A comprehensive approach to analyzing community dynamics using rank abundance curves

Citizen science initiatives document biodiversity baselines at an urban lake

Changes to biodiversity from urbanization are occurring worldwide, and baseline data is vital to document the magnitude and direction of these alterations. We set out to document the biodiversity of an urban lake in Eastern Iowa that was devoid of baseline data prior to a renovation project that will convert the site into a major area for human recreation. Throughout the course of one year, we studied the biodiversity at Cedar Lake utilizing the citizen-science application iNaturalist coupled with semi-structured BioBlitz events, which we compared to previous opportunistic observations at the site. From a semi-structured approach to document biodiversity with citizen science, our analyses revealed more diverse community metrics over a shorter period compared to more than a decade of prior observations.

High immigration rates critical for establishing emigration-driven diversity in microbial communities

Unraveling the mechanisms governing the diversity of ecological communities is a central goal in ecology. Although microbial dispersal constitutes an important ecological process, the effect of dispersal on microbial diversity is poorly understood. Here, we sought to fill this gap by combining a generalized Lotka-Volterra model with experimental investigations. Our model showed that emigration increases the diversity of the community when the immigration rate crosses a defined threshold, which we identified as Ineutral. We also found that at high immigration rates, emigration weakens the relative abundance of fast-growing species and thus enhances the mass effect and increases the diversity. We experimentally confirmed this finding using co-cultures of 20 bacterial strains isolated from the soil. Our model further showed that Ineutral decreases with the increase of species pool size, growth rate, and interspecies interaction. Our work deepens the understanding of the effects of dispersal on the diversity of natural communities.

Assessment of macrozoobenthos baseline diversity for monitoring the ecological quality of Finima Nature Park Lake

The scarcity of pristine, intact ecosystems limits opportunities to learn about succession and ecosystem evolution under conditions of limited human impact. Finima Nature Park (FNP) has been identified as a possible RAMSAR site. Its protected lake-"FNP Lake" (also known locally as "Bonny Lake")-is an unusual habitat that enables monitoring of aquatic ecological succession in the Niger Delta, where pristine and near-pristine ecosystems are becoming scarce. Macrozoobenthos are one of the best-known bio-monitors of ecological health integrity because they are widespread and long-lasting, with moderate mobility and high diversity, among other valuable characteristics. Monthly data of the community structure of macrozoobenthos and some of the FNP Lake's priority abiotic factors were collected in 2018, which provided a baseline for identifying future water quality changes and succession in the lake. Except for temperature and dissolved oxygen (DO), which were spatially uniform, the physico-chemical parameters varied spatio-temporally. The diversity indices values were low. According to the canonical correspondence abundance (CCA) plot, taxa distributions were influenced mainly by pH, DO, and temperature, which explains the prevalence of oxygen-insensitive species.

Long-term biodegradation of crude oil in high-arctic backshore sediments: The Baffin Island Oil Spill (BIOS) after nearly four decades

With an on-going disproportional warming of the Arctic Ocean and the reduction of the sea ice cover, the risk of an accidental oil spill from ships or future oil exploration is increasing. It is hence important to know how crude oil weathers in this environment and what factors affect oil biodegradation in the Arctic. However, this topic is currently poorly studied. In the 1980s, the Baffin Island Oil Spill (BIOS) project carried out a series of simulated oil spills in the backshore zone of beaches located on Baffin Island in the Canadian High Arctic. In this study two BIOS sites were re-visited, offering the unique opportunity to study the long-term weathering of crude oil under Arctic conditions. Here we show that residual oil remains present at these sites even after almost four decades since the original oiling. Oil at both BIOS sites appears to have attenuated very slowly with estimated loss rates of 1.8-2.7% per year. The presence of residual oil continues to significantly affect sediment microbial communities at the sites as manifested by a significantly decreased diversity, differences in the abundance of microorganisms and an enrichment of putative oil-degrading bacteria in oiled sediments. Reconstructed genomes of putative oil degraders suggest that only a subset is specifically adapted for growth under psychrothermic conditions, further reducing the time for biodegradation during the already short Arctic summers. Altogether, this study shows that crude oil spilled in the Arctic can persist and significantly affect the Arctic ecosystem for a long time, in the order of several decades.

Warming-driven indirect effects on alpine grasslands: short-term gravel encroachment rapidly reshapes community structure and reduces community stability

The community stability is the main ability to resist and be resilient to climate changes. In a world of climate warming and melting glaciers, alpine gravel encroachment was occurring universally and threatening hillside grassland ecosystem. Gravel encroachment caused by climate warming and glacial melting may alter community structure and community stability in alpine meadow. Yet, the effects of climate warming-induced gravel encroachment on grassland communities are unknown. Here, a 1-year short-term field experiment was conducted to explore the early stage drive process of gravel encroachment on community structure and stability at four different gravel encroachment levels 0%, 30%, 60%, and 90% gravel coverage at an alpine meadow on the Qinghai Tibetan Plateau, by analyzing the changes of dominant species stability and species asynchrony to the simulated gravel encroachment processes. Gravel encroachment rapidly changed the species composition and species ranking of alpine meadow plant community in a short period of time. Specifically, community stability of alpine meadow decreased by 61.78-79.48%, which may be due to the reduced dominant species stability and species asynchrony. Species asynchrony and dominant species stability were reduced by 2.65-17.39% and 46.51-67.97%, respectively. The results of this study demonstrate that gravel encroachment presents a severe negative impact on community structure and stability of alpine meadow in the short term, the longer term and comprehensive study should be conducted to accurate prediction of global warming-induced indirect effects on alpine grassland ecosystems.

