Litter chemistry influences decomposition through activity of specific microbial functional guilds

Seasonal variation and distribution of total and active microbial community of β-glucosidase encoding genes in coniferous forest soil

(2017) Shamina Imran Pathan et al.   SOIL BIOLOGY & BIOCHEMISTRY

Distributions of fungal melanin across species and soils

(2017) Cheta E. Siletti et al.   SOIL BIOLOGY & BIOCHEMISTRY

Feed in summer, rest in winter: microbial carbon utilization in forest topsoil

(2017) Lucia Žifčáková et al.   Microbiome

Copy number variation contributes to cryptic genetic variation in outbreak lineages of Cryptococcus gattii from the North American Pacific Northwest

(2016) Jacob L. Steenwyk et al.   BMC GENOMICS

FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild

(2016) Nhu H. Nguyen et al.   Fungal Ecology

Experimental warming alters potential function of the fungal community in boreal forest

(2016) Kathleen K. Treseder 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

Genomic insights into the carbohydrate catabolism of Cairneyella variabilis gen. nov. sp. nov., the first reports from a genome of an ericoid mycorrhizal fungus from the southern hemisphere

(2016) David J. Midgley et al.   MYCORRHIZA

The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)

(2016) Marcel Huntemann et al.   Standards in Genomic Sciences

Diversity, taxonomic composition, and functional aspects of fungal communities in living, senesced, and fallen leaves at five sites across North America

(2016) Jana M. U’Ren et al.   PeerJ

Fungal Traits That Drive Ecosystem Dynamics on Land

(2015) Kathleen K. Treseder et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Ectomycorrhizal fungi decompose soil organic matter using oxidative mechanisms adapted from saprotrophic ancestors

(2015) Firoz Shah et al.   NEW PHYTOLOGIST

Consistent responses of soil microbial communities to elevated nutrient inputs in grasslands across the globe

(2015) Jonathan W. Leff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential responses of total and active soil microbial communities to long-term experimental N deposition

(2015) Zachary B. Freedman et al.   SOIL BIOLOGY & BIOCHEMISTRY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Secretome analysis identifies potential virulence factors of Diplodia corticola, a fungal pathogen involved in cork oak (Quercus suber) decline

(2014) Isabel Fernandes et al.   Fungal Biology

Initial Phylogenetic Relatedness of Saprotrophic Fungal Communities Affects Subsequent Litter Decomposition Rates

(2014) Stephanie N. Kivlin et al.   MICROBIAL ECOLOGY

Sequence Depth, Not PCR Replication, Improves Ecological Inference from Next Generation DNA Sequencing

(2014) Dylan P. Smith et al.   PLoS One

Endemism and functional convergence across the North American soil mycobiome

(2014) J. M. Talbot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi

(2014) Robert Riley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The change of global terrestrial ecosystem net primary productivity (NPP) and its response to climate change in CMIP5

(2014) Suosuo Li et al.   THEORETICAL AND APPLIED CLIMATOLOGY

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible

(2014) Paul J. McMurdie et al.   PLoS Computational Biology

Exploring bacterial lignin degradation

(2013) Margaret E Brown et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Shifts in fungal communities during decomposition of boreal forest litter

(2013) Kathleen K. Treseder et al.   Fungal Ecology

Differential abundance analysis for microbial marker-gene surveys

(2013) Joseph N Paulson et al.   NATURE METHODS

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Are ectomycorrhizal fungi alleviating or aggravating nitrogen limitation of tree growth in boreal forests?

