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opencc-by-4.0Dec 2016View details →

Table 3 a in Description of Epistylis camprubii n. sp., a Species Highly Tolerant to Ammonium and Nitrite

Table 3a. Comparison between Epistylis camprubii and the other Epistylis species mentioned in the manuscript: characteristics of zooid and persitome.<table><tbody><tr><th>Species</th><th>Body lenght in vivo (µm)</th><th>Body width in vivo (µm)</th><th>Zooid shape</th><th>Peristomial disc diameter in vivo (µm)</th><th>Peristomial disc shape</th><th>Peristomial lip height in vivo (µm)</th><th>Peristomial lip width in vivo (µm)</th><th>Number of peristomial lips</th><th>Data source</th></tr></tbody><tbody><tr><th>Epistylis camprubii</th><td>35.3–98.1</td><td>18.0–65.2</td><td>Vase-shaped</td><td>11.2–21.3</td><td>Rounded, pointed, rarely umbilicated</td><td>5.0–10.6</td><td>16.2–31.7</td><td>1</td><td>Present manuscript</td></tr><tr><th>E. balatonica</th><td>90–100</td><td>45–55</td><td>Vase-shaped</td><td>–</td><td>–</td><td>–</td><td>–</td><td>2</td><td>Stiller 1971</td></tr><tr><th>E. chrysemydis</th><td>120–220</td><td>60–110</td><td>Vase-shaped</td><td>–</td><td>Umbilicated</td><td>–</td><td>50–80</td><td>2</td><td>Foissner et al. 1992</td></tr><tr><th>E. coronata</th><td>70–120</td><td>–</td><td>Vase-shaped</td><td>–</td><td>Slightly umbilicated and oblique</td><td>–</td><td>32–65</td><td>1</td><td>Foissner et al. 1992</td></tr><tr><th>E. entzii</th><td>125–190</td><td>80</td><td>Cylindrical</td><td>–</td><td>Convex, slightly oblique</td><td>–</td><td>–</td><td>1</td><td>Foissner et al. 1992</td></tr><tr><th>E. epistyliformis</th><td>43–62</td><td>20–27</td><td>Vase-shaped</td><td>–</td><td>Convex, sometimes – conical</td><td>–</td><td>1</td><td>Stiller 1971</td></tr><tr><th>E. hentscheli</th><td>110–170</td><td>38–60</td><td>Asymmetric and bell-shaped, narrowed down to the stem</td><td>–</td><td>Convex, slightly oblique</td><td>–</td><td>–</td><td>1</td><td>Foissner et al. 1992</td></tr><tr><th>E. plicatilis</th><td>90–160</td><td>25–50</td><td>Funnel-shaped</td><td>–</td><td>Not umbilicated</td><td>–</td><td>36–60</td><td>1</td><td>Foissner et al. 1992</td></tr><tr><th>E. rotans / E. procumbens</th><td>60–140</td><td>2–2½ times as long as wide</td><td>Irregular (sigmoidal – shape, bent at right</td><td>Flat or slightly convex, slightly</td><td>–</td><td>–</td><td>1</td><td>Foissner et al. 1999</td></tr><tr><th></th><td></td><td></td><td>angles, slightly tilted backwards)</td><td>oblique</td><td></td><td></td><td></td><td></td></tr><tr><th>E. rotans</th><td>70–100</td><td>–</td><td>Vase-shaped</td><td>–</td><td>Arched</td><td>–</td><td>–</td><td>1</td><td>Curds 1969</td></tr><tr><th>E. thienemanni</th><td>67–120</td><td>–</td><td>Vase-shaped</td><td>–</td><td>Conical</td><td>–</td><td>–</td><td>1</td><td>Stiller 1971</td></tr><tr><th>E. variabilis</th><td>50–100</td><td>–</td><td>Funnel-shaped</td><td>–</td><td>Slightly convex and obliquely protuberant</td><td>–</td><td>–</td><td>1</td><td>Stiller 1971</td></tr></tbody></table>

opencc-by-4.0Nov 2024View details →

Dataset: Osmoregulation and hypoxia tolerance in the cenote isopod Creaseriella anops: Insights into its distribution in Karst Subterranean Estuaries

This data set contains the information supporting the research article  "Osmoregulation and hypoxia tolerance in the cenote isopod Creaseriella anops: Insights into its distribution in Karst Subterranean Estuaries"  It contains Respirometry, indicators of cellular damage and Antioxidant system, critical temperatures, and Temperature induced metabolic rates of the isopod Creaseriella anops, and endemic species of the Karst Subterranean Estuaries from the Yucatan Peninsula Mexico.

opencc-zeroDec 2021View details →

Data for: Freeze tolerance influenced forest cover and hydrology during the Pennsylvanian

Global forest cover affects the Earth system by altering surface mass and energy exchange. Physiology determines plant environmental limits and influences geographical vegetation distribution. Ancient plant physiology, therefore, likely affected vegetation-climate feedbacks. We combine climate modeling and ecosystem-process modeling to simulate arboreal vegetation in the late Paleozoic ice age. Using GENESIS V3 GCM simulations, varying pCO2, pO2, and ice extent for the Pennsylvanian, and fossil-derived leaf C:N, maximum stomatal conductance, and specific conductivity for several major Carboniferous plant groups, we simulated global ecosystem processes at a 2-degree (longitude, latitude) resolution with Paleo-BGC. Based on leaf water constraints, Pangaea could have supported widespread arboreal plant growth and forest cover. However, these models do not account for the impacts of freezing on plants. According to our interpretation, freezing would have affected plants in 89% of unglaciated land during peak glacial periods, and 65% during the warmer interglacials. Comparing forest cover, minimum temperatures, and paleo-locations of Pennsylvanian-aged plant fossils from the Paleobiology Database supports restriction of global forest extent due to freezing. Many genera were limited to 25% of unglaciated land where temperatures remained above −4°C. Freeze-intolerance of Pennsylvanian arboreal vegetation had the potential to alter surface runoff, silicate weathering, CO2 levels, and climate forcing. As a bounding case, we assume total plant mortality at −4°C and estimate that contracting forest cover increased net global surface runoff by up to 6.1%. Repeated freezing likely influenced freeze- and drought-tolerance evolution in lineages like the coniferophytes, which became increasingly dominant in the Permian and early Mesozoic.

opencc-zeroJan 2022View details →

Thermal tolerance in Drosophila: repercussions for distribution, community coexistence and responses to climate change

Here we combined controlled experiments and field surveys to determine if estimates of heat tolerance predict distributional ranges and phenology of different Drosophila species in southern South America. We contrasted thermal death time curves, which consider both magnitude and duration of the challenge to estimate heat tolerance, against the thermal range where populations are viable based on field surveys in an 8-yr longitudinal study. We observed a strong correspondence of the physiological limits, the thermal niche for population growth, and the geographic ranges across studied species, which suggests that the thermal biology of different species provides a common currency to understand how species will respond to warming temperatures both at a local level and throughout their distribution range. Our approach represents a novel analytical toolbox to anticipate how natural communities of ectothermic organisms will respond to global warming.

opencc-by-4.0Feb 2022View details →

Data used to evaluate ORBITS: Optimal Repair-Based Inconsistency-Tolerant Semantics

This dataset provides the input files that were used in the evaluation of the ORBITS system (Optimal Repair-Based Inconsistency-Tolerant Semantics, <a href="https://github.com/bourgaux/orbits">https://github.com/bourgaux/orbits</a>). A detailed description is available in a technical report on arXiv (<a href="https://arxiv.org/abs/2202.07980">https://arxiv.org/abs/2202.07980</a>). Content: Folders cqapri_benchmark, food_inspection_benchmark, and physicians_benchmark contain JSON files of conflict graphs and candidate queries and their causes. These files are named using the following pattern: files of candidate answers and their causes are named <database>_<query>_answers_causes.json, and conflict graphs are named <database>_conflictGraph_<priority relation>.json where <priority relation> says whether the priority relation is score-structured (prio_score) or not (prio_non_score) and the probability (p<proba>) or number of scores (n<number>) used to build the priority relation. Folder original_datasets_and_queries contains the Food Inspection and Physicians datasets used to generate files from food_inspection_benchmark and physicians_benchmark. Files from cqapri_benchmark have been generated from the CQAPri benchmark available at <a href="https://lahdak.lri.fr/CQAPri/CQAPri.php">https://lahdak.lri.fr/CQAPri/CQAPri.php</a>. In all cases, we use ProvSQL (<a href="https://github.com/PierreSenellart/provsql">https://github.com/PierreSenellart/provsql</a>) to build conflict graphs and causes from the datasets.

opencc-zeroApr 2022View details →

Food deprivation exposes sex-specific trade-offs between stress tolerance and lifespan in the copepod Tigriopus californicus

