An exhaustive evaluation of modeling ecological niches above species level to predict marine biological invasions

Identifying the areas of the world with suitable environmental conditions for the establishment of invasive species represents a fundamental basis for preventing their impacts. One of the most widely used tools for this is ecological niche modeling. Nonetheless, this approach may underestimate the specie's physiological tolerances (it's potential niche) since wildlife populations of species usually do not occupy their entire environmental tolerance. Recently, it has been suggested that incorporating occurrences of phylogenetically related species improves the prediction of biological invasions. However, the reproducibility of this technique remains unclear. Here, we evaluated the generality of this protocol by assessing whether the construction of modeling units above species level improves the capacity of niche models to predict the distribution of 26 target marine invasive species. For each, we constructed supraspecific modeling units based on published phylogenies by grouping the native occurrence records of each invasive species with the records of its phylogenetically closest relative. We also considered units at species level, including only the presence of records in the native areas of the target species. We generated ecological niche models for each unit with three modeling methods (minimum volume ellipsoids - MVE, machine learning algorithms - Maxent and a presence-absence method - GLM). In addition, we grouped the 26 target species based on whether or not the species are in environmental pseudo-equilibrium (i.e., it occupies all habitats where it can disperse) and have any geographical or biological constraints. Our results suggest that the construction of supraspecific units improves the predictive capacity of correlative models to estimate the invasion area of our target species. This modeling approach consistently generated models with a higher predictive ability for species in non-environmental pseudo-equilibrium and with geographical constraints.

Sediment microbial community structure associated to different ecological types of mangroves in Celestún, a coastal lagoon in the Yucatan Peninsula, Mexico

Mangroves are unique coastal ecosystems, which have many important ecological functions, as they are a reservoir of many marine species well adapted to saline conditions and are fundamental as sites of carbon storage. Although the microbial contribution to nutrient cycling in these ecosystems has been well recognized, there is a lack of information regarding the microbial composition and structure of different ecological types of mangrove forests. In this study, we characterized the microbial community (Bacteria and Archaea) in sediments associated with five ecological types of mangrove forests in a coastal lagoon dominated by Avicennia germinans and Rhizophora mangle, through 16S rRNA-V4 gene sequencing. Overall, Proteobacteria (51%), Chloroflexi (12%), Gemmatimonadetes (5%) and Planctomycetes (6%) were the most abundant bacterial phyla, while Thaumarchaeota (30%), Bathyarchaeota (21%) and Nanoarchaeaeota (18%) were the dominant archaeal phyla. The microbial composition associated with basin mangroves dominated by Avicennia germinans was significantly different from the other ecological types, which becomes relevant for restoration strategies.

Human footprint effects on the distribution of the spotted lowland paca (Cuniculus paca)

Human activity has caused the decrease of about 20 % of the planet's vertebrate diversity and 25 % in their abundance.  Many large and medium-sized herbivore mammals have gone extinct locally, unleashing a cascade of ecosystem changes.  The spotted paca (Cuniculus paca) is impacted by hunting and anthropogenic habitat fragmentation and loss.  To protect spotted pacas, it is essential to estimate anthropogenic effects on their geographic distribution.  Through the use of primary biodiversity data, bioclimatic data, land-cover data, and a human footprint index, we modeled the distribution of C. paca.  From 105 candidate models, only one model met our selection criteria.  The variables with the highest contribution were the human footprint and annual precipitation.  According to the model's performance curves, the spotted paca has low to medium tolerance of anthropogenic pressure.  Cuniculus paca tolerates low to medium anthropogenic disturbance, which we hypothesize is related to reduced predator pressure in habitats modified by humans.  Accounting for the costs and benefits of anthropogenic disturbance is essential to paca conservation.

DNA microarrays to identify etiological agents, as sensors of environmental wellbeing

Background: The epidemiologic transition in Mexico has generated a change of paradigm in public health. Morbidity is characterized by infectious diseases and the mortality is due to chronic degenerative diseases. The three most important infectious diseases in the country are: respiratory infections, diarrhea, and urinary tract infections. Method: The objective of this work was to build a tool to monitor the presence of health risks in the environment in a timely manner and to demonstrate its application in different sicknesses, especially those that are water related. In this study, we analyzed water samples from five cenotes with high tourist flow in the State of Yucatan. We developed a DNA microarray for the adequate and prompt detection of viruses, bacteria, fungi, and parasites. This microarray could be used in samples of different origin including air, water (fresh, brackish and saltwater), food, inert surfaces or wounds. Clinically, it would allow prompt and precise detection of etiological agents of infectious diseases to prevent outbreaks. It would also be useful for the identification of those agents that cannot be detected in our laboratories with the traditional methods. It includes 38,000 probes that detect 252 etiological agents of diseases in humans and antimicrobial resistance genes. Results from DNA samples can be obtained in 24 h, which would be difficult or impossible using other technologies. Results: The results are readily available within 24 h. Samples from five cenotes (sinkholes) with high flow of people, were analyzed with the microarray. The water samples analyzed detected 228 different bacteria, viruses, fungi, and protozoa. They are amongst the most important etiological agents for infectious diseases in Mexico. Conclusions: The microarray provides the opportunity for precise and early detection of various infectious agents in individuals, hospitals and natural environments. This could help reduce the global burden of diseases, the severity of outbreaks, and reduce antibiotic resistance.

The Assembly of Tropical Dry Forest Tree Communities in Anthropogenic Landscapes: The Role of Chemical Defenses

The effect of anthropogenic disturbance on plant community traits and tradeoffs remains poorly explored in tropical forests. In this study, we aimed to identify tradeoffs between defense and other plant functions related to growth processes in order to detect potential aboveground and edaphic environmental conditions modulating traits variation on plant communities, and to find potential assembly rules underlying species coexistence in secondary (SEF) and old-growth forests (OGF). We measured the foliar content of defense phytochemicals and leaf traits related to fundamental functions on 77 species found in SEF and OGF sites in the Jalisco dry forest ecoregion, Mexico, and we explored (1) the trait-trait and trait-habitat associations, (2) the intra and interspecies trait variation, and (3) the traits-environment associations. We found that phytochemical content was associated with high leaf density and leaf fresh mass, resulting in leaves resistant to drought and high radiation, with chemical and physical defenses against herbivore/pathogen attack. The phytochemicals and chlorophyll concentrations were negatively related, matching the predictions of the Protein Competition Model. The phylogenetic signal in functional traits, suggests that abundant clades share the ability to resist the harsh biotic and abiotic conditions and face similar tradeoffs between productive and defensive functions. Environmental filters could modulate the enhanced expression of defensive phytochemicals in SEF, while, in OGFs, we found a stronger filtering effect driving community assembly. This could allow for the coexistence of different defensive strategies in OGFs, where a greater species richness could dilute the prevalence of pathogens/herbivores. Consequently, anthropogenic disturbance could alter TDF ecosystem properties/services and functioning.

Implications of global environmental change for the burden of snakebite

Snakebite envenoming is a set of intoxication diseases that disproportionately affect people of poor socioeconomic backgrounds in tropical countries. As it is highly dependent on the environment its burden is expected to shift spatially with global anthropogenic environmental (climate, land use) and demographic change. The mechanisms underlying the changes to snakebite epidemiology are related to factors of snakes and humans. The distribution and abundance of snakes are expected to change with global warming via their thermal tolerance, while rainfall may affect the timing of key activities like feeding and reproduction. Human population growth is the primary cause of land-use change, which may impact snakes at smaller spatial scales than climate via habitat and biodiversity loss (e.g. prey availability). Human populations, on the other hand, could experience novel patterns and morbidity of snakebite envenoming, both as a result of snake responses to environmental change and due to the development of agricultural adaptations to climate change, socioeconomic and cultural changes, development and availability of better antivenoms, personal protective equipment, and mechanization of agriculture that mediate risk of encounters with snakes and their outcomes. The likely global effects of environmental and demographic change are thus context-dependent and could encompass both increasing and or snakebite burden (incidence, number of cases or morbidity), exposing new populations to snakes in temperate areas due to “tropicalization”, or by land use change-induced snake biodiversity loss, respectively. Tackling global change requires drastic measures to ensure large-scale ecosystem functionality. However, as ecosystems represent the main source of venomous snakes their conservation should be accompanied by comprehensive public health campaigns. The challenges associated with the joint efforts of biodiversity conservation and public health professionals should be considered in the global sustainability agenda in a wider context that applies to neglected tropical and zoonotic and emerging diseases.

