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Summary: Unlike 'white rot' (WR) wood‐decomposing fungi that remove lignin to access cellulosic sugars, 'brown rot' (BR) fungi selectively extract sugars and leave lignin behind. The relative frequency and distribution of these fungal types (decay modes) have not been thoroughly assessed at a global scale; thus, the fate of one‐third of Earth's aboveground carbon, wood lignin, remains unclear.Using c. 1.5 million fungal sporocarp and c. 30 million tree records from publicly accessible databases, we mapped and compared decay mode and tree type (conifer vs angiosperm) distributions. Additionally, we mined fungal record metadata to assess substrate specificity per decay mode.The global average for BR fungi proportion (BR/(BR + WR records)) was 13% and geographic variation was positively correlated (R2 = 0.45) with conifer trees proportion (conifer/(conifer + angiosperm records)). Most BR species (61%) were conifer, rather than angiosperm (22%), specialists. The reverse was true for WR (conifer: 19%; angiosperm: 62%). Global BR proportion patterns were predicted with greater accuracy using the relative distributions of individual tree species (R2 = 0.82), rather than tree type.Fungal decay mode distributions can be explained by tree type and, more importantly, tree species distributions, which our data suggest is due to strong substrate specificities. [ABSTRACT FROM AUTHOR]

The Department of Beni, in the country of Bolivia, is thought to host a significant level of biodiversity as a result of its tropical, moist, and diverse climate and landscape. However, the biodiversity of Beni is also considered poorly known and understudied due to its inaccessible landscapes, socio-economic challenges, and an overall lack of biodiversity infrastructure. This emphasizes the need for comprehensive species inventories and the development of effective conservation policies and strategies. We conducted an assessment of biodiversity, environmental vulnerability, and conservation status of reptiles documented in Beni. We identified 169 reptile species, spanning three orders and twenty-five families that have been officially documented in Beni. Utilizing the Environmental Vulnerability Score (EVS), we classified these species into high (17.8%), medium (68.1%), and low (14.2%) vulnerability categories, while IUCN categorization revealed 1.8% of reptile species in Beni are classified as vulnerable and 0.6% as near threatened. We found significant differences in ecological drivers of vulnerability among species within all categories (high, medium, low), with habitat specificity and human persecution being significantly higher for high and medium-vulnerability species. Our results demonstrate the intricate vulnerabilities of Beni's reptiles, highlighting the need for comprehensive, species-specific conservation strategies and planning. Most importantly, our results offer a consolidated framework of information on reptile biodiversity and conservation for researchers, conservationists, and policymakers to use and build upon in the future that will facilitate the development of biodiversity infrastructure not only in the Department of Beni but throughout Bolivia and the Neotropics [ABSTRACT FROM AUTHOR]

Mutualisms are prevalent in many ecosystems, yet little is known about how symbioses are affected by ecological pressures. Here, we show delayed recovery for 13 coral‐dwelling goby fishes (genus Gobiodon) compared with their host Acropora corals following four consecutive cyclones and heatwaves. While corals became twice as abundant in 3 years postdisturbances, gobies were only half as abundant relative to predisturbances and half of the goby species disappeared. Although gobies primarily occupied one coral species in greater abundance predisturbances, surviving goby species shifted hosts to newly abundant coral species when their previously occupied hosts became rare postdisturbances. As host specialization is key for goby fitness, shifting hosts may have negative fitness consequences for gobies and corals alike and affect their survival in response to environmental changes. Our study is an early sign that mutualistic partners may not recover similarly from multiple disturbances, and that goby host plasticity, while potentially detrimental, may be the only possibility for early recovery. [ABSTRACT FROM AUTHOR]

Maintaining floristic diversity in recognized biodiversity hotspots is a priority for ecosystem conservation. However, different taxonomical treatments often lead to over or underestimation of floristic diversity in species-rich groups, in particular in Tropical regions as Mesoamerica where floristic surveys are less detailed. Also, understanding the effects of climate changes on species distribution is an emerging question of conservation biology and ecological studies. Here, we used the species-rich genus Piper (Piperaceae) in Veracruz, as a model system to compare reported and actual species richness and to model their occurrence under a climate change scenario. We compared morphological characters of specimens preserved in three of the main Mexican herbaria and then applied new taxonomical treatments. We also used environmental niche models (ENMs) as implemented in Maxent to detect the effects of climate changes on species with different levels of habitat specificity and with specialized biotic interactions. We found that from a total of 108 Piper species reported in Veracruz, 80 were consistent to the new taxonomical treatments due to synonymy or misidentification. ENMs showed that the main determinants of Piper distribution are linked to temperature and precipitations depending on the species. Therefore, different species are likely to respond differently to climate changes. As expected, species with higher habitat specificity and species exhibiting specialized mutualisms are more likely to experience niche contractions. This study shows the importance of reconsidering species richness and of modelling species distribution including specialized ecological interactions as prerequisite for establishing conservation criteria. [ABSTRACT FROM AUTHOR]

Background and Aims The evolution of ecological specialization is favoured under divergent selection imposed by increased environmental heterogeneity, although specialization can limit the geographical range of organisms, thus promoting endemism. The Atlantic Forest (AF) is an ancient montane domain with high plant endemism, containing different environments for plant specialization. Miconia is the most diverse genus of woody flowering plant within the AF domain, including AF-endemic and non-endemic lineages. We hypothesized that Miconia species have faced increased environmental heterogeneity and consequently have been selected towards increased specialization in the AF domain, and this increased specialization has greatly reduced species geographical ranges, ultimately promoting endemism. Hence, we made the following predictions: (1) AF-endemic species should face greater environmental heterogeneity than non-endemic species; (2) AF-endemic species should be more specialized than non-endemic species; (3) specialization should lead to smaller geographical ranges; (4) specialization and small geographical ranges among AF-endemic species should conform to a selection-driven evolutionary scenario rather than to a neutral evolutionary scenario; and (5) small geographical ranges among AF-endemic species should date back to the occupation of the AF domain rather than to more recent time periods. Methods We used geographical, environmental and phylogenetic data on a major Miconia clade including AF-endemic and non-endemic species. We calculated Rao's Q to estimate the environmental heterogeneity faced by species. We used georeferenced occurrences to estimate the geographical ranges of species. We applied environmental niche modelling to infer species niche breadth. We inferred the most likely evolutionary scenario for species geographical range and niche breadth via a model-fitting approach. We used ancestral reconstructions to evaluate species geographical range throughout time. Key Results Atlantic Forest-endemic species faced 33–60 % more environmental heterogeneity, with the increase being associated with montane landscapes in the AF. The AF-endemic species were 60 % more specialized overall, specifically over highly variable environmental gradients in AF montane landscapes. Specialization strongly predicted small geographical ranges among AF-endemic species and was a major range-limiting factor among endemic lineages. The AF-endemic species have evolved towards specialization and small geographical ranges under a selection-driven regime, probably imposed by the great environmental heterogeneity in AF montane landscapes. The AF-endemic species underwent a major reduction of geographical range immediately after their evolution, indicating a long-standing effect of selective pressures in the AF domain. Conclusion Environmental heterogeneity imposes selective pressures favouring ecological specialization and small geographical ranges among plant lineages in the AF domain. This selection-driven process has probably promoted plant endemism in the AF domain throughout its history. [ABSTRACT FROM AUTHOR]

