Evaluating the core microbiota in complex communities: A systematic investigation

Insights into the Coral Microbiome: Underpinning the Health and Resilience of Reef Ecosystems

(2016) David G. Bourne et al.   Annual Review of Microbiology

The microbiome of coral surface mucus has a key role in mediating holobiont health and survival upon disturbance

(2016) Bettina Glasl et al.   ISME Journal

Bottomless barrel-sponge species in the Indo-Pacific?

(2016) EDWIN SETIAWAN et al.   ZOOTAXA

The Sponge Hologenome

(2016) Nicole S. Webster et al.   mBio

Diversity, structure and convergent evolution of the global sponge microbiome

(2016) Torsten Thomas et al.   Nature Communications

Characterization of the Core and Caste-Specific Microbiota in the Termite, Reticulitermes flavipes

(2016) Jacquelynn Benjamino et al.   Frontiers in Microbiology

HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts

(2016) Patrick W. Laffy et al.   Frontiers in Microbiology

High-throughput sequencing reveals the core gut microbiome of Bar-headed goose (Anser indicus) in different wintering areas in Tibet

(2016) Wen Wang et al.   MicrobiologyOpen

The reproductive tracts of two malaria vectors are populated by a core microbiome and by gender- and swarm-enriched microbial biomarkers

(2016) Nicola Segata et al.   Scientific Reports

The core root microbiome of sugarcanes cultivated under varying nitrogen fertilizer application

(2015) Yun Kit Yeoh et al.   ENVIRONMENTAL MICROBIOLOGY

The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts

(2015) Tracy D Ainsworth et al.   ISME Journal

Discordant temporal development of bacterial phyla and the emergence of core in the fecal microbiota of young children

(2015) Jing Cheng et al.   ISME Journal

Comparison of the gut microbiomes of 12 bony fish and 3 shark species

(2015) CE Givens et al.   MARINE ECOLOGY PROGRESS SERIES

The ecology of the microbiome: Networks, competition, and stability

(2015) K. Z. Coyte et al.   SCIENCE

Functional group diversity increases with modularity in complex food webs

(2015) D. Montoya et al.   Nature Communications

Stream microbial diversity in response to environmental changes: review and synthesis of existing research

(2015) Lydia H. Zeglin   Frontiers in Microbiology

Comparison of the gut microbiomes of 12 bony fish and 3 shark species

(2015) CE Givens et al.   MARINE ECOLOGY PROGRESS SERIES

Influence of environmental variation on symbiotic bacterial communities of two temperate sponges

(2014) César A. Cárdenas et al.   FEMS MICROBIOLOGY ECOLOGY

Host-specificity among abundant and rare taxa in the sponge microbiome

(2014) Julie Reveillaud et al.   ISME Journal

Identifying the core microbial community in the gut of fungus-growing termites

(2014) Saria Otani et al.   MOLECULAR ECOLOGY

Resilience to Disturbance Despite Limited Dispersal and Self-Recruitment in Tropical Barrel Sponges: Implications for Conservation and Management

(2014) James J. Bell et al.   PLoS One

Reduced Diversity and High Sponge Abundance on a Sedimented Indo-Pacific Reef System: Implications for Future Changes in Environmental Quality

(2014) Abigail Powell et al.   PLoS One

Biogeographic patterns in below-ground diversity in New York City's Central Park are similar to those observed globally

(2014) K. S. Ramirez et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Functional and phylogenetic assembly of microbial communities in the human microbiome

(2014) Afrah Shafquat et al.   TRENDS IN MICROBIOLOGY

Mongolians core gut microbiota and its correlation with seasonal dietary changes

(2014) Jiachao Zhang et al.   Scientific Reports

Characterizing the avian gut microbiota: membership, driving influences, and potential function

(2014) David W. Waite et al.   Frontiers in Microbiology

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

(2014) David Berry et al.   Frontiers in Microbiology

Specificity and temporal dynamics of complex bacteria–sponge symbiotic interactions

(2013) Johannes R. Björk et al.   ECOLOGY

Quality or quantity: is nutrient transfer driven more by symbiont identity and productivity than by symbiont abundance?

(2013) Christopher J Freeman et al.   ISME Journal

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Relationships between Host Phylogeny, Host Type and Bacterial Community Diversity in Cold-Water Coral Reef Sponges

(2013) Sandra Schöttner et al.   PLoS One

A method for detecting modules in quantitative bipartite networks

(2013) Carsten F. Dormann et al.   Methods in Ecology and Evolution

Defining a Healthy Human Gut Microbiome: Current Concepts, Future Directions, and Clinical Applications

(2012) Fredrik Bäckhed et al.   Cell Host & Microbe

Thermal stress responses in the bacterial biosphere of the Great Barrier Reef sponge,Rhopaloeides odorabile

(2012) Rachel Simister et al.   ENVIRONMENTAL MICROBIOLOGY

‘Sponge-specific’ bacteria are widespread (but rare) in diverse marine environments

(2012) Michael W Taylor et al.   ISME Journal

Environmental and ecological factors that shape the gut bacterial communities of fish: a meta-analysis

(2012) KAREN E. SULLAM et al.   MOLECULAR ECOLOGY

Defining the core Arabidopsis thaliana root microbiome

(2012) Derek S. Lundberg et al.   NATURE

Genomic insights into the marine sponge microbiome

(2012) Ute Hentschel et al.   NATURE REVIEWS MICROBIOLOGY

A Core Human Microbiome as Viewed through 16S rRNA Sequence Clusters

(2012) Susan M. Huse et al.   PLoS One

The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome

(2012) Daniel McDonald et al.   GigaScience

Sponge-Associated Bacteria Are Strictly Maintained in Two Closely Related but Geographically Distant Sponge Hosts

(2011) Naomi F. Montalvo et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Sponge-specific clusters revisited: a comprehensive phylogeny of sponge-associated microorganisms

(2011) Rachel L. Simister et al.   ENVIRONMENTAL MICROBIOLOGY

Beyond the Venn diagram: the hunt for a core microbiome

(2011) Ashley Shade et al.   ENVIRONMENTAL MICROBIOLOGY

A specific mix of generalists: bacterial symbionts in Mediterranean Ircinia spp.

(2011) Patrick M. Erwin et al.   FEMS MICROBIOLOGY ECOLOGY

Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges

(2011) Susanne Schmitt et al.   ISME Journal

Enterotypes of the human gut microbiome

(2011) Manimozhiyan Arumugam et al.   NATURE

Statistical structure of host-phage interactions

(2011) C. O. Flores et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Stability of Ecological Communities and the Architecture of Mutualistic and Trophic Networks

(2010) E. Thebault et al.   SCIENCE

Sex-specific asymmetry within the cloacal microbiota of the striped plateau lizard, Sceloporus virgatus

(2010) Mark O. Martin et al.   SYMBIOSIS

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Associations between species and groups of sites: indices and statistical inference

(2009) Miquel De Cáceres et al.   ECOLOGY

Microbial community profiling for human microbiome projects: Tools, techniques, and challenges

(2009) M. Hamady et al.   GENOME RESEARCH

Disentangling the Web of Life

(2009) Jordi Bascompte   SCIENCE

Review: Ecological networks - beyond food webs

(2008) Thomas C. Ings et al.   JOURNAL OF ANIMAL ECOLOGY

Worlds within worlds: evolution of the vertebrate gut microbiota

(2008) Ruth E. Ley et al.   NATURE REVIEWS MICROBIOLOGY