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Distribution and abundance of snakes are expected to be affected by climate change.

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Land-use change may also impact snakes but at smaller spatial scales than climate.

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Human populations could experience novel patterns and morbidity of snakebite.

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Reducing snakebite should be accompanied by actions that protect snake diversity.

Supraspecific units in correlative niche modeling improves the prediction of geographic potential of biological invasions

BACKGROUND

Biological invasions rank among the most significant threats to biodiversity and ecosystems. Correlative ecological niche modeling is among the most frequently used tools with which to estimate potential distributions of invasive species. However, when areas accessible to the species across its native distribution do not represent the full spectrum of environmental conditions that the species can tolerate, correlative studies often underestimate fundamental niches.

METHODS

Here, we explore the utility of supraspecific modeling units to improve the predictive ability of models focused on biological invasions. Taking into account phylogenetic relationships in correlative ecological niche models, we studied the invasion patterns of three species (Aedes aegypti, Pterois volitans and Oreochromis mossambicus).

RESULTS

Use of supraspecific modeling units improved the predictive ability of correlative niche models in anticipating potential distributions of three invasive species. We demonstrated that integrating data on closely related species allowed a more complete characterization of fundamental niches. This approach could be used to model species with invasive potential but that have not yet invaded new regions.

The Abundant Niche-centroid Hypothesis: Key Points About Unfilled Niches and the Potential Use of Supraspecfic Modeling Units

Correlative estimates of fundamental niches are gaining momentum as an alternative to predict species’ abundances, particularly via the abundant niche-centroid hypothesis (an expected inverse relationship between species’ abundance variation across its range and the distance to the geometric centroid of its multidimensional ecological niche). The main goal of this review is to recapitulate what has been done, where we are now, and where should we move towards in regards to this hypothesis. Despite evidence in support of the abundance-distance to niche centroid relationship, its usefulness has been highly debated, although with little consideration of the underlying theory regarding the circumstances that might break down the relationship. We address some key points about the conditions needed to test the hypothesis in correlative studies, specifically in relation to nichecharacterization and configurations of the Biotic-Abiotic-Mobility (BAM) framework to illustrate the problem of unfilled niches. Using a created supraspecific modeling unit, we show that species for which only a portion of their fundamental niche is represented in their area of historical accessibility (M)—i.e., when the environmental equilibrium condition is violated—it is impossible to characterize their true niche centroid. Therefore, we strongly recommend to analyze this assumption prior toassess the abundant niche-centroid hypothesis. Finally, we discuss the potential of using modeling units above the species level for cases in which environmental conditions associated with species’ occurrences may not be sufficient to fully characterize their fundamental niches.

Polychaete assemblages in a tropical hypersaline coastal lagoon of the southeastern Gulf of Mexico during the rainy season

Introduction: The Río Lagartos lagoon, located in the Ría Lagartos Biosphere Reserve, Yucatán, Gulf of Mexico, is a coastal hypersaline system ca. 80 km long (east-west). It comprises three basins: western (close to Río Lagartos fishermen village), middle (Las Coloradas) and eastern (close to El Cuyo fishermen village), that communicate through very narrow natural channels. Despite several studies have been performed on the vertebrate fauna, the aquatic invertebrates, and especially polychaetes, remain largely unknown. Objective: The objective of this study is to describe the composition and distribution of the benthic polychaete community, and to analyse potential environmental drivers. Methods: The biological material was collected in 16 stations distributed along the lagoon during the rainy season (September 2017). Two replicates per station were obtained using a Ponar standard dredge or cores (6” diameter). Environmental variables such as grain size, organic carbon content in the sediments, and salinity, among others, were measured. Results: A total of 827 specimens belonging to 26 species and 16 families were identified. Of these, 23 species are new records for the Río Lagartos lagoon. Community composition changed between the different basins associated with strong gradients in salinity, subaquatic vegetation (algae and seagrasses) proportions in the samples and grain size. No polychaetes were recorded at the easternmost basin (El Cuyo basin), where salinity was between 67-80 psu. In the rest of the lagoon, the distribution of polychaetes was heterogeneous, especially near the mouth (western basin), where the highest and lowest density, species richness and diversity were recorded. The highest density was found at station 6, where dense algal mats of the genus Avrainvillea dominated. The families Syllidae and Nereididae were the most abundant and widely distributed families in the lagoon. The species Syllis lagunae and Nereis pelagica dominated the western basin and Prionospio heterobranchia and Sphaerosyllis taylori dominated the middle basin. Conclusions: The salinity records associated with some species were well above the top limits previously reported, establishing the euryhaline character of many species in the region.

