Dispersive Model Research Articles

Effects of stochastic intraspecific seed dispersal variation on dispersal distance predictions in a temperate forest in Japan

The incorporation of seed dispersal models into conservation practices plays a pivotal role in predicting future ecosystems. Seed dispersal significantly influences plant population dynamics; however, our understanding of its implications at a landscape scale remains limited. We investigated how different seed dispersal processes impact the distributions of individual species within a 20 km × 20 km plot centered around a temperate old-growth forest reserve in Japan. We hypothesized that random variation in seed dispersal (i.e., stochastic processes) and variation mediated by distance (i.e., deterministic processes) would explain landscape-scale species distributions more effectively than deterministic seed dispersal processes alone. We evaluated 16 tree species with different seed dispersal modes by simulating seed dispersal processes. Stochastic simulations predicted higher dispersal distances for the majority of species. The findings of this study suggest that stochastic simulations are a more reliable tool for identifying dispersal restrictions in the context of climate change and biodiversity loss, highlighting the significance of using stochastic simulations for analyzing seed dispersal patterns in temperate forests, rather than more conventional deterministic methods.

Comparison of in situ black-lipped oyster spat collection and larval dispersal modelling results in semi-closed pearl-farming lagoons of the Tuamotu Archipelago

Spat collection of the pearl oyster Pinctada margaritifera in atoll lagoons of French Polynesia is the fundamental sustain of black pearl farming. Spat collection has always yielded variable results in space and time, but obvious signs of steady decreases, even collapses, have emerged in several lagoons. Spat collection materializes the ecological connectivity pathways between wild spawning populations and the location of artificial larval settlement substrates. To assess if oyster larval dispersal modelling could capture such pathways, we compared four six-week long spat collector deployment periods with dispersal simulations in two different lagoons. Spat collectors displayed wide spatial and temporal variations. Numerical modelling and field experiments were generally not in agreement. Although both methods have limitations, they can still approximate each other. But the accuracy of model simulations cannot be ascertained with spat collection data only. Using a SWOT (Strength-Weakness-Opportunities-Threats) analysis, we emphasize the complementarity of both approaches for management decisions.

Dispersal and connectivity modelling simulations for invertebrate larvae passing through the Strait of Gibraltar

Abstract The link between the northeastern Atlantic and Mediterranean Sea created by the Strait of Gibraltar and the adjacent Iberian and Moroccan coasts marks remarkable transition areas between distinct environments that harbour a diverse mixture of species. The area is interesting regarding marine connectivity and the transport of pelagic invertebrate larvae, crucial knowledge to manage over-exploited populations, and minimize the impacts of climate change and anthropogenic activities. Biophysical models were developed, combining oceanic and particle-tracking Lagrangian simulations with in situ zooplankton distribution data. The conditions driving the larval exchange between the sub-basins and the connectivity throughout the region were explored, using crustacean decapod larvae as biological references. The potential exchange between both sub-basins was confirmed, although specific larval traits revealed contrasting scenarios. The simulations showed that slope-dwelling and mesopelagic larvae have advantage when crossing from the Alboran into the Atlantic, in comparison with shelf-dwelling and epipelagic larvae. Transport pathways and retention areas were identified, and passive drifts were shown to increase the dispersal range of the simulations. The spatial origin of the larval release, larval duration, vertical distribution, and the interaction of larvae with the oceanic features are presented as the main factors impacting the effective larval input into the Atlantic or Mediterranean basins.

Neuronal expression of herpes simplex virus-1 VP16 protein induces pseudorabies virus escape from silencing and reactivation.

