Common Species Distribution Models in Biodiversity Analysis and Their Challenges and Prospects in Application

Species distribution models have been widely used to explore suitable habitats of species,the impact of climate change on the distribution of suitable habitats of species,and the construction of ecological reserves.This paper introduced species distribution models commonly used in biodiversity analysis,as well as model performance evaluation indexes,challenges in the application of species distribution models,and finally prospected the development trend of research on species distribution models.

Modelling the nesting-habitat of threatened vulture species in the caucasus:An ecosystem approach to formalising environmental factors in species distribution models

Abiotic factors play an important role in species localisation,but biotic and anthropogenic predictors must also be considered in distribution modelling for models to be biologically meaningful.In this study,we formalised the biotic predictors of nesting sites for four threatened Caucasian vultures by including species distribution models(wild ungulates,nesting tree species)as biotic layers in the vulture Maxent models.Maxent was applied in the R dismo package and the best set of the model parameters were defined in the R ENMeval package.Performance metrics were continuous Boyce index,Akaike's information criterion,the area under receiver operating curve and true skill statistics.We also calculated and evaluated the null models.Kernel density estimation method was applied to assess the overlap of vulture ecological niches in the environmental space.The accessibility of anthropogenic food resources was estimated using the Path Distance measure that considers elevation gradient.The availability of pine forests(Scots Pine)and wild ungulates(Alpine Chamois and Caucasian Goat)contributed the most(29.6%and 34.3%)to Cinereous Vulture(Aegypius monachus)nesting site model.Wild ungulate distribution also contributed significantly(about 46%)to the Bearded Vulture(Gypaetus barbatus)model.This scavenger nests in the highlands of the Caucasus at a minimum distance of 5–10 km from anthropogenic facilities.In contrast,livestock as a food source was most important in colony distribution of Griffon Vulture(Gyps fulvus).The contribution of distances to settlements and agricultural facilities to the model was 45%.The optimal distance from Egyptian Vulture(Neophron percnopterus)nesting sites to settlements was only 3–10 km,to livestock facilities no more than 15 km with the factor contribution of about 57%.Excluding the wild ungulate availability,the ecological niches of studied vultures overlapped significantly.Despite similar foraging and nesting requirements,Caucasian vultures are not pronounced nesting and trophic competitors due to the abundance of nesting sites,anthropogenic food sources and successful niche sharing.

Climate-change habitat shifts for the vulnerable endemic oak species(Quercus arkansana Sarg.)

Quercus arkansana(Arkansas oak)is at risk of becoming endangered,as the total known population size is represented by a few isolated populations.The potential impact of climate change on this species in the near future is high,yet knowledge of its predicted effects is limited.Our study utilized the biomod2 R package to develop habi-tat suitability ensemble models based on bioclimatic and topographic environmental variables and the known loca-tions of current distribution of Q.arkansana.We predicted suitable habitats across three climate change scenarios(SSP1-2.6,SSP2-4.5,and SSP5-8.5)for 2050,2070,and 2090.Our findings reveal that the current suitable habitat for Q.arkansana is approximately 127,881 km^(2) across seven states(Texas,Arkansas,Alabama,Louisiana,Mississippi,Georgia,and Florida);approximately 9.5%is encompassed within state and federally managed protected areas.Our models predict that all current suitable habitats will disap-pear by 2050 due to climate change,resulting in a northward shift into new regions such as Tennessee and Kentucky.The large extent of suitable habitat outside protected areas sug-gests that a species-specific action plan incorporating pro-tected areas and other areas may be crucial for its conserva-tion.Moreover,protection of Q.arkansana habitat against climate change may require locally and regionally focused conservation policies,adaptive management strategies,and educational outreach among local people.

DPM simulation in an underground entry: Comparison between particle and species models

The diesel particulate matter(DPM) emission from diesel powered equipment in underground mines can cause health hazards including cancer to the miners. The understanding of the DPM propagation pattern under realistic mining condition is required for selecting proper DPM control strategies and to improve working practices in underground mines. In this paper, three dimensional simulations of DPM emission from the exhaust tail pipe of a load-haul-dump(LHD) vehicle and its subsequent distribution inside an isolated zone in the typical underground mine are carried out using two different solution models available in Ansys Fluent. The incoming fresh air into the isolated zone is treated as a continuous phase and DPM is treated either as a continuous phase(gas) or as a secondary discrete phase(particle). Species transport model is used when DPM is treated as gas and discrete phase model is used when DPM is assumed to behave like a particle. The distributions of DPM concentration inside the isolated zone obtained from each method are presented and compared. From the comparison results, an accurate and economical solution technique for DPM evaluation can be selected.

Modelling the spatial distribution of snake species in northwestern Tunisia using maximum entropy(Maxent) and Geographic Information System(GIS)

We used GIS and maximum entropy to predict the potential distribution of six snake species belong to three families in Kroumiria（Northwestern Tunisia）： Natricidae（Natrix maura and Natrix astreptophora）, Colubridae（Hemorrhois hippocrepis, Coronella girondica and Macroprotodon mauritanicus）, and Lamprophiidae（Malpolon insignitus）. The suitable habitat for each species was modelled using the maximum entropy algorithm, combining presence field data（collected during 16 years：2000–2015） with a set of seven environmental variables（mean annual precipitation, elevation, slope gradient,aspect, distance to watercourses, land surface temperature and normalized Differential Vegetation Index. The relative importance of these environmental variables was evaluated by jackknife tests and the predictive power of our models was assessed using the area under the receiver operating characteristic. The main explicative variables of the species distribution were distance from streams and elevation, with contributions ranging from 60 to 77 and from 10 to 25%,respectively. Our study provided the first habitat suitability models for snakes in Kroumiria and this information can be used by conservation biologists and land managers concerned with preserving snakes in Kroumiria.

Potential distributional shifts in North America of allelopathic invasive plant species under climate change models

Predictive studies play a crucial role in the study of biological invasions of terrestrial plants under possible climate change scenarios.Invasive species are recognized for their ability to modify soil microbial communities and influence ecosystem dynamics.Here,we focused on six species of allelopathic flowering plants-Ailanthus altissima,Casuarina equisetifolia,Centaurea stoebe ssp.micranthos,Dioscorea bulbifera,Lantana camara,and Schinus terebinthifolia-Xhat are invasive in North America and examined their potential to spread further during projected climate change.We used Species Distribution Models(SDMs)to predict future suitable areas for these species in North America under several proposed future climate models.ENMEval and Maxent were used to develop SDMs,estimate current distributions,and predict future areas of suitable climate for each species.Areas with the greatest predicted suitable climate in the future include the northeastern and the coastal northwestern regions of North America.Range size estimations demonstrate the possibility of extreme range loss for these invasives in the southeastern United States,while new areas may become suitable in the northeastern United States and southeastern Canada.These findings show an overall northward shift of suitable climate during the next few decades,given projected changes in temperature and precipitation.Our results can be utilized to analyze potential shifts in the distribution of these invasive species and may aid in the development of conservation and management plans to target and control dissemination in areas at higher risk for potential future invasion by these allelopathic species.

Comparison of stem taper models for the four tropical tree species in Mount Makiling, Philippines

This study was conducted to evaluate the performance of six stem taper models on four tropical tree species, namely Celtis luzonica(Magabuyo),Diplodiscus paniculatus(Balobo), Parashorea malaanonan(Bagtikan), and Swietenia macrophylla(Mahogany) in Mount Makiling Forest Reserve(MMFR), Philippines using fit statistics and lack-of-fit statistics. Four statistical criteria were used in this study, including the standard error of estimate(SEE),coefficient of determination(R^2), mean bias( E),and absolute mean difference(AMD). For the lack-offit statistics, SEE, E and AMD were determined in different relative height classes. The results indicated that the Kozak02 stem taper model offered the best fit for the four tropical species in most statistics. The Kozak02 model also consistently provided the best performance in the lack-of-fit statistics with the best SEE, E and AMD in most of the relative height classes. These stem taper equations could help forest managers and researchers better estimate the diameter of the outside bark with any given height,merchantable stem volumes and total stem volumes of standing trees belonging to the four species of thetropical forest in MMFR.

