Abstract Machine learning is increasingly important in microbiology where it is used for tasks
such as predicting antibiotic resistance and associating human microbiome features with …

Microbiome research has grown rapidly over the past decade, with a proliferation of new
methods that seek to make sense of large, complex data sets. Here, we survey two of the …

Soils suppressive to soilborne pathogens have been identified worldwide for almost 60
years and attributed mainly to suppressive or antagonistic microorganisms. Rather than …

Abstract Next Generation Sequencing (NGS) combined with powerful bioinformatic
approaches are revolutionising food microbiology. Whole genome sequencing (WGS) of …

The activity of the commensal microbiota significantly impacts human health and has been
linked to the development of many diseases, including cancer. Gnotobiotic animal models …

Motivation Metagenomics leads to major advances in microbial ecology and biologists need
user friendly tools to analyze their data on their own. Results This Galaxy-supported …

Objective Gut microbiome alterations in Parkinson disease (PD) have been reported
repeatedly, but their functional relevance remains unclear. Fecal metabolomics, which …

Good scientific practice is important in all areas of science. In recent years this has gained
more and more attention, especially considering the 'scientific reproducibility crisis'. While …

The study of microbial communities has undergone significant advancements, starting from
the initial use of 16S rRNA sequencing to the adoption of shotgun metagenomics. However …

BACKGROUND The existence of an extensive microbiome in and on the human body has
increasingly dominated the scientific literature during the last decade. A shift from culture …