Alpha herpesvirus (α-HV) particles enter their hosts from mucosal surfaces and efficiently maintain fast transport in peripheral nervous system (PNS) axons to establish infections in the peripheral ganglia. The path from axons to distant neuronal nuclei is challenging to dissect due to the difficulty of monitoring early events in a dispersed neuron culture model. We have established well-controlled, reproducible, and reactivateable latent infections in compartmented rodent neurons by infecting physically isolated axons with a small number of viral particles. This system not only recapitulates the physiological infection route but also facilitates independent treatment of isolated cell bodies or axons. Consequently, this system enables study not only of the stimuli that promote reactivation but also the factors that regulate the initial switch from productive to latent infection. Adeno-associated virus (AAV)-mediated expression of herpes simplex-1 (HSV-1) VP16 alone in neuronal cell bodies enabled the escape from silencing of incoming pseudorabies virus (PRV) genomes. Furthermore, the expression of HSV VP16 alone reactivated a latent PRV infection in this system. Surprisingly, the expression of PRV VP16 protein supported neither PRV escape from silencing nor reactivation. We compared transcription transactivation activity of both VP16 proteins in primary neurons by RNA sequencing and found that these homolog viral proteins produce different gene expression profiles. AAV-transduced HSV VP16 specifically induced the expression of proto-oncogenes including c-Jun and Pim2. In addition, HSV VP16 induces phosphorylation of c-Jun in neurons, and when this activity is inhibited, escape of PRV silencing is dramatically reduced.IMPORTANCEDuring latency, alpha herpesvirus genomes are silenced yet retain the capacity to reactivate. Currently, host and viral protein interactions that determine the establishment of latency, induce escape from genome silencing or reactivation are not completely understood. By using a compartmented neuronal culture model of latency, we investigated the effect of the viral transcriptional activator, VP16 on pseudorabies virus (PRV) escape from genome silencing. This model recapitulates the physiological infection route and enables the study of the stimuli that regulate the initial switch from a latent to productive infection. We investigated the neuronal transcriptional activation profiles of two homolog VP16 proteins (encoded by HSV-1 or PRV) and found distinct gene activation signatures leading to diverse infection outcomes. This study contributes to understanding of how alpha herpesvirus proteins modulate neuronal gene expression leading to the initiation of a productive or a latent infection.

Separation of scales in an integrodifference equation model of metapopulation dispersal and homing predicts changes in equilibria

Separation of scales in an integrodifference equation model of metapopulation dispersal and homing predicts changes in equilibria

Thick interface coupling technique for weakly dispersive models of waves

The primary focus of this work is the coupling of dispersive free-surface flow models through the utilization of a thick interface coupling technique. The initial step involves introducing a comprehensive framework applicable to various dispersive models, demonstrating that classical weakly dispersive models are encompassed within this framework. Next, a thick interface coupling technique, well-established in hyperbolic framework, is applied. This technique enables the formulation of unified models across different subdomains, each corresponding to a specific dispersive model. The unified model preserves the conservation of mechanical energy, provided it holds for each initial dispersive model. We propose a numerical scheme that preserve the projection structure at the discrete level and as a consequence is entropy-satisfying when the continuous model conserve the mechanical energy. We perform a deep numerical analysis of the waves reflected by the interface. Finally, we illustrate the usefulness of the method with two applications known to pose problems for dispersive models, namely the imposition of a time signal as a boundary condition or the imposition of a transparent boundary condition, and wave propagation over a discontinuous bathymetry.

The weighted multi-scale connections networks for macrodispersivity estimation

Macrodispersivity is critical for predicting solute behaviors with dispersive transport models. Conventional methods of estimating macrodispersivity usually need to solve flow equations and are time-consuming. Convolutional neural networks (CNN) have recently been proven capable of efficiently mapping the hydraulic conductivity field and macrodispersivity. However, the mapping accuracy still needs further improvement. In this paper, we present a new network shortcut connection style called weighted multi-scale connections (WMC) for convolutional neural networks to improve mapping accuracy. We provide empirical evidence showing that the WMC can improve the performance of CNN in macrodispersivity estimation by implementing the WMC in CNNs (CNN without short-cut connections, ResNet, and DenseNet), and evaluating them on datasets of macrodispersivity estimation. For the CNN without short-cut connections, the WMC can improve the estimating R2 by at least 3% on three datasets of conductivity fields. For ResNet18, the WMC improved the estimated R2 by an average of 2.5% on all three datasets. For ResNet34, the WMC improved the estimated R2 by an average of 5.6%. For ResNet50, the WMC improved the estimated R2 by an average of 16%. For ResNet101, the WMC improved the estimating R2 by an average of 30%. For DenseNets, the improved estimated R2 ranges from 0.5% to 5%. The WMC can strengthen feature propagation of different sizes and alleviate the vanishing-gradient issue. Moreover, it can be implemented to any CNN with down-sampling layers or blocks.