Elevated compositional change in plant assemblages linked to invasion

Alien species are widely linked to biodiversity change, but the extent to which they are associated with the reshaping of ecological communities is not well understood. One possible mechanism is that assemblages where alien species are found exhibit elevated temporal turnover. To test this, we identified assemblages of vascular plants in the BioTIME database for those assemblages in which alien species are either present or absent and used the Jaccard measure to compute compositional dissimilarity between consecutive censuses. We found that, although alien species are typically rare in invaded assemblages, their presence is associated with an increase in the average rate of compositional change. These differences in compositional change between invaded and uninvaded assemblages are not linked to differences in species richness but rather to species replacement (turnover). Rapid compositional restructuring of assemblages is a major contributor to biodiversity change, and as such, our results suggest a role for alien species in bringing this about.

Competition model explains trends of long-term fertilization in plant communities

Over 40 years ago, Kempton (Biometrics, 35, 1979, 307) reported significant modification to plant community structure following a long-term fertilization experiment. Many researchers have investigated this phenomenon in the years since. Collectively, these studies have shown consistent shifts in rank abundance relationships among species in communities following fertilization. The previous studies indicated that fertilization affects community structure through several critical processes, including trait-based functional response, reordering of species in rank abundance diagram (RAD), and niche dimensionality, although some questions have remained. How does the species reordering driven by the plant responses cause characteristic trends in temporal changes of RAD? Why are those trends ubiquitous in various systems? To answer those questions, we theoretically investigated the effects of fertilization on community structure based on a colonization model (or Levins model) with competition-fecundity trade-offs, which can result in the coexistence of multiple species under competition. The model represents characteristic RAD, which can be an adequate tool to study community composition. Our theoretical model comprehensively represents observed trends in rank abundance relationships following long-term fertilization and suggests that competitive interactions among species are a critical factor in structuring species diversity in plant communities.

Effect of allelochemicals sustained-release microspheres on the ingestion, incorporation, and digestion abilities of Daphnia magna Straus

Allelochemicals sustained-release microspheres (ACs-SMs) exhibited great inhibition effect on algae, however, few studies have focused on ACs-SMs toxicity on invertebrate. In this study, the effects of single high-concentration ACs (15 mg/L, SH-ACs), repeated low-concentration ACs (3 × 5 mg/L, RL-ACs) and ACs-SMs containing 15 mg/L ACs exposure on the ingestion, incorporation, and digestion of Daphnia magna Straus (DS) were investigated by stable isotope ¹⁵N labeling method. Meanwhile, the diversity and abundance of microflora in DS guts were determined by 16S rRNA genes and cloning methods. The results showed that SH-ACs exposure caused 50% and 33.3% death rates for newborn and adult DS, while RL-ACs exposure caused 10% death rate for newborn DS and no obvious effect on the activity of adult DS. And ACs-SMs exposure did not diminish the motility of both newborn and adult DS, indicating the lower acute toxicity of ACs-SMs. Furthermore, SH-ACs inhibited the ingestion (-6.45%), incorporation (-47.1%) and digestion (-53.8%) abilities of DS and reduced the microbial abundance (-27.7%) in DS guts. Compared with SH-ACs, RL-ACs showed relatively low impact on the ingestion (-3.23%), incorporation (-5.89%) and digestion (-23.9%) abilities of DS. Interestingly, ACs-SMs enhanced the ingestion (+9.68%), incorporation (+52.9%) and digestion (+51.3%) abilities of DS and increased the microbial abundance (+10.7%) in DS guts. Overall ACs and ACs-SMs reduced the diversity of microflora in DS guts. In conclusion, ACs-SMs can release ACs sustainably and prolong the sustained release time, which not only effectively reduce the toxicity of ACs, but also had positive effects on DS.

Current street tree communities reflect race-based housing policy and modern attempts to remedy environmental injustice

Humans promote and inhibit other species on the urban landscape, shaping biodiversity patterns. Institutional racism may underlie the distribution of urban species by creating disproportionate resources in space and time. Here, we examine whether present-day street tree occupancy, diversity, and composition in Baltimore, MD, USA, neighborhoods reflect their 1937 classification into grades of loan risk-from most desirable (A = green) to least desirable (D = "redlined")-using racially discriminatory criteria. We find that neighborhoods that were redlined have consistently lower street tree α-diversity and are nine times less likely to have large (old) trees occupying a viable planting site. Simultaneously, redlined neighborhoods were locations of recent tree planting activities, with a high occupancy rate of small (young) trees. However, the community composition of these young trees exhibited lower species turnover and reordering across neighborhoods compared to those in higher grades, due to heavy reliance on a single tree species. Overall, while the negative effects of redlining remain detectable in present-day street tree communities, there are clear signs of recent investment. A strategy of planting diverse tree cohorts paired with investments in site rehabilitation and maintenance may be necessary if cities wish to overcome ecological feedbacks associated with legacies of environmental injustice.

The Brazilian Amazonian rainforest harbors a high diversity of yeasts associated with rotting wood, including many candidates for new yeast species

This study investigated the diversity of yeast species associated with rotting wood in Brazilian Amazonian rainforests. A total of 569 yeast strains were isolated from rotting wood samples collected in three Amazonian areas (Universidade Federal do Amazonas-Universidade Federal do Amazonas [UFAM], Piquiá, and Carú) in the municipality of Itacoatiara, Amazon state. The samples were cultured in yeast nitrogen base (YNB)-d-xylose, YNB-xylan, and sugarcane bagasse and corncob hemicellulosic hydrolysates (undiluted and diluted 1:2 and 1:5). Sugiyamaella was the most prevalent genus identified in this work, followed by Kazachstania. The most frequently isolated yeast species were Schwanniomyces polymorphus, Scheffersomyces amazonensis, and Wickerhamomyces sp., respectively. The alpha diversity analyses showed that the dryland forest of UFAM was the most diverse area, while the floodplain forest of Carú was the least. Additionally, the difference in diversity between UFAM and Carú was the highest among the comparisons. Thirty candidates for new yeast species were obtained, representing 36% of the species identified and totaling 101 isolates. Among them were species belonging to the clades Spathaspora, Scheffersomyces, and Sugiyamaella, which are recognized as genera with natural xylose-fermenting yeasts that are often studied for biotechnological and ecological purposes. The results of this work showed that rotting wood collected from the Amazonian rainforest is a tremendous source of diverse yeasts, including candidates for new species.

Multiple global change drivers show independent, not interactive effects: a long-term case study in tallgrass prairie

Ecosystems are faced with an onslaught of co-occurring global change drivers. While frequently studied independently, the effects of multiple global change drivers have the potential to be additive, antagonistic, or synergistic. Global warming, for example, may intensify the effects of more variable precipitation regimes with warmer temperatures increasing evapotranspiration and thereby amplifying the effect of already dry soils. Here, we present the long-term effects (11 years) of altered precipitation patterns (increased intra-annual variability in the growing season) and warming (1 °C year-round) on plant community composition and aboveground net primary productivity (ANPP), a key measure of ecosystem functioning in mesic tallgrass prairie. Based on past results, we expected that increased precipitation variability and warming would have additive effects on both community composition and ANPP. Increased precipitation variability altered plant community composition and increased richness, with no effect on ANPP. In contrast, warming decreased ANPP via reduction in grass stems and biomass but had no effect on the plant community. Contrary to expectations, across all measured variables, precipitation and warming treatments had no interactive effects. While treatment interactions did not occur, each treatment did individually impact a different component of the ecosystem (i.e., community vs. function). Thus, different aspects of the ecosystem may be sensitive to different global change drivers in mesic grassland ecosystems.

Irrigated urban trees exhibit greater functional trait plasticity compared to natural stands

Urbanization creates novel ecosystems comprised of species assemblages and environments with no natural analogue. Moreover, irrigation can alter plant function compared to non-irrigated systems. However, the capacity of irrigation to alter functional trait patterns across multiple species is unknown but may be important for the dynamics of urban ecosystems. We evaluated the hypothesis that urban irrigation influences plasticity in functional traits by measuring carbon-gain and water-use traits of 30 tree species planted in Southern California, USA spanning a coastal-to-desert gradient. Tree species respond to irrigation through increasing the carbon-gain trait relationship of leaf nitrogen per specific leaf area compared to their native habitat. Moreover, most species shift to a water-use strategy of greater water loss through stomata when planted in irrigated desert-like environments compared to coastal environments, implying that irrigated species capitalize on increased water availability to cool their leaves in extreme heat and high evaporative demand conditions. Therefore, irrigated urban environments increase the plasticity of trait responses compared to native ecosystems, allowing for novel response to climatic variation. Our results indicate that trees grown in water-resource-rich urban ecosystems can alter their functional traits plasticity beyond those measured in native ecosystems, which can lead to plant trait dynamics with no natural analogue.

