Antarctic rock and soil microbiomes: Shared taxa, selective pressures, and extracellular DNA effects

• Published in: Geoderma
• Main Authors: Fabiana Canini, Byron J. Adams, Luigi P. D'Acqui, Federica D'Alò, Laura Zucconi
• Format: Article in Journal/Newspaper
• Language: English
• Published: Elsevier 2024
• Subjects: Soil microbiology; Antarctic soils and rocks; Endolithic communities; extracellular DNA; Soil parameters; Substratum effect; Science; Q; Antarc*; Antarctic
• Online Access: https://doi.org/10.1016/j.geoderma.2024.116918; https://doaj.org/article/46a75d42fb6048b4aa7ac7a196576928

Highly adapted and often endemic microbial taxa inhabit soils and rocks of extremely cold and dry Antarctic deserts. However, the source populations of these organisms have not yet been clarified. Local hotspots, rather than worldwide wind dispersion, have been described as the primary sources of microbial diversity. In particular, the endolithic niche offers a buffered environment, where layered microbial communities have been described, whose dispersion due to rock fragmentation may influence the diversity and nutrient availability of the surrounding soils. On the other hand, microorganisms thriving in soils could be transported to rock surfaces and colonise them. However, the bacterial taxa that are differentially selected and those exchanged between these two substrata have never been defined before. Additionally, the microorganisms detected in these substrata using DNA-based approaches may not be alive but may correspond to fragments of extracellular DNA originated from dead cells. To identify the taxa that are shared between the two substrata, the selective filters that drive their distributions, and the effects of relic DNA on subsequent interpretations of community structure, colonized rock samples were collected from sandstone outcrops in three localities, as well as soil samples at increasing distances from the outcrops. Homogeneous samples were divided into aliquots, and one of each aliquot was treated for extracellular DNA depletion. Both native and treated samples were screened for their bacterial composition through 16S rRNA gene metabarcoding. The results provide the first demonstration of the strong selection of bacterial communities in rocks and soils, reporting some taxa potentially exchanged between the two substrates. Specifically, genera differentially selected between the two habitats were identified, likely due to their different microenvironmental conditions, such as differences in their thermal regimes. Additionally, extracellular DNA depletion had few effects at the taxonomic level and ...