(2013) Torgny Näsholm et al.   NEW PHYTOLOGIST

MycoCosm portal: gearing up for 1000 fungal genomes

(2013) Igor V. Grigoriev et al.   NUCLEIC ACIDS RESEARCH

Changes in microbial dynamics during long-term decomposition in tropical forests

(2013) Kristen M. DeAngelis et al.   SOIL BIOLOGY & BIOCHEMISTRY

Global soil carbon projections are improved by modelling microbial processes

(2013) William R. Wieder et al.   Nature Climate Change

Microbial Population and Community Dynamics on Plant Roots and Their Feedbacks on Plant Communities

(2012) James D. Bever et al.   Annual Review of Microbiology

Microbial abundance and composition influence litter decomposition response to environmental change

(2012) Steven D. Allison et al.   ECOLOGY

Changes in Soil Fungal Communities, Extracellular Enzyme Activities, and Litter Decomposition Across a Fire Chronosequence in Alaskan Boreal Forests

(2012) Sandra R. Holden et al.   ECOSYSTEMS

Who is who in litter decomposition? Metaproteomics reveals major microbial players and their biogeochemical functions

(2012) Thomas Schneider et al.   ISME Journal

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

Fungal community on decomposing leaf litter undergoes rapid successional changes

(2012) Jana Voříšková et al.   ISME Journal

Botrytis caroliniana, a new species isolated from blackberry in South Carolina

(2012) Xingpeng Li et al.   MYCOLOGIA

The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes

(2012) D. Floudas et al.   SCIENCE

Diverse Lifestyles and Strategies of Plant Pathogenesis Encoded in the Genomes of Eighteen Dothideomycetes Fungi

(2012) Robin A. Ohm et al.   PLoS Pathogens

Litter decay rates are determined by lignin chemistry

(2011) Jennifer M. Talbot et al.   BIOGEOCHEMISTRY

Optimization of cellulase production by a brown rot fungus Fomitopsis sp. RCK2010 under solid state fermentation

(2011) Deepa Deswal et al.   BIORESOURCE TECHNOLOGY

Interactions among lignin, cellulose, and nitrogen drive litter chemistry–decay relationships

(2011) Jennifer M. Talbot et al.   ECOLOGY

Evolutionary trade-offs among decomposers determine responses to nitrogen enrichment

(2011) Kathleen K. Treseder et al.   ECOLOGY LETTERS

A molecular, morphological and ecological re-appraisal of Venturiales―a new order of Dothideomycetes

(2011) Ying Zhang et al.   FUNGAL DIVERSITY

Active and total microbial communities in forest soil are largely different and highly stratified during decomposition

(2011) Petr Baldrian et al.   ISME Journal

Pathways for degradation of lignin in bacteria and fungi

(2011) Timothy D. H. Bugg et al.   NATURAL PRODUCT REPORTS

Persistence of soil organic matter as an ecosystem property

(2011) Michael W. I. Schmidt et al.   NATURE

Simulated Atmospheric N Deposition Alters Fungal Community Composition and Suppresses Ligninolytic Gene Expression in a Northern Hardwood Forest

(2011) Ivan P. Edwards et al.   PLoS One

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

The under-recognized dominance of Verrucomicrobia in soil bacterial communities

(2011) Gaddy T. Bergmann et al.   SOIL BIOLOGY & BIOCHEMISTRY

Functional diversity in resource use by fungi

(2010) Krista L. McGuire et al.   ECOLOGY

Reduction of forest soil respiration in response to nitrogen deposition

(2010) I. A. Janssens et al.   Nature Geoscience

Combining Substrate Specificity Analysis with Support Vector Classifiers Reveals Feruloyl Esterase as a Phylogenetically Informative Protein Group

(2010) Roberto Olivares-Hernández et al.   PLoS One

Assessment of Bias Associated with Incomplete Extraction of Microbial DNA from Soil

(2009) L. M. Feinstein et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The importance of niches for the maintenance of species diversity

(2009) Jonathan M. Levine et al.   NATURE

Linking biodiversity and ecosystems: towards a unifying ecological theory

(2009) M. Loreau   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Fungal Taxa Target Different Carbon Sources in Forest Soil

(2008) China A. Hanson et al.   ECOSYSTEMS

Microbial activity and soil respiration under nitrogen addition in Alaskan boreal forest

(2008) STEVEN D. ALLISON et al.   GLOBAL CHANGE BIOLOGY

Mastering ectomycorrhizal symbiosis: the impact of carbohydrates

(2008) U. Nehls   JOURNAL OF EXPERIMENTAL BOTANY

Links between plant litter chemistry, species diversity, and below-ground ecosystem function

(2008) C. L. Meier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA