Highlights•The microbiomes in many animal and plant hosts are diverse and
variable.•Within-host processes are dominated by host-microbe and among-microbe …

Interest in host-associated microbiomes has skyrocketed recently, yet our ability to explain
microbiome variation has remained stubbornly low. Considering scales of interaction …

The host‐associated core microbiome was originally coined to refer to common groups of
microbes or genes that were likely to be particularly important for host biological function …

The field of microbiome research is arguably one of the fastest growing in biology. Bacteria
feature prominently in studies on animal health, but fungi appear to be the more prominent …

The study of complex microbial communities poses unique conceptual and analytical
challenges, with microbial species potentially numbering in the thousands. With transient or …

Soils are a main repository of biodiversity harbouring immense diversity of microbial species
that plays a central role in fundamental ecological processes and acts as the seed bank for …

Highlights•Plant and animal niches are colonized by bacteria and fungi.•Bacterial-fungal
interactions shape host-associated microbial communities.•Interplay between bacteria and …

Plant microbiome research highlights the importance of indigenous microbial communities
for host phenotypes such as growth and health. It aims to discover the molecular basis by …

Advances in next-generation sequencing have enabled the widespread measurement of
microbiome composition across systems and over the course of microbiome assembly …

Microbial communities comprise an interwoven matrix of biological diversity modified by
physical and chemical variation over space and time. Although these communities are the …