Wetland plant species improve performance when inoculated with arbuscular mycorrhizal fungi: a meta-analysis of experimental pot studies

The presence of arbuscular mycorrhizal fungi (AMF) in wetlands is widespread. Wetlands are transition ecosystems between aquatic and terrestrial systems, where shallow water stands or moves over the land surface. The presence of AMF in wetlands suggests that they are ecologically significant; however, their function is not yet clearly understood. With the aim of determining the overall magnitude and direction of AMF effect on wetland plants associated with them in pot assays, we conducted a meta-analysis of data extracted from 48 published studies. The AMF effect on their wetland hosts was estimated through different plant attributes reported in the studies including nutrient acquisition, photosynthetic activity, biomass production, and saline stress reduction. As the common metric, we calculated the standardized unbiased mean difference (Hedges' d) of wetland plant performance attributes in AMF-inoculated plants versus non-AMF-inoculated plants. Also, we examined a series of moderator variables regarding symbiont identity and experimental procedures that could influence the magnitude and direction of an AMF effect. Response patterns indicate that wetland plants significantly benefit from their association with AMF, even under flooded conditions. The beneficial AMF effect differed in magnitude depending on the plant attribute selected to estimate it in the published studies. The nature of these benefits depends on the identity of the host plant, phosphorus addition, and water availability in the soil where both symbionts develop. Our meta-analysis synthetizes the relationship of AMF with wetland plants in pot assays and suggests that AMF may be of comparable importance to wetland plants as to terrestrial plants.

Characterizing environmental suitability of Aedes albopictus (Diptera: Culicidae) in Mexico based on regional and global niche models

The Asian tiger mosquito, Aedes albopictus (Skuse) (Diptera: Culicidae), is an invasive species and a vector of numerous human pathogens, including chikungunya, dengue, yellow fever, and Zika viruses. This mosquito had been reported from 36 geographic locations in Mexico by 2005, increasing to 101 locations by 2010 and 501 locations (spanning 16 states) by 2016. Here we modeled the occupied niche for Ae. albopictus in Mexico to characterize the environmental conditions related to its presence, and to generate updated environmental suitability maps. The predictors with the greatest contribution to characterizing the occupied niche for Ae. albopictus were NDVI and annual mean temperature. We also estimated the environmental suitability for Ae. albopictus in regions of the country where it has not been documented yet, by means of: 1) transferring its occupied niche model to these regions and 2) modeling its fundamental niche using global data. Our models will help vector control and public health institutions to identify areas where Ae. albopictus has not yet been recorded but where it may be present. We emphasize that most of Mexico has environmental conditions that potentially allow the survival of Ae. albopictus, which underscores the need for systematic mosquito monitoring in all states of the country.

Can the name Mugil cephalus (Pisces: Mugilidae) be used for the species occurring in the north western Atlantic?

