Abstract. Biodiversity of phytoplankton is important for ecosystem stability and marine biogeochemistry. However, the large scale patterns of diversity are not well understood, and are often poorly characterized in terms of statistical relationships with environmental factors (e.g. latitude, temperature, productivity). Here we use ecological theory and a global trait-based ecosystem model to provide mechanistic understanding of patterns of phytoplankton diversity. Our study suggests that phytoplankton diversity across three dimensions of trait space (size, biogeochemical function, and thermal tolerance) is controlled by a disparate combinations of drivers: the supply rate of the limiting resource, the imbalance in different resource supplies relative to competing phytoplanktons’ demands, size-selective grazing, and transport by the moving ocean. Using sensitivity studies we show that each dimension of diversity is controlled by different drivers. Models including only one (or two) of the trait dimensions will have different patterns of diversity than one which incorporates another trait dimension. We use the results of our theory/model exploration to infer the controls on the diversity patterns derived from field observations in meridional transects of the Atlantic and to explain why different taxa and size classes have differing patterns. These results suggest that it is unlikely that any single or even combination of environmental variables will be able to explain patterns of diversity.