cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.8cz8w9gst
title: Legume-Rhizobium symbiosis phenotypes

description: We coded 771 articles published between January 1, 2009 and September 30,
 2020 based on presence of relevant legume or rhizobium phenotypes. We were
 broadly interested in articles that quantified rhizobia and identified
 other relevant legume phenotypes. We used Web of Science through Chapman
 University to search for articles related to the legume-rhizobium
 symbiosis. After filtering articles for relevance, we identified 25
 phenotypes present at least once in a single article, and we indicated
 which articles report data on that phenotype.
description: <strong>Web of Science
 Search</strong> The Web of
 Science database was the chosen literature resource to obtain relevant
 scientific articles on the topic of interest. When finding journal
 articles, keywords were searched as Topic = (rhiz* OR bradyrhiz* OR
 mesorhiz* OR sinorhiz* OR ensifer*) AND Topic = (count* OR form* OR quant*
 OR estimat*) AND Topic = nod* in the search engine. Journal articles were
 relevant if they were published from January 1, 2009 to September 30,
 2020. Author, title, source, year of publication, and DOI were exported
 via Web of Science. This initial search for literature yielded 2,440
 papers.  <strong>Initial Filtering of Journal
 Articles</strong> During the
 initial round of examining articles, only the titles and the abstracts
 were analyzed. In a datasheet, articles were kept if there was evidence of
 1) “plant growth-promoting rhizobacteria (PGPR),” 2) rhizobia and legume
 species, and 3) “nodule/nodulation” within the abstract. All other
 articles were removed from further cataloging.
 <strong>Phenotype Coding</strong> Articles were accessed using Chapman University
 Leatherby Library. Articles were examined for legume and rhizobia species
 and phenotypes. 25 phenotypes were identified: “Rhizobia Growth or Growth
 Rate,”  “Plant Growth or Dry Weight or Fresh Weight, “Root Dry Weight or
 Density,” “Root Branching or Length,” Rhizobia Colony Morphology,”
 “Rhizobia Number,” “Shoot Dry Weight,” “Nodule Dry Weight,” “Number of
 Nodules Per Plant,” “Number of Nodules,” “Acetylene Reduction,” “Isotopic
 15N,” “Biomass,” “Chlorophyll,” “Roots Per Plant,” “Leaf Number or
 Weight,” “Shoot Length,” “Nitrogen Fixation,” “Nodule Occupancy or
 Diversity,” “Seed Count or Production,” “Nodule Structure,” “Shoot
 Number,” “Root/Shoot Ratio,” “Branch Dry Weight,” and “Nodule Color.”
 Phenotype categories were added throughout the process of reading articles
 if necessary. Phenotypes that were present in journal articles were marked
 with a ‘Y’ on the datasheet. A total of 771 articles were analyzed for
 phenotypes.
description: Columns A-D contain article metadata Columns
 E-F are organized by rhizobia and legume species, respectively. Multiple
 species are separated by a comma. N/A indicates so species found at time
 of coding Columns G-AE are phenotypes identified within
 all articles. Each phenotype is present in at least one article.
 'Y' indicates that phenotype was measured. Empty cells indicate
 no presence.
DOI: 10.5061/dryad.fj6q573x9
title: A synthesis of nitric oxide emissions across global fertilized croplands from crop-specific emission factors

