cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6073/pasta/f0ddd75c511280b979013e33f9edb6e1
title: Calibrating Abundance Indices of Red Back Salamanders at Harvard Forest 2014

description: Herpetologists and conservation biologists frequently use convenient and cost-effective, but less accurate, abundance indices (e.g. artificial cover boards or natural objects surveys) in lieu of more accurate but costly and destructive population size estimators to detect and monitor size, state, and trends of amphibian populations. Despite advantages and disadvantages to each approach, studies calibrating abundance indices so they can be used as reliable population estimators are rare. We calibrated indices based on surveys under artificial cover boards and natural objects with a more accurate estimator of population sizes of red back salamanders (Plethodon cinereus (Green)) in a New England forest. Plethodon cinereus is an ecologically significant indicator species of forest dynamics, and accurate calibration of these indices should increase their reliability for monitoring programs. Average density/m2, capture probability, relative density of both natural objects searches, and cover board observations of P. cinereus in 30 × 30-m plots at the Harvard Forest (Petersham, Massachusetts, USA) were similar in stands dominated by Tsuga canadensis (eastern hemlock) and deciduous hardwood species (predominantly Quercus rubra [red oak] and Acer rubrum [red maple]). Abundance indices based on both cover board and natural object surveys were able to be calibrated using density estimates of P. cinereus derived from depletion (removal) surveys. The cover board index underestimated the estimated density of P. cinereus by 40%, but the natural object survey underestimated it by about 55%. We conclude that when calibrated and used appropriately, abundance indices can provide cost-effective and reliable measures of P. cinereus abundance that may be used in conservation assessments and long-term monitoring of northeastern USA forests.
DOI: 10.6084/m9.figshare.24773154
title: Extraction evaluation

description: Novogene extraction evaluation form.
DOI: 10.6084/m9.figshare.24773154.v1
title: Extraction evaluation

description: Novogene extraction evaluation form.
DOI: 10.6084/m9.figshare.24773244
title: Glucose and carbon dioxide - raw dataset

description: Raw dataset containing capillary blood glucose levels and end tidal carbon dioxide, analyzed in the manuscript by Powner and Jeffery
DOI: 10.6084/m9.figshare.24773244.v1
title: Glucose and carbon dioxide - raw dataset

description: Raw dataset containing capillary blood glucose levels and end tidal carbon dioxide, analyzed in the manuscript by Powner and Jeffery
DOI: 10.34740/kaggle/dsv/7154582
title: UK National, US Mega MM & Euro MM Lotteries.
DOI: 10.6084/m9.figshare.24773205
title: Soil incubation data of fencing and grazing grasslands with <sup>13</sup>C-glucose addition

description: This dataset records basic soil information and its corresponding incubation data from five pairs of fencing and grazing sites in the temperate grasslands of northern China.Ten soil samples were collected from fencing and grazing sites of five temperate grasslands on the Inner Mongolian Plateau, China, in August 2021. Before sampling, plant aboveground biomass was measured using the dry weighing method. At each site, soils of the top 20 cm layer were sampled and passed through a 2 mm sieve to remove visible stones, roots, and other plant debris. After homogenization, soil texture, SOC, and MBC content were measured. All soil samples were stored at -20 °C until the incubation experiment started.During the incubation, <sup>13</sup>C-labeled glucose addition treatments were performed and four replicates were conducted. Soil samples equivalent to 20 g air-dried soil were added to 250 ml mason jars. All soils were incubated in the dark at 25 °C and a relative humidity of 60% for 102 days. After a 7-day pre-incubation, <sup>13</sup>C-labeled glucose (99 atom% <sup>13</sup>C) was added at a dose of 0.4 mg C g<sup>-1</sup> soil. On days 1, 3, 6, 12, 19, 34, 47, 78, and 102 of the incubation, each jar was flushed with CO<sub>2</sub>-free air for 3 minutes. After that, the CO<sub>2</sub> emission rate was measured using an infrared gas analyzer (Li-8100A; Li-COR, USA) within 3 minutes from the headspace. The average cumulative respiration of the four replicates and its standard error (SE) are provided in the dataset. After the last gas measurement, soils were destructively harvested and stored at -80℃ for the subsequent soil carbon (C) pools measurements.The chloroform-fumigation-extraction method was used to determine MBC contents. The POC and MAOC content were assessed through the particle size fractionation method. <sup>13</sup>C isotope of each C pool were analyzed using an Isotope Ratio Mass Spectrometer (Delta V Advantage, ThermoFisher Scientific, America). Further, the contributions of glucose-derived C to the MBC, POC, and MAOC pools were calculated using the isotopic mixing model.
DOI: 10.6084/m9.figshare.24773346
title: Glucose and Carbon dioxide raw dataset