Long life is standardly assumed to be associated with high stress tolerance. Previous work shows that the copepod Tigriopus californicus breaks this rule, with longer lifespan under benign conditions found in males, the sex with lower stress tolerance. Here we extended this previous work, raising animals from the same families in food-replete conditions until adulthood and then transferring them to food-limited conditions until all animals perished. As in previous work, survivorship under food-replete conditions favored males. However, under food deprivation lifespan strongly favored females in all crosses. Compared to benign conditions, average lifespan under nutritional stress was reduced by 47% in males but only 32% in females. Further, the sex-specific mitonuclear effects previously found under benign conditions were erased under food limited conditions. Results thus demonstrate that sex-specific lifespan, including mitonuclear interactions, are highly dependent on nutritional environment.

opencc-zeroJun 2022View details →

Functional assembly of tropical montane tree islands in the Atlantic Forest is shaped by stress-tolerance, bamboo-presence and facilitation

Aims: Amidst the Campos de Altitude (Highland Grasslands) in the Brazilian Atlantic Forest, woody communities grow either clustered in tree islands or interspersed within the herbaceous matrix. The functional ecology, diversity and biotic processes shaping these plant communities are largely unstudied. We characterised the functional assembly and diversity of these tropical montane woody communities and investigated how they fit within Grime's CSR (C – competitor, S – stress-tolerant, R – ruderal) scheme, what functional trade-offs they exhibit and how traits and functional diversity vary in response to bamboo presence/absence. Methods: To characterize the functional composition of the community, we sampled five leaf traits and wood density along transects covering the woody communities both inside tree islands and outside (i.e. isolated woody plants in the grasslands community) . Then, we used Mann Whitney test, t-test and variation partitioning to determine the effects of inside vs outside tree island and bamboo presence on community weighted means, woody species diversity and functional diversity. Results: We found a general SC/S strategy with drought-related functional trade-offs. Woody plants in tree islands had more acquisitive traits than those within the grasslands. Trait variation was mostly taxonomically than spatially driven, and species composition varied between inside and outside tree islands. Leaf thickness, wood density and foliar water uptake were unrelated to CSR-strategies, suggesting independent trait dimensions and multiple drought-coping strategies within the predominant S-strategy. Islands with bamboo presence showed lower Simpson diversity, lower functional dispersion, lower foliar water uptake and greater leaf thickness than in tree islands without bamboo. Conclusions: The observed functional assembly hints towards large-scale environmental abiotic filtering shaping stress-tolerant community strategy, and small-scale biotic interactions driving small-scale trait variation. We recommend experimental studies with fire, facilitation treatments, eco-physiological and recruitment traits to elucidate on tree island expansion and communities response to climate change.

opencc-zeroJun 2022View details →

Raw data from: Inter- and intra-specific variation in mycotoxin tolerance: A study of four Drosophila species

Many mycophagous Drosophila species have adapted to tolerate high concentrations of mycotoxins, an ability not reported in any other eukaryotes. Although an association between mycophagy and mycotoxin tolerance has been established in many Drosophila species, the genetic mechanisms of the tolerance are unknown. This study presents the inter- and intraspecific variation in the mycotoxin tolerance trait. We studied the mycotoxin tolerance in four Drosophila species from four separate clades within the immigrans-tripunctata radiation from two distinct locations. The effect of mycotoxin treatment on 20 isofemale lines per species was studied using seven gross phenotypes: survival to pupation, survival to eclosion, development time to pupation and eclosion, thorax length, fecundity, and longevity. We observed interspecific variation among four species, with D. falleni being the most tolerant, followed by D. recens, D. neotestacea, and D. tripunctata, in that order. The results also revealed geographical variation and intraspecific genetic variation in mycotoxin tolerance. This report provides the foundation for further delineating the genetic mechanisms of the mycotoxin tolerance trait.

opencc-by-4.0Sep 2022View details →

Determination of traits responding to iron toxicity stress at different stages and genome-wide association analysis for iron toxicity tolerance in rice (Oryza sativa L.)