Mapping the potential distribution suitability of 16 tree species under climate change in northeastern China using Maxent modelling

Knowledge on the potential suitability of tree species to the site is very important for forest management planning.Natural forest distribution provides a good reference for afforestation and forest restoration.In this study,we developed species distribution model(SDM)for 16 major tree species with 2,825 permanent sample plots with natural origin from Chinese National Forest Inventory data collected in Jilin Province using the Maxent model.Three types of environmental factors including bioclimate,soil and topography with a total of 33 variables were tested as the input.The values of area under the curve(AUC,one of the receiver operating characteristics of the Maxent model)in the training and test datasets were between 0.784 and 0.968,indicating that the prediction results were quite reliable.The environmental factors affecting the distribution of species were ranked in terms of their importance to the species distribution.Generally,the climatic factors had the greatest contribution,which included mean diurnal range,annual mean temperature,temperature annual range,and iosthermality.But the main environmental factors varied with tree species.Distribution suitability maps under current(1950-2000)and future climate scenarios(CCSM4-RCP 2.6 and RCP 6.0 during 2050)were produced for 16 major tree species in Jilin Province using the model developed.The predicted current and future ranges of habitat suitability of the 16 tree species are likely to be positively and negatively affected by future climate.Seven tree species were found to benefit from future climate including B etula costata,Fraxinus mandshurica,Juglans mandshurica,Phellodendron amurense,Populus ussuriensis,Quercus mongolica and Ulmus pumila;five tree species will experience decline in their suitable habitat including B.platyphylla,Tilia mongolica,Picea asperata,Pinus sylvestris,Pinus koraiensis;and four(Salix koreensis,Abies fabri,Pinus densiflora and Larix olgensis)showed the inconsistency under RCP 2.6 and RCP 6.0 scenarios.The maps of the habitat suitability can be used as a basis for afforestation and forest restoration in northeastern China.The SDMs could be a potential tool for forest management planning.

Eff ects of climate change on the potential habitat distribution of swimming crab Portunus trituberculatus under the species distribution model

Over the last decades,the species distribution model(SDM)has become an essential tool for studying the potential eff ects of climate change on species distribution.In this study,an ensemble SDM was developed to predict the changes in species distribution of swimming crab Portunus trituberculatus across diff erent seasons in the future(2050s and 2100s)under the climate scenarios of Representative Concentration Pathway(RCP)4.5 and RCP8.5.Results of the ensemble SDM indicate that the distribution of this species will move northward and exhibit evident seasonal variations.Among the four seasons,the suitable habitat for this species will be signifi cantly reduced in summer,with loss rates ranging from 45.23%(RCP4.5)to 88.26%(RCP.8.5)by the 2100s.The loss of habitat will mostly occur in the East China Sea and the southern part of the Yellow Sea,while a slight increase in habitat will occur in the northern part of the Bohai Sea.These fi ndings provide an information forecast for this species in the future.Such forecast will be helpful in improving fi shery management under climate change.

Species distribution modeling in regions of high need and limited data： waterfowl of China

Background: A number of conservation and societal issues require understanding how species are distributed on the landscape, yet ecologists are often faced with a lack of data to develop models at the resolution and extent desired, resulting in inefficient use of conservation resources.Such a situation presented itself in our attempt to develop waterfowl distribution models as part of a multi-disciplinary team targeting the control of the highly pathogenic H5N1 avian influenza virus in China.Methods: Faced with limited data, we built species distribution models using a habitat suitability approach for China's breeding and non-breeding(hereafter, wintering) waterfowl.An extensive review of the literature was used to determine model parameters for habitat modeling.Habitat relationships were implemented in GIS using land cover covariates.Wintering models were validated using waterfowl census data, while breeding models, though developed for many species, were only validated for the one species with sufficient telemetry data available.Results: We developed suitability models for 42 waterfowl species(30 breeding and 39 wintering) at 1 km resolution for the extent of China, along with cumulative and genus level species richness maps.Breeding season models showed highest waterfowl suitability in wetlands of the high-elevation west-central plateau and northeastern China.Wintering waterfowl suitability was highest in the lowland regions of southeastern China.Validation measures indicated strong performance in predicting species presence.Comparing our model outputs to China's protected areas indicated that breeding habitat was generally better covered than wintering habitat, and identified locations for which additional research and protection should be prioritized.Conclusions: These suitability models are the first available for many of China's waterfowl species, and have direct utility to conservation and habitat planning and prioritizing management of critically important areas, providing an example of how this approach may aid others faced with the challenge of addressing conservation issues with little data to inform decision making.

Potential global distribution of the guava root-knot nematode Meloidogyne enterolobii under different climate change scenarios using MaxEnt ecological niche modeling

In recent years,Meloidogyne enterolobii has emerged as a major parasitic nematode infesting many plants in tropical or subtropical areas.However,the regions of potential distribution and the main contributing environmental variables for this nematode are unclear.Under the current climate scenario,we predicted the potential geographic distributions of M.enterolobii worldwide and in China using a Maximum Entropy(MaxEnt)model with the occurrence data of this species.Furthermore,the potential distributions of M.enterolobii were projected under three future climate scenarios(BCC-CSM2-MR,CanESM5 and CNRM-CM6-1)for the periods 2050s and 2090s.Changes in the potential distribution were also predicted under different climate conditions.The results showed that highly suitable regions for M.enterolobii were concentrated in Africa,South America,Asia,and North America between latitudes 30°S to 30°N.Bio16(precipitation of the wettest quarter),bio10(mean temperature of the warmest quarter),and bio11(mean temperature of the coldest quarter)were the variables contributing most in predicting potential distributions of M.enterolobii.In addition,the potential suitable areas for M.enterolobii will shift toward higher latitudes under future climate scenarios.This study provides a theoretical basis for controlling and managing this nematode.

Modeling Bat Species Richness and Spatial Distribution in Burkina Faso

The spatial distribution of bats in Burkina Faso is little-known. Previous studies have only described the bat species’ richness in Burkina Faso. This study was conducted to highlight bat species’ richness distribution within Burkina Faso and environmental variables that influence this distribution with the aim to give support for protection and further sampling for biodiversity. The Species Distribution Models (SDMs) were used to perform this study. To do that, species occurrences were collected throughout literature and field sampling and correlated to environmental variables through the Maxent software (Maximum Entropy). Our modeling variables included climate, vegetation cover, topography and hydrography data. The Jackknife test was performed to determine the importance of environmental variables that influence the species distribution model. The results showed that bats are present in all areas of vegetation in Burkina Faso. Species richness varies across the country. The species richness for major families increases from North to South. The total annual precipitation and topography are the main variables that positively influence bats distribution in Burkina Faso but the bare ground cover and standard deviation of the maximum temperature negatively influence this distribution. This modeling approach of bat species richness is important for policies makers and represents an invaluable tool in ecological management, particularly in the current context of climate change.

Diversity of beetle species and functional traits along gradients of deadwood suggests weak environmental filtering

Background: Gradients in local environmental characteristics may favour the abundance of species with particular traits, while other species decline, or favour species with different traits at the same time, without an increase in average species abundances. Therefore, we asked: do variations in species and traits differ along gradients of deadwood variables? Do species abundance and trait occurrence change with species richness within or between functional groups? Thus, we analysed the beetle assemblages of five forest sites located in Italy, along the Apennines mountains.Methods: From 2012 to 2018 we sampled beetles and five deadwood types in 193 plots to characterise the deadwood gradient: standing dead trees, snags, dead downed trees, coarse woody debris, and stumps. We modelled beetle species relative abundances and trophic traits occurrences against the deadwood variables using joint species distribution models.Results: Out of 462 species, only 77 showed significant responses to at least one deadwood type, with a weak mean response across species. Trophic groups showed mostly negative responses to deadwood variables. Species abundance increased with species richness among sites only for phytophagous and saproxylophagous. Trait occurrence did not increase with species richness among sites, except for phytophagous and saproxylophagous.However, trait occurrence changed significantly with species richness of several trophic groups within some sites.We found that increases in species richness do not result in decreases in species abundance of a given trophic group, but rather null or positive relationships were found suggesting low interspecific competition.Conclusions: Our findings suggest that in Mediterranean mountain forests there is still room for increasing the level of naturalness, at least for what concerns deadwood management. On one side, our findings suggest that competition for deadwood substrates is still low, on the other side they indicate that increasing deadwood volume and types to improve overall beetle richness may increase also beetle abundances.