description: Raw dataset containing capillary blood glucose levels and end tidal carbon dioxide, analyzed in the manuscript by Powner and Jeffery
DOI: 10.6073/pasta/5a17c5689767d95056ec63842b981998
title: NPP Study: Annual aboveground net primary production, summary by site

description: Summarizes mean aboveground net primary production, in g/m2/yr, by year for each of 15 sites. Annual totals derived by summing seasonal production values for winter (October - February), spring (February - May), and fall (May - October) increments for a single calendar year.
Please refer to these publications to evaluate the appropriateness of these data for your intended use prior to contacting Debra Peters, Responsible Investigator, with a data request.


Peters, Debra P. C., Jin Yao, Osvaldo E. Sala, and John P. Anderson. 2012. Directional climate change and potential reversal of desertification in arid and semiarid ecosystems. Global Change Biology 18, no. 1 151-63. doi 10.1111/j.1365-2486.2011.02498.x.



Peters, Debra P. C., Jin Yao, Dawn Browning, and Albert Rango. 2014. Mechanisms of grass response in grasslands and shrublands during dry or wet periods. Oecologia 174 1323-34.

Attention: These data are not appropriate for estimates of percentage cover. NPP-associated percent cover measurements were developed for and are used solely to provide the best estimate of biomass production. Becuase the methodology results in measurements of overlapping subcanopy systems and canopies of adjacent individuals, NPP percent cover measurements are not an appropriate measure of actual aerial plant cover. Doing so will result in inflated numbers for the "actual" vegetative cover.
Attention: Data through 2003 was replaced online per below on 9/22/2011. Analyses and results for ANPP differ from previous uses of the data from 1989-1998 (Huenneke et al., 2002) in three ways: (1) Yucca elata was removed prior to analysis because its growth form results in large errors in biomass estimates from year-to-year, (2) regressions between biomass and plant volume used an intercept equal to 0 to be consistent with a recent study in a similar system (Muldavin et al., 2008), and (3) reference harvests obtained in extreme years resulted in adjusted regression coefficents through time that reflect year-to-year variation in ANPP. These changes result in ANPP values that are smaller compared (Peters et al. submitted) with previous studies (Huenneke et al., 2002).
DOI: 10.21943/auas.24770085
title: INSTRUMENTS

description: Betreft eigenlijk instrumenten zoals  infoblad, toestemmingsformulier en interviewguide
DOI: 10.21943/auas.24770085.v1
title: INSTRUMENTS

description: Betreft eigenlijk instrumenten zoals  infoblad, toestemmingsformulier en interviewguide
DOI: 10.6073/pasta/ce0346d5078f9c2115366ae6ece769a7
title: Radiometric and Meteorological Data from Harvard Forest Barn Tower Since 2011

description: To better quantify the seasonal changes in canopy structure and physiological status (e.g. photosynthetic capacity or efficiency), and provide a more rigorous context for interpretation of the camera data, we installed an extensive set of radiometric instruments on the Harvard Forest Barn Tower beginning in 2011. A complete list of sensors is given in the Methods section. Note that these include both broad-band and narrow-band sensors, and sensors with hemispherical, narrow, and multi-angular fields of view.
DOI: 10.6084/m9.figshare.24773541
title: 20231209_starrydata2

description: All data on Starrydata2, a database of experimental properties in the field of inorganic materials
DOI: 10.6084/m9.figshare.24773541.v1
title: 20231209_starrydata2

description: All data on Starrydata2, a database of experimental properties in the field of inorganic materials
DOI: 10.17909/8yq1-qv46
title: First JWST NIRCam and MIRI coronagraphic observations of Beta Pictoris

