Fluid inclusions from the deep Dead Sea sediment provide new insights on Holocene extreme microbial life

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The Dead Sea Deep Drilling Project allowed us to retrieve a continuous sedimentary record spanning the two last glacial cycles. This unique archive, in such an extreme environment, has permitted the development of new proxies and the refinement of already available paleoenvironmental studies. Although life is pushed to its extremes in the Dead Sea environment, several studies have highlighted the impact of microbial activity on this harsh milieu. The identity and means of adaptation of these organisms are however partly ignored. We also know relatively little on the way this extreme ecosystem has evolved with time, and how it will react to growing pressure. In this study, we have used the fluid inclusions trapped in halite, the main evaporitic phase during arid periods in the Dead Sea, to investigate the way the Dead Sea ecosystem has evolved. By extracting ancient DNA from Holocene halite fluid inclusions, we have obtained fossil bacterial and archaeal 16S rRNA gene sequences that suggest that the main microbial actors of the present Dead Sea have been present in the lake for a relatively long period, emphasizing the stability of this extreme environment. This is the case of extreme halophilic archaea of the Salinarchaeum genera. Additionally, we show that current phylotypes of the deep biosphere, such as Acetothermia bacteria are present within the obtained fluid inclusions sequences, which would support seeding of the deep biosphere from the water column. Finally, through the retrieval of sequences assigned to Halodesulfurarchaeum and Desulfovermiculus genera, we shed light on putative new actors of the sulfur cycle involving respectively archaea and bacteria, which could play an unexpected role in the reduction of sulfur species. Together, these data provide new research avenues for both geologists and biologists working in this extreme environment, and help to increase understanding of the evolution of the Dead Sea ecosystem with time.