Ocean acidification drives global reshuffling of ecological communities

The paradigm that climate change will alter global marine biodiversity is one of the most widely accepted. Yet, its predictions remain difficult to test because laboratory systems are inadequate at incorporating ecological complexity, and common biodiversity metrics have varying sensitivity to detect change. Here, we test for the prevalence of global responses in biodiversity and community-level change to future climate (acidification and warming) from studies at volcanic CO₂ vents across four major global coastal ecosystems and studies in laboratory mesocosms. We detected globally replicable patterns of species replacements and community reshuffling under ocean acidification in major natural ecosystems, yet species diversity and other common biodiversity metrics were often insensitive to detect such community change, even under significant habitat loss. Where there was a lack of consistent patterns of biodiversity change, these were a function of similar numbers of studies observing negative versus positive species responses to climate stress. Laboratory studies showed weaker sensitivity to detect species replacements and community reshuffling in general. We conclude that common biodiversity metrics can be insensitive in revealing the anticipated effects of climate stress on biodiversity-even under significant biogenic habitat loss-and can mask widespread reshuffling of ecological communities in a future ocean. Although the influence of ocean acidification on community restructuring can be less evident than species loss, such changes can drive the dynamics of ecosystem stability or their functional change. Importantly, species identity matters, representing a substantial influence of future oceans.

Experimental climate change impacts on Baltic coastal wetland plant communities

Coastal wetlands provide a range of important ecosystem services, yet they are under threat from a range of stressors including climate change. This is predominantly as a result of alterations to the hydroregime and associated edaphic factors. We used a three-year mesocosm experiment to assess changes in coastal plant community composition for three plant communities in response to altered water level and salinity scenarios. Species richness and abundance were calculated by year and abundance was plotted using rank abundance curves. The permutational multivariate analysis of variance with Bray-Curtis dissimilarity was used to examine differences among treatments in plant community composition. A Non-metric Multi-dimensional Scaling analysis (NMDS) was used to visualize the responses of communities to treatments by year. Results showed that all three plant communities responded differently to altered water levels and salinity. Species richness and abundance increased significantly in an Open Pioneer plant community while Lower and Upper Shore plant communities showed less change. Species abundances changed in all plant communities with shifts in species composition significantly influenced by temporal effects and treatment. The observed responses to experimentally altered conditions highlight the need for conservation of these important ecosystems in the face of predicted climate change, since these habitats are important for wading birds and livestock grazing.

Impacts of a novel controlled-release TiO2-coated (nano-) formulation of carbendazim and its constituents on freshwater macroinvertebrate communities

Recently, the delivery of pesticides through novel controlled-release (nano-)formulations has been proposed intending to reduce (incidental) pesticide translocation to non-target sites. Concerns have however been raised with regards to the potentially enhanced toxicity of controlled-release (nano-)formulations to non-target organisms and ecosystems. We evaluated long-term (i.e. 1 and 3 month-) impacts of a novel controlled-release pesticide formulation (nano-TiO₂-coated carbendazim) and its individual and combined constituents (i.e. nano-sized TiO₂ and carbendazim) on naturally established freshwater macroinvertebrate communities. In doing so, we simultaneously assessed impacts of nano-sized TiO₂ (nTiO₂), currently one of the most used and emitted engineered nanomaterials world-wide. We determined ecological impacts on diversity (i.e. β-diversity), structure (i.e. rank abundance parameters), and functional composition (i.e. feeding guilds & trophic groups) of communities and underlying effects at lower organizational levels (i.e. population dynamics of individual taxa). Freshwater macroinvertebrate communities were negligibly impacted by nTiO₂ at environmentally realistic concentrations. The controlled-release (nano-)formulation significantly delayed release of carbendazim to the water column. Nevertheless, conventional- (i.e. un-coated-) and nTiO₂-coated carbendazim induced a similar set of adverse impacts at all investigated levels of ecological organization and time points. Our findings show fundamental restructuring of the taxonomic- and functional composition of macroinvertebrate communities as a result of low-level pesticide exposure, and thereby highlight the need for mitigating measures to reduce pesticide-induced stress on freshwater ecosystems.

Plant community re-organization and increased productivity due to multi-year nutrient enrichment of a coastal grassland

Nutrient enrichment alters plant community structure and function at a global scale. Coastal plant systems are expected to experience increased rates of nitrogen and phosphorus deposition by 2100, caused mostly by anthropogenic activity. Despite high density of studies investigating connections between plant community structure and ecosystem function in response to nutrient addition, inconsistencies in system response based on the ecosystem in question calls for more detailed analyses of nutrient impacts on community organization and resulting productivity response. Here, we focus on nutrient addition impacts on community structure and organization as well as productivity of different lifeforms in a coastal grassland. We established long-term nutrient enrichment plots in 2015 consisting of control (C), nitrogen (N), phosphorus (P), and nitrogen + phosphorus (NP) treatments. In 2017 we collected graminoid and forb productivity, root productivity, and community composition for each plot. We found no N x P interaction, but N enrichment was a significant main effect on productivity, highlighting N limitation in coastal systems. Importantly, nutrient enrichment treatments did not alter root productivity. However, all treatments caused significant differences in community composition. Using rank abundance curves, we determined that community composition differences were driven by increased dominance of nitrophilous graminoids, re-organization of subordinate species, and species absences in N and NP plots. Results of this study highlight how coastal grassland communities are impacted by nutrient enrichment. We show that community re-organization, increased dominance, and absence of critical species are all important mechanisms that reflect community-level impacts of nutrient enrichment in our coastal grassland site.