description: Cycle 1 NIRCam and MIRI coronagraphy of the Beta Pictoris system spanning from 1.8 - 23 microns, as presented in Rebollido et al. 2024. This comprises all data from program 1411, including the PSF reference observations of Alpha Pic. For the analyses presented in Rebollido et al. 2024 and Kammerer et al. 2024, we started from the uncal files and performed custom optimized pipeline reductions as discussed in those papers.
DOI: 10.6073/pasta/9fa544bc89bf752e9322dddfca215ee2
title: Climate Change Impacts on Forest Biodiversity at Harvard Forest since 2011

description: Climate change is rapidly transforming forests over much of the globe in ways that are not anticipated by current science. Large-scale forest diebacks, apparently linked to interactions involving drought, warm winters, and other species, are becoming alarmingly frequent. Models of biodiversity and climate have not provided guidance on if/where/when such responses will occur. Instead models often predict potential numbers of extinctions, but these forecasts not are linked in any mechanistic way to the processes that could cause them. Both modeling and field studies rely on aggregate metrics of species presence/absence or relative abundance at regional scales, but climate affects individuals. Aggregation of individual data to the species level, hides or even qualitatively changes climate effects. By sampling and analysis at the individual scale across continental variation in climate, this study can link the individual scale processes to regional responses. This study will exploit existing research sites and the new NEON platform of sites for synthesis of models and data to determine when and where predicting climate impacts on biodiversity is a plausible goal, understand where surprises are likely to occur, and attribute those predictions back to individual tree health and vulnerability to climate risk factors.
 The study will provide climate vulnerability forecasts for forest biodiversity that are directly linked to the process scale. Our goal is provide probabilistic forecasts for the joint distribution of forest responses to climate change, including growth, reproduction, and mortality risk. For scientists, US Forest Service researchers, and policy makers predictions will anticipate combined risks of increasing drought and longer growing seasons. Methods developed under this project will be disseminated through training workshops for postdoctoral associates at other universities and resource managers.
DOI: 10.5281/zenodo.10203948
title: Phenotypic stasis despite genetic divergence and differentiation in Caenorhabditis elegans.

description: # Data for the manuscript : Phenotypic stasis despite genetic divergence and differentiation in Caenorhabditis elegans.
https://doi.org/10.1101/2022.05.28.493856
 
The data directory contains:
- the raw transition rates in  Final_merged_data_NGM.txt
- population male frequencies estimates : population_rep_male_freqs.txt
- fertility data from the Cemee: fertility.rda (from Noble et al. 2017)
- Mean state frequencies in the movies : State_freq_NGM.txt
 
The Rcode directory contains all code to reproduce the analysis is available on github:
https://github.com/ExpEvolWormLab/Mallard_Stasis
DOI: 10.5281/zenodo.10203947
title: Phenotypic stasis despite genetic divergence and differentiation in Caenorhabditis elegans.

description: # Data for the manuscript : Phenotypic stasis despite genetic divergence and differentiation in Caenorhabditis elegans.
https://doi.org/10.1101/2022.05.28.493856
 
The data directory contains:
- the raw transition rates in  Final_merged_data_NGM.txt
- population male frequencies estimates : population_rep_male_freqs.txt
- fertility data from the Cemee: fertility.rda (from Noble et al. 2017)
- Mean state frequencies in the movies : State_freq_NGM.txt
 
The Rcode directory contains all code to reproduce the analysis is available on github:
https://github.com/ExpEvolWormLab/Mallard_Stasis
DOI: 10.6073/pasta/c9c607f39797fd87bd275dac95a8ab02
title: Extracellular Enzyme Activity in Rhizosphere Soil at Harvard Forest and Pisgah State Forest 2010

description: The exudation of carbon (C) by tree roots stimulates microbial activity and the production of extracellular enzymes in the rhizosphere. Here, we investigated whether the strength of rhizosphere processes differed between temperate forest trees that vary in soil organic matter (SOM) chemistry and associate with either ectomycorrhizal (ECM) or arbuscular mycorrhizal (AM) fungi. We measured rates of microbial and extracellular enzyme activity, and nitrogen (N) availability in samples of rhizosphere and bulk soil influenced by four temperate forest tree species (i.e., to estimate a rhizosphere effect). The magnitude of the rhizosphere effects could not be easily characterized by mycorrhizal associations or SOM chemistry. Ash had the lowest rhizosphere effects and beech had the highest rhizosphere effects, representing one AM and one ECM species, respectively. Hemlock and sugar maple had equivalent rhizosphere effects on enzyme activity. However, the form of N produced in the rhizosphere varied with mycorrhizal association. Enhanced enzyme activity primarily increased amino acid availability in ECM rhizospheres and increased inorganic N availability in AM rhizospheres. These results show that the exudation of C by roots can enhance extracellular enzyme activity and soil-N cycling. This work suggests that global changes that alter belowground C allocation have the potential to impact the form and amount of N to support primary production in ECM and AM stands.
DOI: 10.6073/pasta/d7a168aba4982e2d675908bf52d252a9
title: Social Network Survey of Forest Landowners in New Hampshire and Vermont 2010

