Ecology and exploration of the rare biosphere
The profound influence of microorganisms on human life and global biogeochemical cycles
underlines the value of studying the biogeography of microorganisms, exploring microbial …
underlines the value of studying the biogeography of microorganisms, exploring microbial …
Marine microbial community dynamics and their ecological interpretation
Recent advances in studying the dynamics of marine microbial communities have shown
that the composition of these communities follows predictable patterns and involves complex …
that the composition of these communities follows predictable patterns and involves complex …
PEAR: a fast and accurate Illumina Paired-End reAd mergeR
Abstract Motivation: The Illumina paired-end sequencing technology can generate reads
from both ends of target DNA fragments, which can subsequently be merged to increase the …
from both ends of target DNA fragments, which can subsequently be merged to increase the …
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
DNA sequencing continues to decrease in cost with the Illumina HiSeq2000 generating up
to 600 Gb of paired-end 100 base reads in a ten-day run. Here we present a protocol for …
to 600 Gb of paired-end 100 base reads in a ten-day run. Here we present a protocol for …
Fecal microbiota transplantation induces remission in patients with active ulcerative colitis in a randomized controlled trial
Background & Aims Ulcerative colitis (UC) is difficult to treat, and standard therapy does not
always induce remission. Fecal microbiota transplantation (FMT) is an alternative approach …
always induce remission. Fecal microbiota transplantation (FMT) is an alternative approach …
[HTML][HTML] Age-associated microbial dysbiosis promotes intestinal permeability, systemic inflammation, and macrophage dysfunction
Levels of inflammatory mediators in circulation are known to increase with age, but the
underlying cause of this age-associated inflammation is debated. We find that, when …
underlying cause of this age-associated inflammation is debated. We find that, when …
PANDAseq: paired-end assembler for illumina sequences
Background Illumina paired-end reads are used to analyse microbial communities by
targeting amplicons of the 16S rRNA gene. Publicly available tools are needed to assemble …
targeting amplicons of the 16S rRNA gene. Publicly available tools are needed to assemble …
Early infancy microbial and metabolic alterations affect risk of childhood asthma
Asthma is the most prevalent pediatric chronic disease and affects more than 300 million
people worldwide. Recent evidence in mice has identified a “critical window” early in life …
people worldwide. Recent evidence in mice has identified a “critical window” early in life …
Probiotic Bifidobacterium longum NCC3001 reduces depression scores and alters brain activity: a pilot study in patients with irritable bowel syndrome
Background & Aims Probiotics can reduce symptoms of irritable bowel syndrome (IBS), but
little is known about their effects on psychiatric comorbidities. We performed a prospective …
little is known about their effects on psychiatric comorbidities. We performed a prospective …
Systematic improvement of amplicon marker gene methods for increased accuracy in microbiome studies
Amplicon-based marker gene surveys form the basis of most microbiome and other
microbial community studies. Such PCR-based methods have multiple steps, each of which …
microbial community studies. Such PCR-based methods have multiple steps, each of which …