Advances and challenges in metatranscriptomic analysis
Sequencing-based analyses of microbiomes have traditionally focused on addressing the
question of community membership and profiling taxonomic abundance through amplicon …
question of community membership and profiling taxonomic abundance through amplicon …
Pathogen-induced activation of disease-suppressive functions in the endophytic root microbiome
Microorganisms living inside plants can promote plant growth and health, but their genomic
and functional diversity remain largely elusive. Here, metagenomics and network inference …
and functional diversity remain largely elusive. Here, metagenomics and network inference …
Tax4Fun2: prediction of habitat-specific functional profiles and functional redundancy based on 16S rRNA gene sequences
Abstract Background Sequencing of 16S rRNA genes has become a powerful technique to
study microbial communities and their responses towards changing environmental …
study microbial communities and their responses towards changing environmental …
Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data
KP Aßhauer, B Wemheuer, R Daniel… - Bioinformatics, 2015 - academic.oup.com
Motivation: The characterization of phylogenetic and functional diversity is a key element in
the analysis of microbial communities. Amplicon-based sequencing of marker genes, such …
the analysis of microbial communities. Amplicon-based sequencing of marker genes, such …
Stable core virome despite variable microbiome after fecal transfer
ABSTRACT We recently described the 4.5-year time course of the enteric bacterial
microbiota and virome of a patient cured from recurrent Clostridium difficile infection (rCDI) …
microbiota and virome of a patient cured from recurrent Clostridium difficile infection (rCDI) …
Wastewater effluents cause microbial community shifts and change trophic status
Widespread wastewater pollution is one of the greatest challenges threatening the
sustainable management of rivers globally. Understanding microbial responses to gradients …
sustainable management of rivers globally. Understanding microbial responses to gradients …
Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing
Ancient DNA research has been revolutionized following development of next-generation
sequencing platforms. Although a number of such platforms have been applied to ancient …
sequencing platforms. Although a number of such platforms have been applied to ancient …
The active microbial community more accurately reflects the anaerobic digestion process: 16S rRNA (gene) sequencing as a predictive tool
Background Amplicon sequencing methods targeting the 16S rRNA gene have been used
extensively to investigate microbial community composition and dynamics in anaerobic …
extensively to investigate microbial community composition and dynamics in anaerobic …
Statin therapy causes gut dysbiosis in mice through a PXR-dependent mechanism
Background Statins are a class of therapeutics used to regulate serum cholesterol and
reduce the risk of heart disease. Although statins are highly effective in removing cholesterol …
reduce the risk of heart disease. Although statins are highly effective in removing cholesterol …
MOCAT2: a metagenomic assembly, annotation and profiling framework
MOCAT2 is a software pipeline for metagenomic sequence assembly and gene prediction
with novel features for taxonomic and functional abundance profiling. The automated …
with novel features for taxonomic and functional abundance profiling. The automated …