description: Forests provide invaluable services, and nationally a significant portion of them are owned by millions of individual, private decision makers. Butler (2008) reports that the vast majority of owners (92%, representing 87% of all family forest lands) make management decisions for their land on their own, with a very small minority relying on the advice of professional foresters. Nationally, Butler (2008) goes on to report that 4 % of family forest owners (representing 17% of family forest land) have a professionally prepared management plan for their lands. It is clear that family forests are important, yet millions of owners are apparently not making decisions on the basis of professional advice. Our goal was to improve our understanding of who landowners seek information from when making decisions about their forestland. More specifically, our objective was to explore the possible role of egocentric social networks that landowners may rely upon for information when making a decision. Can we estimate their composition, the possible role of professionals, and the nature of the relationships, in terms of involvement, helpfulness, and trust? Finally, we explored landowner egocentric networks in two similar and adjacent states (Vermont and New Hampshire) that have different programmatic approaches to reaching landowners. Do these result in different ways that landowners acquire information?
 Using two different approaches through a mail survey methodology, we assessed the extent to which private woodland owners are connected to other people, the degree to which they are considered information sources, and the nature of their decision making behavior. Respondents consistently report valuable connections to non-professionals. They similarly report nominal contact to public foresters, whose role is to inspire prudent forest stewardship on privately held lands. This minimal contact is consistent in two different states with rather different programmatic goals (e.g., education and outreach focus in NH vs. technical assistance in VT). Paradoxically, those respondents who do have contact with public foresters value their involvement and trust them highly. Our results suggest, however, that there currently exist informal and largely unrecognized connections and networks that woodland owners tap and place importance upon. Improving the decision making of private woodland owners, and shifting it from reactive to more proactive in nature, based on a full understanding of available information and alternatives, seems possible if means are developed to harness the potential power of these invisible connections.
DOI: 10.6073/pasta/6d91d6cb964735e8dd11bc55175db06a
title: Warming Effects on Microbial Structure and Decomposition at Harvard Forest 2011

description: Because microorganisms are sensitive to temperature, ongoing global warming is predicted to influence microbial community structure and function. We used large-scale warming experiments established at two sites near the northern and southern boundaries of US eastern deciduous forests to explore how microbial communities and their function respond to warming at sites with differing climatic regimes. Soil microbial community structure and function responded to warming at the southern but not the northern site. However, changes in microbial community structure and function at the southern site did not result in changes in cellulose decomposition rates. While most global change models rest on the assumption that taxa will respond similarly to warming across sites and their ranges, these results suggest that the responses of microorganisms to warming may be mediated by differences across the geographic boundaries of ecosystems.
DOI: 10.6073/pasta/2fd914cdce176ee522ccdffa283a6ac3
title: Root Exudation Simulation Experiment in a Red Oak Stand at Harvard Forest 2011