This vcf file constitute underlying raw data material for the manuscript "Determination of traits responding to iron toxicity stress at different stages and genome-wide association analysis for iron toxicity tolerance in rice (Oryza sativa L.)".  The SNP genotype data came from a whole-genome resequencing and were called using the Nipponbare IRGSP 1.0 rice reference genome. SNPs with a miss rate greater than 30% and minor allele frequency (MAF) less than 5% were removed. Heterozygous alleles were also excluded. Finally, 160,498 SNPs were selected and used in the GWAS analysis.

opencc-zeroOct 2022View details →

Dataset and scripts from: Dietary sterol availability modulates heat tolerance of Daphnia

The increasing frequency and intensity of summer heat waves is pushing freshwater zooplankton towards their upper thermal tolerance limits. At the same time, higher temperatures and prolonged water column stratification can favor the dominance of cyanobacteria in phytoplankton. Even when not toxic or grazing resistant, these prokaryotes lack phytosterols as essential precursors for cholesterol, the main sterol in animal tissues. Cholesterol plays a crucial role in the physiological adaptation of ectotherms to high temperature. Therefore, the shift to cyanobacteria-dominated systems may increase the vulnerability of zooplankton to heatwaves by intensifying cholesterol limitation. Here, we used death time curves that take into consideration the intensity and duration of a thermal challenge and a dynamic model to study the effects of cholesterol limitation on the heat tolerance of the keystone species Daphnia magna and to simulate the cumulative mortality that could occur in a fluctuating environment over several days of heatwave. We show that increasing cholesterol limitation does not affect the slope between time-to-immobilization and temperature, but does decrease the maximal temperature that Daphnia can withstand by up to 0.74°C. This seemingly small difference is sufficient to halve the time individuals can survive heat stress. Our simulations predicted that, when facing heatwaves over several days, the differences in survival caused by cholesterol limitation build up rapidly. Considering the anticipated intensity and duration of future (2070-2099) heatwaves, cholesterol limitation could increase mortality by up to 45% and 72% under low- and medium-greenhouse-gas-emission scenarios, respectively. These results suggest that the increasing risk of cholesterol limitation due to more frequent cyanobacterial blooms could compromise the resistance of zooplankton populations to future heatwaves. More generally, this study shows the importance of considering the nutritional context in any attempt to predict ectotherm mortality with increasing temperatures in the field.

opencc-zeroOct 2022View details →

Compiled dataset and posterior results for NEMo analyses on Acacia tolerance to aridity and salinity

The dataset contains the compiled data for the aridity and salinity conditions at Acacia species' presence and absence locations, factors on sampling bias, as well as Acacia phylogeny. The data file is the input to the NEMo analyses. The dataset also contains the result files from the analyses.

opencc-zeroDec 2023View details →

Genetic architecture of disease resistance and tolerance in Douglas-fir trees

Understanding the genetic architecture of tolerance and resistance to pathogens is important to monitor and maintain resilient tree populations. Here we investigate the genetic basis of tolerance and resistance to needle cast disease in Douglas-fir (Pseudotsuga menziesii) caused by two fungal pathogens: Swiss needle cast (SNC) caused by Nothophaeocryptopus gaeumannii, and Rhabdocline needle cast (RNC) caused by Rhabdocline pseudotsugae). We performed a case-control genome-wide association analysis (GWA) and found these traits to be polygenic and under selection. We showed that stomatal regulation as well as ethylene and jasmonic acid pathways are important for resisting SNC infection and secondary metabolite pathways play a role in tolerating SNC once the plant is infected. We identified a key upstream transcription factor of plant defence, ERF1, as the main candidate for RNC resistance. Our findings contribute to the understanding of the highly polygenic architectures underlying disease resistance and tolerance in Douglas-fir and have important implications for forestry and conservation as the climate changes.

opencc-zeroMay 2024View details →

Data from: Remarkable similarity of oxygen tolerance across marine taxa when standardized for temperature and body size

Species' ranges are shifting in response to increasing temperature and decreasing oxygen in coastal oceans. Forecasting these shifts is limited by information on physiological oxygen thresholds and how they depend on temperature. Here, we adopt an ecophysiological metric, the metabolic index, and estimate its parameters from data collected on marine taxa using phylogenetic trait imputation. The metabolic index is the ratio of temperature-dependent rates of oxygen supply to basal oxygen demands. By applying a hierarchical phylogenetic model to a data set of 74 marine taxa that accounts for both taxonomic distance (from Linnean classification) and biases related to lab methods, we find that the critical oxygen pressure at a reference body size and temperature is remarkably consistent across taxa, ranging 2.9 to 4.9 kPa. In comparison, the estimated effect of temperature on the critical oxygen pressure was more variable among taxa. These findings suggest that species-level differences in oxygen tolerance might be primarily related to differences in body size and preferred temperature. Further, this work provides data-informed distributions of parameters for species that lack experimental data to aid species distribution forecasting.

