cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22008/fk2/qdybl5
title: DK-model2019 - modelsetup (area: DK3)

description: This .zip file contains DK-model2019, area DK3 (Fyn), as a coupled MIKE SHE/MIKE HYDRO River model setup. The National Hydrological Model (DK-Model) is set up in the MIKE SHE/MIKE HYDRO River model system, which constitutes a deterministic fully distributed and physically based model complex for simulating the freshwater cycle. The model includes a description of the surface runoff (OL), the unsaturated zone (UZ), the saturated groundwater zone (SZ), including drainage runoff, as well as water flow in the streams (MIKE HYDRO River). The numerical hydrological model is set up in a discretization of 500 x 500m grid for the whole country, except for Bornholm, which is set up with a discretization of 250x 250m.
DOI: 10.22008/fk2/oqzprm
title: DK-model2019 - modelsetup (area: DK1, DK2)

description: This .zip file contains DK-model2019, area DK1 and DK2 (Sjælland og Øerne), as a coupled MIKE SHE/MIKE HYDRO River model setup. The National Hydrological Model (DK-Model) is set up in the MIKE SHE/MIKE HYDRO River model system, which constitutes a deterministic fully distributed and physically based model complex for simulating the freshwater cycle. The model includes a description of the surface runoff (OL), the unsaturated zone (UZ), the saturated groundwater zone (SZ), including drainage runoff, as well as water flow in the streams (MIKE HYDRO River). The numerical hydrological model is set up in a discretization of 500 x 500m grid for the whole country, except for Bornholm, which is set up with a discretization of 250x 250m.
DOI: 10.22008/fk2/tlcy4m
title: DK-model2019 - modelsetup (area: DK4, DK5, DK6)

description: This .zip file contains DK-model2019, area DK4, DK5 and DK6 (Jylland), as a coupled MIKE SHE/MIKE HYDRO River model setup. The National Hydrologiske Model (DK-Model) is set up in the MIKE SHE/MIKE HYDRO River model system, which constitutes a deterministic fully distributed and physically based model complex for simulating the freshwater cycle. The model includes a description of the surface runoff (OL), the unsaturated zone (UZ), the saturated groundwater zone (SZ), including drainage runoff, as well as water flow in the streams (MIKE HYDRO River). The numerical hydrological model is set up in a discretization of 500 x 500m grid for the whole country, except for Bornholm, which is set up with a discretization of 250x 250m.
DOI: 10.6073/pasta/d401579309b765cb76263d43272c4e64
title: Age and Size of Smith Firs at Treeline in Tibet 1700-2013

description: The most widespread response to global warming among alpine treeline ecotones is not an upward shift, but an increase in tree density. However, the impact of increasing density on interactions among trees at treeline is not well understood. Here, we test if treeline densification induced by climatic warming leads to increasing intraspecific competition. We mapped and measured the size and age of Smith fir trees growing in two treelines located in the southeastern Tibetan Plateau. We used spatial point-pattern and codispersion analyses to describe the spatial association and covariation among seedlings, juveniles, and adults grouped in 30-year age classes from the 1860s to the present. Effects of competition on tree height and regeneration were inferred from bivariate mark-correlations. Since the 1950s, a rapid densification occurred at both sites in response to climatic warming. Competition between adults and juveniles or seedlings at small scales intensified as density increased. Encroachment negatively affected height growth and further reduced recruitment around mature trees. We infer that tree recruitment at the study treelines was more cold-limited prior to 1950 and shifted to a less temperature-constrained regime in response to climatic warming. Therefore, the ongoing densification and encroachment of alpine treelines could alter the way climate drives their transitions towards subalpine forests.
DOI: 10.5281/zenodo.10302871
title: Soil BON Earthworm Trait template

description: Within the Soil BON Earthworm initiative, a trait template was developed, building largely on the one created for the BETSI database (Pey et al, 2014a, b). Similarly, the data template is composed of several leaflets:

"readme": this leaflet contains all column names from the leaflet "template to fill with data" and provide the necessary information to properly fill the information needed.
"template to fill with data": this leaflet is a long-format table in which each line is a trait value from a specific reference, allowing multiple trait values of the same trait for the same species to account for intraspecific trait variability due to inter-population variability, geography or ontogeny
"drop down list": this leaflet is non-modifiable and contains the different lists from which trait values are taken (e.g. trait name) to avoid synonyms.
Trait expression is highly influenced by the environment and metadata associated with any trait value is necessary. For certain traits, meta-data is especially important, such as burrow system characteristics that need to be linked to soil volume, density, moisture levels, or cast characteristics that need to be compared to the bulk soil. The trait template will be updated in the future to offer a solution to link single trait data and the metadata associated.
DOI: 10.5281/zenodo.10302872
title: Soil BON Earthworm Trait template

description: Within the Soil BON Earthworm initiative, a trait template was developed, building largely on the one created for the BETSI database (Pey et al, 2014a, b). Similarly, the data template is composed of several leaflets:

