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1. Small pigmented eukaryote assemblages of the western tropical North Atlantic around the Amazon River plume during spring discharge

   https://doi.org/10.1038/s41598-021-95676-2  

   Charvet, Sophie ; Kim, Eunsoo ; Subramaniam, Ajit ; Montoya, Joseph ; Duhamel, Solange ( December 2021 , Scientific Reports)

   null (Ed.)

   Abstract Small pigmented eukaryotes (⩽ 5 µm) are an important, but overlooked component of global marine phytoplankton. The Amazon River plume delivers nutrients into the oligotrophic western tropical North Atlantic, shades the deeper waters, and drives the structure of microphytoplankton (> 20 µm) communities. For small pigmented eukaryotes, however, diversity and distribution in the region remain unknown, despite their significant contribution to open ocean primary production and other biogeochemical processes. To investigate how habitats created by the Amazon river plume shape small pigmented eukaryote communities, we used high-throughput sequencing of the 18S ribosomal RNA genes from up to five distinct small pigmented eukaryote cell populations, identified and sorted by flow cytometry. Small pigmented eukaryotes dominated small phytoplankton biomass across all habitat types, but the population abundances varied among stations resulting in a random distribution. Small pigmented eukaryote communities were consistently dominated by Chloropicophyceae (0.8–2 µm) and Bacillariophyceae (0.8–3.5 µm), accompanied by MOCH-5 at the surface or by Dinophyceae at the chlorophyll maximum. Taxonomic composition only displayed differences in the old plume core and at one of the plume margin stations. Such results reflect the dynamic interactions of the plume and offshore oceanic waters and suggest that the resident small pigmented eukaryote diversity was not strongly affected by habitat types at this time of the year. 

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2. Heterogeneous landscape promotes distinct microbial communities in an imperiled scrub ecosystem

   https://doi.org/10.1080/00275514.2023.2258268  

   David, Aaron S. ; Hernandez, Damian J. ; Menges, Eric S. ; Sclater, Vivienne L. ; Afkhami, Michelle E. ; Searcy, Christopher A. ( November 2023 , Mycologia)

   Habitat heterogeneity is a key driver of biodiversity of macroorganisms, yet how heterogeneity structures belowground microbial communities is not well understood. Importantly, belowground microbial communities may respond to any number of abiotic, biotic, and spatial drivers found in heterogeneous environments. Here, we examine potential drivers of prokaryotic and fungal communities in soils across the heterogenous landscape of the imperiled Florida scrub, a pyrogenic ecosystem where slight differences in elevation lead to large changes in water and nutrient availability and vegetation composition. We employ a comprehensive, large-scale sampling design to characterize the communities of prokaryotes and fungi associated with three habitat types and two soil depths (crust and subterranean) to evaluate (i) differences in microbial communities across these heterogeneous habitats, (ii) the relative roles of abiotic, biotic, and spatial drivers in shaping community structure, and (iii) the distribution of fungal guilds across these habitats. We sequenced soils from 40 complete replicates of habitat × soil depth combinations and sequenced the prokaryotic 16S and fungal internal transcribed spacer (ITS) regions using Illumina MiSeq. Habitat heterogeneity generated distinct communities of soil prokaryotes and fungi. Spatial distance played a role in structuring crust communities, whereas subterranean microbial communities were primarily structured by the shrub community, whose roots they presumably interacted with. This result helps to explain the unexpected transition we observed between arbuscular mycorrhiza–dominated soils at low-elevation habitats to ectomycorrhiza-dominated soils at high-elevation habitats. Our results challenge previous notions of environmental determinism of microbial communities and generate new hypotheses regarding symbiotic relationships across heterogeneous environments. 

