Miracle-dz/UniFAR-FTUs huggingface dataset:
What is the relationship between soil methane oxidation and other C compounds?

We measured potential rates of methane (CH 4 ) oxidation in semiarid soil and observed greater rates of CH 4 oxidation in the wet season than the dry season (Sullivan et al. , 2013). Importantly, we demonstrated that common mechanisms (soil water, soil texture), thought to control methane (CH 4 ) oxidation in upland soil did not explain seasonal patterns in potential CH 4 oxidation in semiarid soil. Instead, dissolved organic carbon (DOC) was the chemical characteristic that best predicted CH 4 oxidation. We then used a series of labo-ratory studies to attribute this trend to the ability of CH 4 oxidizers in dry ecosystems to metabolize both DOC and CH 4 . Such mixotrophic activity by CH 4 oxi-dizing bacteria (MOB) has been found in other studies (e.g., Conrad, 2009; Dunﬁeld et al. , 2010; Dedysh & Dunﬁeld, 2011; Fender et al. , 2012). On the basis of the correlation between DOC and CH 4 oxidation rates, we speculated that facultative use of DOC by MOB increased CH 4 oxidation in the wet season. In their Letter to the Editor, Zhou et al. (2013) proposed an alternative hypothesis that explains lower rates of CH 4 oxidation in dry seasons than wet seasons: ethylene produced by water-stressed plants inhibits CH 4 oxidation during dry seasons. This intriguing hypothesis, which thus far is unsupported by data, warrants thor-ough investigation, but we desire to respond to several issues raised by their commentary on our manuscript. We absolutely agree
Gene expression profiles during short‐term heat stress in the red sea coral Stylophora pistillata

During the past several decades, corals worldwide have been affected by severe bleaching events leading to wide‐spread coral mortality triggered by global warming. The symbiotic Red Sea coral Stylophora pistillata from the Gulf of Eilat is considered an opportunistic ‘r’ strategist. It can thrive in relatively unstable environments and is considered a stress‐tolerant species. Here, we used a S. pistillata custom microarray to examine gene expression patterns and cellular pathways during short‐term (13‐day) heat stress. The results allowed us to identify a two‐step reaction to heat stress, which intensified significantly as the temperature was raised to a 32 °C threshold, beyond which, coping strategies failed at 34 °C. We identified potential ‘early warning genes’ and ‘severe heat‐related genes’. Our findings suggest that during short‐term heat stress, S. pistillata may divert cellular energy into mechanisms such as the ER‐unfolded protein response (UPR) and ER‐associated degradation (ERAD) at the expense of growth and biomineralization processes in an effort to survive and subsequently recover from the stress. We suggest a mechanistic theory for the heat stress responses that may explain the success of some species which can thrive under a wider range of temperatures relative to others.
Strong contribution of autumn phenology to changes in satellite‐derived growing season length estimates across Europe (1982–2011)

Land Surface Phenology (LSP) is the most direct representation of intra‐annual dynamics of vegetated land surfaces as observed from satellite imagery. LSP plays a key role in characterizing land‐surface fluxes, and is central to accurately parameterizing terrestrial biosphere–atmosphere interactions, as well as climate models. In this article, we present an evaluation of Pan‐European LSP and its changes over the past 30 years, using the longest continuous record of Normalized Difference Vegetation Index (NDVI) available to date in combination with a landscape‐based aggregation scheme. We used indicators of Start‐Of‐Season, End‐Of‐Season and Growing Season Length (SOS, EOS and GSL, respectively) for the period 1982–2011 to test for temporal trends in activity of terrestrial vegetation and their spatial distribution. We aggregated pixels into ecologically representative spatial units using the European Landscape Classification (LANMAP) and assessed the relative contribution of spring and autumn phenology. GSL increased significantly by 18–24 days decade−1 over 18–30% of the land area of Europe, depending on methodology. This trend varied extensively within and between climatic zones and landscape classes. The areas of greatest growing‐season lengthening were the Continental and Boreal zones, with hotspots concentrated in southern Fennoscandia, Western Russia and pockets of continental Europe. For the Atlantic and Steppic zones, we found an average shortening of the growing season with hotspots in Western France, the Po valley, and around the Caspian Sea. In many zones, changes in the NDVI‐derived end‐of‐season contributed more to the GSL trend than changes in spring green‐up, resulting in asymmetric trends. This underlines the importance of investigating senescence and its underlying processes more closely as a driver of LSP and global change.
Long-term follow-up of a group at ultra high risk ("prodromal") for psychosis: the PACE 400 study.

