scholarly journals Microbial communities network structure across strong environmental gradients: How do they compare to macroorganisms?

2021 ◽  
Author(s):  
Clara Maria Arboleda-Baena ◽  
Mara Freilich ◽  
Claudia Belen Pareja ◽  
Ramiro Logares ◽  
Rodrigo De la Iglesia ◽  
...  

The way strong environmental gradients shape multispecific assemblages has allowed us to examine a suite of ecological and evolutionary hypotheses about structure, regulation, and community responses to fluctuating environments. But whether the highly diverse co-occurring, free-living microorganisms are shaped in similar ways as macroscopic organisms, across the same gradients, has yet to be addressed in most ecosystems. The everything is everywhere hypothesis suggests they are not, at least not to the same extent. Here we characterize the structure of intertidal microbial biofilm communities and compare the intensity of zonation at the species-level, changes in taxonomic diversity and composition at the community level, and network attributes, with those observed in co-occurring macroalgae and invertebrates. At the level of species and OTUs, for dominant macro and microorganisms respectively, microbes showed less variability across the tidal gradient than macroorganisms. At the community-level, however, microbes and macro-organisms showed similarly strong patterns of tidal zonation, with major changes in composition and relative abundances across tides. Moreover, the proportion of environmental specialists in different tidal zones was remarkably similar in micro and macroscopic communities, and taxonomic richness and diversity followed similar trends, with lower values in the high intertidal zone. Network analyses showed similar connectivity and transitivity, despite the large differences in absolute richness between the groups. A high proportion of positive co-occurrences within all tidal zones and mostly negative links between the high and low tidal zones were observed among habitat specialist taxa of micro-and macro-organisms. Thus, our results provide partial support to the idea that microbes are less affected by environmental variability than macroscopic counterparts. At the species-level, the most common microbe species exhibit less variation across tides than most common macroscopic organisms, suggesting the former perceive a more homogeneous environment and/or are more resistant to the associated stress. At the community-level, most indicators of community and network structure across the gradient are similar between microbes and macro-organisms, suggesting that despite orders of magnitude differences in richness and size, these two systems respond to stress gradients, giving rise to zonation patterns.

2020 ◽  
Vol 640 ◽  
pp. 117-126
Author(s):  
GFB Rodrigues ◽  
CS Ballarin ◽  
A Fransozo ◽  
FW Amorim

Hermit crabs are ideal organisms for assessing how species that share resources can coexist, as these crustacean species have an intimate relationship with gastropod shells and therefore compete for this particular resource. There is compelling evidence that hermit crabs do not interact with gastropod shells randomly, but few studies have investigated the community-level interactions between hermit crabs and shells. Here we used network analyses to present the first community-level assessment of the structure of a hermit crab-shell interaction network in a coastal region in southeastern Brazil in order to identify mechanisms that underlie hermit crab coexistence. Our results show that the hermit crab-gastropod shell interaction network was non-nested, specialized, and modular. The modular network structure revealed differences in resource use among hermit crab species. The network structure departs from those of free-living species in which the lack of interaction intimacy between species leads to a nested pattern. Thus, the morphological specialization of hermit crabs in relation to their host shells appears to play an important role in structuring the community-level interaction network. Future studies should evaluate the relative importance of abundance and functional traits in the structure of this unique interaction network.


2015 ◽  
Vol 5 (1) ◽  
Author(s):  
Marcus H. Y. Leung ◽  
David Wilkins ◽  
Patrick K. H. Lee

Abstract Many studies have characterized microbiomes of western individuals. However, studies involving non-westerners are scarce. This study characterizes the skin microbiomes of Chinese individuals. Skin-associated genera, including Propionibacterium, Corynebacterium, Staphylococcus and Enhydrobacter were prevalent. Extensive inter-individual microbiome variations were detected, with core genera present in all individuals constituting a minority of genera detected. Species-level analyses presented dominance of potential opportunistic pathogens in respective genera. Host properties including age, gender and household were associated with variations in community structure. For all sampled sites, skin microbiomes within an individual is more similar than that of different co-habiting individuals, which is in turn more similar than individuals living in different households. Network analyses highlighted general and skin-site specific relationships between genera. Comparison of microbiomes from different population groups revealed race-based clustering explained by community membership (Global R = 0.968) and structure (Global R = 0.589), contributing to enlargement of the skin pan-microbiome. This study provides the foundation for subsequent in-depth characterization and microbial interactive analyses on the skin and other parts of the human body in different racial groups and an appreciation that the human skin pan-microbiome can be much larger than that of a single population.


