Linking physiology, epidemiology, and demography: Understanding how lianas outcompete trees in a changing world.

Extending and safeguarding tropical forest ecosystems is critical for combating climate change and biodiversity loss. One of its constituents, lianas, is spreading and increasing in abundance on a global scale. This is particularly concerning as lianas negatively impact forests' carbon fluxes, dynamics, and overall resilience, potentially exacerbating both crises. While possibly linked to climate-change-induced atmospheric CO2 elevation and drought intensification, the reasons behind their increasing abundance remain elusive. Prior research shows distinct physiological differences between lianas and trees, but it is unclear whether these differences confer a demographic advantage to lianas with climate change. Guided by extensive datasets collected in Panamanian tropical forests, we developed a tractable model integrating physiology, demography, and epidemiology. Our findings suggest that CO2 fertilization, a climate change factor promoting forest productivity, gives lianas a demographic advantage. Conversely, factors such as extreme drought generally cause a decrease in liana prevalence. Such a decline in liana prevalence is expected from a physiological point of view because lianas have drought-sensitive traits. However, our analysis underscores the importance of not exclusively relying on physiological processes, as interactions with demographic mechanisms (i.e., the forest structure) can contrast these expectations, causing an increase in lianas with drought. Similarly, our results emphasize that identical physiological responses between lianas and trees still lead to liana increase. Even if lianas exhibit collinear but weaker responses in their performance compared to trees, a temporary liana prevalence increase might manifest driven by the faster response time of lianas imposed by their distinct life-history strategies than trees.

Non-back-drivable clutch based self-locking mechanism of prosthetic joint to improve manipulation stability.

During activities of daily living (ADLs), the wrist is mainly engaged in positioning and directing the hand. Researches have demonstrated that restoring wrist mobility can significantly enhance the manipulation ability, reduce body distortion caused by motion compensation, and improve the quality of life for amputees. However, most daily activities, particularly the delicate ones, place high demands on the ability of wrist to maintain a certain rotation angle, also known as non-back-drivable ability, which poses a challenge to the design of prosthetic wrists. To address this issue, various solutions have been proposed, including motor holding brakes, high reduction ratio reducers, and worm gears. However, the motor holding brake only functions after a power outage and cannot continuously prevent torque from the load end. The latter two solutions may alter the transmission ratio, resulting in reduced movement speed and transmission efficiency. Therefore, how to design a miniaturized non-back-drivable mechanism without changing the transmission ratio so that the forearm rotational freedom can be locked at any position for any duration is a problem to be solved in the research of prosthetic wrist designs. This paper presents a line-contact based non-back-drivable clutch (NBDC) that does not cause changes in the transmission ratio, ensuring the motion performance of the prosthetic limb. At the same time, it does not introduce additional friction in the forward transmission process, guaranteeing the overall efficiency. Most importantly, it only allows the torque transmitting from the motor to the load, prevents the load reversely from driving back even in a power failure condition, significantly improving the stability, safety, and comfort. Detailed kinematic and static analyses of the working process has been conducted, and transient dynamics simulation has been performed to verify its effectiveness. Through experiments, it is demonstrated that the self-locking torque of the output end could reach approximately 600 Nmm, and the unlocking torque of the input end is about 80 Nmm, which can be effectively integrated in prosthetic wrist rotation joints, contributing to the performance, safety and energy saving of prosthetic joint systems.

Range and climate niche shifts in European and North American breeding birds.

Species respond dynamically to climate change and exhibit time lags. Consequently, species may not occupy their full climatic niche during range shifting. Here, we assessed climate niche tracking during recent range shifts of European and United States (US) birds. Using data from two European bird atlases and from the North American Breeding Bird Survey between the 1980s and 2010s, we analysed range overlap and climate niche overlap based on kernel density estimation. Phylogenetic multiple regression was used to assess the effect of species morphological, ecological and biogeographic traits on range and niche metrics. European birds shifted their ranges north and north-eastwards, US birds westwards. Range unfilling was lower than expected by null models, and niche expansion was more common than niche unfilling. Also, climate niche tracking was generally lower in US birds and poorly explained by species traits. Overall, our results suggest that dispersal limitations were minor in range shifting birds in Europe and the USA while delayed extinctions from unfavourable areas seem more important. Regional differences could be related to differences in land use history and monitoring schemes. Comparative analyses of range and niche shifts provide a useful screening approach for identifying the importance of transient dynamics and time-lagged responses to climate change. This article is part of the theme issue 'Ecological novelty and planetary stewardship: biodiversity dynamics in a transforming biosphere'.