description: Nitrogen (N)-fertilizer application to agricultural soils results in
 substantial emissions of nitric oxide (NO), a key substance in
 tropospheric chemistry involved in climate forcing and air pollution.
 However, estimates of global cropland NO emissions remain uncertain due to
 a lack of information on direct NO emission factors (EFds) of applied N
 for variours cropping systems at seasonal or annual scales. Here we
 quantified the crop-specific seasonal and annual-scale NO EFds through
 synthesizing 1094 measurements from 125 field-based studies worldwide. The
 global mean crop-specific seasonal EFd was 0.53%, with the highest for
 vegetables (0.75%). Among cereal crops, the EFd of maize (0.45%) or wheat
 (0.47%) was about three-times higher than for rice (0.12%). At annual
 scale, the mean EFd across all cropping systems was 0.58%, with tea
 plantations having the highest (1.54%). For other cropping systems, the
 annual-scale EFds ranged from 0.02% to 1.07%. Besides crop type, also soil
 organic carbon, total N and pH as well as N fertilizer type were the main
 factors explaining the variations of NO EFds. Based on obtained specific
 EFds for each crop type, we estimated that NO emissions due to the use of
 synthetic fertilizers from global croplands are about 0.42–0.62 Tg N yr−1.
 Our budgets are relatively lower if compared to estimates derived by the
 use of IPCC defaults for NO emissions (0.72–1.66 Tg N yr−1) or reported
 elsewhere (0.67–1.04 Tg N yr−1). In our estimates, cash crops (vegetable,
 tea and orchard), which cover only 9% of the world cropland area,
 contributed about 31% to total NO emissions from global fertilized
 croplands. Overall, our meta-analysis provides improved crop-specific NO
 EFds reflecting current stage of knowledge. The work also highlights the
 relative importance of cash crop production as sources for atmospheric NO,
 i.e., agricultural systems on which mitigation efforts may focus.
DOI: 10.5061/dryad.kd51c5b7s
title: Data from: Defensible-space treatment of &lt;114,000 ha 40 m from high-risk buildings near wildland vegetation could reduce loss in WUI wildfire disasters across Colorado's 27 million ha

description: Context     WUI wildfire disasters are
 increasing, as fires are pushed by strong winds and drier fuels across
 landscapes and into communities. Possible disasters make maintaining and
 restoring landscape-scale fire in fire-adapted ecosystems difficult. Rapid
 action is needed to reduce building loss in WUI wildfire
 disasters. 
 Objectives       In
 a Colorado case study, I used distance-based empirical modeling to refine
 potential risk of building loss in WUI wildfire disasters to focus
 risk-reduction efforts. Methods    New
 empirical modeling showed 95% of USA building loss in WUI wildfire
 disasters was within 100 m of wildland vegetation. I used modeling to
 estimate and map potential relative risk of a WUI wildfire disaster for
 each of 2,185,953 buildings in Colorado.
 Results      High-risk
 buildings were 241,375 or 11% of total buildings. However, the 20-40 m
 essential defensible space around these buildings covered only 46,767-
 114,084 ha. Area within 100 m of wildland vegetation, containing these
 buildings, covered 475,840 ha or 1.8% of Colorado’s 27 million ha. About
 95% of at-risk land within 100 m of wildland vegetation is not federally
 owned, and WUI wildfire disasters are mostly from fires started on private
 land. Conclusions    Treating ≤114,084 ha of
 defensible space could leave the 27 million ha of Colorado with lower WUI
 wildfire disaster-risk to buildings. High risk of building loss is rarely
 a federal land-management problem. If the goal is rapid reduction of
 building loss in WUI wildfire disasters, focus resources on defensible
 space 20-40 m from WUI buildings within 100 m of wildland vegetation.
description: Downloaded Microsoft Building Footprint data, 2011 National Land
 Cover data, then calculated building centroids, building density, percent
 cover of wildland vegetation, and distance to wildland vegetation patches
 in ArcGIS. Then, used these to classify each building into relative risk
 categories for future WUI wildfire disasters following the Caggiano et al.
 (2020) analysis of past WUI wildfire disasters in the USA.
description: See pdf and identical MS Word README document that both explain
 the datasets.
DOI: 10.5061/dryad.t76hdr836
title: Life history and population ecology of Radix swinhoei in Lake Dianchi

description: Freshwater pulmonate (Radix swinhoei) is widespread and abundant in many
 eutrophic water bodies in Asia. Here, we conducted a one-year survey of R.
 swinhoei with monthly collections to measure the life history traits (life
 span and growth), annual secondary production and population size
 structure of R. swinhoei in nearshore regions of Lake Dianchi, a typic
 hypereutrophic plateau lake in Southwest China.
DOI: 10.5281/zenodo.18400115
title: Three Worlds: Resolving the Black Hole Information Paradox with Cosmic Rebirth

