Marine ammonia-oxidizing archaea (AOA) are among the most abundant of marine microorganisms, spanning nearly the entire water column of diverse oceanic provinces. Historical patterns of abundance are preserved in sediments in the form of their distinctive glycerol dibiphytanyl glycerol tetraether (GDGT) membrane lipids. The correlation between the composition of GDGTs in surface sediment and the overlying annual average sea surface temperature forms the basis for a paleotemperature proxy (TEX 86 ) that is used to reconstruct surface ocean temperature as far back as the Middle Jurassic. However, mounting evidence suggests that factors other than temperature could also play an important role in determining GDGT distributions. We here use a study set of four marine AOA isolates to demonstrate that these closely related strains generate different TEX 86 -temperature relationships and that oxygen (O 2 ) concentration is at least as important as temperature in controlling TEX 86 values in culture. All of the four strains characterized showed a unique membrane compositional response to temperature, with TEX 86 -inferred temperatures varying as much as 12°C from the incubation temperatures. In addition, both linear and nonlinear TEX 86 -temperature relationships were characteristic of individual strains. Increasing relative abundance of GDGT-2 and GDGT-3 with increasing O 2 limitation, at the expense of GDGT-1, led to significant elevations in TEX 86 -derived temperature. Although the adaptive significance of GDGT compositional changes in response to both temperature and O 2 is unclear, this observation necessitates a reassessment of archaeal lipid-based paleotemperature proxies, particularly in records that span low-oxygen events or underlie oxygen minimum zones.M arine ammonia-oxidizing archaea (AOA) (now assigned to the phylum Thaumarchaeota) are among the most ubiquitous and abundant organisms in the ocean, constituting up to 40% of microbial plankton in the meso-and bathypelagic zones (1-4). They are generally recognized as the main drivers of oceanic nitrification (5-7), are closely coupled with anammox organisms in oxygen minimum zones (OMZs) (8-10), and have been implicated as a source of the greater part of oceanic emissions of the ozone-depleting greenhouse gas nitrous oxide (11). Their wide habitat range suggests both high ecotypic diversity and adaptive capacity (12, 13).The adaptive basis for their dominant role in the nitrogen cycle has in part been attributed to highly efficient systems of ammonia oxidation and carbon fixation, and a primarily copper-based respiratory system that reduces reliance on iron availability in the often iron-depleted marine environment (13-16). In addition, compositional regulation of their distinctive glycerol dibiphytanyl glycerol tetraether (GDGT) lipid membrane (SI Appendix, Fig. S1) is implicated in adaptation and acclimation to energy-limited environments (17). Relative to the bacterial membrane bilayer, the membrane-spanning lipids of archaea are less permeable to ions a...