Parameter Sensitivity of Transient Community Dynamics.

AbstractTransient dynamics have always intrigued ecologists, but current rapid environmental change (inducing transients even in previously undisturbed systems) has highlighted their importance more than ever. Here, I introduce a method for analyzing the sensitivity of transient ecological dynamics to parameter perturbations. The question the method answers is: how would the community dynamics have unfolded for some time horizon had the parameters been slightly different? I apply the method to three empirically parameterized models: competition between native forbs and exotic grasses in California, a host-parasitoid system, and an experimental chemostat predator-prey model. These applications showcase the ecological insights one can gain from models using transient sensitivity analysis. First, one can find parameters and their combinations whose perturbations disproportionately affect a system. Second, one can identify particular windows of time during which the predicted deviation from the unperturbed trajectories is especially large and utilize this information for management purposes. Third, there is an inverse relationship between transient and long-term sensitivities whenever the interacting populations are ecologically similar; paradoxically, the smaller the immediate response of the system, the more extreme its long-term response will be.

R 0 May Not Tell Us Everything: Transient Disease Dynamics of Some SIR Models Over Patchy Environments.

This paper examines the short-term or transient dynamics of SIR infectious disease models in patch environments. We employ reactivity of an equilibrium and amplification rates, concepts from ecology, to analyze how dispersals/travels between patches, spatial heterogeneity, and other disease-related parameters impact short-term dynamics. Our findings reveal that in certain scenarios, due to the impact of spatial heterogeneity and the dispersals, the short-term disease dynamics over a patch environment may disagree with the long-term disease dynamics that is typically reflected by the basic reproduction number. Such an inconsistence can mislead the public, public healthy agencies and governments when making public health policy and decisions, and hence, these findings are of practical importance.

A model free method of predicting transient dynamics in anaerobic digestion.

Transient dynamics pose unique challenges when dealing with predictions and management of ecological systems yet little headway has been made on understanding when an ecological system might be in a transient state. As a start we consider a specific model, here focusing on a canonical model for anaerobic digestion. Through a series of simplifications, we analyse the potential of the model for transient dynamics, and the driving mechanisms. Using a stochastic analogue of this model, we create synthetic ecological data. Thus, combining our understanding of the deterministic transient dynamics with the use of empirical dynamical modelling, we propose several new metrics to indicate when the synthetic time series is leaving a transient state.

Deterministic and stochastic processes generating alternative states of microbiomes.

The structure of microbiomes is often classified into discrete or semi-discrete types potentially differing in community-scale functional profiles. Elucidating the mechanisms that generate such "alternative states" of microbiome compositions has been one of the major challenges in ecology and microbiology. In a time-series analysis of experimental microbiomes, we here show that both deterministic and stochastic ecological processes drive divergence of alternative microbiome states. We introduced species-rich soil-derived microbiomes into eight types of culture media with 48 replicates, monitoring shifts in community compositions at six time points (8 media × 48 replicates × 6 time points = 2304 community samples). We then confirmed that microbial community structure diverged into a few state types in each of the eight medium conditions as predicted in the presence of both deterministic and stochastic community processes. In other words, microbiome structure was differentiated into a small number of reproducible compositions under the same environment. This fact indicates not only the presence of selective forces leading to specific equilibria of community-scale resource use but also the influence of demographic drift (fluctuations) on the microbiome assembly. A reference-genome-based analysis further suggested that the observed alternative states differed in ecosystem-level functions. These findings will help us examine how microbiome structure and functions can be controlled by changing the "stability landscapes" of ecological community compositions.

Taking the beat of the Arctic: are lemming population cycles changing due to winter climate?