In the Arctic ecosystems, fungi are crucial for interactions between soil and plants, the cycling of nutrients, and the transport of carbon. To date, no studies have been conducted to thoroughly examine the mycobiome and its functional role in various habitats of the High Arctic region. The aim was to unravel the mycobiome in the nine habitats (i.e., soil, lichen, vascular plant, moss, freshwater, seawater, marine sediment, dung, and marine alga) in the Ny-Ålesund Region (Svalbard, High Arctic) using a high-throughput sequencing approach. A total of 10,419 ASVs were detected. Among them, 7535 ASVs were assigned to unidentified phyla, while the remaining 2884 ASVs were assigned to 11 phyla, 33 classes, 81 orders, 151 families, 278 genera, and 261 species that were known. The distribution of the mycobiome was driven by habitat specificity, indicating that habitat filtering is a crucial factor influencing the fungal assemblages at a local scale in this High Arctic region. Six growth forms and 19 fungal guilds were found. The ecological guild (e.g., lichenized, ectomycorrhizal) and growth form (e.g., yeast, thallus photosynthetic) varied significantly among various habitats. In addition, the occurrence of 31 fungal species that are considered to be potential pathogens was determined. These results will increase our understanding of fungal diversity and its functional significance in this distinctive High Arctic area and thereby establish the groundwork for prediction about how the mycobiome will alter in various environments as a result of anticipated climate change. [ABSTRACT FROM AUTHOR]

Increasingly large presence-only survey datasets are becoming available for use in conservation assessments. Potentially, these records could be used to determine spatial patterns of plant species rarity and endemism. We test the integration of a large South Korean species record database with Rabinowitz rarity classes. Rabinowitz proposed seven classes of species rarity using three variables: geographic range, habitat specificity, and local population size. We estimated the range size and local abundance of 2,215 plant species from species occurrence records and habitat specificity as the number of landcover types each species' records were found in. We classified each species into a rarity class or as common, compared species composition by class to national lists, and mapped the spatial pattern of species richness for each rarity class. Species were classed to narrow or wide geographic ranges using 315 km, the average from a range size index of all species (D max), based on maximum distance between observations. There were four classes each within the narrow and wide range groups, sorted using cutoffs of local abundance and habitat specificity. Nationally listed endangered species only appeared in the narrow-range classes, while nationally listed endemic species appeared in almost all classes. Species richness in most rarity classes was high in northeastern South Korea especially for species with narrow ranges. Policy implications. Large presence-only surveys may be able to estimate some classes of rarity better than others, but modification to include estimates of local abundance and habitat types, could greatly increase their utility. Application of the Rabinowitz rarity framework to such surveys can extend their utility beyond species distribution models and can identify areas that need further surveys and for conservation priority. Future studies should be aware of the subjectivity of the rarity classification and that regional scale implementations of the framework may differ.

The insects trapped in 63 plots positioned in a mixed pinewood and a marsh in Schinias, Marathon, Greece is studied relative to the anthropogenic disturbance. The last anthropogenic impact was recently intensified because of the Olympic Games in the area. One hundred and forty insect species were found that had abundances greater than two individuals in each sampling session in all plots. Seven insect community types were found using cluster analysis. The types, which corresponded to recognized habitats, re-emerged in a non-metric multidimensional scaling ordination. It was also found that insects tended to dwell in different plots, even in the same habitat. The invading P. halepensis Mill., which replaces P. pinea L., changed the entomofauna. The seven habitats had different numbers of bioindicators out of 74 insect species, not in general correlated with human impact. Three components of insect diversity were measured, and the temporal species turnover was consistently higher than the spatial one. In this sense, pine habitats were rated first in terms of overall insect diversity. In terms of biodiversity, the impact on the various biotopes was assessed utilizing the diversity–equitability index V, which indicated that the two P. halepensis-dominated habitats have negative V values together with the habitat dominated by Tamarix hampeana Nied. The conservation of P. pinea and the marsh habitats is recommended for conserving local entomofauna and stopping the progression of P. halepensis. The optimization of management strategies to meet the management goals of all elements of this degraded ecosystem seems to be crucial. [ABSTRACT FROM AUTHOR]

Little is known about the ichthyofauna from intertidal rock pools of the west coast of Africa, especially in the Gulf of Guinea. Rock pools are characteristic habitats of the intertidal zone of structurally complex rocky shores, adding important niche space to coastal fish species. In this study, rock pools of three similar rocky shores of Príncipe Island were sampled to describe the composition, abundance and distribution of fish assemblages and their relation to parameters of pool structure (volume, depth), water mass (temperature, salinity and pH) and biology (algal and coral cover, and biological species richness). A total of 18 fish species and one leptocephalus larva of unknown species, representing 13 families, were observed during sampling. In decreasing order, the five-most-abundant species were the goby Bathygobius burtoni, night sergeant Abudefduf taurus, West African rockhopper Entomacrodus cadenati, sailfin blenny Microlipophrys velifer and Biafra doctorfish Prionurus biafraensis, which together represented 81% of the total number of fish recorded during this study. The four-most-abundant species also proved to be the better adapted to the range of conditions found in rock pools. Overall, larger rock pools with minimal biological cover and higher salinity were found to support higher fish abundance and species richness. Most species individually preferred rock pools with larger volumes, but some presented a degree of habitat specificity, such as the absence or presence of biological cover. Species that were more-active swimmers preferred deeper pools. [ABSTRACT FROM AUTHOR]

Habitat loss and fragmentation caused by urbanization often have negative impacts on wildlife in cities. There are considerable studies investigating the relationship between species traits and fragmentation vulnerability. However, so far, very few studies have examined the influence of species traits combined with landscape factors on vulnerability to urbanization in urbanized landscapes. In this study, we investigated how species traits and park characteristics influenced bird sensitivity to urbanization in the highly urbanized city of Nanjing, China. We used the line-transect method to survey birds in 37 urban parks. For each bird species, we collected data on nine life-history and ecological traits that are commonly assumed to influence urbanization vulnerability. For each park, we selected six landscape variables that are commonly considered to influence bird response to urbanization. After phylogenetic correction, the nine species traits were used separately and in combination to evaluate their associations with species abundance, an indicator of urbanization vulnerability. We then used the RLQ and fourth-corner analyses to test relationships between species traits and environmental variables. We found that the 75 species analyzed demonstrated considerable variation in vulnerability to urbanization. Using PGLS analyses and model averaging, we found that habitat specificity was the single best ecological predictor of urbanization vulnerability in birds in Nanjing city parks. The RLQ analysis showed that body size and habitat specificity were correlated with distance to city center and connectivity of the parks, reflecting strong effects of trait-mediated environmental filters that selectively benefit species with smaller body mass and lower habitat specificity in urbanized landscape. Therefore, conservation efforts giving priority to species with high habitat specificity and to parks with high connectivity and far away from the city center may prove effective for the preservation of bird diversity in our highly urbanized system. Meanwhile, preventing future habitat loss and destruction in existing city parks may also effectively conserve these vulnerable species.

ABSTRACT Microorganisms dominate all ecosystems on Earth and play a key role in the turnover of organic matter. By producing enzymes, they degrade complex carbohydrates, facilitating the recycling of nutrients and controlling the carbon cycle. Despite their importance, our knowledge regarding microbial carbohydrate utilization has been limited to genome-sequenced taxa and thus heavily biased to specific groups and environments. Here, we used the Genomes from Earth’s Microbiomes (GEM) catalog to describe the carbohydrate utilization potential in >7000 bacterial and archaeal taxa originating from a range of terrestrial, marine and host-associated habitats. We show that the production of carbohydrate-active enzymes (CAZymes) is phylogenetically conserved and varies significantly among microbial phyla. High numbers of carbohydrate-active enzymes were recorded in phyla known for their versatile use of carbohydrates, such as Firmicutes, Fibrobacterota, and Armatimonadota, but also phyla without cultured representatives whose carbohydrate utilization potential was so far unknown, such as KSB1, Hydrogenedentota, Sumerlaeota, and UBP3. Carbohydrate utilization potential reflected the specificity of various habitats: the richest complements of CAZymes were observed in MAGs of plant microbiomes, indicating the structural complexity of plant biopolymers. IMPORTANCE This study expanded our knowledge of the phylogenetic distribution of carbohydrate-active enzymes across prokaryotic tree of life, including new phyla where the carbohydrate-active enzymes composition have not been described until now and demonstrated the potential for carbohydrate utilization of numerous yet uncultured phyla. Profiles of carbohydrate-active enzymes are largely habitat-specific and reflect local carbohydrate availability by selecting taxa with appropriate complements of these enzymes. This information should aid in the prediction of functions in microbiomes of known taxonomic composition and helps to identify key components of habitat-specific carbohydrate pools. In addition, these findings have a high relevance for the understanding of carbohydrate utilization and carbon cycling in the environment, the process that is closely link to the carbon storage potential of Earth habitats and the production of greenhouse gasses.

Despite advances in recent years, there remains a lack of information on the habitat specificity of many aquatic insects, especially for the most recently described taxa and for very diverse regions such as the Amazon. This study evaluates the relationship between niche breadth and habitat specificity of aquatic insects in 219 streams. Local environmental variation in streams impacted by multiple land uses have resulted in distinct assemblages in each region. An Outlying Mean Index analysis was use to evaluate niche position and revealed that environmental changes could favor specialist insects. For example, streams impacted in one of the regions had higher values of depth, dissolved oxygen, percentage of roots, and percentage of wood in the substrate. These conditions contributed to the occurrence of the locally tolerant Hydrosmilodon and Zelusia genera, as well as the locally sensitive genera Harpagobaetis, Leptohyphes, and Traverhyphes. Results showed that some taxa from each regional assemblage occupying less often occupied habitats, and these taxa are represented by few individuals and with a low frequency of occurrence. The knowledge generated here is important for protecting habitats and maintaining the local biodiversity of aquatic systems in the Amazon impacted by multiple lands uses and land conversion activities. [ABSTRACT FROM AUTHOR]

Summary: Species differ dramatically in their prevalence in the natural world, with many species characterized as rare due to restricted geographic distribution, low local abundance and/or habitat specialization.We investigated the ecoevolutionary causes and consequences of rarity with phylogenetically controlled metaanalyses of population genetic diversity, fitness and functional traits in rare and common congeneric plant species. Our syntheses included 252 rare species and 267 common congeners reported in 153 peer‐reviewed articles published from 1978 to 2020 and one manuscript in press.Rare species have reduced population genetic diversity, depressed fitness and smaller reproductive structures than common congeners. Rare species also could suffer from inbreeding depression and reduced fertilization efficiency.By limiting their capacity to adapt and migrate, these characteristics could influence contemporary patterns of rarity and increase the susceptibility of rare species to rapid environmental change. We recommend that future studies present more nuanced data on the extent of rarity in focal species, expose rare and common species to ecologically relevant treatments, including reciprocal transplants, and conduct quantitative genetic and population genomic analyses across a greater array of systems. This research could elucidate the processes that contribute to rarity and generate robust predictions of extinction risks under global change. [ABSTRACT FROM AUTHOR]

