Find research datasets worth reusing

opencc-zeroMar 2023View details →

Long-term effect of forest harvesting on boreal species assemblages under climate change

Logging is the main human disturbance impacting biodiversity in forest ecosystems. However, the impact of forest harvesting on biodiversity is modulated by abiotic conditions through complex relationships that remain poorly documented. Therefore, the interplay between forest management and climate change can no longer be ignored. Our aim was to study the expected long-term variations in the assemblage of bird and beetle communities following modifications in forest management under different climate change scenarios. We developed species distribution models to predict the occurrence of 88 species of birds and beetles in eastern Canadian boreal forests over the next century. We simulated three climate scenarios (baseline, RCP4.5 and RCP8.5) under which we varied the level of harvesting. We also analyzed the regional assemblage dissimilarity by decomposing it into balanced variations in species occupancy and occupancy gradient. We predict that forest harvesting will alter the diversity by increasing assemblage dissimilarity under all the studied climate scenarios, mainly due to species turnover. Species turnover intensity was greater for ground-dwelling beetles, probably because they have lower dispersal capacity than flying beetles or birds. A good dispersal capacity allows species to travel more easily between ecosystems across the landscape when they search for suitable habitats after a disturbance. Regionally, an overall increase in the probability of occupancy is projected for bird species, whereas a decrease is predicted for beetles, a variation that could reflect differences in ecological traits between taxa. Our results further predict a decrease in the number of species that increase their occupancy after harvest under the most severe climatic scenario for both taxa. We anticipate that under severe climate change, increasing forest disturbance will be detrimental to beetles associated with old forests but also with young forests after disturbances.

Dataset from publication: Long-term changes in bloom dynamics of Southern and Central Baltic cold-water phytoplankton

This data set contains the output of the numerical ocean model GETM used in the publication "Long-term changes in bloom dynamics of Southern and Central Baltic cold-water phytoplankton"

Dataset for manuscript "Host-related and environmental factors influence long-term ectoparasite infestation dynamics of mouse lemurs in northwestern Madagascar" to be published in the American Journal of Primatology

This Excel-file contains three datasets, corresponding to the initial raw dataset resulting from all ectoparasite inspections (n = 2,241), the merged dataset used for host-related and temporal modeling (n = 1940), and the even more condensed dataset with one datapoint per individual used for climatic modeling (n = 583), respectively.

A long-term (1981-2020) 1-km daily extreme and mean near surface air temperature product over Yellow River Basin of China

The dataset includes the semless 1-km daily extreme and mean near surface air temperature products over Yellow River Basin of China. The fourth version is from 1 January 2011 to 31 Decmber 2020.

Dataset for "Seismic background level (SBL) growth can reveal slowly developing long-term eruption precursors"

Ichihara M, Ohminato T, Konstantinou KI, Yamakawa K, Watanabe A, Takeo M (2023) Seismic background level (SBL) growth can reveal slowly developing long-term eruption precursors. Scientific Report (revised) Matlab fig files for Figures 1--6 and Figures in Supporting Information in the above manuscript.

Brazilian Starter Data Kit Update to Support the Paper "Integrated Long-Term Expansion Planning and Short-Term Operation Assessment for Decarbonisation Pathways in Brazil Considering Utility-Scale Storage"

This dataset presents updates on the Brazilian starter data kit, considering current load profile data and specific renewable energy sources production, using public data from official Brazilian power system agents. The dataset contains the input data and respective files to run OSeMOSYS and Flextool, including the utility-scale storage model. Additionally, this dataset contains the results of the study "Integrated Long-Term Expansion Planning and Short-Term Operation Assessment for Decarbonisation Pathways in Brazil Considering Utility-Scale Storage". This study evaluates the increase in variable renewable energy in Brazil and its integration with Storage systems.

opencc-by-4.0Jul 2022View details →

Long-term soil erosion monitoring in China using the RUSLE model based on Google Earth Engine

This dataset contains soil erosion maps in China at 500m resolution from 2010 to 2020. The dataset is stored in GeoTif format with the unit of t/(km2 · a).

Effects of long-term mowing on leaf- and root-associated bacterial community structures are linked to functional traits in 11 plant species from a temperate steppe

<ol> <li>Long-term mowing can cause morphological stuntedness of plants, thus reducing grassland productivity and exacerbating grassland degradation. Although plant microbiomes can enhance plant resistance against disturbance, considerable uncertainty exists regarding how mowing and mowing-induced plant trait plasticity affect plant microbiomes in natural grasslands. </li> <li>Here we examined the responses of leaf-/root-associated bacterial (LAB/RAB) communities of 11 dominant herbaceous perennials (6 replicates per species) to a 17-year mowing treatment in a temperate grassland. We also measured leaf/root physiological and morphological traits and analyzed the relationships among mowing practice, bacterial community structures, and leaf/root trait parameters. </li> <li>We found that both leaf and root functional traits showed interspecific variations (variations across different plant species), while only the leaf traits exhibited intraspecific variation (treatment-induced variations within plant species) between the treatments. Similarly, the LAB community structure was more sensitive to mowing but less influenced by host species identity, compared to the RAB community. The RAB community structure was primarily shaped by host species identity, while mowing was a secondary influencing factor. </li> <li> The different patterns of LAB and RAB communities in response to mowing could be specifically explained by the inter-/intraspecific variations of the related leaf and root traits. The LAB community was strongly correlated with the leaf traits which exhibited mowing-induced plasticity (intraspecific variation), with the correlations with nitrogen resorption efficiency and aboveground dry weight being the greatest. The root traits were important indicators of bacterial community structure in the root compartment across the hosts, rather than between the treatments. Root tissue density showed the strongest interspecific variation, and was identified as an overwhelming driver of the RAB community. The shifts in LAB/RAB communities under mowing were largely attributed to the increased proportions of Actinobacteria. The high mowing sensitivity of the LAB community was associated with the enrichment of soil-derived Actinobacteria in leaves under mowing. Actinobacteria were also the main keystone taxa in the bacterial community networks under mowing. </li> <li>Our results demonstrate that the magnitude of plant-associated microbial community response to long-term mowing is plant compartment- and trait-variation-dependent, and advance our understanding of the leaf/root microbiome-trait relationships in complex plant communities.</li> </ol>

Drought neutralizes positive effects of long-term grazing on grassland productivity through altering plant-soil interactions

Livestock grazing is among the most intensive land-use activities in grasslands and can affect plant communities directly or indirectly via grazing-induced soil legacies. Under climate change, grasslands are threatened globally by recurrent drought. However, the extent to which drought influences grazing-induced soil legacy effects on plant biomass production and community composition remains largely unexplored. We grew five naturally co-occurring plant species (three dominants and two subordinates) in mixed communities in a glasshouse experiment in live and sterilized soil that had or had not been subjected to 19 years of grazing; these plant communities were then exposed to a subsequent drought. We tested the treatment effects on plant community biomass, proportional aboveground biomass of individual species, arbuscular mycorrhizal (AM) fungal root colonization, and soil nutrient availability. Under drought-free conditions, soils from grazed plots produced significantly higher plant aboveground and total community biomass compared to soils from ungrazed plots. In contrast, plant aboveground and total community biomass were similar between grazed and ungrazed soils under drought conditions. Similarly, soils from grazed plots increased the proportional biomass of dominant species but decreased the proportion of subordinate species; however, the proportional biomass of dominant and subordinate species was similar between grazed and ungrazed soils under drought conditions. Soil NO3--N in grazed soil was significantly higher compared to ungrazed soil. Drought dramatically increased soil NO3--N in sterilized soil and had a more pronounced increase in grazed soil than in ungrazed soil. Arbuscular mycorrhizal fungal root colonization from grazed soil was lower compared to ungrazed soil. Drought significantly increased the soil available phosphorus concentration, as well as plant community AM fungal root colonization. Synthesis. Our study suggests that drought can neutralize positive grazing effects on plant community biomass production via altered plant-soil interactions. Also, we found that drought can alleviate the negative effects of grazing legacies on subordinate species by reducing the competitiveness of dominant species. Our study provides new insights for understanding the underlying mechanisms of grazing effects on grassland productivity under climate change.

Data and codes from: Taxon-specific responses to landscape-scale and long-term implementation of environmentally friendly rice farming

<ol> <li> Rice feeds about half of the world's population. The intensification of rice farming has threatened biodiversity and ecosystem services, such as pest control. A growing body of evidence suggests that environmentally friendly rice farming (EFF) can be effective in biodiversity conservation. However, its dependence on spatial and temporal scales of EFF implementation and surrounding seminatural habitats has remained largely unknown. </li> <li> We evaluated the effects of three types of EFF (organic farming, winter flooding and Integrated Pest Management [IPM]) against conventional farming on plants, spiders, and waterbirds in Japan. Through systematic surveys of 254 rice fields across rice production areas, we monitored EFF implementation at field and landscape scales, considering the time since transition to EFF and the surrounding seminatural areas. </li> <li> EFF implementation at the field scale, such as organic farming, was found to have positive effects on plant richness and spider abundance, whereas the percent area of EFF fields within a 200-m radius positively affected Ardeidae abundance. However, as the percent area of surrounding semi-natural habitats increased, the difference in the plant richness between organic and other fields decreased. </li> <li>Prolonged implementation periods of IPM or winter flooding, together with a reduction of more than 50% in synthetic fertilisers and pesticides from conventional agriculture, led to an increase in the spider abundance. Conversely, no clear positive effect of longer implementation periods of organic farming resulted in similar spider abundance in the three EFF types after 20 years.</li> <li> Synthesis and applications. This suggests that the benefits of environmentally friendly rice farming depend on their spatial and temporal scales and the surrounding seminatural areas. We propose that such a context dependency should be considered in future policy. Our findings also provide a starting point for future research to test the mixed biodiversity benefits of EFF across cropland types and around the world. </li> </ol>

Long-term nitrogen deposition inhibits soil priming effects by enhancing phosphorus limitation in a subtropical forest

It is widely accepted that phosphorus (P) limits microbial metabolic processes and thus soil organic carbon (SOC) decomposition in tropical forests. Global change factors like elevated atmospheric nitrogen (N) deposition can enhance P limitation, raising concerns about the fate of SOC. However, how elevated N deposition affects the soil priming effect (PE) (i.e., fresh C inputs induced changes in SOC decomposition) in tropical forests remains unclear. We incubated soils exposed to nine years of experimental N deposition in a subtropical evergreen broadleaved forest with two types of 13C-labeled substrates of contrasting bioavailability (glucose and cellulose) with and without P amendments. We found that N deposition decreased soil total P and microbial biomass P, suggesting enhanced P limitation. In P unamended soils, N deposition significantly inhibited the PE. In contrast, adding P significantly increased the PE under N deposition and by a larger extent for the PE of cellulose (PEcellu) than the PE of glucose (PEglu). Relative to adding glucose or cellulose solely, adding P with glucose alleviated the suppression of soil microbial biomass and C-acquiring enzymes induced by N deposition, whereas adding P with cellulose attenuated the stimulation of acid phosphatase induced by N deposition. Across treatments, the PEglu increased as C-acquiring enzyme activity increased, whereas the PEcellu increased as acid phosphatase activity decreased. This suggests that P limitation, enhanced by N deposition, inhibits the soil PE through varying mechanisms depending on substrate bioavailability; that is, P limitation regulates the PEglu by affecting soil microbial growth and investment in C acquisition, whereas regulates the PEcellu by affecting microbial investment in P acquisition. These findings provide new insights for tropical forests impacted by N loading, suggesting that expected changes in C quality and P limitation can affect the long-term regulation of the soil PE.

opencc-by-4.0Feb 2023View details →

Factors for poor oral health in long-term childhood cancer survivors

The first dataset "survivors+controls" contains data which was used in the analysis for table2, table4, table5 and table6.  The second dataset "survivors" contains data which was used in the analysis for table3, and table7.

Molecular epidemiology and risk factors for extended-spectrum β-lactamase-producing Enterobacterales in long-term care residents

<div class="abstract-content selected"> Objectives: We aimed to assess the burden of extended-spectrum β-lactamase (ESBL)-producing Enterobacterales in Swiss long-term care facilities (LTCFs) to describe the molecular epidemiology, describe the intra-institutional and regional clusters of resistant pathogens, and identify independent institution- and resident-level factors associated with colonization. Design: Cross-sectional study. Setting and participants: From August to October 2019, we performed a point prevalence study among residents from 16 LTCFs in Western and Eastern Switzerland (8 per region). Methods: Residents underwent screening for ESBL-producing Enterobacterales (ESBL-E); whole-genome sequencing (WGS) was performed. We gathered institution-level (eg, number of beds, staff-resident ratio, alcoholic hand rub consumption) and resident-level [eg, anthropometric data, time in facility, dependency, health care exposure, antibiotic treatment, proton-pump inhibitor (PPI) use] characteristics. Factors associated with colonization were identified using a generalized linear model. Results: Among 1185 eligible residents, 606 (51%) consented to the study. ESBL-E prevalence was 11.6% (70/606), ranging from 1.9% to 33.3% between institutions, with a median of 12.5% in the West and 6.9% in the East (P = .03). Among 59 Escherichia coli (from 58 residents), multilocus sequence type (ST) 131 was most common (n = 43/59, 73%), predominantly its subclone H30R1 (n = 37/43, 86%). WGS data identified multiple intra-institutional and regional clusters. Independent risk factors for ESBL carriage were previous ESBL colonization [adjusted odds ratio (aOR) 23.5, 95% confidence interval (CI) 6.6–83.8, P < .001), male gender (aOR 2.6, 95% CI 1.5–4.6, P = .002), and use of PPIs (aOR 2.2, 95% CI 1.2–3.8, P = .01). Conclusions and implications: Overall ESBL-E prevalence in Swiss LTCF residents is low. Yet, we identified several clusters of residents with identical pathogens within the same institution. This implies that particularly affected institutions might benefit from targeted infection control interventions. PPI use was the only modifiable factor associated with carriage of ESBL producers. This study adds to the growing list of adverse outcomes associated with PPIs, calling for action to restrict their use in the long-term care setting. </div>

Data from: Long-term grazing intensity by reindeer alters the response of the soil micro-food web to simulated climate change in subarctic tundra

Top-down control by nematodes over soil microorganisms – considered stronger over bacteria than fungi - may dampen microbial responses to global changes in tundra. To test whether large grazers alter the responses of belowground trophic networks to global changes, we employed factorial warming and nitrogen fertilization treatments in adjacent sites with different reindeer grazing intensities for the past 50 years. Lightly grazed tundra is dominated by dwarf shrubs and a more fungal-based microbial community, while in heavily grazed tundra, high reindeer densities during autumn migration have induced shift into graminoids and more bacterial-based microbial community. We analysed the soil micro-food web, i.e., the nematode density, trophic structure, and species composition as well as fungal, bacterial and total phospholipid fatty acids (PLFAs) after four growing seasons of warming and fertilization both before and during reindeer migration. We predicted that bacterivore densities are higher and fungivore densities lower under heavy than light grazing (i.e., nematode populations before migration reflect grazing effects via the base of food web), whereas reindeer migration induces negative impact on nematode densities under heavy grazing (i.e., disturbance by trampling is the driving factor). We further predicted that nematodes negate treatment effects on microbial biomass to a stronger extent in the bacterial-based heavily grazed than the fungal-based lightly grazed tundra. Fungivore densities were higher under light than heavy grazing, but nematodes did not respond to trampling. Warming increased fungivores and the fungal PLFAs irrespective of grazing and timing, but under heavy grazing, increased bacterivores while the bacterial PLFAs remained steady. Fertilization increased carnivores and influenced nematode species composition, diversity and maturity interactively with warming. Our data suggest that large grazers affect tundra soil nematodes via bottom-up effects through microbial community composition and biomass, which in turn may alter the strength of their top-down control soil bacteria under climate warming.

opencc-zeroMay 2023View details →

Effects of long-term fixed fire regimes on African savanna vegetation biomass, vertical structure and tree stem density

<ol> <li>Fire plays an integral role in shaping the vegetation structure of savanna ecosystems. However, effects of fire regime characteristics, such as frequency and season of burn, on savanna vegetation structure, biomass and tree abundance across landscape types are largely unknown. </li> <li>We used high-resolution airborne Light Detection and Ranging (LiDAR) to investigate the long-term effects of fire manipulation on savanna vegetation in Kruger National Park, South Africa. We analysed the effects of fire exclusion and experimental burns every 1, 2, 3, 4 and 6 years and during different seasons on aboveground biomass (AGB), tree stem densities and vegetation vertical height profiles across a rainfall gradient and on contrasting geologies. </li> <li>Across savanna types, and especially in drier savannas, fire season was more influential for constraining AGB than was fire frequency. Plots experiencing fires during the late- and mid-dry season had 44.50% and 43.60%, respectively, lower AGB relative to unburnt plots than wet-season fires. However, in mesic savannas, fire frequency interacted with fire season to influence AGB: plots subjected to high frequency, dry season fires had 55.35% lower AGB than unburnt plots, whereas plots burnt in the wet season at lower frequencies had lower AGB (24.40% lower than unburnt plots) than plots subjected to high frequency, wet-season fires (13.74% lower AGB than unburnt plots). </li> <li>Fire regimes had variable effects on tree densities, and effects varied with savanna type. Woody vertical vegetation profiles showed the largest differences in response to dry season fires, with the greatest divergence in vegetation height classes < 5m. </li> <li>Synthesis and applications. Understanding the influence of fire regimes on vegetation structure has important implications for the management of savanna heterogeneity, and for predicting trajectories of change in savanna vegetation as fire regimes vary with climate change. We show that the magnitude of the effect of fire on woody vegetation structure varies with savanna context. Our results suggest that heterogeneous vegetation structure can be achieved by applying fires in the dry season in mesic savannas, whereas in dry savannas, variation in fire regimes is less consequential for constraining biomass accumulation and altering vegetation structure. </li> </ol>

opencc-by-4.0May 2023View details →

Tailored machine learning for evaluating the long-term diabetes risk in older individuals: Findings from The Irish Longitudinal Study on Ageing (TILDA)

The original data for "Tailored machine learning for evaluating the long-term diabetes risk in older individuals: Findings from The Irish Longitudinal Study on Ageing (TILDA)" that published in BMJ Open.

opencc-zeroMay 2023View details →

Data from: Drought-induced relocation of ant colonies and its consequences for the long-term spatial ecology of a population under stress

<ol> <li>Maintaining a central refuge such as a nest or burrow can offer protection against environmental stressors but comes at the expense of the capacity to disperse to new locations. This trade-off with mobility can be detrimental when environmental conditions become adverse for extended periods, necessitating animals to relocate in order to track shifting niche envelopes.</li> <li>Long-lived ant colonies that invest in the construction of large nests are especially susceptible to changing environmental conditions. The Australian meat ant, Iridomyrmex purpureus, build large terrestrial nests at sites that balance shade and solar exposure.</li> <li>Long-term study of a population of meat ants showed low nest turnover and a stable spatial distribution of nests across typical rainfall years. With the onset of drought, a dramatic surge in the production of new nests occurred through a process of budding that far exceeded historic trends. This appears to have allowed colonies to relocate nests into areas with more favourable microclimate conditions in a strategy reminiscent of the production of runners in stressed plants. The consequence has also been the packing of nests into a narrow habitable zone that has resulted in an apparent increase in competition among large rival colonies. Following the break in drought and the thinning of some nests through abandonment, competition has progressively eased in later years.</li> <li>The surge in nest budding triggered by acute environmental stress in this population offers a possible strategy for long-lived colonies to effectively migrate across the landscape. With changes in environmental conditions becoming more frequent and severe with the climate crisis, any strategy available to central place foragers to track windows of preferred conditions are likely to become increasingly important.</li> </ol>

opencc-zeroMay 2023View details →

Data on the association between garlic mustard and the plant community from a long-term observational dataset in Illinois, U.S.A.

The impact of a biological invasion on native communities is expected to be uneven across invaded landscapes due to differences in local abiotic conditions, invader abundance, and traits and composition of the native community. One way to improve predictive ability about the impact of an invasive species given variable conditions is to exploit known mechanisms driving invasive species' success. Invasive plants frequently exhibit allelopathic traits, which can be directly toxic to plants or indirectly impact them via disruption of root symbionts, including mycorrhizal fungi. The indirect mechanism – mutualism disruption – is predicted to impact plants that rely on mycorrhizas but not affect non-mycorrhizal plant species. To assess whether invader-driven mutualism disruption explains observed changes in native plant communities, we analyzed long-term (1998–2018) plant cover data from forest plots across the state of Illinois. We evaluated native plant communities experiencing a range of abundance of invasive allelopathic garlic mustard (Alliaria petiolata) and varying environmental conditions. Consistent with the mutualism disruption hypothesis, we showed that as garlic mustard abundance increased over time in 0.25 m2 sampling quadrats, the abundance of mycorrhizal plant species decreased, but non-mycorrhizal plant species did not. Over space and time, garlic mustard abundance predicted plant abundances and diversity at the quadrat level, but this relationship was not present at a larger scale when quadrats were aggregated within sites. Garlic mustard's impact on the plant community was highly localized, yet it was as important as abiotic variables for predicting local plant diversity. We showed that garlic mustard abundance was a key predictor of patterns of plant diversity across invasion intensity and environmental heterogeneity in a way that is consistent with mutualism disruption. Our work indicates that the mutualism disruption hypothesis can provide generalizable predictions of the impacts of allelopathic invasive plants that are evident at a broad spatial scale.

opencc-by-4.0Jun 2023View details →

The Long-term, High-accuracy and Seamless Soil Moisture (LHS-SM) dataset over the Qinghai-Tibet Plateau: part 2 (2011-2020)

Soil moisture (SM) is a vital variable in the water-energy cycle and characterizing its spatiotemporal dynamics is crucial for understanding the impacts of climate change. Although substantial efforts have been devoted to derive SM data at fine scale, there is still a research gap in obtaining the long-term, high-accuracy and high-resolution SM data over the Qinghai-Tibet Plateau (QTP) due to its complex topography. Therefore, this study generated the long-term, high-accuracy and seamless soil moisture (LHS-SM) dataset over the QTP during 2001-2020 using a two-step downscaling method. First the daily SM data from the Climate Change Initiative program of the European Space Agency (ESA CCI) was downscaled to 1km utilizing five machine learning approaches. Then a dynamic data merging method that considers the spatiotemporal nonstationary error was applied to derive the final LHS-SM data. Results indicated that LHS-SM data exhibited satisfying accuracy (mean R = 0.55, ubRMSE = 0.049 m³/m³) and certain improvement to the ESA CCI SM data both at station and network scales. The dataset can be used for various regional hydrology, meteorology, ecological analysis and modeling.