"readme": this leaflet contains all column names from the leaflet "template to fill with data" and provide the necessary information to properly fill the information needed.
"template to fill with data": this leaflet is a long-format table in which each line is a trait value from a specific reference, allowing multiple trait values of the same trait for the same species to account for intraspecific trait variability due to inter-population variability, geography or ontogeny
"drop down list": this leaflet is non-modifiable and contains the different lists from which trait values are taken (e.g. trait name) to avoid synonyms.
Trait expression is highly influenced by the environment and metadata associated with any trait value is necessary. For certain traits, meta-data is especially important, such as burrow system characteristics that need to be linked to soil volume, density, moisture levels, or cast characteristics that need to be compared to the bulk soil. The trait template will be updated in the future to offer a solution to link single trait data and the metadata associated.
DOI: 10.6073/pasta/440486fb0f3d629e5f123e6095104796
title: Harvard Forest Summer Research Program in Ecology Pre/Post Survey 2006-2015

description: Program Context
 Since its inception in 1985, when a single undergraduate worked on a study of old-growth forests, the Harvard Forest Summer Research Program in Ecology (HF-SRPE) has developed into a thriving and well-coordinated program that is central to the educational and research mission of the biological field station. With core support since 1993 from a succession of NSF REU Site awards and NSF REU supplements, and with additional funding from Harvard University, HF-SRPE has grown to support 20-30 undergraduate students annually. Students are mentored by principle investigators and senior scientists in conducting research in ecology, soil science, paleoecology, wildlife biology, conservation biology, and atmospheric sciences.
 The research conducted by our HF-SRPE students contributes substantially to long-term scientific investigations supported by NSF’s Long-Term Ecological Research (LTER) and National Ecological Observatory Network (NEON), NASA Earth System Science Pathfinder (ESSP) – Earth Ventures (EV) programs, The Smithsonian Institution’s ForestGEO network of plots, and Department of Energy’s (DOE) National Institute for Global Environmental Change (NIGEC). The overarching objectives of the program are to: enhance the ability of students to undertake high-quality interdisciplinary research; build teams of researchers in which students bring different strengths to the table, collaborate on cutting-edge projects, and find their own intellectual “voice”; encourage students to link fundamental and applied issues in their research; and cultivate the next generation of ecological scientists and educators that reflects the diversity of backgrounds and experiences of students in the United States.
 
 
 Problem Statement
 Starting in 2005 the National Science Foundation (NSF), as one of the largest funders of undergraduate research programs, began emphasizing the use of project evaluations to both qualitatively and quantitatively measure the success of REU programs (Research Experiences for Undergraduates (REU) Supplements and Sites: Program Solicitation NSF 05-592, 2005). One of the primary objectives of this initiative was to evaluate the degree of student learning aligned with specific programmatic goals. A comprehensive assessment tool for BIO REU programs would not implemented until 2010 using the Undergraduate Research Student Self-Assessment (URSSA) survey. Although the implementation of URSSA does provide national programmatic benchmarks, it is limited to a single post assessment which does not capture the change associated with the intervention project. This inability to capture the degree of gains is further exacerbated by the high caliber students recruited by HF-SRPE, presumably entering with more extensive skillsets.
DOI: 10.22008/fk2/7ysdww
title: dkms_gs3d_fohm

description: FOHM interpretation points and hydrostratigrafiske layers covering Sjælland and Sydhavsøerne
DOI: 10.6084/m9.figshare.24772872
title: A hybrid pathway for self-sustained luminescence - Raw data

description: Datasets in .csv or .xlsx format sorted into folders by figures. In some cases additional files with roi/well-to-sample mapping were provided.For more details contact authors.
DOI: 10.6073/pasta/f1f40c560f0afaf084423c33fa7d44fa
title: Leaf Gas Exchange in the Clearcut Site at Harvard Forest 2010-2012

description: Clearcutting a forest ecosystem can result in a drastic reduction of the stand’s productivity. Despite the severity of this disturbance type, past studies have found that the productivity of young regenerating stands can quickly rebound, approaching that of mature undisturbed stands within a few years. One of the obvious reasons is increased leaf area with each year of recovery. However, a less obvious reason may be the variability in species composition and distribution during the natural regeneration process. The purpose of this study was to investigate to what extent the increase in GEP, observed during the first four years of recovery, in a naturally regenerating clearcut stand was due to 1) an overall expansion of leaf area, and 2) an increase in the canopy’s photosynthetic capacity stemming from either species compositional shifts or drift in physiological traits within species. We found that the multi-year rise in GEP following harvest was clearly attributed to the expansion of leaf area rather than a change in vegetation composition. Sizeable changes in relative abundance of species were masked by remarkably similar leaf physiological attributes for a range of vegetation types present in this early successional environment. Comparison of upscaled leaf-chamber to eddy-covariance-based light-response curves revealed broad consistency in both maximum photosynthetic capacity and quantum yield efficiency. The approaches presented here illustrate how chamber- and ecosystem-scale measurements of gas exchange can be blended with species-level leaf area data to draw conclusive inferences about changes in ecosystem processes over time in a highly dynamic environment.
DOI: 10.6073/pasta/fcb27856ff14a195848953732a8fd4d8
title: Nonstructural Carbohydrates in Red Maple at Harvard Forest and Bartlett Forest 2011-2012