The ventral surfaces of translucent rocks from hot desert pavements often harbor hypolithic microbial communities, which are mostly dominated by cyanobacteria. The Namib Desert fog belt supports extensive hypolithic colonization of quartz rocks, which are also colonized by lichens on their dorsal surfaces. Here, we aim to evaluate whether lichens colonize the ventral surface of the rocks (i.e., show hypolithic lifestyle) and compare the bacterial composition of these coastal hypolithic communities with those found inland. Fungal DNA barcoding and fungal and bacterial Illumina metabarcoding were combined with electron microscopy to characterize the composition and spatial structure of hypolithic communities from two (coastal and inland) areas in the Namib Desert. We report, for the first time, the structure and composition of lichen-dominated hypolithic communities found in the coastal zone of the Namib Desert with extensive epilithic lichen cover. Lichen modified areoles with inverted morphology of the genus Stellarangia (three lineages) and Buellia (two lineages) were the main components of these hypolithic communities. Some of these lineages were also found in epilithic habitats. These lichen-dominated hypolithic communities differed in structural organization and bacterial community composition from those found in inland areas. The hypolithic lichen colonization characterized here seems not to be an extension of epilithic or biological soil crust lichen growths but the result of specific sublithic microenvironmental conditions. Moisture derived from fog and dew could be the main driver of this unique colonization. [ABSTRACT FROM AUTHOR]

Characterizing the diversity and structure of host–parasite communities is crucial to understanding their eco-evolutionary dynamics. Malaria and related haemosporidian parasites are responsible for fitness loss and mortality in bird species worldwide. However, despite exhibiting the greatest ornithological biodiversity, avian haemosporidians from Neotropical regions are quite unexplored. Here, we analyze the genetic diversity of bird haemosporidian parasites (Plasmodium and Haemoproteus) in 1,336 individuals belonging to 206 bird species to explore for differences in diversity of parasite lineages and bird species across 5 well-differentiated Peruvian ecoregions. We detected 70 different haemosporidian lineages infecting 74 bird species. We showed that 25 out of the 70 haplotypes had not been previously recorded. Moreover, we also identified 81 new host–parasite interactions representing new host records for these haemosporidian parasites. Our outcomes revealed that the effective diversity (as well as the richness, abundance, and Shannon–Weaver index) for both birds and parasite lineages was higher in Amazon basin ecoregions. Furthermore, we also showed that ecoregions with greater diversity of bird species also had high parasite richness, hence suggesting that host community is crucial in explaining parasite richness. Generalist parasites were found in ecoregions with lower bird diversity, implying that the abundance and richness of hosts may shape the exploitation strategy followed by haemosporidian parasites. These outcomes reveal that Neotropical region is a major reservoir of unidentified haemosporidian lineages. Further studies analyzing host distribution and specificity of these parasites in the tropics will provide important knowledge about phylogenetic relationships, phylogeography, and patterns of evolution and distribution of haemosporidian parasites. [ABSTRACT FROM AUTHOR]

Habitat loss and fragmentation caused by urbanization often have negative impacts on wildlife in cities. There are considerable studies investigating the relationship between species traits and fragmentation vulnerability. However, so far, very few studies have examined the influence of species traits combined with landscape factors on vulnerability to urbanization in urbanized landscapes. In this study, we investigated how species traits and park characteristics influenced bird sensitivity to urbanization in the highly urbanized city of Nanjing, China. We used the line-transect method to survey birds in 37 urban parks. For each bird species, we collected data on nine life-history and ecological traits that are commonly assumed to influence urbanization vulnerability. For each park, we selected six landscape variables that are commonly considered to influence bird response to urbanization. After phylogenetic correction, the nine species traits were used separately and in combination to evaluate their associations with species abundance, an indicator of urbanization vulnerability. We then used the RLQ and fourth-corner analyses to test relationships between species traits and environmental variables. We found that the 75 species analyzed demonstrated considerable variation in vulnerability to urbanization. Using PGLS analyses and model averaging, we found that habitat specificity was the single best ecological predictor of urbanization vulnerability in birds in Nanjing city parks. The RLQ analysis showed that body size and habitat specificity were correlated with distance to city center and connectivity of the parks, reflecting strong effects of trait-mediated environmental filters that selectively benefit species with smaller body mass and lower habitat specificity in urbanized landscape. Therefore, conservation efforts giving priority to species with high habitat specificity and to parks with high connectivity and far away from the city center may prove effective for the preservation of bird diversity in our highly urbanized system. Meanwhile, preventing future habitat loss and destruction in existing city parks may also effectively conserve these vulnerable species. [ABSTRACT FROM AUTHOR]

Nestedness is an important pattern frequently reported for species assemblages on islands or fragmented systems. However, to date, there are few studies that comprehensively investigated faunal nestedness and underlying processes in urbanized landscapes. In this study, we examined the nestedness of bird assemblages and its underlying causal mechanisms in 37 urban parks in Nanjing, China. We used the line-transect method to survey birds from April 2019 to January 2020. We used the Weighted Nestedness metric based on Overlap and Decreasing Fill (WNODF) to estimate the nestedness of bird assemblages. We applied spearman partial correlation test to examine the relationships between nestedness ranks of sites and park characteristics (area, isolation, anthropogenic noise, number of habitat types, and building index), as well as between nestedness ranks of species and their ecological traits (body size, geographic range size, clutch size, minimum area requirement, dispersal ratio, and habitat specificity). We found that bird assemblages in urban parks were significantly nested. Park area, habitat diversity, building index, habitat specificity, and minimum area requirement of birds were significantly correlated with nestedness. Therefore, the nestedness of bird assemblages was caused by selective extinction, habitat nestedness, and urbanization. However, the nestedness of bird assemblages did not result from passive sampling, selective colonization, or human disturbance. Overall, to maximize the number of species preserved in our system, conservation priority should be given to parks with large area, rich habitat diversity, and less building index. From a species perspective, we should focus on species with large area requirement and high habitat specificity for their effective conservation. [ABSTRACT FROM AUTHOR]