IMPORTANCE The ultra high-risk (UHR) criteria were introduced to prospectively identify patients at high risk of psychotic disorder. Although the short-term outcome of UHR patients has been well researched, the long-term outcome is not known. OBJECTIVE To assess the rate and baseline predictors of transition to psychotic disorder in UHR patients up to 15 years after study entry. DESIGN Follow-up study of a cohort of UHR patients recruited to participate in research studies between 1993 and 2006. SETTING The Personal Assessment and Crisis Evaluation (PACE) clinic, a specialized service for UHR patients in Melbourne, Australia. PARTICIPANTS Four hundred sixteen UHR patients previously seen at the PACE clinic. MAIN OUTCOMES AND MEASURES Transition to psychotic disorder, as measured using the Comprehensive Assessment of At-Risk Mental States, Brief Psychiatric Rating Scale/Comprehensive Assessment of Symptoms and History, or state public mental health records. RESULTS During the time to follow-up (2.4-14.9 years after presentation), 114 of the 416 participants were known to have developed a psychotic disorder. The highest risk for transition was within the first 2 years of entry into the service, but individuals continued to be at risk up to 10 years after initial referral. The overall rate of transition was estimated to be 34.9% over a 10-year period (95% CI, 28.7%-40.6%). Factors associated with transition included year of entry into the clinic, duration of symptoms before clinic entry, baseline functioning, negative symptoms, and disorders of thought content. CONCLUSIONS AND RELEVANCE The UHR patients are at long-term risk for psychotic disorder, with the highest risk in the first 2 years. Services should aim to follow up patients for at least this period, with the possibility to return for care after this time. Individuals with a long duration of symptoms and poor functioning at the time of referral may need closer monitoring. Interventions to improve functioning and detect help-seeking UHR patients earlier also may be indicated.
Holding Power of Orthopaedic Screws in Femora of Young Calves

Summary The holding power and holding power per mm bone width of 4.5 mm and 5.5 mm cortical and 6.5 mm cancellous orthopaedic screws were obtained by load-to-failure studies in excised femora of young female Holstein calves. Mean ( ± SD) holding power (HP), holding power per mm bone width (HPBW), and holding power per cortical bone width (HPCW) of 4.5 mm (179.67 ± 59.74 kg), 5.5 mm (171.46 ± 76.52 kg), and 6.5 mm orthopaedic screws (191.10 ± 56.67 kg) were not significantly different. The HP, HPBW, HPCW, bone width (BW), and cortical width (CW) were not different between left and right femora. The greatest HP was obtained in the proximal femoral diaphysis, while the smallest HP was observed in the proximal and distal metaphysis. The increase in HP was related to the increase in CW, but was not related to the BW. The CW at the insertion sites of orthopaedic screws in femora was significantly less than in metacarpi and metatarsi. The limiting factor of holding power in all tests was the shear strength of the bone. This study compares the holding power, holding power per mm bone width, and holding power per mm cortical width of 4.5 mm and 5.5 mm cortical and 6.5 mm cancellous orthopaedic screws in excised femora of young female Holstein calves. The holding power, holding power per mm bone width, and holding power per mm cortical width of different screws were not significantly different.
Stable carbon isotope analysis reveals widespread drought stress in boreal black spruce forests

Unprecedented rates of climate warming over the past century have resulted in increased forest stress and mortality worldwide. Decreased tree growth in association with increasing temperatures is generally accepted as a signal of temperature‐induced drought stress. However, variations in tree growth alone do not reveal the physiological mechanisms behind recent changes in tree growth. Examining stable carbon isotope composition of tree rings in addition to tree growth can provide a secondary line of evidence for physiological drought stress. In this study, we examined patterns of black spruce growth and carbon isotopic composition in tree rings in response to climate warming and drying in the boreal forest of interior Alaska. We examined trees at three nested scales: landscape, toposequence, and a subsample of trees within the toposequence. At each scale, we studied the potential effects of differences in microclimate and moisture availability by sampling on northern and southern aspects. We found that black spruce radial growth responded negatively to monthly metrics of temperature at all examined scales, and we examined ∆13C responses on a subsample of trees as representative of the wider region. The negative ∆13C responses to temperature reveal that black spruce trees are experiencing moisture stress on both northern and southern aspects. Contrary to our expectations, ∆13C from trees on the northern aspect exhibited the strongest drought signal. Our results highlight the prominence of drought stress in the boreal forest of interior Alaska. We conclude that if temperatures continue to warm, we can expect drought‐induced productivity declines across large regions of the boreal forest, even for trees located in cool and moist landscape positions.
Genetic footprints reveal geographic patterns of expansion in Fennoscandian red foxes

Population expansions of boreal species are among the most substantial ecological consequences of climate change, potentially transforming both structure and processes of northern ecosystems. Despite their importance, little is known about expansion dynamics of boreal species. Red foxes (Vulpes vulpes) are forecasted to become a keystone species in northern Europe, a process stemming from population expansions that began in the 19th century. To identify the relative roles of geographic and demographic factors and the sources of northern European red fox population expansion, we genotyped 21 microsatellite loci in modern and historical (1835–1941) Fennoscandian red foxes. Using Bayesian clustering and Bayesian inference of migration rates, we identified high connectivity and asymmetric migration rates across the region, consistent with source‐sink dynamics, whereby more recently colonized sampling regions received immigrants from multiple sources. There were no clear clines in allele frequency or genetic diversity as would be expected from a unidirectional range expansion from south to north. Instead, migration inferences, demographic models and comparison to historical red fox genotypes suggested that the population expansion of the red fox is a consequence of dispersal from multiple sources, as well as in situ demographic growth. Together, these findings provide a rare glimpse into the anatomy of a boreal range expansion and enable informed predictions about future changes in boreal communities.
Nitrous oxide fluxes in estuarine environments: response to global change

Nitrous oxide is a powerful, long‐lived greenhouse gas, but we know little about the role of estuarine areas in the global N2O budget. This review summarizes 56 studies of N2O fluxes and associated biogeochemical controlling factors in estuarine open waters, salt marshes, mangroves, and intertidal sediments. The majority of in situ N2O production occurs as a result of sediment denitrification, although the water column contributes N2O through nitrification in suspended particles. The most important factors controlling N2O fluxes seem to be dissolved inorganic nitrogen (DIN) and oxygen availability, which in turn are affected by tidal cycles, groundwater inputs, and macrophyte density. The heterogeneity of coastal environments leads to a high variability in observations, but on average estuarine open water, intertidal and vegetated environments are sites of a small positive N2O flux to the atmosphere (range 0.15–0.91; median 0.31; Tg N2O‐N yr−1). Global changes in macrophyte distribution and anthropogenic nitrogen loading are expected to increase N2O emissions from estuaries. We estimate that a doubling of current median NO3− concentrations would increase the global estuary water–air N2O flux by about 0.45 Tg N2O‐N yr−1 or about 190%. A loss of 50% of mangrove habitat, being converted to unvegetated intertidal area, would result in a net decrease in N2O emissions of 0.002 Tg N2O‐N yr−1. In contrast, conversion of 50% of salt marsh to unvegetated area would result in a net increase of 0.001 Tg N2O‐N yr−1. Decreased oxygen concentrations may inhibit production of N2O by nitrification; however, sediment denitrification and the associated ratio of N2O:N2 is expected to increase.
Interactive effects of elevation, species richness and extreme climatic events on plant–pollinator networks