Richness, not evenness, varies across water availability gradients in grassy biomes on five continents

We sought to understand the role that water availability (expressed as an aridity index) plays in determining regional and global patterns of richness and evenness, and in turn how these water availability-diversity relationships may result in different richness-evenness relationships at regional and global scales. We examined relationships between water availability, richness and evenness for eight grassy biomes spanning broad water availability gradients on five continents. Our study found that relationships between richness and water availability switched from positive for drier (South Africa, Tibet and USA) vs. negative for wetter (India) biomes, though were not significant for the remaining biomes. In contrast, only the India biome showed a significant relationship between water availability and evenness, which was negative. Globally, the richness-water availability relationship was hump-shaped, however, not significant for evenness. At the regional scale, a positive richness-evenness relationship was found for grassy biomes in India and Inner Mongolia, China. In contrast, this relationship was weakly concave-up globally. These results suggest that different, independent factors are determining patterns of species richness and evenness in grassy biomes, resulting in differing richness-evenness relationships at regional and global scales. As a consequence, richness and evenness may respond very differently across spatial gradients to anthropogenic changes, such as climate change.

Camera trapping arboreal mammals in Argentina’s Atlantic Forest

Canopy camera trapping is being increasingly used to characterize assemblages of arboreal mammals. In this study we compared, for the first time, the assemblage of arboreal mammals of the Atlantic Forest, surveyed using canopy camera trapping at two protected areas of Misiones, Argentina: Piñalito (11 camera-trap stations) and Cruce Caballero (9 stations), with the assemblage recorded at ground-level with a camera-trapping survey conducted at another protected area, the nearby private reserve Valle del Alegría (18 stations). We calculated the number of independent photo-events for each species and site, and we built species rank abundance curves to compare the recorded species diversity among sites. We recorded six mammal species at Piñalito and Cruce Caballero, and 23 at Valle del Alegría. Canopy-survey sites showed lower diversity but a different and non-nested species composition when compared to the ground-level survey. One of the most frequently recorded species in the canopy, the brown-eared woolly opossum, Caluromys lanatus, categorized as Vulnerable in Argentina, has not been photographed in ground-level camera-trap surveys in Misiones before. Our results suggest that canopy camera trapping represents a robust method to sample arboreal species that are missed in ground-level camera-trap surveys, thus improving forest species inventories.

Food web rewiring drives long-term compositional differences and late-disturbance interactions at the community level

Multiple anthropogenic disturbances affect the structure and functioning of communities. Recent evidence highlighted that, after pulse disturbance, the functioning a community performs may be recovered fast due to functional redundancy, whereas community multivariate composition needs a longer time. Yet, the mechanisms that drive the different community recovery times have not been quantified empirically. We use quantitative food-web analysis to assess the influence of species interactions on community recovery. We found species-interactions strength to be the main mechanism driving differences between structural and functional recovery. Additionally, we show that interactions between multiple disturbances appear in the long term only when both species-interaction strength and food-web architecture change significantly.

Ecological communities are constantly exposed to multiple natural and anthropogenic disturbances. Multivariate composition (if recovered) has been found to need significantly more time to be regained after pulsed disturbance compared to univariate diversity metrics and functional endpoints. However, the mechanisms driving the different recovery times of communities to single and multiple disturbances remain unexplored. Here, we apply quantitative ecological network analyses to try to elucidate the mechanisms driving long-term community-composition dissimilarity and late-stage disturbance interactions at the community level. For this, we evaluate the effects of two pesticides, nutrient enrichment, and their interactions in outdoor mesocosms containing a complex freshwater community. We found changes in interactions strength to be strongly related to compositional changes and identified postdisturbance interaction-strength rewiring to be responsible for most of the observed compositional changes. Additionally, we found pesticide interactions to be significant in the long term only when both interaction strength and food-web architecture are reshaped by the disturbances. We suggest that quantitative network analysis has the potential to unveil ecological processes that prevent long-term community recovery.

Short-Interval, Severe Wildfires Alter Saproxylic Beetle Diversity in Andean Araucaria Forests in Northwest Chilean Patagonia

The occurrence of short-interval, severe wildfires are increasing drastically at a global scale, and appear as a novel phenomenon in areas where fire historically returns in large time lapses. In forest ecosystems, these events induce drastic changes in population dynamics, which could dramatically impact species diversity. Here, we studied the effect on diversity of recent short-interval, severe wildfires (SISF), which occurred in rapid succession in the summers of 2002 and 2015 in Chilean Northern Patagonian Araucaria–Nothofagus forests. We analyzed the diversity of deadwood-dependent (i.e., saproxylic) and fire-sensitive beetles as biological indicators across four conditions: 2002-burned areas, 2015-burned areas, SISF areas (i.e., burned in 2002 and again in 2015), and unburned areas. Saproxylic beetles were collected using window traps in 2017 to 2019 summer seasons. To investigate the mechanisms underpinning the fire-related disturbance of the assemblage, we evaluated the effects of post-fire habitat quality (e.g., dead wood decomposition) and quantity (e.g., burned dead wood volume and tree density) on the abundances and species richness of the entire assemblage and also multiple trophic groups. Compared with the unburned condition, SISF drastically reduced species richness, evenness, and Shannon’s diversity and altered the composition of the saproxylic beetle assemblages. The between-condition variation in composition was accounted for by a species replacement (turnover) between SISF and 2015-burned areas, but both species replacement and extinction (nestedness) between SISF and unburned areas. Dead wood decomposition and tree density were the variables with the strongest effects on the abundance and species richness of the entire saproxylic beetle assemblage and most trophic groups. These results suggest that SISF, through degraded habitat quality (dead wood decomposition) and quantity (arboreal density), have detrimental impacts on diversity and population dynamics of saproxylic beetle assemblages. Therefore, habitat loss is a central mechanism underpinning fire-related biodiversity loss in these forest ecosystems.

