Biodiversity of key-stone phylotypes determines crop production in a 4-decade fertilization experiment

Multiple elements of soil biodiversity drive ecosystem functions across biomes

(2020) Manuel Delgado-Baquerizo et al.   Nature Ecology & Evolution

Soil and Crop Management Strategies to Ensure Higher Crop Productivity within Sustainable Environments

(2019) Farooq Shah et al.   Sustainability

Redox traits characterize the organization of global microbial communities

(2019) Salvador Ramírez-Flandes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Soil microbial responses to drought and exotic plants shift carbon metabolism

(2019) Sherlynette Pérez Castro et al.   ISME Journal

Urea fertilization decreases soil bacterial diversity, but improves microbial biomass, respiration, and N-cycling potential in a semiarid grassland

(2019) Chao Zhang et al.   BIOLOGY AND FERTILITY OF SOILS

Suppressed N fixation and diazotrophs after four decades of fertilization

(2019) Kunkun Fan et al.   Microbiome

Keystone taxa as drivers of microbiome structure and functioning

(2018) Samiran Banerjee et al.   NATURE REVIEWS MICROBIOLOGY

QMEC: a tool for high-throughput quantitative assessment of microbial functional potential in C, N, P, and S biogeochemical cycling

(2018) Bangxiao Zheng et al.   Science China-Life Sciences

Co-existence of Rhizobia and Diverse Non-rhizobial Bacteria in the Rhizosphere and Nodules of Dalbergia odorifera Seedlings Inoculated with Bradyrhizobium elkanii, Rhizobium multihospitium–Like and Burkholderia pyrrocinia–Like Strains

(2017) Junkun Lu et al.   Frontiers in Microbiology

Changes in the soil microbial community after reductive soil disinfestation and cucumber seedling cultivation

(2016) Xinqi Huang et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Temporal dynamics of biotic and abiotic drivers of litter decomposition

(2016) Pablo García-Palacios et al.   ECOLOGY LETTERS

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

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

Phosphatase activity is related to N availability but not P availability across hardwood forests in the northeastern United States

(2016) Tera J. Ratliff et al.   SOIL BIOLOGY & BIOCHEMISTRY

Microbial diversity drives multifunctionality in terrestrial ecosystems

(2016) Manuel Delgado-Baquerizo et al.   Nature Communications

Molecular Keys to the Janthinobacterium and Duganella spp. Interaction with the Plant Pathogen Fusarium graminearum

(2016) Frederike S. Haack et al.   Frontiers in Microbiology

Diverse bacterial communities are recruited on spores of different arbuscular mycorrhizal fungal isolates

(2015) Monica Agnolucci et al.   BIOLOGY AND FERTILITY OF SOILS

Taxonomy, Physiology, and Natural Products of Actinobacteria

(2015) Essaid Ait Barka et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

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

Soil bacterial phoD gene abundance and expression in response to applied phosphorus and long-term management

(2015) Tandra D. Fraser et al.   SOIL BIOLOGY & BIOCHEMISTRY

Bacterial diversity in soils subjected to long-term chemical fertilization can be more stably maintained with the addition of livestock manure than wheat straw

(2015) Ruibo Sun et al.   SOIL BIOLOGY & BIOCHEMISTRY

Trophic network architecture of root-associated bacterial communities determines pathogen invasion and plant health

(2015) Zhong Wei et al.   Nature Communications

FastRFunctions for Robust Correlations and Hierarchical Clustering

(2015) Peter Langfelder et al.   Journal of Statistical Software

Network analysis reveals that bacteria and fungi form modules that correlate independently with soil parameters

(2014) Alexandre B. de Menezes et al.   ENVIRONMENTAL MICROBIOLOGY

High Throughput Profiling of Antibiotic Resistance Genes in Urban Park Soils with Reclaimed Water Irrigation

(2014) Feng-Hua Wang et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Long-term balanced fertilization increases the soil microbial functional diversity in a phosphorus-limited paddy soil

(2014) Jian-Qiang Su et al.   MOLECULAR ECOLOGY

Functional Potential of Soil Microbial Communities in the Maize Rhizosphere

(2014) Xiangzhen Li et al.   PLoS One

Enrichment of specific bacterial and eukaryotic microbes in the rhizosphere of switchgrass (Panicum virgatum L.) through root exudates

(2014) Yuejian Mao et al.   Environmental Microbiology Reports

Improved Selection of Internal Transcribed Spacer-Specific Primers Enables Quantitative, Ultra-High-Throughput Profiling of Fungal Communities

(2013) Nicholas A. Bokulich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling

(2013) Laura A Hug et al.   Microbiome

The Top 10 fungal pathogens in molecular plant pathology

(2012) Ralph Dean et al.   MOLECULAR PLANT PATHOLOGY

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Diversity of Interaction Types and Ecological Community Stability

(2012) A. Mougi et al.   SCIENCE

Connectance of species interaction networks and conservation value: Is it any good to be well connected?

(2011) Ruben Heleno et al.   ECOLOGICAL INDICATORS

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

(2011) Daniel McDonald et al.   ISME Journal

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

A global network of coexisting microbes from environmental and whole-genome sequence data

(2010) S. Chaffron et al.   GENOME RESEARCH

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

The online database MaarjAM reveals global and ecosystemic distribution patterns in arbuscular mycorrhizal fungi (Glomeromycota)

(2010) M. Öpik et al.   NEW PHYTOLOGIST

Evaluating high-throughput sequencing as a method for metagenomic analysis of nematode diversity

(2009) DOROTA L. PORAZINSKA et al.   Molecular Ecology Resources

Association between Burkholderia species and arbuscular mycorrhizal fungus spores in soil

(2009) Avram Levy et al.   SOIL BIOLOGY & BIOCHEMISTRY

Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environment

(2008) J. F. Biddle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA