Drivers and human impacts on topsoil bacterial and fungal community biogeography across Australia.

Soil microbial diversity mediates a wide range of key processes and ecosystem services influencing planetary health. Our knowledge of microbial biogeography patterns, spatial drivers and human impacts at the continental scale remains limited. Here, we reveal the drivers of bacterial and fungal community distribution in Australian topsoils using 1384 soil samples from diverse bioregions. Our findings highlight that climate factors, particularly precipitation and temperature, along with soil properties, are the primary drivers of topsoil microbial biogeography. Using random forest machine-learning models, we generated high-resolution maps of soil bacteria and fungi across continental Australia. The maps revealed microbial hotspots, for example, the eastern coast, southeastern coast, and west coast were dominated by Proteobacteria and Acidobacteria. Fungal distribution is strongly influenced by precipitation, with Ascomycota dominating the central region. This study also demonstrated the impact of human modification on the underground microbial community at the continental scale, which significantly increased the relative abundance of Proteobacteria and Ascomycota, but decreased Chloroflexi and Basidiomycota. The variations in microbial phyla could be attributed to distinct responses to altered environmental factors after human modifications. This study provides insights into the biogeography of soil microbiota, valuable for regional soil biodiversity assessments and monitoring microbial responses to global changes.

Towards a continent-wide ecological site condition database using calibrated expert evaluations.

A cost-effective way of undertaking comprehensive, continental-scale, assessments of ecological condition is needed to support large-scale conservation planning, monitoring, reporting, and decision-making. Currently, cross-jurisdictional inconsistency in assessment methods limits the capacity to scale-up monitoring. Here we present a novel way to build a coherent continent-wide site-level ecological condition dataset, using cross-calibration methods to integrate assessments from many observers. We focus on the use of condition assessments from individual expert observers, a currently untapped resource. Our approach has two components: (1) a simple online tool that captures expert assessments at specific locations; (2) a process of calibrating and rescaling disparate expert evaluations that can be applied to the data to provide a consistent dataset for use in conservation assessments. We describe a pilot study, involving 28 experts, who contributed 314 individual site condition assessments across a wide range of ecosystems and regions throughout continental Australia. A correction factor for each expert was used to rescale the contributed site condition assessment scores, based on a set of 77 photographic images, each scored for their condition by multiple experts, using a linear mixed model. Our approach shows strong promise for delivering the volumes of data required to develop continental-scale reference libraries of site condition assessments. Although developed from expert elicitation, the approach could also be used to harmonize the collation of existing condition datasets. The process we demonstrate can also facilitate online citizen scientists to make site condition assessments that can be cross-calibrated using contributed images.

Drawing a line in the sand: Effectiveness of off-highway vehicle management in California's Sonoran desert.

Public land policies manage multiple uses while striving to protect vulnerable plant and wildlife habitats from degradation; yet the effectiveness of such policies are infrequently evaluated, particularly for remote landscapes that are difficult to monitor. We assessed the use and impacts of recreational vehicles on Mojave Desert washes (intermittent streams) in the Chemehuevi Desert Wildlife Management Area (DWMA) of southern California. Wash zones designated as open and closed to off-highway vehicle (OHV) activity were designed in part to protect Mojave desert tortoise (Gopherus agassizii) habitat while allowing recreation in designated areas. OHV tracks were monitored in washes located near access roads during winter and early spring holidays - when recreation is typically high - and at randomly dispersed locations away from roads. Washes near access roads had fewer vehicle tracks within closed than open zones; further away from roads, OHV tracks were infrequent and their occurrence was not different between wash designations. Washes were in better condition in closed zones following major holidays as indicated by less vegetation damage, presence of trash, and wash bank damage. Furthermore, the frequency of washes with live tortoises and their sign was marginally greater in closed than open wash zones. Collectively, these results suggest that low impacts to habitats in designated closed wash zones reflect public compliance with federal OHV policy and regulations in the Chemehuevi DWMA during our study. Future monitoring to contrast wash use and impacts during other seasons as well as in other DWMAs will elucidate spatial and temporal patterns of recreation in these important conservation areas.

Assessing climate change impacts on wetlands in a flow regulated catchment: A case study in the Macquarie Marshes, Australia.

Globally wetlands are increasingly under threat due to changes in water regimes as a result of river regulation and climate change. We developed the Exploring CLimAte Impacts on Management (EXCLAIM) decision support system (DSS), which simulates flow-driven habitat condition for 16 vegetation species, 13 waterbird species and 4 fish groups in the Macquarie catchment, Australia. The EXCLAIM DSS estimates impacts to habitat condition, considering scenarios of climate change and water management. The model framework underlying the DSS is a probabilistic Bayesian network, and this approach was chosen to explicitly represent uncertainties in climate change scenarios and predicted ecological outcomes. The results suggest that the scenario with no climate change and no water resource development (i.e. flow condition without dams, weirs or water license entitlements, often regarded as a surrogate for 'natural' flow) consistently has the most beneficial outcomes for vegetation, waterbird and native fish. The 2030 dry climate change scenario delivers the poorest ecological outcomes overall, whereas the 2030 wet climate change scenario has beneficial outcomes for waterbird breeding, but delivers poor outcomes for river red gum and black box woodlands, and fish that prefer river channels as habitats. A formal evaluation of the waterbird breeding model showed that higher numbers of observed nest counts are typically associated with higher modelled average breeding habitat conditions. The EXCLAIM DSS provides a generic framework to link hydrology and ecological habitats for a large number of species, based on best available knowledge of their flood requirements. It is a starting point towards developing an integrated tool for assessing climate change impacts on wetland ecosystems.

Measuring habitat quality for waterbirds: A review.

Quantifying habitat quality is dependent on measuring a site's relative contribution to population growth rate. This is challenging for studies of waterbirds, whose high mobility can decouple demographic rates from local habitat conditions and make sustained monitoring of individuals near-impossible. To overcome these challenges, biologists have used many direct and indirect proxies of waterbird habitat quality. However, consensus on what methods are most appropriate for a given scenario is lacking. We undertook a structured literature review of the methods used to quantify waterbird habitat quality, and provide a synthesis of the context-dependent strengths and limitations of those methods. Our search of the Web of Science and Scopus databases returned a sample of 666 studies, upon which our review was based. The reviewed studies assessed habitat quality by either measuring habitat attributes (e.g., food abundance, water quality, vegetation structure), or measuring attributes of the waterbirds themselves (e.g., demographic parameters, body condition, behavior, distribution). Measuring habitat attributes, although they are only indirectly related to demographic rates, has the advantage of being unaffected by waterbird behavioral stochasticity. Conversely, waterbird-derived measures (e.g., body condition, peck rates) may be more directly related to demographic rates than habitat variables, but may be subject to greater stochastic variation (e.g., behavioral change due to presence of conspecifics). Therefore, caution is needed to ensure that the measured variable does influence waterbird demographic rates. This assumption was usually based on ecological theory rather than empirical evidence. Our review highlighted that there is no single best, universally applicable method to quantify waterbird habitat quality. Individual project specifics (e.g., time frame, spatial scale, funding) will influence the choice of variables measured. Where possible, practitioners should measure variables most directly related to demographic rates. Generally, measuring multiple variables yields a better chance of accurately capturing the relationship between habitat characteristics and demographic rates.

Linking river flow modification with wetland hydrological instability, habitat condition, and ecological responses.

Flow modification pursuing dams is widely found. Some works also focused on its impact on floodplain wetland hydrology. However, how this change can pose an impact on habitat conditions, ecological conditions, and trophic state is also a matter of investigation. The very least attention has been paid to this so far. Therefore, the present study focused on these, taking the dam-induced Lower Tangon river basin of India and Bangladesh as a case. The degree of flow alteration in the river was presented in a heat map. Multi-parametric machine learning (ML) approaches were applied to model hydrological instability and habitat condition. The ecological consequences like evaluating eco-deficit using flow duration curve (FDC) approach, trophic state using trophic state index (TSI), fish habitat zone using image-based hydrological parameters, etc. were measured. The study exhibited that after damming, the degree of river flow modification was about 41%. Consequently, the wetland hydrological instability and habitat conditions were degraded. In the post-dam period, > 50% of wetland area was lost, and hydrological instability was enhanced considerably over wider parts of the wetland. Habitat conditions of the existing wetland also witnessed fragility (poor and very poor areas increased by about 22.23 and 9.34%). As a result of this, adverse ecological responses were found. For instance, the eco-deficit area was increased by 36.19%, a good proportion (100%) of wetlands was witnessed the transformation of TSI from oligotrophic to mesotrophic state, and optimum fish habitat area was declined. The ecological strength map integrating all the cause-effect model parameters showed that good ecological strength was reduced from 49 to 2% in the post-dam. The result of the study would be very useful for wetland restoration for ecological and human well-being.

Microhabitat Selection for Overwintering: Overwintering Conditions of Three Jumping Spiders (Pellenes tripunctatus, P. nigrociliatus, and Attulus penicillatus) Living in Terrestrial Shells in the Czech Republic.

Taking the regular overwintering of spider species in land snail shells as a model, we studied environmental conditions affecting the choice of overwintering sites in three jumping spider species: Pellenes tripunctatus, Pellenes nigrociliatus, and Attulus penicillatus. The research was conducted at 11 steppe localities on calcareous bedrock with abundant empty shells (mainly Caucasotachea vindobonensis and Xerolenta obvia). We documented 889 shells and collected 186 of them, of which 113 were inhabited by 146 spider individuals (13 species). Our three focal species made up 81.5% of these. We found different environmental preferences between the sexes in P. tripunctatus and P. nigrociliatus. These females preferred shells with more vegetation nearby. In the case of P. tripunctatus, these were shells with a higher proportion of herbs, whereas P. nigrociliatus selected for a higher proportion of moss. In the immediate vicinity of the shells, environmental conditions did not differ significantly. We found insufficient A. penicillatus to determine any preferences. We also recorded six overwintering P. tripunctatus individuals in a single shell (in environmental conditions preferred by females), consisting of five females and one male, which indicated an unusual social behavior for these spider species.

Species diversity of coral reef fishes around the West Island of Sanya City, South China Sea, based on environmental DNA.

Background: West Island is the second largest island in the Hainan Province, China and its surrounding sea area has a well-preserved coral reef ecosystem and high species diversity of coral reef fishes. Undoubtedly, coral reef fishes and coral reefs have complex symbiotic relationships and fish species diversity should reflect the healthy status of coral reef ecosystems. Environmental DNA (eDNA) is a useful and sensitive tool to detect fish species and causes less environmental damage than traditional fish survey methods. This paper investigated coral reef fish species of West Island, Hainan Province, China, based on eDNA and provided scientific data for understanding and protection of the coral reef ecosystem of the South China Sea. New information: The sea area surrounding West Island is the most important component of the coral reef ecosystem in the northern part of the South China Sea, which is also an essential part of the largest National Coral Reef Reserve in China. However, complete data of fish species distributed in this region have been a long-term gap. This study provides information on 41 fish species belonging to 28 genera, 16 families and three orders in this sea area and is the first complete record of coral reef fishes surrounding the West Island. In addition, the information of Molecular Operational Taxonomic Units (MOTUs) for taxon identification were also provided and it could contribute to building specific eDNA taxonomy database of coral reef fishes of the South China Sea. The study includes three datasets, with aspects of fish taxon-occurrences, MOTUs sequences and information of environmental indicators surrounding West Island, Hainan Province, China. The "fish taxon occurrences" dataset presents records involving taxonomic, distribution, habitat condition, latitude and longitude of 41 coral reef fish species detected, based on eDNA, the "MOTUs sequences" dataset provides MOTUs sequences and their abundance of 31 species detected and the "information of environmental indicators" dataset presents records of transparency, temperature, water pressure, dissolved oxygen, electrical conductivity, hydrogen and redox potential measured from five sampling localities.

Species diversity of fishes in the Dingqu River Basin, tributary of the upper Yangtze River, China.

BACKGROUND: The Dingqu River Basin, a major tributary of the upper Yangtze River, is located at southeast edge of the Qinghai-Tibet Plateau of China. The fishes of this plateau constitute a major faunal component of this basin, particularly Schizothoracinae (Cypriniformes: Cyprinidae) and Triplophysa (Cypriniformes: Nemacheilidae). Hydropower development is an impact that affects natural habitats and biological resources of the upper Yangtze River and this has led to a decrease in biodiversity. This study investigated the species diversity of fishes of the Dingqu River Basin and accumulated basic data for conservation of biodiversity and assessment of ecological health of the upper Yangtze River. NEW INFORMATION: The upper streams of the Jinshajiang River harbours numerous endemic fish species in China. Most of them belong to the Qianghai-Tibet Plateau fish fauna. However, while the fish species of the Jinshajiang River have been well studied, there is still a gap in the research on fish species diversity of the Dingqu River Basin tributary. This study provides information for 18 native fish species belonging to two orders, four families, three subfamilies and eight genera, and is the first complete record of fishes in the Dingqu River Basin, a primary tributary of the Yangtze River. Supplemental information of species diversity in the Jinshajiang River is also provided. The study includes two datasets, which present taxonomic, distribution, habitat condition, endemism and threat information for each species collected from the Dingqu River Basin and historical literature, respectively. In particular, these fish species all have limited distribution within the south-eastern Qinghai-Tibet Plateau areas of China and could determine the importance of habitat protection for the upper Yangtze River.

Measuring stream habitat conditions: Can remote sensing substitute for field data?

The ongoing encroachment of agricultural activities into natural areas is a growing problem for the ecological condition of streams. Stream ecological condition is best measured using both biotic and abiotic parameters that reflect different channel, riparian zone and catchment aspects. Multiple physical-chemical measures of water quality have long been widely used to represent the environmental conditions of water bodies. More recently, physical habitat structure, catchment land use and land cover have been employed to better understand water body conditions. Both water quality and physical habitat structure metrics are usually measured in the field and often have strong predictive power to analyze biological assemblage conditions. On the other hand, remote sensing of catchment land use and land cover provide relatively low-cost environmental information at large spatial extents, minimizing the need for fieldwork and reducing analytical time. Given these considerations, our aim in the present study was to evaluate the degree to which stream environmental conditions could be measured reliably via remote sensing. In particular, we assessed whether a remote sensing index (Normalized Difference Vegetation Index) and land use can be used as reliable surrogates for site habitat condition, channel dimensions, and water quality. We found that our remote sensing variables were not sufficient for predicting stream water quality or habitat structure. Therefore, we recommend using remote sensing indicators only when it is impossible to measure water quality and habitat structure in the field directly.

The potential for modelling peatland habitat condition in Scotland using long-term MODIS data.

Globally, peatlands provide an important sink of carbon in their near natural state but potentially act as a source of gaseous and dissolved carbon emission if not in good condition. There is a pressing need to remotely identify peatland sites requiring improvement and to monitor progress following restoration. A medium resolution model was developed based on a training dataset of peatland habitat condition and environmental covariates, such as morphological features, against information derived from the Moderate Resolution Imaging Spectroradiometer (MODIS), covering Scotland (UK). The initial, unrestricted, model provided the probability of a site being in favourable condition. Receiver operator characteristics (ROC) curves for restricted training data, limited to those located on a peat soil map, resulted in an accuracy of 0.915. The kappa statistic was 0.8151, suggesting good model fit. The derived map of predicted peatland condition at the suggested 0.56 threshold was corroborated by data from other sources, including known restoration sites, areas under known non-peatland land cover and previous vegetation survey data mapped onto inferred condition categories. The resulting locations of the areas of peatland modelled to be in favourable ecological condition were largely confined to the North and West of the country, which not only coincides with prior land use intensity but with published predictions of future retraction of the bioclimatic space for peatlands. The model is limited by a lack of spatially appropriate ground observations, and a lack of verification of peat depth at training site locations, hence future efforts to remotely assess peatland condition will require more appropriate ground-based monitoring. If appropriate ground-based observations could be collected, using remote sensing could be considered a cost-efficient means to provide data on changes in peatland habitat condition.

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To assess the effects of different habitat conditions on the genetic diversity of Apis cerana cerana, 2400 individual workers from 120 colonies in four localities of South Anhui mountainous area were analyzed using microsatellite DNA loci. Results showed that in the tea tree monoculture, the number of alleles, average expected heterozygosity and polymorphism information content showed no significant difference with those in the natural forest. The number of alleles and polymorphic information content in domesticated population were significantly different from those in the wild population. The average expected heterozygosity was not significantly different between those two populations. The number of alleles, the average expected heterozygous and polymorphic information content were significantly different from those in the wild for samples collected in 2006. There was significant genetic differentiation among populations, with an average differential coefficient of 0.32. Our results indicated that the cultivation of tea plantation in South Anhui would not affect the genetic structure and conservation of bees.

Ants as ecological indicators of rainforest restoration: Community convergence and the development of an Ant Forest Indicator Index in the Australian wet tropics.

Ecosystem restoration can help reverse biodiversity loss, but whether faunal communities of forests undergoing restoration converge with those of primary forest over time remains contentious. There is a need to develop faunal indicators of restoration success that more comprehensively reflect changes in biodiversity and ecosystem function. Ants are an ecologically dominant faunal group and are widely advocated as ecological indicators. We examine ant species and functional group responses on a chronosequence of rainforest restoration in northern Australia, and develop a novel method for selecting and using indicator species. Four sampling techniques were used to survey ants at 48 sites, from grassland, through various ages (1-24 years) of restoration plantings, to mature forest. From principal components analysis of seven vegetation metrics, we derived a Forest Development Index (FDI) of vegetation change along the chronosequence. A novel Ant Forest Indicator Index (AFII), based on the occurrences of ten key indicator species associated with either grassland or mature forest, was used to assess ant community change with forest restoration. Grasslands and mature forests supported compositionally distinct ant communities at both species and functional levels. The AFII was strongly correlated with forest development (FDI). At forest restoration sites older than 5-10 years that had a relatively closed canopy, ant communities converged on those of mature rainforest, indicating a promising restoration trajectory for fauna as well as plants. Our findings reinforce the utility of ants as ecological indicators and emphasize the importance of restoration methods that achieve rapid closed-canopy conditions. The novel AFII assessed restoration status from diverse and patchily distributed species, closely tracking ant community succession using comprehensive species-level data. It has wide applicability for assessing forest restoration in a way that is relatively independent of sampling methodology and intensity, and without a need for new comparative data from reference sites.

Multi-biomarker approach using the blue mussel (Mytilus edulis L.) to assess the quality of marine environments: season and habitat-related impacts.

Using a comprehensive approach, intertidal, near- and offshore sites in the German Bight were analysed for their environmental quality by assessing the health of blue mussels (Mytilus edulis). During a ten month sampling period mussels were studied with a set of biomarkers comprising lysosomal membrane stability and accumulation of lipofuscin, supplemented by biomarkers indicating nutritional status such as neutral lipids and glycogen in the cells of the digestive gland. Data were analysed in relation to sex, gonadal status, condition index and for the presence of parasites, to determine the overall health status of mussels at the respective sites. Mussels from all sites showed clear signs of stress, indicating an inferior environmental quality throughout the southern German Bight. Further, habitat characteristics such as inundation time and growing on- or off-bottom, as well as seasonal factors, can clearly influence the response of biomarkers in mussels exposed to similar levels of chemical environmental stress.