Impact of Human Settlements on Diversity of Range Vegetation

The rapidly increasing population of human beings in semi-arid areas is often considered as a major factor of land degradation. Only a few studies have examined the dynamics of human settlements on the composition, diversity, structure and palatability of range vegetation in Southern Punjab Pakistan. The current study aims to assess whether the distance from settlements had any effect on the range vegetation’s diversity and cover. In order to determine the impact of human settlements on the vegetation, the sampling area (Thal rangeland) was classified into three categories, i.e., Near (1–2 km from human communities), Away (2–4 km from human communities), and Far (4–6 km from human settlements). A total of 75 transects in all of the three sites were placed in the study sites. Along the transects, a quadrate of 1 m2 after every 10 m was randomly placed. The study site yielded floral diversity of a total of 29 species, representing 23 genera and belonging to 9 families. Results showed that the areas away from the human communities had higher species diversity (20), while the site near to human settlements depicted lower diversity (14). It was observed that, although the site near to communities had lower diversity, it depicted higher plant density, while the highest diversity along with the lowest plant density was observed in sites away from the communities. The study concluded that the diversity of range grasses, especially desirable species, was affected by distance to human settlements. These findings could be useful to detect flora changes, establish habitat protection priorities and improve efforts for conserving natural landscapes.

Marine diversity in the biosphere reserve of the most oceanic island in the Gulf of California: San Pedro Mártir

San Pedro Mártir island is of high biological, ecological, and fishery importance and was declared a biosphere reserve in 2002. This island is the most oceanic in the Gulf of California, and information on its rocky reefs is scarce. The present study aimed to generate the first list of conspicuous invertebrate and fish species based on in situ observations and to examine the community structure of the shallow rocky reefs of the reserve. In addition, we estimated the ecological indicators of richness, abundance, Shannon diversity, and Pielou evenness to evaluate the conservation status of the biosphere reserve. Data were collected annually from 2007 to 2017 through 2,192 underwater SCUBA transects. A total of 35 species of invertebrates and 73 species of fish were recorded. Most of the species are widely distributed along the eastern Pacific. Overall, 64% of the species found in this study are commercially important, and 11 species have been listed as protected. The abundance of commercially important invertebrate species (i.e., the sea cucumber Isostichopusfuscus and the spiny oyster Spondyluslimbatus) is decreasing, while commercially important fish species have maintained their abundance with periods of increase. The ecological indicators and the abundance and size of the commercial species indicate that the reserve is in good condition while meeting its conservation objectives.

Large tree mortality leads to major aboveground biomass decline in a tropical forest reserve

Humans are transforming the ecology of the Earth through rapid changes in land use and climate. These changes can affect tropical forest structure, dynamics and diversity. While numerous studies have focused on diversity metrics, other aspects of forest function, such as long-term biomass dynamics, are often less considered. We evaluated plant community structure change (i.e., abundance, diversity, composition, and aboveground biomass) in a 2.25 ha forest dynamics plot located within a ~ 365 ha reserve in southern Costa Rica. We censused, mapped and identified to species all plants ≥ 5 cm diameter at breast height (DBH) in three surveys spanning 2010-2020. While there were no changes in late-successional species diversity, there were marked changes in overall species composition and biomass. Abundance of large (≥ 40 cm DBH) old-growth dense-wooded trees (e.g., Lauraceae, Rosaceae) decreased dramatically (27%), leading to major biomass decline over time, possibly driven by recent and recurrent drought events. Gaps created by large trees were colonized by early-successional species, but these recruits did not make up for the biomass lost. Finally, stem abundance increased by 20%, driven by increasing dominance of Hampea appendiculata. While results suggest this reserve may effectively conserve overall plant diversity, this may mask other key shifts such as large aboveground biomass loss. If this pattern is pervasive across tropical forest reserves, it could hamper efforts to preserve forest structure and ecosystem services (e.g., carbon storage). Monitoring programs could better assess carbon trends in reserves over time simply by tracking large tree dynamics.