Reports of fading vole and lemming population cycles and persisting low populations in some parts of the Arctic have raised concerns about the spread of these fundamental changes to tundra food web dynamics. By compiling 24 unique time series of lemming population fluctuations across the circumpolar region, we show that virtually all populations displayed alternating periods of cyclic/non-cyclic fluctuations over the past four decades. Cyclic patterns were detected 55% of the time (n = 649 years pooled across sites) with a median periodicity of 3.7 years, and non-cyclic periods were not more frequent in recent years. Overall, there was an indication for a negative effect of warm spells occurring during the snow onset period of the preceding year on lemming abundance. However, winter duration or early winter climatic conditions did not differ on average between cyclic and non-cyclic periods. Analysis of the time series shows that there is presently no Arctic-wide collapse of lemming cycles, even though cycles have been sporadic at most sites during the last decades. Although non-stationary dynamics appears a common feature of lemming populations also in the past, continued warming in early winter may decrease the frequency of periodic irruptions with negative consequences for tundra ecosystems.

Fire sparks upslope range shifts of North Cascades plant species.

As ongoing climate change drives suitable habitats to higher elevations, species ranges are predicted to follow. However, observed range shifts have been surprisingly variable, with most species differing in rates of upward shift and others failing to shift at all. Disturbances such as fires could play an important role in accelerating range shifts by facilitating recruitment in newly suitable habitats (leading edges) and removing adults from areas no longer suited for regeneration (trailing edges). To date, empirical evidence that fires interact with climate change to mediate elevational range shifts is scarce. Resurveying historical plots in areas that experienced climate change and fire disturbance between surveys provides an exciting opportunity to fill this gap. To investigate whether species have tended to shift upslope and if shifts depend on fires, we resurveyed historical vegetation plots in North Cascades National Park, Washington, USA, an area that has experienced warming, drying, and multiple fires since the original surveys in 1983. We quantified range shifts by synthesizing across two lines of evidence: (1) displacement at range edges and the median elevation of species occurrences, and (2) support for the inclusion of interactions among time, fire and elevation in models of species presence with elevation. Among species that experienced fire since the original survey, a plurality expanded into new habitats at their upper edge. In contrast, a plurality of species not experiencing fire showed no evidence of shifts, with the remainder exhibiting responses that were variable in magnitude and direction. Our results suggest that fires can facilitate recruitment at leading edges, while species in areas free of disturbance are more likely to experience stasis.

Marine reserves promote cycles in fish populations on ecological and evolutionary time scales.

Marine reserves are considered essential for sustainable fisheries, although their effectiveness compared to traditional fisheries management is debated. The effect of marine reserves is mostly studied on short ecological time scales, whereas fisheries-induced evolution is a well-established consequence of harvesting. Using a size-structured population model for an exploited fish population of which individuals spend their early life stages in a nursery habitat, we show that marine reserves will shift the mode of population regulation from low size-selective survival late in life to low, early-life survival due to strong resource competition. This shift promotes the occurrence of rapid ecological cycles driven by density-dependent recruitment as well as much slower evolutionary cycles driven by selection for the optimal body to leave the nursery grounds, especially with larger marine reserves. The evolutionary changes increase harvesting yields in terms of total biomass but cause disproportionately large decreases in yields of larger, adult fish. Our findings highlight the importance of carefully considering the size of marine reserves and the individual life history of fish when managing eco-evolutionary marine systems to ensure both population persistence as well as stable fisheries yields.

The hidden order of Turing patterns in arid and semi-arid vegetation ecosystems.

Vegetation Turing patterns play a critical role in the ecological functioning of arid and semi-arid ecosystems. However, the long-range spatial features of these patterns have been neglected compared to short-range features like patch shape and spatial wavelength. Drawing inspiration from hyperuniform structures in material science, we find that the arid and semi-arid vegetation Turing pattern exhibits long-range dispersion similar to hyperuniformity. As the degree of hyperuniformity of the vegetation Turing pattern increases, so does the water-use efficiency of the vegetation. This finding supports previous studies that suggest that Turing patterns represent a spatially optimized self-organization of ecosystems for water acquisition. The degree of hyperuniformity of Turing-type ecosystems exhibits significant critical slowing down near the tipping point, indicating that these ecosystems have non-negligible transient dynamical behavior. Reduced rainfall not only decreases the resilience of the steady state of the ecosystem but also slows down the rate of spatial optimization of water-use efficiency in long transient regimes. We propose that the degree of hyperuniformity indicates the spatial resilience of Turing-type ecosystems after strong, short-term disturbances. Spatially heterogeneous disturbances that reduce hyperuniformity lead to longer recovery times than spatially homogeneous disturbances that maintain hyperuniformity.