description: Nonstructural carbohydrates (NSC) are the primary products of photosynthesis, composed mostly of sugars and starch. Recent studies show that NSC pools in mature trees can be quite large and on average a decade old. Thus, NSC pools integrate years of carbon assimilation and represent significant ecological memory at the whole plant and ecosystem level. However, we know very little about how older stored NSC versus newly assimilated NSC are used to support growth and metabolism, or how available older NSC are to trees during stress or following disturbance. To better understand these potential lags in NSC allocation, we studied mature red maple (Acer rubrum) trees in two New England temperate forests. We determined stemwood concentrations of stored sugars and starch of five trees at each site. Applying the radiocarbon (14C) “bomb spike” approach, we estimated the age of carbon in stemwood NSC, ring cellulose, and bole respiration. We also collected stump sprouts regrowing from a separate set of recently harvested red maple trees at each site, and determined the radiocarbon age of this tissue. Our data show that younger NSC is preferentially used for growth and day-to-day metabolic demands. More recently stored NSC contributes to annual ring growth and metabolism in the dormant season. Older reserves are available to the tree after disturbance (e.g. harvesting).
DOI: 10.6084/m9.figshare.24588585
title: WM-connectome-development

description: This repository provides source data of figures in our study "Longitudinal development of brain white matter structural connectome and its association with transcriptomic and cellular architecture".If you use these data, please cite our paper:Guozheng Feng, Rui Chen, Rui Zhao, et al. Longitudinal development of the human white matter structural connectome and its association with brain transcriptomic and cellular architecture. Communications Biology. https://doi.org/10.1038/s42003-023-05647-8
DOI: 10.6084/m9.figshare.24588585.v4
title: WM-connectome-development

description: This repository provides source data of figures in our study "Longitudinal development of brain white matter structural connectome and its association with transcriptomic and cellular architecture".If you use these data, please cite our paper:Guozheng Feng, Rui Chen, Rui Zhao, et al. Longitudinal development of the human white matter structural connectome and its association with brain transcriptomic and cellular architecture. Communications Biology.
DOI: 10.6073/pasta/db695dd1bcd61ccc45fcf3a816b24ce3
title: Concentration and Age of Nonstructural Carbon Reserves in Two Trees at Harvard Forest 2012

description: We know surprisingly little about whole-tree nonstructural carbon (NSC;
 primarily sugars and starch) budgets. Even less well understood is the mixing
 between recent photosynthetic assimilates (new NSC) and previously stored
 reserves. And, NSC turnover times are poorly constrained.
 We characterized the distribution of NSC in the stemwood, branches, and roots
 of two temperate trees, and we used the continuous label offered by the
 radiocarbon (14C) bomb spike to estimate the mean age of NSC in different
 tissues.
 NSC in branches and outermost stemwood growth rings had the 14C signature of
 the current growing season. However, NSC in older above- and below-ground
 tissues was enriched in 14C, indicating that it was produced from older
 assimilates. Radial patterns of 14C in stemwood NSC showed strong mixing of NSC
 across the youngest growth rings, with limited.
DOI: 10.6084/m9.figshare.24772899
title: Kun Xing's Dataset for two-phase flow in anisotropic fractures

description: The above data describes the spatial point coordinate sets for generating anisotropic aperture fields (At=0.414 for transversely-correlated aperture field; At=1.021 for isotropic aperture field; At=2.566 for longitudinally-correlated aperture field), the data points in 2D phase diagrams from other references, and the displacement processes in different anisotropic fractures under capillary fingering regime.
DOI: 10.6084/m9.figshare.24772650
title: Highly Deformable and Strongly Magnetic Semi-Interpenetrating Hydrogels Based on Alginate or Cellulose