The Auk ◽  
2021 ◽  
Author(s):  
Flavia A Montaño-Centellas ◽  
Harrison H Jones

Abstract Mixed-species flocks constitute community modules that can help test mechanisms driving changes to community composition across environmental gradients. Here, we examined elevational patterns of flock diversity (species richness, taxonomic diversity, species, and guild composition) and asked if these patterns were reflections of the full bird community at a given elevation (open-membership hypothesis), or if they were instead structured by environmental variables. We surveyed both the overall avian community and mixed-species flocks across an undisturbed elevational gradient (~1,350–3,550 m) in the Bolivian Andes. We then tested for the role of temperature (a surrogate for abiotic stress), resource diversity (arthropods, fruits), and foraging niche diversity (vegetation vertical complexity) in structuring these patterns. Patterns for the overall and flocking communities were similar, supporting our open-membership hypothesis that Andean flocks represent dynamic, unstructured aggregations. Membership openness and the resulting flock composition, however, also varied with elevation in response to temperature and vegetation complexity. We found a mid-elevation peak in flock species richness, size, and Shannon’s diversity at ~2,300 m. The transition of flocking behavior toward a more open-membership system at this elevation may explain a similar peak in the proportion of insectivores joining flocks. At high elevations, increasing abiotic stress and decreasing fruit diversity led more generalist, gregarious tanagers (Thraupidae) to join flocks, resulting in larger yet more even flocks alongside a loss of vegetation structure. At lower elevations, flock species richness increased with greater vegetation complexity, but a greater diversity of foraging niches resulted in flocks that were more segregated into separate canopy and understory sub-types. This segregation likely results from increased costs of interspecific competition and activity matching (i.e., constraints on movement and foraging rate) for insectivores. Mid-elevation flocks (~2,300 m) seemed, therefore, to benefit from both the open-membership composition of high-elevation flocks and the high vegetation complexity of mid- and low-elevation forests.


Paleobiology ◽  
2017 ◽  
Vol 43 (3) ◽  
pp. 463-478 ◽  
Author(s):  
Martin Zuschin ◽  
Rafał Nawrot ◽  
Mathias Harzhauser ◽  
Oleg Mandic ◽  
Adam Tomašových

AbstractNumerical and taxonomic resolution of compositional data sets affects investigators’ abilities to detect and measure relationships between communities and environmental factors. We test whether varying numerical (untransformed, square-root- and fourth-root-transformed relative abundance and presence–absence data) and taxonomic (species, genera, families) resolutions reveals different insights into early to middle Miocene molluscan communities along bathymetric and salinity gradients. The marine subtidal has a more even species-abundance distribution, a higher number of rare species, and higher species:family and species:genus ratios than the three habitats—marine and estuarine intertidal, estuarine subtidal—with higher fluctuations in salinity and other physical parameters. Taxonomic aggregation and numerical transformation of data result in very different ordinations, although all habitats differ significantly from one another at all taxonomic and numerical levels. Rank correlations between species-level and higher-taxon, among-sample dissimilarities are very high for proportional abundance and decrease strongly with increasing numerical transformation, most notably in the two intertidal habitats. The proportion of variation explained by depth is highest for family-level data, decreases gradually with numerical transformation, and is higher in marine than in estuarine habitats. The proportion of variation explained by salinity is highest for species-level data, increases gradually with numerical transformation, and is higher in subtidal than in intertidal habitats. Therefore, there is no single best numerical and taxonomic resolution for the discrimination of communities along environmental gradients: the “best” resolution depends on the environmental factor considered and the nature of community response to it. Different numerical and taxonomic transformations capture unique aspects of metacommunity assembly along environmental gradients that are not detectable at a single level of resolution. We suggest that simultaneous analyses of community gradients at multiple taxonomic and numerical resolutions provide novel insights into processes responsible for spatial and temporal community stability.


2017 ◽  
Vol 114 (43) ◽  
pp. 11464-11469 ◽  
Author(s):  
Daniel S. Maynard ◽  
Thomas W. Crowther ◽  
Mark A. Bradford

The structure of the competitive network is an important driver of biodiversity and coexistence in natural communities. In addition to determining which species survive, the nature and intensity of competitive interactions within the network also affect the growth, productivity, and abundances of those individuals that persist. As such, the competitive network structure may likewise play an important role in determining community-level functioning by capturing the net costs of competition. Here, using an experimental system comprising 18 wood decay basidiomycete fungi, we test this possibility by quantifying the links among competitive network structure, species diversity, and community function. We show that species diversity alone has negligible impacts on community functioning, but that diversity interacts with two key properties of the competitive network—competitive intransitivity and average competitive ability—to ultimately shape biomass production, respiration, and carbon use efficiency. Most notably, highly intransitive communities comprising weak competitors exhibited a positive diversity–function relationship, whereas weakly intransitive communities comprising strong competitors exhibited a negative relationship. These findings demonstrate that competitive network structure can be an important determinant of community-level functioning, capturing a gradient from weakly to strongly competitive communities. Our research suggests that the competitive network may therefore act as a unifying link between diversity and function, providing key insight as to how and when losses in biodiversity will impact ecosystem function.