description: The black hole information paradox arises from the apparent conflict between unitary quantum evolution and the thermal nature of Hawking radiation. We resolve this tension by recognizing that spacetime itself bifurcates into three causally autonomous domains during gravitational collapse: (I) the exterior universe, (II) the black hole interior, and (III) a new expanding spacetime born from the singularity. Within this “Three Worlds” framework, information is not lost but partitioned: it enters World II, where tidal forces erase all structure until entropy vanishes at the singularity, thereby seeding a low-entropy Big Bang in World III. Crucially, the second law of thermodynamics holds independently in each world when formulated within causal diamonds. The model predicts a testable observational signature: anisotropic dark energy fluctuations around sites of former low-spin black holes, with magnitude inversely proportional to the square of the black hole mass and spatial scale growing as the cube root of cosmic time. Upcoming surveys (Euclid, Roman, SKA) can probe this signal within the next decade. By linking black hole physics to cosmic origins, the framework explains both the information paradox and the low-entropy initial condition of our universe—without firewalls, remnants, or holographic duality—offering a minimal, falsifiable, and cosmologically rich resolution.
DOI: 10.5061/dryad.41ns1rngr
title: Soil biota is decisive for overyielding in intercropping under low phosphorus conditions

description: Cereal/legume intercropping typically increase crop yield, however, the
 mechanisms through which soil microbes mediate overyielding in
 intercropping under different nutrient availability remain elusive. Here
 we examined the effect of soil biota and phosphate (P) availability on
 intercropping advantages in wheat (Triticum aestivum) /faba bean (Vicia
 faba) systems using a pot experiment consisting of soil sterilization
 treatment and different P supply levels. A complementary experiment on the
 contribution of different microbial groups was also included using the
 removal method. Intercropping advantage was observed only in the presence
 of microbes and was mainly associated with increase of wheat biomass.
 Overyielding effect was stronger under low-P than high-P
 conditions, and was negatively correlated with P availability and
 the effect of soil biota in the monoculture. The effect was likely related
 to the enlarged active P pools and modified microbial communities
 associated with the alteration of rhizosphere traits (protons and
 carboxylates) by the neighboring faba bean. Similarly, simplification of
 soil microbes significantly increased the growth and P uptake of wheat
 plants while faba bean growth was less affected. Synthesis and
 applications. Our research provides compelling evidence that soil
 microbiome is important in driving intercropping overyielding by
 regulating interspecific interactions under nutrient limited conditions.
 These findings have important implications for crop species choice in
 designing and managing intercropping systems where crop functional traits,
 soil microbiome and nutrient management should be integrated in pursuit of
 sustainable agriculture.
DOI: 10.5061/dryad.pzgmsbcpj
title: Data from: Sex-specific life history affected by stocking in juvenile brown trout

description: Salmonids are a socioeconomically and ecologically important group of fish
 that are often managed by stocking. Little is known about potential
 sex-specific effects of stocking, but recent studies found that the sexes
 differ in their stress tolerances already at late embryonic stage, i.e.,
 before hatchery-born larvae are released into the wild and long before
 morphological gonad formation. It has also been speculated that
 sex-specific life histories can affect juvenile growth and mortality, and
 that a resulting sex-biassed demography can reduce population growth. Here
 we test whether juvenile brown trout (Salmo trutta) show sex-specific life
 histories and whether such sex effects differ in hatchery- and wild-born
 fish. We modified a genetic sexing protocol to reduce false assignment
 rates and used it to study the timing of sex differentiation in a
 laboratory setting, and in a large-scale field experiment to study growth
 and mortality of hatchery and wild-born fish in different environments. We
 found no sex-specific mortality in any of the environments we studied.
 However, females started sex differentiation earlier than males, and while
 growth rates were similar in the laboratory, they differed significantly
 in the field depending on location and origin of fish. Overall,
 hatchery-born males grew larger than hatchery-born females while wild-born
 fish showed the reverse pattern. Whether males or females grew larger was
 location-specific. We conclude that juvenile brown trout show sex-specific
 growth that is affected by stocking and by other environmental factors
 that remain to be identified.
description: See Methods in Palejowski H., Bylemans J., Ammann V., Marques da
 Cunha L., Nusbaumer D., Castro I., Uppal A., Mobley K.B., Knörr S.,
 Wedekind C. 2022 Sex-specific life history affected by stocking in
 juvenile brown trout. Front. Ecol. Evol. 10, 869925.
 (doi:10.3389/fevo.2022.869925).
DOI: 10.5061/dryad.sf7m0cg88
title: Lepidagathis mahakassapae sp. nov. (Acanthaceae: Barlerieae) from the high elevated Lateritic Plateau of Northern Western Ghats of Maharashtra, India