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3. Metabolic insight into bacterial community assembly across ecosystem boundaries

   https://doi.org/10.1002/ecy.2968  

   Wisnoski, Nathan I. ; Muscarella, Mario E. ; Larsen, Megan L. ; Peralta, Ariane L. ; Lennon, Jay T. ( March 2020 , Ecology)

   The movement of organisms across habitat boundaries has important consequences for populations, communities, and ecosystems. However, because most species are not well adapted to all habitat types, dispersal into suboptimal habitats could induce physiological changes associated with persistence strategies that influence community assembly. For example, high rates of cross‐boundary dispersal are thought to maintain sink populations of terrestrial bacteria in aquatic habitats, but these bacteria may also persist by lowering their metabolic activity, introducing metabolic heterogeneity that buffers the population against species sorting. To differentiate between these assembly processes, we analyzed bacterial composition along a hydrological flow path from terrestrial soils through an aquatic reservoir by sequencing the active and total (active + inactive) portions of the community. When metabolic heterogeneity was ignored, our data were consistent with views that cross‐boundary dispersal is important for structuring aquatic bacterial communities. In contrast, we found evidence for strong species sorting in the active portion of the aquatic community, suggesting that dispersal may have a weaker effect than persistence strategies on aquatic community assembly. By accounting for metabolic heterogeneity in complex communities, our findings clarify the roles of local‐ and regional‐scale assembly processes in terrestrial‐aquatic meta‐ecosystems.

    

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4. Facilitation alters climate change risk on rocky shores

   https://doi.org/10.1002/ecy.3596  

   Jurgens, Laura J. ; Ashlock, Lauren W. ; Gaylord, Brian ( December 2021 , Ecology)

   A huge fraction of global biodiversity resides within biogenic habitats that ameliorate physical stresses. In most cases, details of how physical conditions within facilitative habitats respond to external climate forcing remain unknown, hampering climate change predictions for many of the world’s species. Using intertidal mussel beds as a model system, we characterize relationships among external climate conditions and within‐microhabitat heat and desiccation conditions. We use these data, along with physiological tolerances of two common inhabitant taxa (the isopodCirolana harfordiand the porcelain crabPetrolisthes cinctipes), to examine the magnitude of climate risk inside and outside biogenic habitat, applying an empirically derived model of evaporation to simulate mortality risk under a high‐emissions climate‐warming scenario. We found that biogenic microhabitat conditions responded so weakly to external climate parameters that mortality risk was largely unaffected by climate warming. In contrast, outside the biogenic habitat, desiccation drove substantial mortality in both species, even at temperatures 4.4–8.6°C below their hydrated thermal tolerances. These findings emphasize the importance of warming‐exacerbated desiccation to climate‐change risk and the role of biogenic habitats in buffering this less‐appreciated stressor. Our results suggest that, when biogenic habitats remain intact, climate warming may have weak direct effects on organisms within them. Instead, risk to such taxa is likely to be indirect and tightly coupled with the fate of habitat‐forming populations. Conserving and restoring biogenic habitats that offer climate refugia could therefore be crucial to supporting biodiversity in the face of climate warming.

    

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5. Spatial scale impacts microbial community composition and distribution within and across stream ecosystems in North and Central America

   https://doi.org/10.1111/1462-2920.16396  

   Bier, Raven L. ; Mosher, Jennifer J. ; Kaplan, Louis A. ; Kan, Jinjun ( May 2023 , Environmental Microbiology)

   A mechanistic understanding of factors that structure spatiotemporal community composition is a major challenge in microbial ecology. Our study of microbial communities in the headwaters of three freshwater stream networks showed significant community changes at the small spatial scale of benthic habitats when compared to changes at mid‐ and large‐spatial scales associated with stream order and catchment. Catchment (which included temperate and tropical catchments) had the strongest influence on community composition followed by habitat type (epipsammon or epilithon) and stream orders. Alpha diversity of benthic microbiomes resulted from interactions between catchment, habitat, and canopy. Epilithon contained relatively moreCyanobacteriaand algae whileAcidobacteriaandActinobacteriaproportions were higher in epipsammic habitats. Turnover from replacement created ~60%–95% of beta diversity differences among habitats, stream orders, and catchments. Turnover within a habitat type generally decreased downstream indicating longitudinal linkages in stream networks while between habitat turnover also shaped benthic microbial community assembly. Our study suggests that factors influencing microbial community composition shift in dominance across spatial scales, with habitat dominating locally and catchment dominating globally.

    

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