Acidophilic fungi are characterized by their ability to tolerate very low pH conditions and to grow optimally below pH 5. The genus Acidiella (Dothideomycetes, Capnodiales, Teratosphaeriaceae) comprises acidophilic and acidotolerant fungi that are commonly distributed in highly acidic soils, drainages and waters worldwide. This study revises Acidiella taxonomy and provides alternative DNA barcodes. The morphological characteristics were revaluated by the investigation of conidial ontogeny, and knowledge of the ecology and biogeography of the genus is summarized. The new species Acidiella polonica isolated from highly acid (pH 2.7–3.8) technogenic soil developed on mine spoils in Poland is described here. This species is distinguishable by genetic markers, morphology and its ability to grow at pH 1. Based on DNA sequence and morphological comparisons, we also show that Acidiella uranophila (syn. Fodinomyces uranophilus) is a synonym of Acidiella bohemica. Among all species, A. bohemica is the most commonly isolated and is widely distributed over four continents. Interestingly, its distribution at the global scale is limited to extremely acidic substrates (pH < 4.0), often with high heavy metal toxicity, where it represents a dominant proportion of the mycobiota. Previous studies have also indicated its biotechnological potential in the bioaccumulation of rare earth elements and in mycoremediation. Other species are rare, and as in the case of A. americana and two undescribed species, they can also occur in non-acidic pH environments. [ABSTRACT FROM AUTHOR]

The generality and drivers of rarity, defined along the axes of geographic range, population size and habitat specificity, have received considerable scientific attention for well over a century. Yet, studies that examine rarity holistically among these three attributes are limited, especially among invertebrate and marine taxa. The perceived paradox of deep‐sea species, with often low population size but large geographic ranges, remains poorly resolved and understood. Here I assess seven forms of rarity and their drivers in deep‐sea bivalves across the Atlantic Ocean. Rarity appears to be a common trait among deep‐sea bivalves, with nearly 85% of the species exhibiting some form of rarity. Bivalves also showed a strong bimodal pattern of very common and very rare species. Geographic range, population size and habitat specificity were all heavily right skewed. Taxonomic superfamilies, body size, energy availability, temperature, depth and latitude, all significantly predicted geographic range, population size and habitat specificity. In a few cases, these patterns were counter to theoretical expectations. The drivers of rarity appear to be predictable from knowledge of the intrinsic biological and extrinsic environmental context of the species. These findings have major implications for deep‐sea conversation, especially as anthropogenic threats are increasing. [ABSTRACT FROM AUTHOR]

Abstract Increasingly large presence‐only survey datasets are becoming available for use in conservation assessments. Potentially, these records could be used to determine spatial patterns of plant species rarity and endemism. We test the integration of a large South Korean species record database with Rabinowitz rarity classes. Rabinowitz proposed seven classes of species rarity using three variables: geographic range, habitat specificity, and local population size. We estimated the range size and local abundance of 2,215 plant species from species occurrence records and habitat specificity as the number of landcover types each species’ records were found in. We classified each species into a rarity class or as common, compared species composition by class to national lists, and mapped the spatial pattern of species richness for each rarity class. Species were classed to narrow or wide geographic ranges using 315 km, the average from a range size index of all species (Dmax), based on maximum distance between observations. There were four classes each within the narrow and wide range groups, sorted using cutoffs of local abundance and habitat specificity. Nationally listed endangered species only appeared in the narrow‐range classes, while nationally listed endemic species appeared in almost all classes. Species richness in most rarity classes was high in northeastern South Korea especially for species with narrow ranges. Policy implications. Large presence‐only surveys may be able to estimate some classes of rarity better than others, but modification to include estimates of local abundance and habitat types, could greatly increase their utility. Application of the Rabinowitz rarity framework to such surveys can extend their utility beyond species distribution models and can identify areas that need further surveys and for conservation priority. Future studies should be aware of the subjectivity of the rarity classification and that regional scale implementations of the framework may differ.

Aim: Stopping the decline of biodiversity is one of today's greatest challenges. To help address this, we require studies that disentangle the effects of the most important drivers behind species range losses and shifts. In this large‐scale study, we aim to evaluate the relative impacts of changes in land use and climate on distributional changes in grasshoppers. Location: Central Europe. Time period: Historical (pre‐1990 vs. 1990–1999); recent (1990–1999 vs. 2000–2017). Major taxa studied: Orthoptera (hereafter referred to as grasshoppers). Methods: We used an advanced modelling approach within the framework of spatial point pattern analysis (SPPA) to calculate distributional changes of 58 grasshopper species based on > 100,000 aggregated observational records. Historical and recent range shifts were compared among four functional groups and analysed against: (a) the species temperature index (STI); and (b) the species farmland index (SFI). Results: During the earlier historical period, most species suffered from large range losses, with habitat specialists declining more than generalists with equal mobility. Range retractions were related to species with high SFI values; that is, species associated with farmland having a high natural value. In contrast, during the recent period the distribution of less mobile species generally remained stable, whereas highly mobile species even expanded their ranges, irrespective of their habitat specificity. Additionally, range expansions occurred mostly among thermophilic species; that is, those with high STI values. Main conclusions: This is the first large‐scale study world‐wide that quantifies both historical and recent range shifts of numerous grasshopper species. Our results suggest that historical range losses were mainly caused by severe loss of semi‐natural habitats pre‐1990. Recently, global warming has led to range expansions of several grasshopper species. The challenge now is to ensure the persistence of species that might not be able to evade future climate change owing to the increasing lack of suitable refuge habitats in intensive agricultural landscapes. [ABSTRACT FROM AUTHOR]

In stratified lakes, methane-oxidizing bacteria (MOB) are strongly mitigating methane fluxes to the atmosphere by consuming methane entering the water column from the sediments. MOB communities in lakes are diverse and vertically structured, but their spatio-temporal dynamics along the water column as well as physico-chemical parameters and interactions with other bacterial species that drive the community assembly have so far not been explored in depth. Here, we present a detailed investigation of the MOB and bacterial community composition and a large set of physico-chemical parameters in a shallow, seasonally stratified, and sub-alpine lake. Four highly resolved vertical profiles were sampled in three different years and during various stages of development of the stratified water column. Non-randomly assembled MOB communities were detected in all compartments. We could identify methane and oxygen gradients and physico-chemical parameters like pH, light, available copper and iron, and total dissolved nitrogen as important drivers of the MOB community structure. In addition, MOB were well-integrated into a bacterial-environmental network. Partial redundancy analysis of the relevance network of physico-chemical variables and bacteria explained up to 84% of the MOB abundances. Spatio-temporal MOB community changes were 51% congruent with shifts in the total bacterial community and 22% of variance in MOB abundances could be explained exclusively by the bacterial community composition. Our results show that microbial interactions may play an important role in structuring the MOB community along the depth gradient of stratified lakes. [ABSTRACT FROM AUTHOR]