Coral assemblages at higher latitudes favor short-term potential over long-term performance.

The persistent exposure of coral assemblages to more variable abiotic regimes is assumed to augment their resilience to future climatic variability. Yet, while the determinants of coral population resilience across species remain unknown, we are unable to predict the winners and losers across reef ecosystems exposed to increasingly variable conditions. Using annual surveys of 3171 coral individuals across Australia and Japan (2016-2019), we explore spatial variation across the short- and long-term dynamics of competitive, stress-tolerant, and weedy assemblages to evaluate how abiotic variability mediates the structural composition of coral assemblages. We illustrate how, by promoting short-term potential over long-term performance, coral assemblages can reduce their vulnerability to stochastic environments. However, compared to stress-tolerant, and weedy assemblages, competitive coral taxa display a reduced capacity for elevating their short-term potential. Accordingly, future climatic shifts threaten the structural complexity of coral assemblages in variable environments, emulating the degradation expected across global tropical reefs.

Long transients and dendritic network structure affect spatial predator-prey dynamics in experimental microcosms.

Spatial dynamics can promote persistence of strongly interacting predators and prey. Theory predicts that spatial predator-prey systems are prone to long transients, meaning that the dynamics leading to persistence or extinction manifest over hundreds of generations. Furthermore, the form and duration of transients may be altered by spatial network structure. Few empirical studies have examined the importance of transients in spatial food webs, especially in a network context, due to the difficulty in collecting the large scale and long-term data required. We examined predator-prey dynamics in protist microcosms using three experimental spatial structures: isolated, river-like dendritic networks and regular lattice networks. Densities and patterns of occupancy were followed for both predators and prey over a time scale that equates to >100 predator and >500 prey generations. We found that predators persisted in dendritic and lattice networks whereas they went extinct in the isolated treatment. The dynamics leading to predator persistence played out over long transients with three distinct phases. The transient phases showed differences between dendritic and lattice structures, as did underlying patterns of occupancy. Spatial dynamics differed among organisms in different trophic positions. Predators showed higher local persistence in more connected bottles while prey showed this in more spatially isolated ones. Predictions based on spatial patterns of connectivity derived from metapopulation theory explained predator occupancy, while prey occupancy was better explained by predator occupancy. Our results strongly support the hypothesized role of spatial dynamics in promoting persistence in food webs, but that the dynamics ultimately leading to persistence may occur with long transients which in turn may be influenced by spatial network structure and trophic interactions.

Improving sustainable crop protection using population genetics concepts.

Growing genetically resistant plants allows pathogen populations to be controlled and reduces the use of pesticides. However, pathogens can quickly overcome such resistance. In this context, how can we achieve sustainable crop protection? This crucial question has remained largely unanswered despite decades of intense debate and research effort. In this study, we used a bibliographic analysis to show that the research field of resistance durability has evolved into three subfields: (1) "plant breeding" (generating new genetic material), (2) "molecular interactions" (exploring the molecular dialogue governing plant-pathogen interactions) and (3) "epidemiology and evolution" (explaining and forecasting of pathogen population dynamics resulting from selection pressure[s] exerted by resistant plants). We argue that this triple split of the field impedes integrated research progress and ultimately compromises the sustainable management of genetic resistance. After identifying a gap among the three subfields, we argue that the theoretical framework of population genetics could bridge this gap. Indeed, population genetics formally explains the evolution of all heritable traits, and allows genetic changes to be tracked along with variation in population dynamics. This provides an integrated view of pathogen adaptation, in particular via evolutionary-epidemiological feedbacks. In this Opinion Note, we detail examples illustrating how such a framework can better inform best practices for developing and managing genetically resistant cultivars.

Pulse and Press Disturbances Have Different Effects on Transient Community Dynamics.