Ecology ◽  
2014 ◽  
Vol 95 (7) ◽  
pp. 1717-1723 ◽  
Author(s):  
Sarah R. Supp ◽  
S. K. Morgan Ernest

Science ◽  
1999 ◽  
Vol 286 (5439) ◽  
pp. 542-544 ◽  
Author(s):  
A. R. Ives ◽  
K. Gross ◽  
J. L. Klug

Long-term variability in the abundance of populations depends on the sensitivity of species to environmental fluctuations and the amplification of environmental fluctuations by interactions among species. Although competitive interactions and species number may have diverse effects on variability measured at the individual species level, a combination of theoretical analyses shows that these factors have no effect on variability measured at the community level. Therefore, biodiversity may increase community stability by promoting diversity among species in their responses to environmental fluctuations, but increasing the number and strength of competitive interactions has little effect.


Author(s):  
Carlos Martínez-Núñez ◽  
Pedro J. Rey

AbstractInteractions among organisms can be defined by two main features: a quantitative component (i.e. frequency of occurrence) and a qualitative component (i.e. success of the interaction).Measuring properly these two components at the community level, can provide a good estimate of the ecosystem functions mediated by biotic interactions. Although this approach has been frequently applied to evaluate the eco-evolutionary consequences of mutualistic relationships, it has never been extended to the predation function and the associated pest control ecosystem service.Here, we introduce a simple measure that accounts for the quantitative and the qualitative components of predation interactions, and facilitates a precise characterization of this ecosystem function at the community level, while accounting for variations at species and individual levels.This measure arises as a fine indicator of predation pressure, and provides great opportunities to better understand how different components of predation and pest control potential vary across environmental gradients.


PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e3740 ◽  
Author(s):  
Hatsuko Noda ◽  
John Everett Parkinson ◽  
Sung-Yin Yang ◽  
James Davis Reimer

Symbiotic dinoflagellates (genus Symbiodinium) shape the responses of their host reef organisms to environmental variability and climate change. To date, the biogeography of Symbiodinium has been investigated primarily through phylogenetic analyses of the ribosomal internal transcribed spacer 2 region. Although the marker can approximate species-level diversity, recent work has demonstrated that faster-evolving genes can resolve otherwise hidden species and population lineages, and that this diversity is often distributed over much finer geographical and environmental scales than previously recognized. Here, we use the noncoding region of the chloroplast psbA gene (psbAncr) to examine genetic diversity among clade C Symbiodinium associating with the common reef zoantharian Palythoa tuberculosa on Okinawa-jima Island, Japan. We identify four closely related Symbiodinium psbAncr lineages including one common generalist and two potential specialists that appear to be associated with particular microhabitats. The sea surface temperature differences that distinguish these habitats are smaller than those usually investigated, suggesting that future biogeographic surveys of Symbiodinium should incorporate fine scale environmental information as well as fine scale molecular data to accurately determine species diversity and their distributions.


2021 ◽  
Author(s):  
Ying Yang ◽  
Yu Shi ◽  
Dorsaf Kerfahi ◽  
Matthew C Ogwu ◽  
Jianjun Wang ◽  
...  

AbstractAlthough many studies have explored patterns of fungal community diversity and composition along various environmental gradients, the trends of co-occurrence networks across similar gradients remain elusive. Here, we constructed co-occurrence networks for fungal community along a 2300 m elevation gradient on Mt Norikura, Japan, hypothesizing a progressive decline in network connectivity with elevation due to reduced niche differentiation caused by declining temperature and ecosystem productivity. Results agreed broadly with predictions, with an overall decline in network connectivity with elevation for all fungi and the high abundance phyla. However, trends were not uniform with elevation, most decline in connectivity occurred between 700 m and 1500 m elevation, remaining relatively stable above this. Temperature and precipitation dominated variation in network properties, with lower mean annual temperature (MAT) and higher mean annual precipitation (MAP) at higher elevations giving less network connectivity, largely through indirect effects on soil properties. Among keystone taxa that played crucial roles in network structure, the variation in abundance along the elevation gradient was also controlled by climate and also pH. Our findings point to a major role of climate gradients in mid-latitude mountain areas in controlling network connectivity. Given the importance of the orographic precipitation effect, microbial community trends seen along elevation gradients might not be mirrored by those seen along latitudinal temperature gradients.ImportanceAlthough many studies have explored patterns of fungal community diversity and composition along various environmental gradients, it is unclear how the topological structure of co-occurrence networks shifts across environmental gradients. In this study, we found that the connectivity of the fungal community decreased with increasing elevation, and that climate was the dominant factor regulating co-occurrence patterns, apparently acting indirectly through soil characteristics. Assemblages of keystone taxa playing crucial roles in network structure varied along the elevation gradient and were also largely controlled by climate. Our results provide insight into the shift of soil fungal community co-occurrence structure along elevational gradients, and possible driving mechanisms behind this.Graphic abstract


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