Plant–pollinator interactions are essential for the functioning of terrestrial ecosystems, but are increasingly affected by global change. The risks to such mutualistic interactions from increasing temperature and more frequent extreme climatic events such as drought or advanced snow melt are assumed to depend on network specialization, species richness, local climate and associated parameters such as the amplitude of extreme events. Even though elevational gradients provide valuable model systems for climate change and are accompanied by changes in species richness, responses of plant–pollinator networks to climatic extreme events under different environmental and biotic conditions are currently unknown. Here, we show that elevational climatic gradients, species richness and experimentally simulated extreme events interactively change the structure of mutualistic networks in alpine grasslands. We found that the degree of specialization in plant–pollinator networks (H2′) decreased with elevation. Nonetheless, network specialization increased after advanced snow melt at high elevations, whereas changes in network specialization after drought were most pronounced at sites with low species richness. Thus, changes in network specialization after extreme climatic events depended on climatic context and were buffered by high species richness. In our experiment, only generalized plant–pollinator networks changed in their degree of specialization after climatic extreme events. This indicates that contrary to our assumptions, network generalization may not always foster stability of mutualistic interaction networks.
Net effects of multiple stressors in freshwater ecosystems: a meta‐analysis

The accelerating rate of global change has focused attention on the cumulative impacts of novel and extreme environmental changes (i.e. stressors), especially in marine ecosystems. As integrators of local catchment and regional processes, freshwater ecosystems are also ranked highly sensitive to the net effects of multiple stressors, yet there has not been a large‐scale quantitative synthesis. We analysed data from 88 papers including 286 responses of freshwater ecosystems to paired stressors and discovered that overall, their cumulative mean effect size was less than the sum of their single effects (i.e. an antagonistic interaction). Net effects of dual stressors on diversity and functional performance response metrics were additive and antagonistic, respectively. Across individual studies, a simple vote‐counting method revealed that the net effects of stressor pairs were frequently more antagonistic (41%) than synergistic (28%), additive (16%) or reversed (15%). Here, we define a reversal as occurring when the net impact of two stressors is in the opposite direction (negative or positive) from that of the sum of their single effects. While warming paired with nutrification resulted in additive net effects, the overall mean net effect of warming combined with a second stressor was antagonistic. Most importantly, the mean net effects across all stressor pairs and response metrics were consistently antagonistic or additive, contrasting the greater prevalence of reported synergies in marine systems. Here, a possible explanation for more antagonistic responses by freshwater biota to stressors is that the inherent greater environmental variability of smaller aquatic ecosystems fosters greater potential for acclimation and co‐adaptation to multiple stressors.
Angiotensin I-converting enzyme gene insertion/deletion and angiotensinogen M235T polymorphisms: Risk of chronic renal failure

Angiotensin I-converting enzyme gene insertion/deletion and angiotensinogen M235T polymorphisms: Risk of chronic renal failure. Background Chronic renal failure (CRF) is a complex phenotype that results from an underlying kidney disease and superimposing environmental and genetic factors. The aim of our study was to evaluate the role of polymorphisms in the genes encoding for components of the renin-angiotensin system (RAS) in the development and/or progression of CRF. Methods Two hundred forty-seven family trios (patients with CRF and both parents; 120 with primary chronic glomerulonephritis, 80 with interstitial nephritis, and 47 with type 1 diabetes with nephropathy) were examined, and transmission/disequilibrium test (TDT) was used to evaluate allele transmission from heterozygous parents to affected offspring. Results The D allele of the angiotensin I-converting enzyme (ACE) gene insertion/deletion polymorphism was transmitted significantly more frequently than expected for no association among all examined trios and in the subgroup of patients with interstitial nephritis. The angiotensinogen 235T allele was transmitted significantly more frequently to patients with CRF than expected for no association, but the effect was seen only in patients with interstitial nephritis. The presence of the DD or ID genotype was associated with a faster rate of decline of renal function, which was not observed for the angiotensinogen M235T polymorphism. For chymase gene and angiotensin II receptor type 1 gene, allele transmission did not deviate significantly from a random proportion of 50:50%. Conclusions The results of this study suggest that ACE gene insertion/deletion and angiotensinogen M235T polymorphisms contribute to the increased risk for the development of CRF, but the magnitude of the effect within subsets of patients with specific etiologies of CRF must be evaluated further.
Environmental changes affect the assembly of soil bacterial community primarily by mediating stochastic processes