AbstractDisturbances are important determinants of diversity, and the combination of their aspects (e.g., disturbance intensity, frequency) can result in complex diversity patterns. Here, we leverage an important approach to classifying disturbances in terms of temporal span to understand the implications for species coexistence: pulse disturbances are acute and discrete events, while press disturbances occur continuously through time. We incorporate the resultant mortality rates into a common framework involving disturbance frequency and intensity. Press disturbances can be encoded into models in two distinct ways, and we show that the appropriateness of each depends on the type of data available. Using this framework, we compare the effects of pulse versus press disturbance on both asymptotic and transient dynamics of a two-species Lotka-Volterra competition model to understand how they engage with equalizing mechanisms of coexistence. We show that press and pulse disturbances differ in transient behavior, though their asymptotic diversity patterns are similar. Our work shows that these differences depend on how the underlying disturbance aspects interact and that the two ways of characterizing press disturbances can lead to contrasting interpretations of disturbance-diversity relationships. Our work demonstrates how theoretical modeling can strategically guide and help the interpretation of empirical work.

Long transient response of vegetation dynamics after four millennia of anthropogenic impacts in an island ecosystem.

Agents of global change commonly have a higher impact on island ecosystem dynamics. In the Mediterranean region, those dynamics have historically been influenced by anthropogenic impacts, for example, the introduction of invasive species and overharvesting of resources. Here, we analysed the spatio-temporal dynamics of vegetation in sa Dragonera island, which experienced a large environmental change ca. 4000 years ago by the arrival of humans. Anthropogenic impacts, such as herbivory by goats and over-logging, ended in the 1970s, while in 2011 the site became the largest Mediterranean island where rats were eradicated. Invasive rats and goats played the ecological role of two endemic species, the cave goat and the giant dormouse, which inhabited the island for more than 5 million years and were rapidly extinct by humans. We used Landsat imagery to explore NDVI as a proxy of vegetation productivity over the years 1984-2021, orthophotos to assess changes in land and vegetation covers and historical plant inventories to study the dynamics in plant diversity. Results showed that those indicators steadily increased both in spring and in summer, while the noise around the trends was partially explained by climate variability. The regime shifts in the temporal dynamics of vegetation productivity suggested a transient from a perturbed to a non-perturbed stable state. Trends in successional dynamics, spatial self-organization and plant diversity also showed the same type of transient dynamics. Historical perturbations related to harvesting (mainly the synergies between goat browsing, burning and forest over-logging) were more important than rat eradication or the influence of climate to explain the vegetation dynamics. Our study shows the transient nature of this small island ecosystem after 4000 years of perturbations and its current path towards vegetation dynamics more controlled by ecological interactions lacking large herbivores and omnivores, drought dynamics and the carrying capacity of the island.

Los agentes del cambio global suelen tener un mayor impacto en la dinámica de los ecosistemas insulares. En la región Mediterránea, esas dinámicas se han visto influenciadas históricamente por impactos antropogénicos, e.g. la introducción de especies invasoras y la sobreexplotación de los recursos. Analizamos aquí la dinámica espacio-temporal de la vegetación en la isla de sa Dragonera, que experimentó un gran cambio ambiental hace unos 4000 años por la llegada de los humanos. Los impactos antropogénicos, como la herbivoría de las cabras y la tala excesiva, terminaron en la década de 1970, mientras que en 2011 se convirtió en la isla mediterránea más grande donde se erradicaron las ratas. Las ratas y cabras invasoras desempeñaron el papel ecológico de dos especies endémicas, el miotrago y el lirón gigante, que habitaron la isla durante más de 5 millones de años y fueron rápidamente extinguidos por los humanos. Usamos imágenes de Landsat para explorar el NDVI (indicador de la productividad de la vegetación) durante los años 1984-2021, ortofotos para evaluar los cambios en la cobertura de la tierra y la vegetación e inventarios históricos de plantas para estudiar la dinámica de su diversidad. Los resultados mostraron que esos indicadores aumentaron constantemente tanto en primavera como en verano, mientras que el ruido en torno a las tendencias se explicaba en parte por la variabilidad climática. Los cambios de régimen en la dinámica temporal de la productividad de la vegetación sugirieron un transitorio de un estado estable perturbado a uno no perturbado. Las tendencias en la dinámica sucesional, la autoorganización espacial y la diversidad de plantas también mostraron el mismo tipo de dinámica transitoria. Las perturbaciones históricas relacionadas con la recolección (principalmente las sinergias entre el pastoreo de cabras, la quema y la tala excesiva de bosques) fueron más importantes que la erradicación de ratas o la influencia del clima para explicar la dinámica de la vegetación. Nuestro estudio muestra la naturaleza transitoria de este ecosistema después de 4000 años de perturbaciones y su trayectoria actual hacia una dinámica de la vegetación más controlada por interacciones ecológicas (que carecen de grandes herbívoros y omnívoros), dinámicas de sequía y la capacidad de carga de la isla.

