More Like this

1. Environmental and Taxonomic Drivers of Bacterial Extracellular Vesicle Production in Marine Ecosystems

   https://doi.org/10.1128/aem.00594-23  

   Biller, Steven J. ; Coe, Allison ; Arellano, Aldo A. ; Dooley, Keven ; Silvestri, Samantha M. ; Gong, Jacqueline S. ; Yeager, Emily A. ; Becker, Jamie W. ; Chisholm, Sallie W. ( June 2023 , Applied and Environmental Microbiology)

   Biddle, Jennifer F. (Ed.)

   ABSTRACT Extracellular vesicles are small (approximately 50 to 250 nm in diameter), membrane-bound structures that are released by cells into their surrounding environment. Heterogeneous populations of vesicles are abundant in the global oceans, and they likely play a number of ecological roles in these microbially dominated ecosystems. Here, we examine how vesicle production and size vary among different strains of cultivated marine microbes as well as explore the degree to which this is influenced by key environmental variables. We show that both vesicle production rates and vesicle sizes significantly differ among cultures of marine Proteobacteria, Cyanobacteria, and Bacteroidetes. Further, these properties vary within individual strains as a function of differences in environmental conditions, such as nutrients, temperature, and light irradiance. Thus, both community composition and the local abiotic environment are expected to modulate the production and standing stock of vesicles in the oceans. Examining samples from the oligotrophic North Pacific Gyre, we show depth-dependent changes in the abundance of vesicle-like particles in the upper water column in a manner that is broadly consistent with culture observations: the highest vesicle abundances are found near the surface, where the light irradiances and the temperatures are the greatest, and they then decrease with depth. This work represents the beginnings of a quantitative framework for describing extracellular vesicle dynamics in the oceans, which is essential as we begin to incorporate vesicles into our ecological and biogeochemical understanding of marine ecosystems. IMPORTANCE Bacteria release extracellular vesicles that contain a wide variety of cellular compounds, including lipids, proteins, nucleic acids, and small molecules, into their surrounding environment. These structures are found in diverse microbial habitats, including the oceans, where their distributions vary throughout the water column and likely affect their functional impacts within microbial ecosystems. Using a quantitative analysis of marine microbial cultures, we show that bacterial vesicle production in the oceans is shaped by a combination of biotic and abiotic factors. Different marine taxa release vesicles at rates that vary across an order of magnitude, and vesicle production changes dynamically as a function of environmental conditions. These findings represent a step forward in our understanding of bacterial extracellular vesicle production dynamics and provide a basis for the quantitative exploration of the factors that shape vesicle dynamics in natural ecosystems. 

   more » « less
2. Community context mediates effects of pollinator loss on seed production

   https://doi.org/10.1002/ecs2.4569  

   Arrowsmith, K. C. ; Reynolds, Victoria A. ; Briggs, Heather M. ; Brosi, Berry J. ( June 2023 , Ecosphere)

   A critical goal for ecologists is understanding how ongoing local and global species losses will affect ecosystem functions and services. Diversity–functioning relationships, which are well‐characterized in primary producer communities, are much less consistently predictable for ecosystem functions involving two or more trophic levels, particularly in situations where multiple species in one trophic level impact functional outcomes at another trophic level. This is particularly relevant to pollination functioning, given ongoing pollinator declines and the value of understanding pollination functioning for single plant species like crops or threatened plants. We used spatially replicated, controlled single‐pollinator‐species removal experiments to assess how changes in bumble bee species richness impacted the production of fertilized seeds in a perennial herb—Delphinium barbeyi—in the Rocky Mountains of Colorado, USA. To improve predictability, we also assessed how traits and abundances in the plant and bumble bee communities were related toD. barbeyireproductive success. We hypothesized that trait‐matching between pollinator proboscis length andD. barbeyi's nectar spurs would produce a greater number of fertilized seeds, while morphological similarity within the floral community would dilute pollination services. We found that the effects of pollinator removal differed depending on the behavioral patterns of pollinators and compositional features of the plant and pollinator communities. While pollinator floral fidelity generally increasedD. barbeyiseed production, that positive effect was primarily evident when more than half of theBombuscommunity was experimentally removed. Similarly, communities comprising primarily long‐tongued bees were most beneficial toD. barbeyiseed production in tandem with a strong removal. Finally, we observed contrasting effects of morphological similarity in the plant community, with evidence of both competition and facilitation among plants. These results offer an example of the complex dynamics underlying ecosystem function in multitrophic systems and demonstrate that community context can impact diversity–functioning relationships between trophic levels.