Both ‘species fitness difference’‐based deterministic processes, such as competitive exclusion and environmental filtering, and ‘species fitness difference’‐independent stochastic processes, such as birth/death and dispersal/colonization, can influence the assembly of soil microbial communities. However, how both types of processes are mediated by anthropogenic environmental changes has rarely been explored. Here we report a novel and general pattern that almost all anthropogenic environmental changes that took place in a grassland ecosystem affected soil bacterial community assembly primarily through promoting or restraining stochastic processes. We performed four experiments mimicking 16 types of environmental changes and separated the compositional variation of soil bacterial communities caused by each environmental change into deterministic and stochastic components, with a recently developed method. Briefly, because the difference between control and treatment communities is primarily caused by deterministic processes, the deterministic change was quantified as (mean compositional variation between treatment and control) – (mean compositional variation within control). The difference among replicate treatment communities is primarily caused by stochastic processes, so the stochastic change was estimated as (mean compositional variation within treatment) – (mean compositional variation within control). The absolute of the stochastic change was greater than that of the deterministic change across almost all environmental changes, which was robust for both taxonomic and functional‐based criterion. Although the deterministic change may become more important as environmental changes last longer, our findings showed that changes usually occurred through mediating stochastic processes over 5 years, challenging the traditional determinism‐dominated view.
Psychotic Experiences in the General Population: A Cross-National Analysis Based on 31,261 Respondents From 18 Countries.

IMPORTANCE Community-based surveys find that many otherwise healthy individuals report histories of hallucinations and delusions. To date, most studies have focused on the overall lifetime prevalence of any of these psychotic experiences (PEs), which might mask important features related to the types and frequencies of PEs. OBJECTIVE To explore detailed epidemiologic information about PEs in a large multinational sample. DESIGN, SETTING, AND PARTICIPANTS We obtained data from the World Health Organization World Mental Health Surveys, a coordinated set of community epidemiologic surveys of the prevalence and correlates of mental disorders in representative household samples from 18 countries throughout the world, from 2001 through 2009. Respondents included 31,261 adults (18 years and older) who were asked about lifetime and 12-month prevalence and frequency of 6 types of PEs (2 hallucinatory experiences and 4 delusional experiences). We analyzed the data from March 2014 through January 2015. MAIN OUTCOMES AND MEASURES Prevalence, frequency, and correlates of PEs. RESULTS Mean lifetime prevalence (SE) of ever having a PE was 5.8% (0.2%), with hallucinatory experiences (5.2% [0.2%]) much more common than delusional experiences (1.3% [0.1%]). More than two-thirds (72.0%) of respondents with lifetime PEs reported experiencing only 1 type. Psychotic experiences were typically infrequent, with 32.2% of respondents with lifetime PEs reporting only 1 occurrence and 31.8% reporting only 2 to 5 occurrences. We found a significant relationship between having more than 1 type of PE and having more frequent PE episodes (Cochran-Armitage z = -10.0; P < .001). Lifetime prevalence estimates (SEs) were significantly higher among respondents in middle- and high-income countries than among those in low-income countries (7.2% [0.4%], 6.8% [0.3%], and 3.2% [0.3%], respectively; χ²₂ range, 7.1-58.2; P < .001 for each) and among women than among men (6.6% [0.2%] vs 5.0% [0.3%]; χ²₁ = 16.0; P < .001). We found significant associations with lifetime prevalence of PEs in the multivariate model among nonmarried compared with married respondents (χ²₂ = 23.2; P < .001) and among respondents who were not employed (χ²₄= 10.6; P < .001) and who had low family incomes (χ²₃ = 16.9; P < .001). CONCLUSIONS AND RELEVANCE The epidemiologic features of PEs are more nuanced than previously thought. Research is needed that focuses on similarities and differences in the predictors of the onset, course, and consequences of distinct PEs.