Community Bioacoustics: Studying Acoustic Community Structure for Ecological and Conservation Insights

The diversity of animal acoustic signals has evolved due to multiple ecological processes, both biotic and abiotic. At the level of communities of signaling animals, these processes may lead to diverse outcomes, including partitioning of acoustic signals along multiple axes (divergent signal parameters, signaling locations, and timing). Acoustic data provides information on the organization, diversity and dynamics of an acoustic community, and thus enables study of ecological change and turnover in a non-intrusive way. In this review, we lay out how community bioacoustics (the study of acoustic community structure and dynamics), has value in ecological monitoring and conservation of diverse landscapes and taxa. First, we review the concepts of signal space, signal partitioning and their effects on the structure of acoustic communities. Next, we highlight how spatiotemporal ecological change is reflected in acoustic community structure, and the potential this presents in monitoring and conservation. As passive acoustic monitoring gains popularity worldwide, we propose that the analytical framework of community bioacoustics has promise in studying the response of entire suites of species (from insects to large whales) to rapid anthropogenic change.

Understanding Organismal Capacity to Respond to Anthropogenic Change: Barriers and Solutions

Global environmental changes induced by human activities are forcing organisms to respond at an unprecedented pace. At present we have only a limited understanding of why some species possess the capacity to respond to these changes while others do not. We introduce the concept of multidimensional phenospace as an organizing construct to understanding organismal evolutionary responses to environmental change. We then describe five barriers that currently challenge our ability to understand these responses: 1) Understanding the parameters of environmental change and their fitness effects, 2) Mapping and integrating phenotypic and genotypic variation, 3) Understanding whether changes in phenospace are heritable, 4) Predicting consistency of genotype to phenotype patterns across space and time, and 5) Determining which traits should be prioritized to understand organismal response to environmental change. For each we suggest one or more solutions that would help us surmount the barrier and improve our ability to predict, and eventually manipulate, organismal capacity to respond to anthropogenic change. Additionally, we provide examples of target species that could be useful to examine interactions between phenotypic plasticity and adaptive evolution in changing phenospace.

Determinants of community compositional change are equally affected by global change

Global change is impacting plant community composition, but the mechanisms underlying these changes are unclear. Using a dataset of 58 global change experiments, we tested the five fundamental mechanisms of community change: changes in evenness and richness, reordering, species gains and losses. We found 71% of communities were impacted by global change treatments, and 88% of communities that were exposed to two or more global change drivers were impacted. Further, all mechanisms of change were equally likely to be affected by global change treatments-species losses and changes in richness were just as common as species gains and reordering. We also found no evidence of a progression of community changes, for example, reordering and changes in evenness did not precede species gains and losses. We demonstrate that all processes underlying plant community composition changes are equally affected by treatments and often occur simultaneously, necessitating a wholistic approach to quantifying community changes.

Convergent acoustic community structure in South Asian dry and wet grassland birds

Although the study of bird acoustic communities has great potential in long-term monitoring and conservation, their assembly and dynamics remain poorly understood. Grassland habitats in South Asia comprise distinct biomes with unique avifauna, presenting an opportunity to address how community-level patterns in acoustic signal space arise. Similarity in signal space of different grassland bird assemblages may result from phylogenetic similarity, or because different bird groups partition the acoustic resource, resulting in convergent distributions in signal space. Here, we quantify the composition, signal space and phylogenetic diversity of bird acoustic communities from dry semiarid grasslands of northwest India and wet floodplain grasslands of northeast India, two major South Asian grassland biomes. We find that acoustic communities occupying these distinct biomes exhibit convergent, overdispersed distributions in signal space. However, dry grasslands exhibit higher phylogenetic diversity, and the two communities are not phylogenetically similar. The Sylvioidea encompasses half the species in the wet grassland acoustic community, with an expanded signal space compared to the dry grasslands. We therefore hypothesize that different clades colonizing grasslands partition the acoustic resource, resulting in convergent community structure across biomes. Many of these birds are threatened, and acoustic monitoring will support conservation measures in these imperiled, poorly-studied habitats.

This article has an associated First Person interview with the first author of the paper.

Summary: Acoustic communities of different grassland biomes exhibit convergent signal space in spite of dissimilar species compositions.

16S rRNA gene profiling of rhizospheric microbial community of Eichhornia crassipes

The rhizosphere of a plant is an important interface for the plant-microbe interaction that plays a significant role in the uptake and removal of heavy metal from contaminated sites. Eichhornia crassipes is a free-floating macrophyte and a well-known metal hyperaccumulator. It is a promising plant, which harbors a diverse microbial community in its rhizosphere. Therefore it is hypothesized that it can be a good habitat for microorganisms that supports plant growth and increases its phytoremediation potential. The rhizospheric DNA was extracted from the procured plant samples. The library was prepared and sequenced using the Illumina platform. 16S rRNA data from the Next Generation Sequencing (NGS) platform was analyzed using the QIIME software package. Alpha diversity was estimated from statistical indices i.e. Shannon index, Chao1 index, and observed species. The rarefaction plots, rank abundance curve, krona graph, and heat map were generated to study the rhizospheric community in detail. Metagenome consisted of 225,408 flash reads, 185,008 non-chimeric sequences with 17,578 Operational Taxonomic Units (OTU's), and 4622 OTU's without singletons. The data of present study are available at NCBI Bioproject (PRJNA631882). The taxonomic analysis of OTU's showed that the sequences belonged to major Phyla revealing the dominance of Proteobacteria, Bacteroidetes, Cyanobacteria, and Verrucomicrobia. The most abundant Genera in the sampled rhizosphere recorded were Thiothrix and Flavobacterium.