description: Lepidagathis mahakassapae. sp. nov., monocarpic and endemic species is
 described from Western Maharashtra, India. The new species is allied to L.
 sabui from Konkan, Maharashtra. Stems of L. mahakassapae grows up to 250
 cm in length which is remarkably long while few prostrate species attains
 this much length. Illustration and colour photographs are provided for
 ease of identification
description: Regular field surveys were made to collect the samples from
 various localities.
DOI: 10.5061/dryad.2ngf1vhqp
title: Context-dependence in the symbiosis between Dictyostelium discoideum and Paraburkholderia

description: Symbiotic interactions change with environmental context. Measuring these
 context-dependent effects in hosts and symbionts is critical to
 determining the nature of symbiotic interactions. We investigated
 context-dependence in the symbiosis between social amoeba hosts and their
 inedible Paraburkholderia bacterial symbionts, where the
 context is the abundance of host food
 bacteria. Paraburkholderia have been shown to harm hosts
 dispersed to food-rich environments, but aid hosts dispersed to food-poor
 environments by allowing hosts to carry food bacteria. Through measuring
 symbiont density and host spore production, we show that this food context
 matters in three other ways. First, it matters for symbionts, who suffer a
 greater cost from competition with food bacteria in the food-rich context.
 Second, it matters for host-symbiont conflict, changing how symbiont
 density negatively impacts host spore production. Third, data-based
 simulations show that symbiosis often provides a long-term fitness
 advantage for hosts after rounds of growth and dispersal in variable
 food-contexts, especially when conditions are harsh with little food.
 These results show how food context can have many consequences for
 the Dictyostelium-Paraburkholderia symbiosis and that
 both sides can frequently benefit.
description: We used measures of fluoresence and optical density to calculate
 the density of symbiotic bacteria, along with Dictyostelium discoideum
 spore counts and simulations in R to measure host fitness. 
description: These data and analysis scripts can also be found at www.gitlab.com/treyjscott/farmerBH. The fitness_analysis.R script loads data, performs statistics, and creates plots used in the paper. Data sets consist of measures from after 6 days of growth (day_6_data.csv), additional days of growth (extra_day_data.csv), and a validation dataset (predicted.results.csv). Simulations can be performed by installing the farmerBH package from Gitlab (www.gitlab.com/treyjscott/farmerBH). The BHanalysis_revised05.R performs simulations as done in the paper with g = 5%.
DOI: 10.5061/dryad.zgmsbccdf
title: Karuk ecological fire management practices promote elk habitat in Northern California

description: After a century of fire suppression and accumulating fuel loads in North
 American forests, prescribed burns are increasingly used to prevent
 conditions leading to catastrophic megafire. There is widespread evidence
 that prescribed fire was used by Indigenous communities to manage natural
 and cultural resources tribes for thousands of years. Wildlife habitat is
 an example of an ecological response that was actively managed with
 prescribed burns by Indigenous American peoples and is an important factor
 in western U.S. forest management planning, restoration and climate
 resilience efforts. We analyzed the effects of modern prescribed burns
 informed by traditional ecological knowledge (TEK) on the predicted change
 in elk winter habitat in Karuk aboriginal territory in Northern California
 between 2013 and 2018 using species distribution and simultaneous
 autoregressive modeling techniques. Burn types most closely resembling
 Karuk traditional practices, specifically those incorporating
 multiple-year broadcast burns, had significant positive effects on elk
 winter habitat suitability. Conversely, concentrated burns focused solely
 on reducing fuel loads had significant negative effects on elk winter
 habitat suitability. However, areas where these fuel-reduction burns were
 combined with multiple years of broadcast burns featured the highest
 increases in habitat. Our results suggest that transitioning to prescribed
 burns that more closely follow Karuk TEK will promote elk habitat in the
 region. This would be best achieved through continuing to work closely
 with Indigenous representatives to plan and implement cultural fire
 prescriptions on a landscape-scale, a trend we posit would benefit
 environmental management efforts across the globe.
description: The methods used for collecting this dataset are described in
 detail in the associated manuscript. Some processing of environmetal
 rasters has been done to standardize projections and cell
 sizes. 
description: The "WildfiresCA_SP" ESRI shapefile can be read into R
 using the 'shapefile' function of the 'raster'
 package. The other (non .shp) files included with the
 "WildfiresCA_SP" data are accompanying files that allow the .shp
 file to be read and utilized. These include the .cpg, .dbf, .prj, .sbn,
 .sbx, .xml, and .shx files.  The elk presence data and
 prescribed burn data needed to run the model exactly as described in the
 manuscript are not included in this open repository. They are available on
 request and approval of the Karuk Tribe. Please contact Emilio Tripp at
 etripp@karuk.us
 for inquiries.
DOI: 10.5061/dryad.pk0p2ngqj
title: Data for: Telomere length predicts timing and intensity of migratory behavior in a nomadic songbird