description: The effective implementation of many of the applications of magnetic hydrogels requires the development of innovative systems capable of withstanding a substantial load of magnetic particles to ensure exceptional responsiveness, without compromising their reliability and stability under operational conditions. To address this challenge, double-network hydrogels have emerged as a promising foundation, thanks to their extraordinary mechanical deformability and toughness. Here, we report a semi-interpenetrating polymer networks (SIPNs) approach to create diverse magnetic SIPNs hydrogels based on alginate or cellulose, exhibiting remarkable deformability under certain stresses. Achieving strong responsiveness to magnetic fields is a key objective, and this characteristic is realized by the incorporation of highly magnetic iron microparticles at moderately large concentrations into the polymer network. Remarkably, the SIPNs hydrogels developed in this research accommodate high loadings of magnetic particles without significantly compromising their physical properties. This feature is essential for their use in applications that demand robust responsiveness to applied magnetic fields and overall stability, such as a hydrogel luminescent oxygen sensor controlled by magnetic fields that we designed and tested as proof-of-concept. These findings underscore the potential and versatility of magnetic SIPNs hydrogels based on carbohydrate biopolymers as fundamental components in driving the progress of advanced hydrogels for diverse practical implementations.
DOI: 10.6084/m9.figshare.24772650.v1
title: Highly Deformable and Strongly Magnetic Semi-Interpenetrating Hydrogels Based on Alginate or Cellulose

description: The effective implementation of many of the applications of magnetic hydrogels requires the development of innovative systems capable of withstanding a substantial load of magnetic particles to ensure exceptional responsiveness, without compromising their reliability and stability under operational conditions. To address this challenge, double-network hydrogels have emerged as a promising foundation, thanks to their extraordinary mechanical deformability and toughness. Here, we report a semi-interpenetrating polymer networks (SIPNs) approach to create diverse magnetic SIPNs hydrogels based on alginate or cellulose, exhibiting remarkable deformability under certain stresses. Achieving strong responsiveness to magnetic fields is a key objective, and this characteristic is realized by the incorporation of highly magnetic iron microparticles at moderately large concentrations into the polymer network. Remarkably, the SIPNs hydrogels developed in this research accommodate high loadings of magnetic particles without significantly compromising their physical properties. This feature is essential for their use in applications that demand robust responsiveness to applied magnetic fields and overall stability, such as a hydrogel luminescent oxygen sensor controlled by magnetic fields that we designed and tested as proof-of-concept. These findings underscore the potential and versatility of magnetic SIPNs hydrogels based on carbohydrate biopolymers as fundamental components in driving the progress of advanced hydrogels for diverse practical implementations.
DOI: 10.6073/pasta/f76fa08775d5ad61280c6f35fbe43dbb
title: Soil Characteristics in the Clearcut Site at Harvard Forest 2012

description: Soil properties (C:N ratio, pH, soil moisture, bulk density, litter layer thickness) were measured at the clear cut site in December 2012. Measurements were taken inside the large PVC collars that were used to measure soil respiration at the sites during the 2012 growing season. The collars were removed for storage thereafter. 15 locations in total were sampled: 3 collars were in trenched plots, and 12 on untrenched soil. Soil properties were collected in order to help interpret spatial variability in the corresponding soil CO2 fluxes measured at the site.
DOI: 10.6073/pasta/abef4ce66e246998e8076fd76b1dcf81
title: Specific Leaf Area in the Clearcut Site at Harvard Forest 2012

description: Clearcutting a forest ecosystem can result in a drastic reduction of the stand’s productivity. Despite the severity of this disturbance type, past studies have found that the productivity of young regenerating stands can quickly rebound, approaching that of mature undisturbed stands within a few years. One of the obvious reasons is increased leaf area with each year of recovery. However, a less obvious reason may be the variability in species composition and distribution during the natural regeneration process. The purpose of this study was to investigate to what extent the increase in GEP, observed during the first four years of recovery, in a naturally regenerating clearcut stand was due to 1) an overall expansion of leaf area, and 2) an increase in the canopy’s photosynthetic capacity stemming from either species compositional shifts or drift in physiological traits within species. We found that the multi-year rise in GEP following harvest was clearly attributed to the expansion of leaf area rather than a change in vegetation composition. Sizeable changes in relative abundance of species were masked by remarkably similar leaf physiological attributes for a range of vegetation types present in this early successional environment. Comparison of upscaled leaf-chamber to eddy-covariance-based light-response curves revealed broad consistency in both maximum photosynthetic capacity and quantum yield efficiency. The approaches presented here illustrate how chamber- and ecosystem-scale measurements of gas exchange can be blended with species-level leaf area data to draw conclusive inferences about changes in ecosystem processes over time in a highly dynamic environment.
DOI: 10.6084/m9.figshare.24772809
title: Supplementary Tables

description: Supplementary Figures of the manuscript: <b>Novel Proteome Targets Marking Insulin Resistance in Metabolic Syndrome</b>
DOI: 10.6084/m9.figshare.24772809.v1
title: Supplementary Tables

description: Supplementary Figures of the manuscript: <b>Novel Proteome Targets Marking Insulin Resistance in Metabolic Syndrome</b>