Phylogenetic conservatism in threatened species responses to climate change differs between functional types in the Gongga Mountains of China

Climate change has become one of the most critical threats to global biodiversity.However,whether phylogenetically related species respond to climate change in similar ways remains controversial.The answer to this question is crucial for understanding the impacts of climate change and the conservation on the tree of life.By integrating species distribution models with a molecular phylogeny of 50 threatened plant species from one of the global biodiversity hotspots,Gongga Mountains(Mt.Gongga)in southwest China,we evaluated the responses of threatened plant species to future climate change,and estimated whether species responses are phylogenetically conserved.Phylogenetic reconstruction was used to calculate the phylogenetic distance and null model to verify the reliability of the results.We found that correlations between responses of different species to future climate change decreased with the increase in their phylogenetic distance in the monocotyledonous or herbaceous species,but not in the dicotyledonous and woody species.Our results suggested that the responses of herbaceous and monocotyledonous threatened species in Mt.Gongga to future climate change tend to be phylogenetically conserved,while the responses of woody and dicotyledonous threatened species are not.Our study provides evidence for the existence of phylogenetically non-random extinction in the monocotyledonous herbs in Mt.Gongga and highlights the importance of integrating phylogenetic information and evolutionary history into conservation planning.We also provide theoretical basis and technical support for designing effective conservation schemes for the protection of biodiversity under anthropogenic climate change.

Relative importance of tidal flats and artificial habitats for two spoonbill species and related interspecific differences

Artificial/seminatural environments,such as aquacultural ponds,saltpans,and croplands,have recently been acknowledged as important habitats for coastal waterbirds.Although coastal waterbirds tend to use artificial habitats around tidal flats as roosting sites during high-tide,it remains unclear whether the importance of surrounding habitats relative to tidal flats varies among landscape types,seasons,species,or tidal conditions.The Black-faced Spoonbill(Platalea minor)and Eurasian Spoonbill(P.leucorodia)are two closely related sympatric species in East Asia with narrow and wide distribution ranges and habitat requirements,respectively.We therefore expect that both species will use surrounding artificial habitats across seasons at high tides,but Blackfaced Spoonbills will use them less frequently than Eurasian Spoonbills.Here,we address these hypotheses in the Imazu tidal flat and its surrounding environments in southern Japan.We investigated the habitat use and behavioral patterns of both species through route and behavioral surveys during the fall migration and wintering seasons in 2021.We found that both species used surrounding habitats including artificial ones more frequently than the tidal flat regardless of the tidal condition or season,but spoonbills used these habitats more frequently in winter than in autumn.We also found that Eurasian Spoonbills foraged in surrounding artificial habitats more frequently than Black-faced Spoonbills.These results not only demonstrate how coastal waterbirds exploit surrounding habitats relative to tidal flats but also suggest that the importance of surrounding habitats varies among species and seasons.Our study thus emphasizes that valuing and managing surrounding habitats in addition to tidal flats are key to conserving globally declining waterbirds.

Are Polyploid Species Less Vulnerable to Climate Change? A Simulation Study in North American Crataegus

Understanding the mechanisms underlying plant responses to climate change is an important step toward developing effective mitigation strategies. Polyploidy is an important evolutionary trait that can influence the capacity of plants to adapt to climate change. The environmental flexibility of polyploids suggests their resiliency to climate change, however, such hypotheses have not yet received empirical evidence. To understand how ploidy level may influence response to climate change, we modeled the current and future distribution of 54 Crataegus species under moderate to severe environments and compared the range change between diploids and polyploids. The majority of studied species are predicted to experience considerable range expansion. We found a negative interaction between ploidy and ecoregions in determining the response to climate change. In extreme environments, polyploids are projected to experience a higher range expansion than diploids with climate change, while the opposite is true for moderate environments. The range expansion of Crataegus species can be attributed to their tolerance for a wide range of environmental conditions. Despite the higher tolerance of polyploids to extreme environments, they do not necessarily outperform diploids in moderate environments, which can be attributed to the varying nature of species interactions along a stress gradient.

