patrick A. Venail et al.   ECOLOGY

Methane, microbes and models: fundamental understanding of the soil methane cycle for future predictions

(2013) Loïc Nazaries et al.   ENVIRONMENTAL MICROBIOLOGY

Phylogenomic Data Support a Seventh Order of Methylotrophic Methanogens and Provide Insights into the Evolution of Methanogenesis

(2013) Guillaume Borrel et al.   Genome Biology and Evolution

Quantifying community assembly processes and identifying features that impose them

(2013) James C Stegen et al.   ISME Journal

Phylogenetic beta diversity in bacterial assemblages across ecosystems: deterministic versus stochastic processes

(2013) Jianjun Wang et al.   ISME Journal

Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community

(2013) Mallory Embree et al.   ISME Journal

Pyrosequencing-Based Assessment of the Bacteria Diversity in Surface and Subsurface Peat Layers of a Northern Wetland, with Focus on Poorly Studied Phyla and Candidate Divisions

(2013) Yulia M. Serkebaeva et al.   PLoS One

Monitoring the Multi-Year Carbon Balance of a Subarctic Palsa Mire with Micrometeorological Techniques

(2012) Torben R. Christensen et al.   AMBIO

Microbial Community Structure and Activity Linked to Contrasting Biogeochemical Gradients in Bog and Fen Environments of the Glacial Lake Agassiz Peatland

(2012) X. Lin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

“Methanoplasmatales,” Thermoplasmatales-Related Archaea in Termite Guts and Other Environments, Are the Seventh Order of Methanogens

(2012) Kristina Paul et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Molecular ecological network analyses

(2012) Ye Deng et al.   BMC BIOINFORMATICS

Future vegetation changes in thawing subarctic mires and implications for greenhouse gas exchange—a regional assessment

(2012) Julia Bosiö et al.   CLIMATIC CHANGE

Thawing permafrost increases old soil and autotrophic respiration in tundra: Partitioning ecosystem respiration using δ13C and ∆14C

(2012) Caitlin E. Hicks Pries et al.   GLOBAL CHANGE BIOLOGY

Environmental and physical controls on northern terrestrial methane emissions across permafrost zones

(2012) David Olefeldt et al.   GLOBAL CHANGE BIOLOGY

Organic carbon transformations in high-Arctic peat soils: key functions and microorganisms

(2012) Alexander Tveit et al.   ISME Journal

Stochastic and deterministic assembly processes in subsurface microbial communities

(2012) James C Stegen et al.   ISME Journal

Microbial interactions: from networks to models

(2012) Karoline Faust et al.   NATURE REVIEWS MICROBIOLOGY

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Methanocella conradii sp. nov., a Thermophilic, Obligate Hydrogenotrophic Methanogen, Isolated from Chinese Rice Field Soil

(2012) Zhe Lü et al.   PLoS One

Methane and methanogen community dynamics across a boreal peatland nutrient gradient

(2012) Aaron Godin et al.   SOIL BIOLOGY & BIOCHEMISTRY

Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks

(2012) Daniel H. Huson et al.   SYSTEMATIC BIOLOGY

Microbial Co-occurrence Relationships in the Human Microbiome

(2012) Karoline Faust et al.   PLoS Computational Biology

Inferring Correlation Networks from Genomic Survey Data

(2012) Jonathan Friedman et al.   PLoS Computational Biology

Water Dispersal of Methanotrophic Bacteria Maintains Functional Methane Oxidation in Sphagnum Mosses

(2012) Anuliina Putkinen et al.   Frontiers in Microbiology

Co-Occurrence Patterns of Plants and Soil Bacteria in the High-Alpine Subnival Zone Track Environmental Harshness

(2012) Andrew J. King et al.   Frontiers in Microbiology

Fundamentals of Microbial Community Resistance and Resilience

(2012) Ashley Shade et al.   Frontiers in Microbiology

Tree and Shrub Expansion Over the Past 34 Years at the Tree-Line Near Abisko, Sweden

(2011) Sara Rundqvist et al.   AMBIO

Methanogen diversity and community composition in peatlands of the central to northern Appalachian Mountain region, North America

(2011) Joseph B. Yavitt et al.   BIOGEOCHEMISTRY

Change in community phylogenetic structure during tropical forest succession: evidence from New Guinea

(2011) T. J. S. Whitfeld et al.   ECOGRAPHY

The Effects of Permafrost Thaw on Soil Hydrologic, Thermal, and Carbon Dynamics in an Alaskan Peatland