Standing and traveling waves in a minimal nonlinearly dispersive lattice model

In the work of Colliander et al. (2020) a minimal lattice model was constructed describing the transfer of energy to high frequencies in the defocusing nonlinear Schrödinger equation. In the present work, we present a systematic study of the coherent structures, both standing and traveling, that arise in the context of this model. We find that the nonlinearly dispersive nature of the model is responsible for standing waves in the form of discrete compactons. On the other hand, analysis of the dynamical features of the simplest nontrivial variant of the model, namely the dimer case, yields both solutions where the intensity is trapped in a single site and solutions where the intensity moves between the two sites, which suggests the possibility of moving excitations in larger lattices. Such excitations are also suggested by the dynamical evolution associated with modulational instability. Our numerical computations confirm this expectation, and we systematically construct such traveling states as exact solutions in lattices of varying size, as well as explore their stability. A remarkable feature of these traveling lattice waves is that they are of “antidark” type, i.e., they are mounted on top of a non-vanishing background. These studies shed light on the existence, stability and dynamics of such standing and traveling states in 1+1 dimensions, and pave the way for exploration of corresponding configurations in higher dimensions.

Coral reef potential connectivity in the southwest Indian Ocean

The tropical southwest Indian Ocean is a coral biodiversity hotspot, with remote reefs physically connected by larval dispersal through eddies and a complex set of equatorial and boundary currents. Based on multidecadal, 2 km resolution hydrodynamic and larval dispersal models that incorporate temporal variability in dispersal, we find that powerful zonal currents, current bifurcations, and geographic isolation act as leaky dispersal barriers, partitioning the southwest Indian Ocean into clusters of reefs that tend to consistently retain larvae, and therefore gene flow, over many generations. Whilst exceptionally remote, the Chagos Archipelago can broadcast (and receive) considerable numbers of larvae to (and from) reefs across the wider southwest Indian Ocean, most significantly exchanging larvae with the Inner Islands of Seychelles, but also the Mozambique Channel region. Considering multi-generational dispersal indicates that most coral populations in the southwest Indian Ocean are physically connected within a few hundred steps of dispersal. These results suggest that regional biogeography and population structure can be largely attributed to geologically recent patterns of larval dispersal, although some notable discrepancies indicate that palaeogeography and environmental suitability also play an important role. The model output and connectivity matrices are available in full and will provide useful physical context to regional biogeography and connectivity studies, as well as supporting marine spatial planning efforts.

Optical Solitons for the Dispersive Concatenation Model with Polarization Mode Dispersion by Sardar's Sub-Equation Approach

This paper recovers the spectrum of optical solitons for the dispersive concatenation model with the application of the Sardar sub-equation approach. The single soliton solutions that emerge from this scheme are bright, dark, and of singular type. The parameter constraints for the existence of such solitons are also included.

Determining kinetics of fast exothermic reactions using a flow calorimeter

Continuous flow calorimeters are considered an emerging technique due to their ability to reduce safety issues associated with highly exothermic rapid reactions. In this study, a custom-made isoperibolic flow calorimeter was constructed, which uses a pyroelectric IR Sensor for temperature profile recording. The objective of this study is to validate the reactor concept for the determination kinetic parameters. Residence time distribution (RTD) analysis was conducted to assess the mixing performance of the packed-bed reactor employed in the calorimeter. This calorimeter was connected to a custom-made conductivity flow cell (CFC), to measure the in-line conductivity of the outlet stream. An axially dispersed plug flow reactor model (AD-PFR) is required to be able to incorporate the non-ideal behaviour of the flow. The experimental apparatus design and methodology was validated by conducting the hydrolysis of acetic anhydride. The activation energy, EA and the pre-exponential factor, ln(k0) for the hydrolysis of acetic anhydride were found to be 52.05 kJ mol−1 and 12.26 (s−1), respectively, which falls within the range of reported values. The new flow calorimeter proved to be effective, and accurate.