Incorporating physiological knowledge into correlative species distribution models minimizes bias introduced by the choice of calibration area

Correlative species distribution models(SDMs)are important tools to estimate species’geographic distribution across space and time,but their reliability heavily relies on the availability and quality of occurrence data.Estimations can be biased when occurrences do not fully represent the environmental requirement of a species.We tested to what extent species’physiological knowledge might influence SDM estimations.Focusing on the Japanese sea cucumber Apostichopus japonicus within the coastal ocean of East Asia,we compiled a comprehensive dataset of occurrence records.We then explored the importance of incorporating physiological knowledge into SDMs by calibrating two types of correlative SDMs:a naïve model that solely depends on environmental correlates,and a physiologically informed model that further incorporates physiological information as priors.We further tested the models’sensitivity to calibration area choices by fitting them with different buffered areas around known presences.Compared with naïve models,the physiologically informed models successfully captured the negative influence of high temperature on A.japonicus and were less sensitive to the choice of calibration area.The naïve models resulted in more optimistic prediction of the changes of potential distributions under climate change(i.e.,larger range expansion and less contraction)than the physiologically informed models.Our findings highlight benefits from incorporating physiological information into correlative SDMs,namely mitigating the uncertainties associated with the choice of calibration area.Given these promising features,we encourage future SDM studies to consider species physi-ological information where available.

CFD modeling of a headbox with injecting dilution water in a central step diffusion tube

For engineering applications of water dilution controlling system,the fluid dynamics of a mixed flow was studied with computational fluid dynamics(CFD) simulations and self-designed experimental set-up.In order to examine the predictability of CFD model for the headbox in industrial scale,two pulp suspensions before mixing were treated as homogeneous flows separately.Standard k-ε turbulence models with the mass diffusion in turbulent flows-species transport approach were applied in the simulations.A numerical simulation of this headbox model was analyzed with semi-implicit method for pressure linked equations scheme with pressure–velocity coupling.Results show that the model can predict hydrodynamic characteristics of headbox with injecting dilution water in a central diffusion tube,and the distribution of water content at the outlet of the slice lip is ideally normal at different speeds.

The rapid climate change-caused dichotomy on subtropical evergreen broad-leaved forest in Yunnan： Reduction in habitat diversity and increase in species diversity

Yunnan's biodiversity is under considerable pressure and subtropical evergreen broad-leaved forests in this area have become increasingly fragmented through agriculture,logging,planting of economic plants,mining activities and changing environment.The aims of the study are to investigate climate changeinduced changes of subtropical evergreen broad-leaved forests in Yunnan and identify areas of current species richness centers for conservation preparation.Stacked species distribution models were created to generate ensemble forecasting of species distributions,alpha diversity and beta diversity for Yunnan's subtropical evergreen broad-leaved forests in both current and future climate scenarios.Under stacked species distribution models in rapid climate changes scenarios,changes of water-energy dynamics may possibly reduce beta diversity and increase alpha diversity.This point provides insight for future conservation of evergreen broad-leaved forest in Yunnan,highlighting the need to fully consider the problem of vegetation homogenization caused by transformation of water-energy dynamics.

Estimating seasonal habitat suitability for migratory species in the Bohai Sea and Yellow Sea:A case study of Tanaka's snailfish(Liparis tanakae)

Acquiring a comprehensive and accurate understanding of habitat preference is essential for species conservation and fishery management,especially for mobile species that migrate seasonally.Presence and absence data from field surveys are recommended when available due to their high reliability.Using field survey data,we investigated seasonal habitat suitability requirements for Tanaka's snailfish(Liparis tanakae)in the Bohai Sea and Yellow Sea(BSYS)via a machine-learning method,random forests(RFs).Five environmental and biologically relevant variables(bottom temperature,bottom salinity,current velocity,depth and distance to shore)were used to build the ecological niches between the presence/absence data and suitable habitat.In addition,the degree to which false absence data might impact model performance was evaluated.Our results indicated that RFs provided accurate predictions,with seasonal habitat suitability maps of L.tanakae differing substantially.Bottom temperature and salinity were identified as important factors influencing the distribution of L.tanakae.False absence data were found to have negative effects on model performance and the decrease in evaluation metrics was usually significant(P<0.05)after 30%or more errors were added to the absence data.Through identifying highly suitable areas within its geographic range,our study provides a baseline for L.tanakae that can be further applied in ecosystem modelling and fishery management in the BSYS.