Figure 5 in Under pressure: maternal effects promote drought tolerance in progeny seed of Palmer amaranth (Amoronthus polmeri)

Figure 5. Shifts in distribution of base water potential of progeny seeds from two Amoronthus polmeri populations (California and Kansas) grown under contrasting maternal water conditions (continuous̜ ̜ ̹ water-deficit ̹ vs. well-watered). Seed germination was tested at two temperatures (20 and 30 C) under five water potentials. A hydrotime model, ̜ ̹ θ Equation 3, g w,t¼ Φ w ― H w,σ, was fit to estimate the median base water potentials, w (vertical dashed lines), and their respective standard deviations, σ, g tg bð50Þ wb bð50Þ wb to produce these probability density curves of normal distribution (see Table 1 for parameter estimates). Note that the area under the curve for base water potential values>0 indicates the proportion of seeds that have not germinated (i.e., dormancy level).

Figure 1 in Sensitivity to salinity at the emergence and seedling stages of barnyardgrass (EchinochloQ crus-gQlli), weedy rice (OryzQ sQtivQ), and rice with different tolerances to ALS-inhibiting herbicides

Figure 1. Dose–response emergence curve with the average data points of the different Echinochloa crus-galli populations against the salt concentration. Curve parameter estimates (Equation 1): s1 (b = 1.94, d = 55.85, e = 287.76), s2 (b = 1.52, d = 89.91, e = 222.71), s3 (b = 1.13, d = 89.91, e = 282.58), r1(b = 3.96, d = 67.67, e = 196.55), r2 (b = 6.85, d = 94.64, e = 123.58). The salt concentration required to reduce emergence by 50% (EC50) is shown below the graph. Only the significant pairwise comparisons between EC50 (SI index) are shown (Equation 2).

Figure 1 in Under pressure: maternal effects promote drought tolerance in progeny seed of Palmer amaranth (Amoronthus polmeri)

Figure 1. Plant height for Amoronthus polmeri populations (California and Kansas) grown under continuous water-deficit or well-watered irrigation conditions. Vertical lines on bars indicate SE.

Figure 4 in Under pressure: maternal effects promote drought tolerance in progeny seed of Palmer amaranth (Amoronthus polmeri)

Figure 4. The effect of maternal water conditions (continuous water-deficit vs. well-watered) on cumulative germination of progeny seeds in two Amoronthus polmeri populations (California and Kansas) tested under various water potentials at 30 C. Lines are fitted values obtained from the hydrotime model, Equation 3, ̜ ̹ ̜ ̜ ̹ ̹ g w,t¼ Φ w ― θH,w,σ, with parameter estimates shown in Table 1. g tg bð50Þ wb

Figure 3 in Under pressure: maternal effects promote drought tolerance in progeny seed of Palmer amaranth (Amoronthus polmeri)

Figure 3. The effect of maternal water conditions (continuous water-deficit vs. well-watered) on cumulative germination of progeny seeds in two Amoronthus polmeri populations (̜ California̜ ̹ and Kansas̹) tested under various water potentials at 20 C. Lines are fitted values obtained from the hydrotime model, Equation ̜ ̹ θ 3, g w,t¼ Φ w ― H, w, σb, with parameter estimates shown in Table 1. g tg bð50Þ w

Figure 2 in Under pressure: maternal effects promote drought tolerance in progeny seed of Palmer amaranth (Amoronthus polmeri)

Figure 2. Differences in 1,000-seed weight, seed surface area, and total germination (dormancy) of progeny seeds from two Amoronthus polmeri populations (California and Kansas) grown under continuous water-deficit (WD) or well-watered (WW) irrigation conditions. Vertical bars on data points indicate SE.

Figure 2 in Sensitivity to salinity at the emergence and seedling stages of barnyardgrass (EchinochloQ crus-gQlli), weedy rice (OryzQ sQtivQ), and rice with different tolerances to ALS-inhibiting herbicides

Figure 2. Dose–response emergence curve with the average data points of the different Oryza sativa (weedy rice) populations and rice varieties against the salt concentration. Curve parameter estimates (Equation 1): wr1 (b = 9.40, d = 87.14, e = 195.80), wr2 (b = 9.40, d = 87.14, e = 160.19), wr3 (b = 8.49, d = 89.73, e = 173.01), Baldo (b = 4.81, d = 87.12, e = 146.49), CL80 (b = 3.08, d = 60.89, e = 140.04). The salt concentration required to reduce the emergence by 50% (EC50) and the significant pairwise comparisons between EC50 (SI index) are shown below the graph (Equation 2).