    

   more » « less
3. Relative abundance data can misrepresent heritability of the microbiome

   https://doi.org/10.1186/s40168-023-01669-w  

   Bruijning, Marjolein ; Ayroles, Julien F. ; Henry, Lucas P. ; Koskella, Britt ; Meyer, Kyle M. ; Metcalf, C. Jessica E. ( October 2023 , Microbiome)

   Host genetics can shape microbiome composition, but to what extent it does, remains unclear. Like any other complex trait, this important question can be addressed by estimating the heritability (h²) of the microbiome—the proportion of variance in the abundance in each taxon that is attributable to host genetic variation. However, unlike most complex traits, microbiome heritability is typically based on relative abundance data, where taxon-specific abundances are expressed as the proportion of the total microbial abundance in a sample.

   We derived an analytical approximation for the heritability that one obtains when using such relative, and not absolute, abundances, based on an underlying quantitative genetic model for absolute abundances. Based on this, we uncovered three problems that can arise when using relative abundances to estimate microbiome heritability: (1) the interdependency between taxa can lead to imprecise heritability estimates. This problem is most apparent for dominant taxa. (2) Large sample size leads to high false discovery rates. With enough statistical power, the result is a strong overestimation of the number of heritable taxa in a community. (3) Microbial co-abundances lead to biased heritability estimates.

   We discuss several potential solutions for advancing the field, focusing on technical and statistical developments, and conclude that caution must be taken when interpreting heritability estimates and comparing values across studies.

    

   more » « less
4. Leveraging plant hydraulics to yield predictive and dynamic plant leaf allocation in vegetation models with climate change

   https://doi.org/10.1111/gcb.14814  

   Trugman, Anna T. ; Anderegg, Leander D. L. ; Sperry, John S. ; Wang, Yujie ; Venturas, Martin ; Anderegg, William R. L. ( October 2019 , Global Change Biology)

   Plant functional traits provide a link in process‐based vegetation models between plant‐level physiology and ecosystem‐level responses. Recent advances in physiological understanding and computational efficiency have allowed for the incorporation of plant hydraulic processes in large‐scale vegetation models. However, a more mechanistic representation of water limitation that determines ecosystem responses to plant water stress necessitates a re‐evaluation of trait‐based constraints for plant carbon allocation, particularly allocation to leaf area. In this review, we examine model representations of plant allocation to leaves, which is often empirically set by plant functional type‐specific allometric relationships. We analyze the evolution of the representation of leaf allocation in models of different scales and complexities. We show the impacts of leaf allocation strategy on plant carbon uptake in the context of recent advancements in modeling hydraulic processes. Finally, we posit that deriving allometry from first principles using mechanistic hydraulic processes is possible and should become standard practice, rather than using prescribed allometries. The representation of allocation as an emergent property of scarce resource constraints is likely to be critical to representing how global change processes impact future ecosystem dynamics and carbon fluxes and may reduce the number of poorly constrained parameters in vegetation models.

    

   more » « less
5. Complex trait‒environment relationships underlie the structure of forest plant communities

   https://doi.org/10.1111/1365-2745.13757  

   Rolhauser, Andrés G. ; Waller, Donald M. ; Tucker, Caroline M. ( August 2021 , Journal of Ecology)

   Traits differentially adapt plant species to particular conditions generating compositional shifts along environmental gradients. As a result, community‐scale trait values show concomitant shifts, termed trait‒environment relationships. Trait‒environment relationships are often assessed by evaluating community‐weighted mean (CWM) traits observed along environmental gradients. Regression‐based approaches (CWMr) assume that local communities exhibit traits centred at a single optimum value and that traits do not covary meaningfully. Evidence suggests that the shape of trait‒abundance relationships can vary widely along environmental gradients—reflecting complex interactions—and traits are usually interrelated. We used a model that accounts for these factors to explore trait‒environment relationships in herbaceous forest plant communities in Wisconsin (USA).

   We built a generalized linear mixed model (GLMM) to analyse how abundances of 185 species distributed among 189 forested sites vary in response to four functional traits (vegetative height—VH, leaf size—LS, leaf mass per area—LMA and leaf carbon content), six environmental variables describing overstorey, soil and climate conditions, and their interactions. The GLMM allowed us to assess the nature and relative strength of the resulting 24 trait‒environment relationships. We also compared results between GLMM and CWMr to explore how conclusions differ between approaches.

   The GLMM identified five significant trait‒environment relationships that together explain ~40% of variation in species abundances across sites. Temperature appeared as a key environmental driver, with warmer and more seasonal sites favouring taller plants. Soil texture and temperature seasonality affected LS and LMA; seasonality effects on LS and LMA were nonlinear, declining at more seasonal sites. Although often assumed for CWMr, only some traits under certain conditions had centred optimum trait‒abundance relationships. CWMr more liberally identified (13) trait‒environment relationships as significant but failed to detect the temperature seasonality‒LMA relationship identified by the GLMM.

   Synthesis. Although GLMM represents a more methodologically complex approach than CWMr, it identified a reduced set of trait‒environment relationships still capable of accounting for the responses of forest understorey herbs to environmental gradients. It also identified separate effects of mean and seasonal temperature on LMA that appear important in these forests, generating useful insights and supporting broader application of GLMM approach to understand trait‒environment relationships.

    

   more » « less