1G8 (A.M.C., A.M.) Diatoms host chlorophyll a/c chloroplasts distinct from green chloroplasts. Diatoms now dominate the eukaryotic oceanic phytoplankton, in part through their exploitation of environments with variable light. We grew marine diatoms across a range of temperatures and then analyzed their PSII function and subunit turnover during an increase in light to mimic an upward mixing event. The small diatom Thalassiosira pseudonana initially responds to increased photoinactivation under blue or white light with rapid acceleration of the photosystem II (PSII) repair cycle. Increased red light provoked only modest PSII photoinactivation but triggered a rapid clearance of a subpool of PsbA. Furthermore, PsbD and PsbB content was greater than PsbA content, indicating a large pool of partly assembled PSII repair cycle intermediates lacking PsbA. The initial replacement rates for PsbD (D2) were, surprisingly, comparable to or higher than those for PsbA (D1), and even the supposedly stable PsbB (CP47) dropped rapidly upon the light shift, showing a novel aspect of rapid protein subunit turnover in the PSII repair cycle in small diatoms. Under sustained high light, T. pseudonana induces sustained nonphotochemical quenching, which correlates with stabilization of PSII function and the PsbA pool. The larger diatom Coscinodiscus radiatus showed generally similar responses but had a smaller allocation of PSII complexes relative to total protein content, with nearly equal stiochiometries of PsbA and PsbD subunits. Fast turnover of multiple PSII subunits, pools of PSII repair cycle intermediates, and photoprotective induction of nonphotochemical quenching are important interacting factors, particularly for small diatoms, to withstand and exploit high, fluctuating light.Diatoms are oxygenic photoautotrophs whose cell structures and chlorophyll a/c chloroplasts are evolutionarily, structurally, and functionally distinct from the green lineage with chlorophyll a/b chloroplasts (Armbrust et al., 2004;Wilhelm et al., 2006;Larkum et al., 2007). Over the past 100 million years , diatoms have become nearly ubiquitous, accounting for approximately 20% of global primary productivity (Field et al., 1998). They are currently by far the most successful group of eukaryotic phytoplankton, not only in terms of primary production but also in their number of species (Medlin and Kaszmarska, 2004), which span a wide cell size range (Beardall et al., 2009). Therefore, diatoms functionally dominate the phytoplankton population (Wilhelm et al., 2006), particularly in turbulent coastal waters where they are exposed to frequent and large fluctuations in light due to fast vertical mixing through steep photic zone light gradients (Long et al., 1994;MacIntyre et al., 2000).In response to a sudden increase in irradiance, diatoms can dissipate excess light energy through distinct mechanisms of nonphotochemical quenching (NPQ; Lavaud et al., 2004;Eisenstadt et al., 2008;Grouneva et al., 2009;Bailleul et al., 2010;Park et al., 2010;Zhu and Green, ...