An SIRS model with nonmonotone incidence and saturated treatment in a changing environment.

Nonmonotone incidence and saturated treatment are incorporated into an SIRS model under constant and changing environments. The nonmonotone incidence rate describes the psychological or inhibitory effect: when the number of the infected individuals exceeds a certain level, the infection function decreases. The saturated treatment function describes the effect of infected individuals being delayed for treatment due to the limitation of medical resources. In a constant environment, the model undergoes a sequence of bifurcations including backward bifurcation, degenerate Bogdanov-Takens bifurcation of codimension 3, degenerate Hopf bifurcation as the parameters vary, and the model exhibits rich dynamics such as bistability, tristability, multiple periodic orbits, and homoclinic orbits. Moreover, we provide some sufficient conditions to guarantee the global asymptotical stability of the disease-free equilibrium or the unique positive equilibrium. Our results indicate that there exist three critical values [Formula: see text] and [Formula: see text] for the treatment rate r: (i) when [Formula: see text], the disease will disappear; (ii) when [Formula: see text], the disease will persist. In a changing environment, the infective population starts along the stable disease-free state (or an endemic state) and surprisingly continues tracking the unstable disease-free state (or a limit cycle) when the system crosses a bifurcation point, and eventually tends to the stable endemic state (or the stable disease-free state). This transient tracking of the unstable disease-free state when [Formula: see text] predicts regime shifts that cause the delayed disease outbreak in a changing environment. Furthermore, the disease can disappear in advance (or belatedly) if the rate of environmental change is negative and large (or small). The transient dynamics of an infectious disease heavily depend on the initial infection number and rate or the speed of environmental change.

Ecological lags govern the pace and outcome of plant community responses to 21st-century climate change.

Forecasting the trajectories of species assemblages in response to ongoing climate change requires quantifying the time lags in the demographic and ecological processes through which climate impacts species' abundances. Since experimental climate manipulations are typically abrupt, the observed species responses may not match their responses to gradual climate change. We addressed this problem by transplanting alpine grassland turfs to lower elevations, recording species' demographic responses to climate and competition, and using these data to parameterise community dynamics models forced by scenarios of gradual climate change. We found that shifts in community structure following an abrupt climate manipulation were not simply accelerated versions of shifts expected under gradual warming, as the former missed the transient rise of species benefiting from moderate warming. Time lags in demography and species interactions controlled the pace and trajectory of changing species' abundances under simulated 21st-century climate change, and thereby prevented immediate diversity loss.

Morphogen-directed cell fate boundaries: slow passage through bifurcation and the role of folded saddles.

One of the fundamental mechanisms in embryogenesis is the process by which cells differentiate and create tissues and structures important for functioning as a multicellular organism. Morphogenesis involves diffusive process of chemical signalling involving morphogens that pre-pattern the tissue. These morphogens influence cell fate through a highly nonlinear process of transcriptional signalling. In this paper, we consider this multiscale process in an idealised model for a growing domain. We focus on intracellular processes that lead to robust differentiation into two cell lineages through interaction of a single morphogen species with a cell fate variable that undergoes a bifurcation from monostability to bistability. In particular, we investigate conditions that result in successful and robust pattern formation into two well-separated domains, as well as conditions where this fails and produces a pinned boundary wave where only one part of the domain grows. We show that successful and unsuccessful patterning scenarios can be characterised in terms of presence or absence of a folded saddle singularity for a system with two slow variables and one fast variable; this models the interaction of slow morphogen diffusion, slow parameter drift through bifurcation and fast transcription dynamics. We illustrate how this approach can successfully model acquisition of three cell fates to produce three-domain "French flag" patterning, as well as for a more realistic model of the cell fate dynamics in terms of two mutually inhibiting transcription factors.