Measuring change in biological communities: multivariate analysis approaches for temporal datasets with low sample size

Effective and robust ways to describe, quantify, analyse, and test for change in the structure of biological communities over time are essential if ecological research is to contribute substantively towards understanding and managing responses to ongoing environmental changes. Structural changes reflect population dynamics, changes in biomass and relative abundances of taxa, and colonisation and extinction events observed in samples collected through time. Most previous studies of temporal changes in the multivariate datasets that characterise biological communities are based on short time series that are not amenable to data-hungry methods such as multivariate generalised linear models. Here, we present a roadmap for the analysis of temporal change in short-time-series, multivariate, ecological datasets. We discuss appropriate methods and important considerations for using them such as sample size, assumptions, and statistical power. We illustrate these methods with four case-studies analysed using the R data analysis environment.

Changes in the analysis of temporal community dynamics data: a 29-year literature review

BACKGROUND

Understanding how biological communities change over time is of increasing importance as Earth moves into the Anthropocene. A wide variety of methods are used for multivariate community analysis and are variously applied to research that aims to characterise temporal dynamics in community composition. Understanding these methods and how they are applied is useful for determining best practice in community ecology.

METHODOLOGY

We reviewed the ecological literature from 1990 to 2018 that used multivariate methods to address questions of temporal community dynamics. For each paper that fulfilled our search criteria, we recorded the types of multivariate analysis used to characterise temporal community dynamics in addition to the research aim, habitat type, location, taxon and the experimental design.

RESULTS

Most studies had relatively few temporal replicates; the median number was seven time points. Nearly 70% of studies applied more than one analysis method; descriptive methods such as bar graphs and ordination were the most commonly applied methods. Surprisingly, the types of analyses used were only related to the number of temporal replicates, but not to research aim or any other aspects of experimental design such as taxon, or habitat or year of study.

CONCLUSIONS

This review reveals that most studies interested in understanding community dynamics use relatively short time series meaning that several, more sophisticated, temporal analyses are not widely applicable. However, newer methods using multivariate dissimilarities are growing in popularity and many can be applied to time series of any length.

Seasonal and diel patterns of abundance and activity of viruses in the Red Sea

Virus-microbe interactions have been studied in great molecular details for many years in cultured model systems, yielding a plethora of knowledge on how viruses use and manipulate host machinery. Since the advent of molecular techniques and high-throughput sequencing, methods such as cooccurrence, nucleotide composition, and other statistical frameworks have been widely used to infer virus-microbe interactions, overcoming the limitations of culturing methods. However, their accuracy and relevance is still debatable as cooccurrence does not necessarily mean interaction. Here we introduce an ecological perspective of marine viral communities and potential interaction with their hosts, using analyses that make no prior assumptions on specific virus-host pairs. By size fractionating water samples into free viruses and microbes (i.e., also viruses inside or attached to their hosts) and looking at how viral group abundance changes over time along both fractions, we show that the viral community is undergoing a change in rank abundance across seasons, suggesting a seasonal succession of viruses in the Red Sea. We use abundance patterns in the different size fractions to classify viral clusters, indicating potential diverse interactions with their hosts and potential differences in life history traits between major viral groups. Finally, we show hourly resolved variations of intracellular abundance of similar viral groups, which might indicate differences in their infection cycles or metabolic capacities.

Drought mildly reduces plant dominance in a temperate prairie ecosystem across years

Shifts in dominance and species reordering can occur in response to global change. However, it is not clear how altered precipitation and disturbance regimes interact to affect species composition and dominance.We explored community-level diversity and compositional similarity responses, both across and within years, to a manipulated precipitation gradient and annual clipping in a mixed-grass prairie in Oklahoma, USA. We imposed seven precipitation treatments (five water exclusion levels [-20%, -40%, -60%, -80%, and -100%], water addition [+50%], and control [0% change in precipitation]) year-round from 2016 to 2018 using fixed interception shelters. These treatments were crossed with annual clipping to mimic hay harvest.We found that community-level responses were influenced by precipitation across time. For instance, plant evenness was enhanced by extreme drought treatments, while plant richness was marginally promoted under increased precipitation.Clipping promoted species gain resulting in greater richness within each experimental year. Across years, clipping effects further reduced the precipitation effects on community-level responses (richness and evenness) at both extreme drought and added precipitation treatments. Synthesis: Our results highlight the importance of studying interactive drivers of change both within versus across time. For instance, clipping attenuated community-level responses to a gradient in precipitation, suggesting that management could buffer community-level responses to drought. However, precipitation effects were mild and likely to accentuate over time to produce further community change.