(2011) Jonathan A. O’Donnell et al.   ECOSYSTEMS

Beyond the Venn diagram: the hunt for a core microbiome

(2011) Ashley Shade et al.   ENVIRONMENTAL MICROBIOLOGY

Acidicapsa borealis gen. nov., sp. nov. and Acidicapsa ligni sp. nov., subdivision 1 Acidobacteria from Sphagnum peat and decaying wood

(2011) I. S. Kulichevskaya et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Telmatobacter bradus gen. nov., sp. nov., a cellulolytic facultative anaerobe from subdivision 1 of the Acidobacteria, and emended description of Acidobacterium capsulatum Kishimoto et al. 1991

(2011) T. A. Pankratov et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Analysis of bacterial core communities in the central Baltic by comparative RNA–DNA-based fingerprinting provides links to structure–function relationships

(2011) Ingrid Brettar et al.   ISME Journal

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Carbon loss from an unprecedented Arctic tundra wildfire

(2011) Michelle C. Mack et al.   NATURE

Activation of Methanogenesis in Arid Biological Soil Crusts Despite the Presence of Oxygen

(2011) Roey Angel et al.   PLoS One

Bacterial community structures are unique and resilient in full-scale bioenergy systems

(2011) J. J. Werner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Opposing effects of competitive exclusion on the phylogenetic structure of communities

(2010) Margaret M. Mayfield et al.   ECOLOGY LETTERS

Effects of experimental warming of air, soil and permafrost on carbon balance in Alaskan tundra

(2010) SUSAN M. NATALI et al.   GLOBAL CHANGE BIOLOGY

Methanoregula boonei gen. nov., sp. nov., an acidiphilic methanogen isolated from an acidic peat bog

(2010) S. L. Brauer et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Methanocella arvoryzae sp. nov., a hydrogenotrophic methanogen isolated from rice field soil

(2010) S. Sakai et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Spatial variability in airborne bacterial communities across land-use types and their relationship to the bacterial communities of potential source environments

(2010) Robert M Bowers et al.   ISME Journal

Annual cycle of methane emission from a subarctic peatland

(2010) Marcin Jackowicz-Korczyński et al.   JOURNAL OF GEOPHYSICAL RESEARCH

Wetland development, permafrost history and nutrient cycling inferred from late Holocene peat and lake sediment records in subarctic Sweden

(2010) Ulla Kokfelt et al.   JOURNAL OF PALEOLIMNOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Synthesis of studies of palsa formation underlining the importance of local environmental and physical characteristics

(2010) Matti Seppälä   QUATERNARY RESEARCH

The carbon budget of the northern cryosphere region

(2010) A David McGuire et al.   Current Opinion in Environmental Sustainability

Three Genomes from the Phylum Acidobacteria Provide Insight into the Lifestyles of These Microorganisms in Soils

(2009) N. L. Ward et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Applying probabilistic projections of climate change with impact models: a case study for sub-arctic palsa mires in Fennoscandia

(2009) Stefan Fronzek et al.   CLIMATIC CHANGE

A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses

(2009) Ryan T Jones et al.   ISME Journal

Global ecological patterns in uncultured Archaea

(2009) Jean-Christophe Auguet et al.   ISME Journal

Carbon respiration from subsurface peat accelerated by climate warming in the subarctic

(2009) Ellen Dorrepaal et al.   NATURE

Physical and ecological changes associated with warming permafrost and thermokarst in Interior Alaska

(2009) T. E. Osterkamp et al.   PERMAFROST AND PERIGLACIAL PROCESSES

Mires of the former Soviet Union

(2009) V. Masing et al.   WETLANDS ECOLOGY AND MANAGEMENT

Evidence that the potential for dissimilatory ferric iron reduction is widespread among acidophilic heterotrophic bacteria

(2008) Kris Coupland et al.   FEMS MICROBIOLOGY LETTERS

Total hydrocarbon flux dynamics at a subarctic mire in northern Sweden

(2008) Kristina Bäckstrand et al.   JOURNAL OF GEOPHYSICAL RESEARCH

Thawing permafrost and thicker active layers in sub-arctic Sweden

(2008) H. Jonas Åkerman et al.   PERMAFROST AND PERIGLACIAL PROCESSES

Ubiquity of Biological Ice Nucleators in Snowfall

(2008) B. C. Christner et al.   SCIENCE