Nanostructures and multi-scale aggregation of high ion exchange capacity short-side-chain perfluorosulfonic acid dispersion

Short-side-chain perfluorosulfonic acid (SSC-PFSA) ionomers with high ion-exchange-capacity are promising candidates for high-temperature proton exchange membranes (PEMs) and catalyst layer (CL) binders. The solution-casting method determines the importance of SSC-PFSA dispersion characteristics in shaping the morphology of PEMs and CLs. Therefore, a thorough understanding of the chain behavior of SSC-PFSA in dispersions is essential for fabricating high-quality PEMs and CLs. In this study, we have employed multiple characterization techniques, including dynamic light scatting (DLS), small-angle X-ray scattering (SAXS), and cryo-transmission electron microscope (Cryo-TEM), to fully study the chain aggregation behaviors of SSC-PFSA in water–ethanol solvents and elucidate the concentration-dependent self-assembly process. In dilute dispersions (2 mg/mL), SSC-PFSA assembles into mono-disperse rod-like aggregates, featuring a twisted fluorocarbon backbone that forms a hydrophobic stem, and the sulfonic acid side chains extending outward to suit the hydrophilic environment. As the concentration increases, the radius of rod particles increases from 1.47 to 1.81 nm, and the mono-disperse rod particles first form a “end-to-end” configuration that doubles length (10 mg/mL), and then transform into a swollen network structure in semi-dilute dispersion (20 mg/mL). This work provides a well-established structure model for SSC-PFSA dispersions, which is the key nanostructure to be inherited by PEMs.

Complex patterns of genetic structure in the sea cucumber Holothuria (Metriatyla) scabra from the Philippines: implications for aquaculture and fishery management

The sandfish Holothuria (Metriatyla) scabra, is a high-value tropical sea cucumber harvested from wild stocks for over four centuries in multi-species fisheries across its Indo-Pacific distribution, for the global bêche-de-mer (BDM) trade. Within Southeast Asia, the Philippines is an important centre of the BDM trade, however overharvesting and largely open fishery management have resulted in declining catch volumes. Sandfish mariculture has been developed to supplement BDM supply and assist restocking efforts; however, it is heavily reliant on wild populations for broodstock supply. Consequently, to inform fishery, mariculture, germplasm and translocation management policies for both wild and captive resources, a high-resolution genomic audit of 16 wild sandfish populations was conducted, employing a proven genotyping-by-sequencing approach for this species (DArTseq). Genomic data (8,266 selectively-neutral and 117 putatively-adaptive SNPs) were used to assess fine-scale genetic structure, diversity, relatedness, population connectivity and local adaptation at both broad (biogeographic region) and local (within-biogeographic region) scales. An independent hydrodynamic particle dispersal model was also used to assess population connectivity. The overall pattern of population differentiation at the country level for H. scabra in the Philippines is complex, with nine genetic stocks and respective management units delineated across 5 biogeographic regions: (1) Celebes Sea, (2) North and (3) South Philippine Seas, (4) South China and Internal Seas and (5) Sulu Sea. Genetic connectivity is highest within proximate marine biogeographic regions (mean Fst=0.016), with greater separation evident between geographically distant sites (Fst range=0.041–0.045). Signatures of local adaptation were detected among six biogeographic regions, with genetic bottlenecks at 5 sites, particularly within historically heavily-exploited locations in the western and central Philippines. Genetic structure is influenced by geographic distance, larval dispersal capacity, species-specific larval development and settlement attributes, variable ocean current-mediated gene flow, source and sink location geography and habitat heterogeneity across the archipelago. Data reported here will inform accurate and sustainable fishery regulation, conservation of genetic diversity, direct broodstock sourcing for mariculture and guide restocking interventions across the Philippines.

Numerical modelling of dispersal of Ampelisca (Amphipoda Gammaridae) during their diel migration

