Network Properties of Local Fungal Communities Reveal the Anthropogenic Disturbance Consequences of Farming Practices in Vineyard Soils

Niche differentiation is spatially and temporally regulated in the rhizosphere

(2020) Erin E. Nuccio et al.   ISME Journal

Co‐occurrence is not evidence of ecological interactions

(2020) F. Guillaume Blanchet et al.   ECOLOGY LETTERS

Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots

(2019) Samiran Banerjee et al.   ISME Journal

Use and abuse of correlation analyses in microbial ecology

(2019) Alex Carr et al.   ISME Journal

Scientists’ warning to humanity: microorganisms and climate change

(2019) Ricardo Cavicchioli et al.   NATURE REVIEWS MICROBIOLOGY

Incorporating phylogenetic metrics to microbial co‐occurrence networks based on amplicon sequences to discern community assembly processes

(2019) Marta Goberna et al.   Molecular Ecology Resources

Microbiome of vineyard soils is shaped by geography and management

(2019) Emanuela Coller et al.   Microbiome

Conversion to organic and biodynamic viticultural practices: impact on soil, grapevine development and grape quality

(2019) Georg Meissner et al.   OENO One

Soil Biological Quality index (QBS-ar): 15 years of application at global scale

(2018) Cristina Menta et al.   ECOLOGICAL INDICATORS

Species co-occurrence networks: Can they reveal trophic and non-trophic interactions in ecological communities?

(2018) Mara A. Freilich et al.   ECOLOGY

Consistent changes in the taxonomic structure and functional attributes of bacterial communities during primary succession

(2018) Rüdiger Ortiz-Álvarez et al.   ISME Journal

Competition–colonization tradeoffs structure fungal diversity

(2018) Gabriel R. Smith et al.   ISME Journal

A global atlas of the dominant bacteria found in soil

(2018) Manuel Delgado-Baquerizo et al.   SCIENCE

Fungal Biodiversity and Their Role in Soil Health

(2018) Magdalena Frąc et al.   Frontiers in Microbiology

Cropping practices manipulate abundance patterns of root and soil microbiome members paving the way to smart farming

(2018) Kyle Hartman et al.   Microbiome

Structure and function of the global topsoil microbiome

(2018) Mohammad Bahram et al.   NATURE

Emergent simplicity in microbial community assembly

(2018) Joshua E. Goldford et al.   SCIENCE

Soil bacterial networks are less stable under drought than fungal networks

(2018) Franciska T. de Vries et al.   Nature Communications

Understanding how microbiomes influence the systems they inhabit

(2018) Ed K. Hall et al.   Nature Microbiology

The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications

(2018) Rolf Henrik Nilsson et al.   NUCLEIC ACIDS RESEARCH

Ecological networks reveal resilience of agro-ecosystems to changes in farming management

(2018) Athen Ma et al.   Nature Ecology & Evolution

A communal catalogue reveals Earth’s multiscale microbial diversity

(2017) Luke R. Thompson et al.   NATURE

Multiple interactions networks: towards more realistic descriptions of the web of life

(2017) David García-Callejas et al.   OIKOS

Community structure follows simple assembly rules in microbial microcosms

(2017) Jonathan Friedman et al.   Nature Ecology & Evolution

Mycorrhizal and saprotrophic fungal guilds compete for the same organic substrates but affect decomposition differently

(2016) Inga T. M. Bödeker et al.   FUNCTIONAL ECOLOGY

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

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

The Ecology and Evolution of Microbial Competition

(2016) Melanie Ghoul et al.   TRENDS IN MICROBIOLOGY

Co-occurrence Analysis of Microbial Taxa in the Atlantic Ocean Reveals High Connectivity in the Free-Living Bacterioplankton

(2016) Mathias Milici et al.   Frontiers in Microbiology

VSEARCH: a versatile open source tool for metagenomics

(2016) Torbjørn Rognes et al.   PeerJ

Resistant Microbial Cooccurrence Patterns Inferred by Network Topology

(2015) Sari Peura et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Influence of the farming system on the epiphytic yeasts and yeast-like fungi colonizing grape berries during the ripening process

(2014) Guilherme Martins et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Unravelling the Diversity of Grapevine Microbiome

(2014) Cátia Pinto et al.   PLoS One

Global diversity and geography of soil fungi

(2014) L. Tedersoo et al.   SCIENCE

PNAS Plus: From the Cover: Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate

(2013) N. A. Bokulich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Associating microbiome composition with environmental covariates using generalized UniFrac distances

(2012) Jun Chen et al.   BIOINFORMATICS

The dissimilarity of species interaction networks

(2012) Timothée Poisot et al.   ECOLOGY LETTERS

Soil biodiversity and bioindication: From complex thinking to simple acting

(2012) Elena Havlicek   EUROPEAN JOURNAL OF SOIL BIOLOGY

A probabilistic model for analysing species co-occurrence

(2012) Joseph A. Veech   GLOBAL ECOLOGY AND BIOGEOGRAPHY

Land use alters the resistance and resilience of soil food webs to drought

(2012) Franciska T. de Vries et al.   Nature Climate Change

Microbial Co-occurrence Relationships in the Human Microbiome

(2012) Karoline Faust et al.   PLoS Computational Biology

Using network analysis to explore co-occurrence patterns in soil microbial communities

(2011) Albert Barberán et al.   ISME Journal

Exploration of community traits as ecological markers in microbial metagenomes

(2011) ALBERT BARBERÁN et al.   MOLECULAR ECOLOGY

Drought-resistant fungi control soil organic matter decomposition and its response to temperature

(2010) J.C. YUSTE et al.   GLOBAL CHANGE BIOLOGY

The large-scale organization of the bacterial network of ecological co-occurrence interactions

(2010) Shiri Freilich et al.   NUCLEIC ACIDS RESEARCH

What is microbial community ecology?

(2009) Allan Konopka   ISME Journal

FORWARD SELECTION OF EXPLANATORY VARIABLES

(2008) F. Guillaume Blanchet et al.   ECOLOGY

Past, present and future of soil quality indices: A biological perspective

(2008) F. Bastida et al.   GEODERMA

Soil temperature affects carbon allocation within arbuscular mycorrhizal networks and carbon transport from plant to fungus

(2008) CHRISTINE V. HAWKES et al.   GLOBAL CHANGE BIOLOGY

Distribution of specialist and generalist species along spatial gradients of habitat disturbance and fragmentation

(2008) Vincent Devictor et al.   OIKOS

Soil health in agricultural systems

(2007) M.G Kibblewhite et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES