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The Revised Classification of Eukaryotes
TLDR
This revision of the classification of eukaryotes retains an emphasis on the protists and incorporates changes since 2005 that have resolved nodes and branches in phylogenetic trees. Expand
Estimating the timing of early eukaryotic diversification with multigene molecular clocks
TLDR
Taxon-rich multigene data combined with diverse fossils and a relaxed molecular clock framework are used to estimate the timing of the last common ancestor of extant eukaryotes and the divergence of major clades, suggesting that long stems preceded diversification in the major eUKaryotic lineages. Expand
The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks
TLDR
The improvements the SILVA taxonomy has undergone in the last 3 years are described, focusing on the curation process, the various resources used for curation and the comparison of the SILva taxonomy with Greengenes and RDP-II taxonomies. Expand
The Impact of the Gut Microbiota on Human Health: An Integrative View
TLDR
It is suggested that a holistic approach to studying the microbiota that goes beyond characterization of community composition and encompasses dynamic interactions between all components of the microbiota and host tissue over time will be crucial for building predictive models for diagnosis and treatment of diseases linked to imbalances in the microbiota. Expand
Decoupling function and taxonomy in the global ocean microbiome
TLDR
It is found that environmental conditions strongly influence the distribution of functional groups in marine microbial communities by shaping metabolic niches, but only weakly influence taxonomic composition within individual functional groups. Expand
The amphibian skin‐associated microbiome across species, space and life history stages
TLDR
High‐throughput 16S rRNA gene sequencing is used to examine the host and environmental influences on the skin microbiota of the cohabiting amphibian species Anaxyrus boreas, Pseudacris regilla, Taricha torosa and Lithobates catesbeianus from the Central Valley in California, and populations of Rana cascadae tadpoles. Expand
Broadly sampled multigene analyses yield a well-resolved eukaryotic tree of life.
TLDR
These analyses demonstrate that stable topologies of ancient evolutionary relationships can be achieved with broad taxonomic sampling and a moderate number of genes, and provide a method for testing the accuracy of relationships that receive high bootstrap support in phylogenomic analyses. Expand
Experimental and analytical tools for studying the human microbiome
TLDR
Tools and strategies for microbiome studies are discussed, from primer selection to bioinformatics analysis, increasing the use of microbiome studies both individually and collectively. Expand
Defining the human microbiome.
TLDR
This review highlights recent research that expands the ability to understand the human microbiome on different spatial and temporal scales, including daily time series datasets spanning months. Expand
Microbial community dynamics and effect of environmental microbial reservoirs on red-backed salamanders (Plethodon cinereus)
TLDR
It is suggested that future experiments focus on testing whether core bacteria on salamander skin contribute to the observed resistance to chytridiomycosis in this species even under hygenic captive conditions, and using PICRUSt, an exploratory bioinformatics tool to predict gene functions, it is found that core skin bacteria provided similar gene functions to the entire community. Expand
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