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The microbiome comprises all of the genetic material within a microbiota (the entire collection of microorganisms in a specific niche, such as the human gut). This can also be referred to as the metagenome of the microbiota.
Here, the authors show that elevating fiber intake in humans alters their gut microbiota, which, upon transplantation into mice, enhances intestinal mucus function, and identify a crucial role played by the commensal bacterium Blautia and its fermentation products.
Root-associated microbiota confers benefits to plant in responding to environmental stress. Here, the authors show that wild soybean secretes purines under salt stress, reshapes the microbiota and recruits Pseudomonas.
Post birth the gastrointestinal tract undergoes development including the establishment of the microbiome, establishment of tolerance and maturation of the epithelium. Here the authors show a histone demethylase LSD1 is required for postnatal intestinal epithelium maturation and how this impacts local immune cell composition and gut homeostasis.
Metagenomic taxonomic profiling usually relies either on reads or assembled contigs/MAGs. Here, authors present RAT, a tool that integrates taxonomic signals from reads, contigs, and MAGs into one profile with high precision and sensitivity. RAT provides a comprehensive view of the microbiome.
Unusual microbial communities in a person’s lower airways could influence the onset and progression of lung cancer and other conditions, and might point the way to therapies.
The clinical translation of therapeutics on the basis of human gut microorganisms is hampered by our limited knowledge of how microbes survive and adapt to fluctuating conditions in the gut. The systematic exploration of gut microbiome survival strategies and trade-offs will thus enable the design of more efficient microbiome-based interventions.
A ‘reverse translation’ strategy using gnotobiotic mice ascertains cause and effect relationships between bacterial members of the gut microbiota, dietary components and host physiology, which are difficult to establish in human nutritional trials.
The microbiome is implicated in a study that involves the metabolism of dietary fibre into short-chain fatty acids, which provides a biochemical link to the poorly understood histone butyrylation.