Amphibians are one of the most threatened major groups of animals, with decline in amphibian populations often cited as support for the claim that we are witnessing a mass extinction event [1]. The following causes of amphibian decline have been suggested: 1) invasive species causing ecosystem change, 2) overexploitation of natural environments, 3) changes in land use, 4) global environmental change, such as global warming, 5) increased use of pesticides and other polluting chemicals, and 6) the emergence and/or spread of infectious diseases [1-3]. We need to consider all of these factors if we are to understand amphibian decline and plan conservation strategies accordingly. Importantly, infectious-disease-associated decline is cited as a major factor affecting amphibian species categorized as threatened by the International Union for Conservation of Nature (IUCN) Red List (Fig 1). This may be because these species have been studied closelyso disease threats are identified and tracked-or it could be because disease is indeed a key threat for many amphibian groups in decline. However, infectious diseases are difficult to study in amphibians, because the underlying causes of susceptibility to infection are often difficult to pinpoint, the identities of infectious agents or the nature of virulence is unclear, and adequate sampling of populations and the associated disease biogeography is challenging. Recent work has consistently demonstrated that a wide range of protists of the superphylum Alveolata infects the tissues of larval amphibians [4-6]. The alveolates include a diversity of forms (Fig 2A)-for example, Apicomplexa, chrompodellids, Perkinsozoa, dinoflagellates, and Ciliophora (i.e., ciliates). In some cases, a link with disease has been identified, although formal confirmation equivalent to fulfillment of Koch's postulates [7] is lacking. Here, we discuss the diversity and nature of these infectious agents and outline future research questions.