description: Root exudation is thought to increase the activity of microbes and the exoenzymes they synthesize, leading to accelerated rates of carbon (C) mineralization and nutrient cycling in rhizosphere soils relative to bulk soils. The nitrogen (N) content of microbial biomass and exoenzymes may introduce a stoichiometric constraint on the ability of microbes to effectively utilize the root exudates, particularly if the exudates are rich in C but low in N. We combined a theoretical model of microbial activity with an exudation experiment to test the hypothesis that the ability of soil microbes to utilize root exudates for the synthesis of additional biomass and exoenzymes is constrained by N availability. The field experiment simulated exudation by automatically pumping solutions of chemicals often found in root exudates (“exudate mimics”) containing C alone or C in combination with N (C:N ratio of 10) through microlysimeter “root simulators” into intact forest soils in two 50-day experiments. The delivery of C-only exudate mimics increased microbial respiration but had no effect on microbial biomass or exoenzyme activities. By contrast, experimental delivery of exudate mimics containing both C and N significantly increased microbial respiration, microbial biomass, and the activity of exoenzymes that decompose low molecular weight components of soil organic matter (SOM, e.g., cellulose, amino sugars), while decreasing the activity of exoenzymes that degrade high molecular weight SOM (e.g., polyphenols, lignin). The modeling results were consistent with the experiments; simulated delivery of C-only exudates induced microbial N-limitation, which constrained the synthesis of microbial biomass and exoenzymes. Exuding N as well as C alleviated this stoichiometric constraint in the model, allowing for increased exoenzyme production, the priming of decomposition, and a net release of N from SOM (i.e., mineralization). The quantity of N released from SOM in the model simulations was, under most circumstances, in excess of the N in the exudate pulse, suggesting that the exudation of N-containing compounds can be a viable strategy for plant-N acquisition via a priming effect. The experimental and modeling results were consistent with our hypothesis that N-containing compounds in root exudates affect rhizosphere processes by providing substrates for the synthesis of N-rich microbial biomass and exoenzymes.
DOI: 10.5519/qd.mhrk4wt6
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1001 records)
DOI: 10.6073/pasta/4818d2cd40661a8f189a0eca93db4bbd
title: Temperature Sensitivity of Microbial Activity in Three Forest Soils at Harvard Forest 2010-2011

description: We evaluated possible seasonal variation in the temperature sensitivity of microbially mediated soil fluxes related to decomposition (net N mineralization, net nitrification, proteolysis, the maximum velocity (Vmax) of proteolysis, microbial respiration, and the Vmax of four soil exo-enzymes) across forests dominated by eastern hemlock (Tsuga canadensis), white ash (Fraxinus americana), and red oak (Quercus rubra) in Harvard Forest. We asked two simple questions: (1) do temperature sensitivities vary across forest types or different steps of the decomposition process, and (2) do temperature sensitivities display plasticity on a seasonal time frame?We observed substantial variation in temperature sensitivities (Q10 and R10 values) across the different fluxes and forest types. The ash soils exhibited the strongest temperature sensitivities and the mineral-N fluxes exhibited higher temperature sensitivities relative to the proteolytic fluxes or microbial respiration. The Vmax of soil exo-enzymes varied considerably in an interactive manner across forests and time, and the response of some enzymes was consistent with the thermal plasticity. The enzymatic kinetic properties Vmax and Km (half-saturation constant) were strongly correlated with slopes that differed across enzymes, reflecting an enzyme-specific tradeoff between maximum catalytic rate and substrate-binding efficiency. Generally, Q10 values were largely constant, but R10 values varied in a manner consistent with distinct seasonal plasticity. There was a consistent seasonal shift in R10 values coincident with snowmelt, suggesting that the time following snowmelt is a particularly interesting and dynamic period of microbial activity in these temperate forests.
DOI: 10.5281/zenodo.10303914
title: Citizen Perceptions on Water Services_5 Albanian Municipalities

description: Raw dataset related to citizen perceptions on water services in 5 Albanian Municipalities.
DOI: 10.5281/zenodo.10303915
title: Citizen Perceptions on Water Services_5 Albanian Municipalities

description: Raw dataset related to citizen perceptions on water services in 5 Albanian Municipalities.
DOI: 10.5281/zenodo.10066481
title: Suplementary Files-Effect of Post-Extubation Inspiratory Muscle Training on Diaphragmatic Function in Mechanically Ventilated Patients: A Randomized Controlled Trial
DOI: 10.5281/zenodo.10066482
title: Suplementary Files-Effect of Post-Extubation Inspiratory Muscle Training on Diaphragmatic Function in Mechanically Ventilated Patients: A Randomized Controlled Trial
DOI: 10.5281/zenodo.10303923
title: Supplementary material for "Does sociality affect evolutionary speed?"

description: This supplementary material contains Table 1 which summarises all evidence discussed throughout the paper and used to create Figure 3 in Socias-Martínez and Peckre (2023) Does sociality affect evolutionary speed?, Peer Community Journal, 3: XX. https://doi.org/10.24072/pcjournal.352.