Hypotheses about the mechanisms of community assembly suggest that biotic and abiotic filters constrain species establishment through selection on their functional traits. It is unclear how differences in traits influence the niche dimensions of closely related bird species when they coexist in spatiotemporally heterogeneous environments. Further, it is necessary to take into account their participation in mixed‐species flocks, social systems that can include both competition and facilitation. For 6 yr, we conducted counts of forest bird species and took measurements of environmental variables along an elevational gradient in the Nanling Mountains, China. To disentangle different deterministic and historical/stochastic processes between flocking and nonflocking bird assemblages, we first compared phylogenetic and functional structure, and community‐weighted mean trait values (CWM). We further assessed elevational variations in trait–environment relationships. We found that the flocking and nonflocking bird assemblages were structured by environmental gradients in contrasting ways. The nonflocking assemblage showed a strong change from over‐dispersed to clustered community structure with increasing elevations, consistent with the strong selective pressures of a harsh environment (i.e., environmental filtering). The nonflocking assemblage also displayed significant trait–environment relationships in bivariate correlations and multivariate ordination space, including specific morphological and foraging traits that are linked to vegetation characteristics (e.g., short trees at high elevations). By contrast, flocking birds were more resilient to habitat change with elevation, with relatively consistent community membership, and showed fewer trait–environment associations. CWM of traits that are known to be associated with species' propensity to join mixed‐species flocks, including small body size and broad habitat specificity, were linked to the flocking assemblage consistently across the elevational gradient. Collectively, our trait‐based analyses provide strong evidence that trait–environment relationships differ between flocking and nonflocking bird assemblages. Besides serving as bellwethers of changing environments, emergent properties of flock systems may increase the resilience of animal communities undergoing environmental change. Mixed‐species flocks present an ideal model with which to explore cooccurrence of closely related species, because habitat filtering may be buffered, and the patterns observed are therefore the outcomes of species interactions including both competition and facilitation. [ABSTRACT FROM AUTHOR]

Anthropogenic land‐use change causes substantial changes in local and global biodiversity. Rare and common species can differ in sensitivity to land‐use change; rare species are expected to be affected more negatively. Rarity may be defined in terms of geographic range size, population density, or breadth of habitat requirements. How these 3 forms of rarity interact in determining global responses to land use is yet to be assessed. Using global data representing 912 vertebrate species, we tested for differences in responses to land use of species characterized by different types of rarity. Land‐use responses were fitted using generalized linear mixed‐effects models, allowing responses to vary among groups of species with different forms of rarity. Species considered rare with respect to all 3 forms of rarity showed particularly strong declines in disturbed land uses (>40% of species and 30% of individuals in the most disturbed land uses). In contrast, species common both geographically and numerically and with broad habitat requirements showed strong increases (up to 90% increase in species and 40% in abundance in some land uses). Our results suggest that efforts to understand the vulnerability of species to environmental changes should account for different types of rarity where possible. Our results also have potentially important implications for ecosystem functioning, given that rare species may play unique roles within ecosystems. Article impact statement: Rare species show stronger negative responses to anthropogenic land use than common species. [ABSTRACT FROM AUTHOR]

Astragalus exscapus L. subsp. transsilvanicus (Schur) Nyár. (Fabaceae) is a rare plant endemic to the Transylvanian Plateau, represented by 24 identified populations. Limited information on the genetic variation and population structure is available, which obstructs efficient measures for conservation strategy. The present study aimed to analyze the genetic diversity and population structure of eight populations of A. exscapus subsp. transsilvanicus revealed by sequence-related amplified polymorphism (SRAP) markers. A total of 164 bands were amplified, 96.7% of which (159) were polymorphic. Nei’s gene diversity index (He) was estimated to be 0.228 at the population level and 0.272 at the subspecies level. The genetic differentiation among populations (Gst) was 0.165, which indicated a low proportion of total genetic diversity. The analysis of molecular variance (AMOVA) indicated that 17% of the total variation of A. exscapus subsp. transsilvanicus is found among the populations, while 83% was found within the populations. A UPGMA dendrogram, principal coordinate analysis, and the STRUCTURE software grouped the populations into two clusters uncorrelated with the provenience of the 125 individuals, which might be attributed to fragmentation processes, insect pollination, population size, and specific environmental conditions of the habitats.

The IUCN Red List of threatened species is recognised as the accepted standard for species global extinction risk worldwide, and the criteria led down for evaluation are considered as one of the best methods to evaluate extinction risk of species at the global and regional levels.The IUCN's Red List categories are given more emphasis in determining the conservation status of species and for prioritizing conservation strategies upon these threatened species. The guidelines for evaluation are laid down comprehensively to minimize errors and to maintain consistency of Red List assessments across taxa. However in some cases, it seems that the assessments based on current IUCN criteria do not accurately reflect the real extinction risk of some taxonomic groups. This is not owing to the quality or quantity of the data produced, but rather to some methodological artifacts that affects certain groups of taxa. In this paper we discuss such an event considering an aquatic plant group; genus Aponogeton; from Sri Lanka. All the known Sri Lankan Aponogeton species have been evaluated under the Criteria B adhering to the given IUCN guidelines and the results suggest that such smaller aquatic plants with high habitat specificity are at a disadvantage when securing their conservation statuses, and thereby lose the protection they deserve through legislations. This study emphasises the obligation of much comprehensive evaluation criteria to estimate the AOO in different plant categories. [ABSTRACT FROM AUTHOR]