The aim of this study is to analyse and model the dispersal of Ampelisca, a benthic genus of amphipod crustaceans, in the fine sand community of the Bay of Morlaix (western English Channel), during their nocturnal migration in the water column. Based on sampling of the suprabenthos (in the water column adjacent to the bottom) and surface plankton on 17 June 1994, Dauvin and Zouhiri (1996) studied the vertical distribution of Ampelisca during a spring swarming reproductive period. Statistical modelling techniques and specific numerical models were combined to simulate the effects of tidal currents, wind direction and speed on Ampelisca dispersal. As an illustration to constant pluriannual seasonal pattern, the dispersion of Ampelisca individuals considered as passive particles was studied at two reproductive periods, on a short night (17th-18th June 1994) during a neap tide, and on long night (7th-8th September 1994) during a spring tide. These models are used to investigate whether Ampelisca can be dispersed beyond the fine sand community in the immediate area of their small-scale benthic habitat (only 6 km²) during their diel vertical migration. According to the results, the speed and direction of currents will determine the trajectory of Ampelisca and the degree of dispersal outside their benthic habitat during a nighttime pelagic sortie. These simulations, particularly during spring tides, are incompatible with population stability, as they appear to be excessively dispersive. Short-term dispersal simulations for twenty minutes in the plankton allow the optimal return of individuals to the fine sand benthic habitats. We hypothesize there is an adaptative advantage for Ampelisca over time to short diel migrations. However, we currently do not know whether each individual makes a single migration, or several migrations in the water column during a night.

Asymptotic profiles of a nonlocal dispersal SIS epidemic model with saturated incidence

Infection mechanism plays a significant role in epidemic models. To investigate the influence of saturation effect, a nonlocal (convolution) dispersal susceptible-infected-susceptible epidemic model with saturated incidence is considered. We first study the impact of dispersal rates and total population size on the basic reproduction number. Yang, Li and Ruan (J. Differ. Equ. 267 (2019) 2011–2051) obtained the limit of basic reproduction number as the dispersal rate tends to zero or infinity under the condition that a corresponding weighted eigenvalue problem has a unique positive principal eigenvalue. We remove this additional condition by a different method, which enables us to reduce the problem on the limiting profile of the basic reproduction number into that of the spectral bound of the corresponding operator. Then we establish the existence and uniqueness of endemic steady states by a equivalent equation and finally investigate the asymptotic profiles of the endemic steady states for small and large diffusion rates to provide reference for disease prevention and control, in which the lack of regularity of the endemic steady state and Harnack inequality makes the limit function of the sequence of the endemic steady state hard to get. Finally, we find whether lowing the movements of susceptible individuals can eradicate the disease or not depends on not only the sign of the difference between the transmission rate and the recovery rate but also the total population size, which is different from that of the model with standard or bilinear incidence.

Using biophysical modelling and marine connectivity to assess the risk of natural dispersal of non-indigenous species to comply with the Ballast Water Management Convention

The introduction of Marine Non-Indigenous Species (NIS) poses a significant threat to global marine biodiversity and ecosystems. To mitigate this risk, the Ballast Water Management Convention (BWMC) was adopted by the UN International Maritime Organisation (IMO), setting strict criteria for discharges of ballast water. However, the BWMC permits exemptions for shipping routes operating within a geographical area, known as a Same-Risk-Area (SRA). An SRA can be established in areas where a risk assessment (RA) can conclude that the spread of NIS via ballast water is low relative to the predicted natural dispersal. Despite the BWMC's requirement for RAs to be based on modelling of the natural dispersal of NIS, no standard procedures have been established. This paper presents a methodology utilizing biophysical modelling and marine connectivity analyses to conduct SRA RA and delineation. Focusing on the Kattegat and Øresund connecting the North Sea and Baltic Sea, we examine two SRA candidates spanning Danish and Swedish waters. We provide an example on how to conduct an RA including an RA summary, and addressing findings, challenges, and prospects. Our study aims to advance the development and adoption of consistent, transparent, and scientifically robust SRA assessments for effective ballast water management.

Plant dispersal in the Devonian world (c. 419–359 Ma)

AbstractDispersal, whether active or passive, plays a crucial role in biogeography by facilitating the movement of propagules away from their original location. Botanical geographical zonation, resulting from the co‐evolution of plants and their environment, has been established since the remarkable plant diversification during the Devonian Period (c. 419–359 Ma). However, a significant knowledge gap exists in understanding plant dispersal between living and fossil organisms due to the rarity of opportunities for tracing plant dispersal in geological history. In this study, we present evidence of two plant dispersal routes and verify their occurrence through the examination of geographical zonation, changes in plant diversity, and latitudinal and longitudinal gradients during the Devonian. We analyse global occurrence data from widely‐distributed and extensively‐studied Devonian plants. The two dispersal routes, namely clockwise and anticlockwise, connect the South China and Euramerica–Siberia realms. These routes clearly demonstrate inland and inter‐land dispersal models, closely linked to Devonian sea–land topography and dispersal vectors such as wind and ocean currents. Moreover, these models probably apply to all Devonian plants. Our comprehensive synthesis of plant dispersal in deep time reveals that propagule diversity and dispersal vectors have progressively increased and become more complex over time, facilitating plant colonization and diversity changes. Importantly, our study unveils the dispersal models of fossil plants, demonstrating the equivalent models observed in extant plants that have been established since the Devonian Period.

