Increasing cross-talk between Indigenous and non-Indigenous scientists and knowledge holders will ensure that the study of the microbiome and its role in improving health has greater reach and more equitable effects. This was the conclusion of a recent paper from Māori health researchers. The paper explores an Indigenous perspective of the microbiome as an unseen influence on health and wellbeing by framing the importance of the natural environment, Indigenous knowledge and leadership, and future research directions that can contribute to this domain. It is intended that the concepts discussed can relate to Indigenous peoples globally.