The aim of this study was to investigate the supposed vertical diel migration and the accompanying physiology of Beggiatoa bacteria from hypersaline microbial mats. We combined microsensor, stable-isotope, and molecular techniques to clarify the phylogeny and physiology of the most dominant species inhabiting mats of the natural hypersaline Lake Chiprana, Spain. The most dominant morphotype had a filament diameter of 6 to 8 m and a length varying from 1 to >10 mm. Phylogenetic analysis by 16S rRNA gene comparison revealed that this type appeared to be most closely related (91% sequence identity) to the narrow (4-m diameter) nonvacuolated marine strain MS-81-6. Stable-isotope analysis showed that the Lake Chiprana species could store nitrate intracellularly to 40 mM. The presence of large intracellular vacuoles was confirmed by fluorescein isothiocyanate staining and subsequent confocal microscopy. In illuminated mats, their highest abundance was found at a depth of 8 mm, where oxygen and sulfide co-occurred. However, in the dark, the highest Beggiatoa densities occurred at 7 mm, and the whole population was present in the anoxic zone of the mat. Our findings suggest that hypersaline Beggiatoa bacteria oxidize sulfide with oxygen under light conditions and with internally stored nitrate under dark conditions. It was concluded that nitrate storage by Beggiatoa is an optimal strategy to both occupy the suboxic zones in sulfidic sediments and survive the dark periods in phototrophic mats.Beggiatoa spp. are large, filamentous, gliding, colorless sulfur bacteria and are known to occur worldwide in diverse habitats with a wide range of salinities. They form visible white mats on the surfaces of organic-rich freshwater sediments (39,46,63,64) and in sulfur springs (36), marine caves (37), marine eutrophic coastal zones (22,58,59), upwelling regions (7, 15), whale falls (11), cold seeps (10, 43, 48), and gas seeps (4, 28). These filamentous bacteria migrate in daily cycles in microbial mats (16,23,67). Microbial mats are dense, cohesive communities with a visible laminated pattern due to the zonation of different metabolic groups with different pigmentations. Within a few millimeters of the upper mat, steep physicochemical gradients occur due to high metabolic activities of the densely packed microorganisms. The main functional groups are cyanobacteria, purple sulfur bacteria, colorless sulfur bacteria, and sulfate-reducing bacteria (67). Most mats are characterized by a microbiologically controlled rapid sulfur cycle. In phototrophic mats, oxygenic photosynthesis and dissimilatory sulfate reduction result in opposing gradients of oxygen and sulfide, which sometimes overlap in a narrow transition zone. The sulfide and oxygen distributions underlie diel cycles (54), which induce migratory behavior of phototrophic and nonphototrophic organisms (8,55). Gliding motility and a tactile response to diverse parameters, e.g., light, oxygen, and sulfide (41,44,45), enable Beggiatoa spp. to follow the movement of the dynamic transi...