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IntroductionThe 1980 eruption of Mount St. Helens had devastating effects above and belowground in forested montane ecosystems, including the burial and destruction of soil microbes. Soil microbial propagules and legacies in recovering ecosystems are important for determining post-disturbance successional trajectories. Soil microorganisms regulate nutrient cycling, interact with many other organisms, and therefore may support successional pathways and complementary ecosystem functions, even in harsh conditions. Historic forest management methods, such as old-growth and clearcut regimes, and locations of historic short-term gopher enclosures (Thomomys talpoides), to evaluate community response to forest management practices and to examine vectors for dispersing microbial consortia to the surface of the volcanic landscape. These biotic interactions may have primed ecological succession in the volcanic landscape, specifically Bear Meadow and the Pumice Plain, by creating microsite conditions conducive to primary succession and plant establishment. Methods and resultsUsing molecular techniques, we examined bacterial, fungal, and AMF communities to determine how these variables affected microbial communities and soil properties. We found that bacterial/archaeal 16S, fungal ITS2, and AMF SSU community composition varied among forestry practices and across sites with long-term lupine plots and gopher enclosures. The findings also related to detected differences in C and N concentrations and ratios in soil from our study sites. Fungal communities from previously clearcut locations were less diverse than in gopher plots within the Pumice Plain. Yet, clearcut meadows harbored fewer ancestral AM fungal taxa than were found within the old-growth forest. DiscussionBy investigating both forestry practices and mammals in microbial dispersal, we evaluated how these interactions may have promoted revegetation and ecological succession within the Pumice Plains of Mount St. Helens. In addition to providing evidence about how dispersal vectors and forest structure influence post-eruption soil microbiomes, this project also informs research and management communities about belowground processes and microbial functional traits in facilitating succession and ecosystem function. 

Dust provides an ecologically significant input of nutrients, especially in slowly eroding ecosystems where chemical weathering intensity limits nutrient inputs from underlying bedrock. In addition to nutrient inputs, incoming dust is a vector for dispersing dust-associated microorganisms. While little is known about dust-microbial dispersal, dust deposits may have transformative effects on ecosystems far from where the dust was emitted. Using molecular analyses, we examined spatiotemporal variation in incoming dust microbiomes along an elevational gradient within the Sierra Nevada of California. We sampled throughout two dry seasons and found that dust microbiomes differed by elevation across two summer dry seasons (2014 and 2015), which corresponded to competing droughts in dust source areas. Dust microbial taxa richness decreased with elevation and was inversely proportional to dust heterogeneity. Likewise, dust phosphorus content increased with elevation. At lower elevations, early season dust microbiomes were more diverse than those found later in the year. The relative abundances of microbial groups shifted during the summer dry season. Furthermore, mutualistic fungal diversity increased with elevation, which may have corresponded with the biogeography of their plant hosts. Although dust fungal pathogen diversity was equivalent across elevations, elevation and sampling month interactions for the relative abundance, diversity, and richness of fungal pathogens suggest that these pathogens differed temporally across elevations, with potential implications for humans and wildlife. This study shows that landscape topography and droughts in source locations may alter the composition and diversity of ecologically relevant dust-associated microorganisms. 

ABSTRACT While most bacterial and archaeal taxa living in surface soils remain undescribed, this problem is exacerbated in deeper soils, owing to the unique oligotrophic conditions found in the subsurface. Additionally, previous studies of soil microbiomes have focused almost exclusively on surface soils, even though the microbes living in deeper soils also play critical roles in a wide range of biogeochemical processes. We examined soils collected from 20 distinct profiles across the United States to characterize the bacterial and archaeal communities that live in subsurface soils and to determine whether there are consistent changes in soil microbial communities with depth across a wide range of soil and environmental conditions. We found that bacterial and archaeal diversity generally decreased with depth, as did the degree of similarity of microbial communities to those found in surface horizons. We observed five phyla that consistently increased in relative abundance with depth across our soil profiles: Chloroflexi , Nitrospirae , Euryarchaeota , and candidate phyla GAL15 and Dormibacteraeota (formerly AD3). Leveraging the unusually high abundance of Dormibacteraeota at depth, we assembled genomes representative of this candidate phylum and identified traits that are likely to be beneficial in low-nutrient environments, including the synthesis and storage of carbohydrates, the potential to use carbon monoxide (CO) as a supplemental energy source, and the ability to form spores. Together these attributes likely allow members of the candidate phylum Dormibacteraeota to flourish in deeper soils and provide insight into the survival and growth strategies employed by the microbes that thrive in oligotrophic soil environments. IMPORTANCE Soil profiles are rarely homogeneous. Resource availability and microbial abundances typically decrease with soil depth, but microbes found in deeper horizons are still important components of terrestrial ecosystems. By studying 20 soil profiles across the United States, we documented consistent changes in soil bacterial and archaeal communities with depth. Deeper soils harbored communities distinct from those of the more commonly studied surface horizons. Most notably, we found that the candidate phylum Dormibacteraeota (formerly AD3) was often dominant in subsurface soils, and we used genomes from uncultivated members of this group to identify why these taxa are able to thrive in such resource-limited environments. Simply digging deeper into soil can reveal a surprising number of novel microbes with unique adaptations to oligotrophic subsurface conditions.