Unlocking the secret life of blue mussels: Exploring connectivity in the Skagerrak through biophysical modeling and population genomics.

Knowledge of functional dispersal barriers in the marine environment can be used to inform a wide variety of management actions, such as marine spatial planning, restoration efforts, fisheries regulations, and invasive species management. Locations and causes of dispersal barriers can be studied through various methods, including movement tracking, biophysical modeling, demographic models, and genetics. Combining methods illustrating potential dispersal, such as biophysical modeling, with realized dispersal through, e.g., genetic connectivity estimates, provides particularly useful information for teasing apart potential causes of observed barriers. In this study, we focus on blue mussels (Mytilus edulis) in the Skagerrak-a marginal sea connected to the North Sea in Northern Europe-and combine biophysical models of larval dispersal with genomic data to infer locations and causes of dispersal barriers in the area. Results from both methods agree; patterns of ocean currents are a major structuring factor in the area. We find a complex pattern of source-sink dynamics with several dispersal barriers and show that some areas can be isolated despite an overall high dispersal capability. Finally, we translate our finding into management advice that can be used to sustainably manage this ecologically and economically important species in the future.

Numerical Reconstruction of Landslide Paleotsunami Using Geological Records in Alpine Lake Aiguebelette

AbstractMass movements and delta collapses are significant sources of tsunamis in lacustrine environments, impacting human societies enormously. Paleotsunamis studies play an essential role in understanding historical events and their consequences, along with their return periods. This study investigates a paleotsunami induced by a subaqueous mass movement during the Younger Dryas to Early Holocene transition, ca. 11,700 years ago in Lake Aiguebelette (NW Alps, France). Utilizing high‐resolution seismic and bathymetric surveys associated with sedimentological, geochemical, and magnetic analyses, we uncovered a paleotsunami triggered by a seismically induced mass transport deposit. Numerical simulations of mass movement have been conducted using a visco‐plastic Herschel‐Bulkley rheological model and corresponding tsunami wave modeled with dispersive and nondispersive models. Our findings reveal for the first time that dispersive effects may be negligible for subaqueous landslides in a relatively small lake. This research reconstructs a previously unreported paleotsunami event and enhances our understanding of tsunami dynamics in lacustrine environments.

Impacts of habitat loss and fragmentation on seed dispersal by an Afrotropical bird community in an anthropogenic landscape: Insights from movement models

Habitat loss and fragmentation can affect seed dispersal by impacting seed dispersers' habitat choices, behavior, and movement patterns. Here we studied seed dispersal by an Afrotropical bird community in an anthropogenic landscape in Kenya. We used telemetry data of six bird species, estimated their habitat choices, behavior, and movement patterns in the forest fragments and the matrix. We then integrated our model estimates into a seed dispersal simulation model with multiple artificial anthropogenic landscapes, experiencing different levels of habitat loss and fragmentation. In our simulations, we included two seed disperser groups: forest specialist and habitat generalist birds that moved in the landscape using a mixture-correlated random walk, and encamped and traveled in the different habitat types. Increased habitat loss diminished seed dispersal distances, where seeds carried by forest specialist dispersers suffered a stronger reduction in dispersal distances compared to habitat generalists, and number of seeds deposited in habitat fragments, where fewer seeds were deposited into the fragments by habitat generalist dispersers compared to forest specialists. The effects of habitat fragmentation were similar to but weaker than that of habitat loss, and most apparent at an intermediate level of habitat loss. Other seed dispersal metrics, including spatial extent of seed rain and nearest neighbor distances among seeds, did not show any strong relationships with either habitat loss or fragmentation. Therefore, movement models offer valuable perspectives on how habitat loss and fragmentation can influence seed dispersal patterns, by reliably estimating habitat choices, behavior, and movement patterns of dispersers, and potentially benefiting efforts to conserve this ecological interaction.