description: Our understanding of state-dependent behavior is reliant on identifying
 physiological indicators of condition. Telomeres are of growing interest
 for understanding behavior as they capture differences in biological state
 and residual lifespan. To understand the significance of variable telomere
 lengths for behavior and test two hypotheses describing the relationship
 between telomeres and behavior (i.e., the causation and the selective
 adoption hypotheses), we assessed if telomere lengths are longitudinally
 repeatable traits related to spring migratory behavior in captive pine
 siskins (Spinus pinus). Pine siskins are nomadic songbirds that exhibit
 highly flexible, facultative migrations, including a period of spring
 nomadism. Captive individuals exhibit extensive variation in spring
 migratory restlessness and are an excellent system for mechanistic studies
 of migratory behavior. Telomere lengths were found to be significantly
 repeatable (R = 0.51) over 4 months, and shorter pre-migratory telomeres
 were associated with earlier and more intense expression of spring
 nocturnal migratory restlessness. Telomere dynamics did not vary with
 migratory behavior. Our results describe the relationship between telomere
 length and migratory behavior and provide support for the selective
 adoption hypothesis. More broadly, we provide a novel perspective on the
 significance of variable telomere lengths for animal behavior and the
 timing of annual cycle events.
description: See Read me file.
DOI: 10.5061/dryad.ncjsxksx4
title: Bimodal acoustic calls used in mate-choice and aggression by red-eyed treefrogs

description: Dataset in support of the manuscript entitled: Beyond sound: Bimodal
 acoustic calls used in mate-choice and aggression by red-eyed treefrogs.
 Included are results from bimodal, sound and vibration, playback trials
 with male and female red-eyed treefrogs (Agalychnis callidryas). Listed
 are trial type, whether the animal, if female, was collected in amplexus,
 and measures of its response to playback. These data may be reused freely.
 A description of the study follows. Airborne sound signals function as key
 mediators of mate-choice, aggression, and other social interactions in a
 wide range of vertebrate and invertebrate animals. Calling animals produce
 more than sound, however. When displaying on or near a solid substrate,
 such as vegetation or soil, they also unavoidably excite substrate
 vibrations due to the physics of sound production and of acoustic
 propagation, and these vibrations can propagate to receivers. Despite
 their near ubiquity, these vibrational signal components have received
 very little research attention, and in vertebrates it is completely
 unknown whether they are relevant to mate-choice, an important driver of
 evolutionary divergence. Here we show that female red-eyed treefrogs are
 more than twice as likely to choose a male mating call when airborne sound
 is paired with its corresponding substrate vibrations. Furthermore, males
 of the same species are more aggressive towards and display a greater
 range of aggressive behaviors in response to bimodal (sound and vibration)
 versus unimodal (sound or vibration alone) calls. In aggressive contexts,
 at least, air- and substrate-borne signal components function
 non-redundantly. These results are a clear demonstration that vibrations
 produced by a calling animal can function together with airborne sound to
 markedly enhance the function of a signal. If this phenomenon proves
 widespread, this finding has the potential to substantially influence our
 understanding of the function and evolution of acoustic signals.
description: As described in the manuscript.
description: Experiments with male and female frogs are included as seperate
 .csv files. The README.txt file describes the variables listed.
 <br>Only data dirrectly used in analyses published with the
 manuscript are included. Additional companion data may be availible upon
 request.
DOI: 10.34740/kaggle/dsv/14649218
title: Peer-to-Peer Boliviano (BOB) Exchange Data