Menezes et al. (2010) show that Mugil cephalus Linnaeus, 1758 is different from Mugil liza Valenciennes 1836, the latter being the mullet found along the Atlantic coast of South America. They also suggest that individuals identified as M. cephalus from the northwest Atlantic could represent a population of M. liza in this region, since they doubt the presence of M. cephalus in waters colder than the ones of the West Indies. In order to clarify the presence of M. cephalus in the northwest Atlantic, this study compares meristic and morphometric measurements of M. cephalus and M. liza from the Gulf of Mexico with those obtained by Menezes et al. (2010) for M. liza from South America and for M. cephalus in the Mediterranean Sea. Results show that there are differences in both morphometric and meristic data between the two species. The morphometric measure that differentiates these species is the distance from the snout to the dorsal fin, which is positioned backwards in M. liza compared with M. cephalus. The body width is consistently greater in M. cephalus than M. liza. The meristic character that discriminates between both species is the number of scales in the longitudinal series that, in M. cephalus, ranges from 38 to 43 while in M. liza between 32 to 39. The information presented in this work confirms the presence of M. cephalus in the Gulf of Mexico and the sympatric presence of M. liza is established, even if its abundance is quite low.

Genetic variability of the common Snook Centropomus undecimalis (Perciformes: Centropomidae) in connected marine and riverine environments

The Common Snook, Centropomus undecimalis, inhabits riverine and marine areas of Southern Gulf of Mexico, where it is subject to intense use and exploitation. It has been reported that the genetic identification of fish stocks constitutes a valuable tool for wild population management; nevertheless, there is no available information on the genetic identification on fish stocks of this species in the region. The aim of this study was to determine the genetic relationship between C. undecimalis captured in marine and freshwater environments of the Gulf of Mexico and the San Pedro River. For this, muscle tissue samples of 79 specimens were obtained from areas located more than 300km apart. The genotype of each individual was determined using seven microsatellite primer pairs. Five primers amplified efficiently presenting between six and 28 alleles per locus. High levels of heterozygosis were observed in samples from both environments. Deviation from HWE due to an excess of heterozygotes was observed. The values of genetic difference indicate an absence of population structure (F(ST) = 0.0075 and R(ST) = (0.016, p = 0.051) and similarity in the allele frequencies, defined by Nei's index (0.805). Data showed the existence of a high gene flow due to the number of migrants (Nm = 18.7). Our results suggest that individuals living in these environments belong to the same genetic population. We suggest the development of management and protection plans for this fish species population in the wild.

[Feeding habits of the fishes Lutjanus peru and Lutjanus guttatus (Pisces: Lutjanidae) of Guerrero, México]

Diet composition of the Pacific snapper (Lutjanus peru) 130-684 mm fork length (FL) and the spotted snapper (Lugjanus guttatus) 120-550 mm FL, was analyzed. Monthly samples were obtained from commercial landings in three regions off the coast of Guerrero, Mexico. Percentage by number (%N), percentage by weight (%W), and percentage of occurrence (%O) were calculated for each prey and summarized as the index of relative importance. Both species are polyphagous predators feeding on a variety of prey: Sixty-eight prey items, mainly fish (%W = 50.9), crustaceans (%W = 35.6), and mollusks (%W = 7.2), were found in the stomach contents of L. peru, while 88 components were identified in the diet of L. guttatus, the most important prey being fish (%W = 50.8) and crustaceans (%W = 43.4). Diet overlap between species is not significant (p<0.05), indicating that competition for food is unlikely. Based on published values of the relative importance index, the diets of these Lutjanidae were analyzed considering different regions of the Pacific coast of Mexico and Costa Rica, and similarities among sites and species were discussed. The cluster analysis showed that similarities among species inhabiting in the same area are more important than within organisms of the same species living in different zones. Results suggest that prey availability rather than food selectivity, conditions the feeding behavior of these fish species.

[Coexistence of Lutjanus peru and Lutjanus guttatus (Pisces: Lutjanidae) in the coast of Guerrero, México: association with the temporal variation of recruitment]

Monthly volumes of capture of Lutjanus peru and Lutjanus guttatus from the coast of Guerrero, Mexico, were analyzed considering eight annual cycles. Time-series, auto correlation, and cross-correlation analysis showed that monthly abundance of populations display unsystematic variations. The FiSAT software was used to obtain the recruitment patterns of both species, using length-frequency data. Our results support the hypothesis that temporal phase-shifts in reproductive events, hence recruitment, explain the coexistence of these species. The outcome of this mechanism is a temporal succession of specific recruit abundance off the coasts of Guerrero, Mexico. The uncoupling of the recruitment events between these species, induces a separation of recruits: therefore, the intake of a particular set of preys could take place at different times.