Islands are vulnerable ecosystems worldwide, increasingly exposed to human pressure, global climate change and invasive species. Thus, understanding island species diversity is key for nature conservation. Recent studies on insular plant communities indicated that habitat-specific species composition and richness might largely affect diversity patterns observed at the island scale. In consequence, habitat-based approaches are needed to (i) estimate how environmental changes at the habitat scale may affect island diversity, and to (ii) estimate the contribution of different patches of the same habitat to island diversity with respect to habitat-specific environmental constraints. In the present study, we tested these habitat-to-island diversity relationships for shoreline habitats (brackish reeds, salt marsh, rocky shore, tall herbs) and island interior habitats (rocks, semi-natural grassland, pioneer forest, coniferous forest, mixed forest) using 108 islands of three Baltic archipelagos in Sweden. These islands differed in terms of island-scale variables describing effects of island configuration and distance, and habitat-scale variables representing the effects of habitat area, abiotic environment and land-use. The studied habitats differed in their contribution to island species diversity, called habitat specificity. Shoreline habitats shared many common specialist species adapted to extreme conditions like sea salt or bird grazing, while habitats of the island interior harbored mainly species adapted to the specific conditions of a single habitat. We found high variability in habitat specificity as a consequence of habitat-specific environmental factors. Variability was highest for grasslands, where it was related to abandonment and soil fertility, stressing the importance of grassland management for maintaining island biodiversity. Habitats with high habitat specificity through either high species richness or many habitat-specific specialists should be the primary targets for biodiversity management. [ABSTRACT FROM AUTHOR]

Patterns of dispersal behavior are often driven by the composition and configuration of suitable habitat in a matrix of unsuitable habitat. Interactions between animal behavior and landscapes can therefore influence population dynamics, population and species distributions, population genetic structure, and the evolution of behavior. Spatially explicit individual-based models (IBMs) are ideal tools for exploring the effects of landscape structure on dispersal. We developed an empirically parameterized IBM in the modeling framework SEARCH to simulate dispersal of translocated American martens in Wisconsin. We tested the hypothesis that a time-limited disperser should be willing to settle in lower quality habitat over time. To evaluate model performance, we used a pattern-oriented modeling approach. Our best model matched all empirical dispersal patterns (e.g. dispersal distance) except time to settlement. This model incorporated a required search phase as well as the mechanism for declining habitat selectivity over time, which represents the first demonstration of this hypothesis for a vertebrate species. We suggest that temporal plasticity in habitat selectivity allows individuals to maximize fitness by making a tradeoff between habitat quality and risk of mortality. Our IBM is pragmatic in that it addresses a management need for a species of conservation concern. However, our model is also paradigmatic in that we explicitly tested a theory of dispersal behavior. Linking these 2 approaches to ecological modeling can further the utility of individual-based modeling and provide direction for future theoretical and empirical work on animal behavior. [ABSTRACT FROM AUTHOR]

The plant Mollinedia stenophylla Perkins (Monimiaceae) is endemic to southern Brazil and, until 2015, had not been seen for 122 years. We located a single population of the species on the margin of a watercourse in the mountainous region of Rio de Janeiro state. We describe the location of the species, comment on its morphology, ecology and conservation, assess its conservation status, propose conservation measures, and discuss the potential value of local action plans for this and other narrow endemic plant species. Mollinedia stenophylla has whorled leaves, clonal reproduction and a low height, unusual traits in the genus Mollinedia. Using the IUCN Red List criteria we assess the species as Critically Endangered. This example highlights the importance of investing time in plant surveys and taxonomy, especially in megadiverse countries such as Brazil. [ABSTRACT FROM AUTHOR]

Small remnants of non-arable habitat within the farmland mosaic are considered important for the conservation of farmland biodiversity, but their contribution to landscape-scale species richness is poorly understood. In the present study, we examined the relative contributions of different habitat types to the landscape-scale species richness of vascular plants within farmland of varying landscape complexity. We also analysed pollen collected by bees to examine the extent to which the different habitat types contributed towards the provisioning of floral resources for three taxa ( Bombus terrrestris , Megachile sp. and Osmia bicornis ). We found that plant species richness increased with landscape complexity (defined as the proportion of semi-natural habitats). The relative contribution of small fragments of non-arable habitat to total plant species richness was high within all landscape types, especially in relation to the small area they covered. The importance of small non-arable fragments for the provisioning of floral resources to bees varied over time and between taxa. Bombus terrestris used the different habitat types differently during different parts of the growing season: arable fields were important early in the season, leys late in the season, and small non-arable habitat fragments during the mid-season when no mass-flowering crops were in bloom. In contrast, Megachile sp. and O. bicornis mainly foraged on plants occurring within grasslands. We conclude that small fragments of non-arable habitat are important for plant species richness at the landscape-scale and that their importance for plants may cascade to the bees that use them as foraging resources. Consequently, it is important to consider the entire landscape mosaic when taking actions to conserve farmland species. [ABSTRACT FROM AUTHOR]

Background: Variable habitat conditions contribute to morphological variability that plays a substantial part in evolution of plants. Understanding the extent of phenotypic plasticity has important implication for assigning individuals to taxa. Aims: I analysed morphological variability among populations within species of the Carex flava group and tested to what extent morphological variability was associated with habitat conditions. Methods: A total of 571 specimens from 20 populations of four species from the C. flava complex were sampled in Poland and tested by Discriminant Function Analysis (DFA). The relationship between morphological characters and habitat factors was explored by means of the redundancy analysis (RDA). Results: Variability of the generative and vegetative traits was fairly similar in Carex lepidocarpa, C. flava and Carex demissa, while it was somewhat higher in Carex viridula. The morphological traits were mostly related to soil organic matter content, calcium and carbonate, as well as to habitat fertility (C:N ratio), elevation and habitat disturbance. The results obtained do not support the separation of C. viridula var. pulchella from C. viridula var. viridula. Conclusions: Phenotypic variability in the species of the C. flava complex is related to habitat conditions and this can lead to the differentiation of morphotypes within species. [ABSTRACT FROM AUTHOR]

Habitat specificity is the most important factor affecting the regional distribution of dragonflies. Nevertheless, species with the highest specificity are not always the scarcest. Several important determinants of dragonfly density-distribution relationships were identified. Altitude preference and altitude range are significantly associated with dragonfly distribution. Some of the species that are habitat specialists but occur over a wide range of altitudes should be classified as rare but not endangered. This very simple principle is based on the assumption that habitat specialists have a very limited number of suitable biotopes. Obviously, dragonflies with a marginal distribution prefer a narrow range of altitudes (especially in terms of temperature limitation) and biotopes (effect of biogeography, marginality). Surprisingly, there is no "critical" life stage that is significantly associated with the regional distribution of dragonflies, although most species spend most time in the larval stage. Knowledge of the dispersal ability of particular species is limited, although it could significantly affect species survival and distribution.

