Gut Microbiome
Protection against Clostridioides difficile disease by a naturally avirulent strain – Dong et al. Cell Host & Microbe
Animal experiments
The host genotype actively shapes its microbiome across generations in laboratory mice – Benga et al. Microbiome
Prenatal antibiotics reduce breast milk IgA and induce dysbiosis in mouse offspring, increasing neonatal susceptibility to bacterial sepsis – Pietrasanta et al. Cell Host & Microbe
Oral and respiratory microbiomes
Gingival spatial analysis reveals geographic immunological variation in a microbiota-dependent and -independent manner – Jaber et al. npj biofilms and microbiomes
Host DNA depletion on frozen human respiratory samples enables successful metagenomic sequencing for microbiome studies – Kim et al. Communications biology
The respiratory microbiome is linked to the severity of RSV infections and the persistence of symptoms in children – Kristensen et al. Cell Reports Medicine
Plant and environmental microbiomes
Plant microbiota feedbacks through dose-responsive expression of general non-self response genes – Keppler et al. Nature Plants
Dynamics of rice seed-borne bacteria from acquisition to seedling colonization – Chen et al. Microbiome
Bioinformatics
Managing false positives during detection of pathogen sequences in shotgun metagenomics datasets – Bradford et al. BMC Bioinformatics
[PREPRINT] TaxSEA: an R package for rapid interpretation of differential abundance analysis output – Ryan. bioRxiv
Microbiome Digest - Bik's Picks 