Methane-oxidizing bacteria are characterized by their capability to grow on methane as sole source of carbon and energy. Cultivation-dependent and –independent methods have revealed that this functional guild of bacteria comprises a substantial diversity of organisms. In particular the use of cultivation-independent methods targeting a subunit of the particulate methane monooxygenase (pmoA) as functional marker for the detection of aerobic methanotrophs has resulted in thousands of sequences representing unknown methanotrophic bacteria. This limits data interpretation due to restricted information about these uncultured methanotrophs. A few groups of uncultivated methanotrophs are assumed to play important roles in methane oxidation in specific habitats, while the biology behind other sequence clusters remains still largely unknown. The discovery of evolutionary related monooxygenases in non-methanotrophic bacteria and of pmoA paralogs in methanotrophs requires that sequence clusters of uncultivated organisms have to be interpreted with care. This review article describes the present diversity of cultivated and uncultivated aerobic methanotrophic bacteria based on pmoA gene sequence diversity. It summarizes current knowledge about cultivated and major clusters of uncultivated methanotrophic bacteria and evaluates habitat specificity of these bacteria at different levels of taxonomic resolution. Habitat specificity exists for diverse lineages and at different taxonomic levels. Methanotrophic genera such as Methylocystis and Methylocaldum are identified as generalists, but they harbor habitat specific methanotrophs at species level. This finding implies that future studies should consider these diverging preferences at different taxonomic levels when analyzing methanotrophic communities.

Aims The effects of pastoralism on grassy vegetation are predicted to vary across spatial scales. However, local-scale effects have generally been better considered than large-scale effects that may be pertinent for plant diversity conservation. We examined variation in plant diversity in an agricultural region by comparing patterns observed at large and local scales for different land uses. We tested whether habitat specificity (which relates to how specific different species are to particular land uses) can indicate the importance of land uses to plant diversity conservation. Location Northwest Slopes of New South Wales, Australia. Methods We surveyed 127 quadrats of grassy vegetation across four land uses: previously cultivated and never-cultivated native pastures, grazed woodland and ungrazed woodlands (grazing refugia). We assessed (1) species density at the quadrat scale, (2) correlations among explanatory variables and species composition using ordination techniques, and (3) habitat specificity at the regional scale using the γ-diversity contribution index. Results At the quadrat scale, differences in species density among land uses were not pronounced. In contrast, habitat specificity was highest in ungrazed, unfertilized woodlands. Land uses that were grazed, cleared of trees and fertilized were generally species dense at the quadrat scale (>40 species 400 m−2), but were comprised of a limited suite of native and exotic grasses and forbs, with relatively homogeneous composition across the region. Conclusions In the region studied, grazing refugia with no tree clearing or history of fertilizer application were valuable for conserving a large number of native species, and so should be protected. Such land uses are currently rare in the region. Simple measures of native or total species density were insufficient for evaluating conservation value, as they did not distinguish habitats with large numbers of common, generalist native species from those with species that were rare or restricted in the region. Analyses of habitat specificity may potentially overcome the pitfalls of basing conservation management decisions on local-scale measures. Our results also highlighted a need to understand the processes associated with management practices that serve to reduce species diversity at landscape and regional scales. [ABSTRACT FROM AUTHOR]

Background:Phenotypic variations have been observed in populations of west CubanPinguiculaspecies. Such populations occur in patches under different ecological conditions associated with specialised habitats and separated by geographical and ecological barriers, which can lead to morphological differentiation. Aims:To analyse morphological diversity among species and populations of CubanPinguicula; and to test if morphological variability is associated with geographical distribution and distance between populations. Methods:We sampled a total of eight populations ofP. albida,P. cubensisandP. filifoliaand tested for morphometric differences among them by Principal Component Analysis (PCA) and analysis of variance (ANOVA) based on 31 quantitative traits. We also assessed the geographical isolation with respect to morphological distance. Results:The studied species showed high morphological variability at both species and population level. Reproductive characteristics appeared to be more promissory than vegetative ones in distinguishing geographical groups since they clearly defined populations; nevertheless a strong component of individual variation was observed. According to the distance analysis, such morphological variations were correlated with fragmented populations and isolation and allowed the differentiation of two morphotypes ofP. albidaand two ofP. filifolia. Conclusions:We conclude that high phenotypic variation of the analysed species is related to geographical and ecological isolation which have led to the differentiation of morphotypes within species. [ABSTRACT FROM PUBLISHER]

Plant diversity is threatened in many agricultural landscapes. Our understanding of patterns of plant diversity in these landscapes is mainly based on small-scale (<1000 m2) observations of species richness. However, such observations are insufficient for detecting the spatial heterogeneity of vegetation composition. In a case-study farm on the North- West Slopes of New South Wales, Australia, we observed species richness at four scales (quadrat, patch, land use and landscape) across five land uses (grazed and ungrazed woodlands, native pastures, roadsides and crops). We applied two landscape ecological models to assess the contribution of these land uses to landscape species richness: (i) additive partitioning of diversity at multiple spatial scales, and (ii) a measure of habitat specificity - the effective number of species that a patch contributes to landscape species richness. Native pastures had less variation between patches than grazed and ungrazed woodlands, and hence were less species-rich at the landscape scale, despite having similar richness to woodlands at the quadrat and patch scale. Habitat specificity was significantly higher for ungrazed woodland patches than all other land uses. Our results showed that in this landscape, ungrazed woodland patches had a higher contribution than the grazed land uses to landscape species richness. These results have implications for the conservation management of this landscape, and highlighted the need for greater consensus on the influence of different land uses on landscape patterns of plant diversity. [ABSTRACT FROM AUTHOR]

Highlights: [•] The microbial community inside traps of U. hydrocarpa and G. filiformis is different. [•] Clostridium was the dominant group in Genlisea traps. [•] Acidobacterium and Aeromonas are the dominant groups in Utricularia traps. [•] The species richness is 62.5% higher in Utricularia than in Genlisea traps. [ABSTRACT FROM AUTHOR]