cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3xsj3txh9
title: Habitat heterogeneity affects the thermal ecology of the federally endangered blunt-nosed leopard lizard 2019 data

description: Global climate change is already contributing to the extirpation of
 numerous species worldwide, and sensitive species will continue to face
 challenges associated with rising temperatures throughout this century and
 beyond. It is especially important to evaluate the thermal ecology of
 endangered ectotherm species now so that mitigation measures can be taken
 as early as possible. A recent study of the thermal ecology of the
 federally endangered Blunt-Nosed Leopard Lizard (Gambelia sila) suggested
 that they face major activity restrictions due to thermal constraints in
 their desert habitat, but that large shade-providing shrubs act as thermal
 buffers to allow them to maintain surface activity without overheating. We
 replicated this study and also included a population of G. sila with no
 access to large shrubs to facilitate comparison of the thermal ecology of
 G. sila in shrubless and shrubbed populations. We found that G. sila
 without access to shrubs spent more time sheltering inside rodent burrows
 than lizards with access to shrubs, especially during the hot summer
 months. Lizards from a shrubbed population had higher midday body
 temperatures and therefore poorer thermoregulatory accuracy than G. sila
 from a shrubless population, suggesting that greater surface activity may
 represent a thermoregulatory tradeoff for G. sila. Lizards at both sites
 are currently constrained from using open, sunny microhabitats for much of
 the day during their short active seasons, and our projections suggest
 that climate change will exacerbate these restrictions and force G. sila
 to use rodent burrows for shelter even more than they do now, especially
 at sites without access to shrubs. The continued management of shrubs and
 of burrowing rodents at G. sila sites is therefore essential to the
 survival of this endangered species.
DOI: 10.5068/d1pm40
title: Global sand, silt, and clay fractions of surface soils and derived drying time (min)

description: Soil moisture in the active aeolian layer (the top ~2 mm of the soil)
 impacts dust emission by increasing the threshold for emission, and thus
 precipitation has the potential to suppress dust emission. The purpose of
 this study was to use reanalysis and satellite data similar to those used
 in global and regional dust emission models to calculate the probability
 that a high wind event happens during the period that antecedent
 precipitation would have left the active layer wet. The results indicate
 that the answer to this question is more strongly related to regional
 climate than soil texture. For more than half of the globe with mean
 annual precipitation &lt; 500 mm/year, the probability of
 precipitation influencing dust emission is greater than 30 – 40%. Thus,
 rain-derived soil moisture in the active layer should not be ignored in
 models throughout much of the world’s dust-producing regions.
description: A global map of sand, silt,
 and clay fractions was derived from the global WISE v. 3.1 30 x 30 arcsec
 database which is based on the Harmonized World Soil Database [Batjes,
 2016]. For each cell of this dataset, there are up to nine different soil
 components. For each cell, percent sand, silt and clay were derived by
 calculating the average of all available components, weighted by their
 fractional area in the cell. These average fractions were resampled to
 0.25° x 0.25°, the same resolution as the precipitation data, and drying
 time was calculated using Equation 1.  Ravi et al. [2006] conducted
 experiments on six soils that provide estimates of the time it takes the
 active layer to dry (i.e., for a wet surface to return come into
 equilibrium with ambient relative humidity). A parameterization for these
 drying times (DTs) for soils based on soil texture data created by
 regressing DT against fractions of sand, silt, and clay:                 DT (minutes) =
 15.95 % Sand + 28.05 % Silt + 20.28 % Clay – 1494.               
   This
 relationship fits the published values from Ravi et al. [2006] with
 R<sup>2</sup> = 0.99. Batjes, N. H. (2016). Harmonized soil property values for broad-scale modelling (WISE30sec) with estimates of global soil carbon stocks. <em>Geoderma, 269</em>, 61-68. 10.1016/j.geoderma.2016.01.034 Ravi, S., Zobeck, T. M., Over, T. M., Okin, G. S., & D'Odorico, P. (2006). On the effect of wet bonding forces in air-dry soils on threshold friction velocity of wind erosion. <em>Sedimentology</em>, 10.1111/j.1365-3091.2006.00775.x
description: Data are in TIFF/GeoTIFF Format and can be opened in standard
 image processing (for remote sensing data) or GIS (e.g., ArcGIS, QGIS)
 software. Because the images are raw floating point  data and not image
 data, an image viewer (suitable for photos, for example) will not display
 the data correctly and may fail to open the image altogether.  The .tfw
 file is the "world" file that must accompany the .tif image (in
 the same directory) when opening in order for the image to be properly
 geographically registered.
DOI: 10.5061/dryad.7sqv9s4ss
title: Genotypes for herring samples collected from Chinook salmon gut contents

description: Dynamic prey resources influence foraging opportunities for consumers. In
 coastal food webs, forage fish abundance and seasonal reproduction mediate
 foraging opportunities for mobile consumers. Recent declines in Chinook
 salmon productivity have prompted efforts to determine whether poormarine
 survival is caused by limited feeding opportunities. To establish the
 importance of phenological diversity in Pacific herring for Chinook
 salmon, we used genetic stock identification to assign individual herring
 collected from the guts of juvenile and adult Chinook salmon to
 populations with distinct spawning phenologies. The majority of herring in
 the guts of adult Chinook salmon across seasons and geographic areas were
 dominated by the March–April herring spawn group, but juvenile Chinook
 salmon diets varied seasonally, with a higher proportion of
 January–February spawners in summer than in spring. Our results suggest
 that (1) population diversity of Pacific herring is used by juvenile
 Chinook salmon and thus contributes to their growth, and (2)
 stock-specific distribution of Pacific herring extends well beyond
 documented spawning grounds. Herring population diversity may therefore
 support foraging opportunities for Chinook salmon during a critical period
 and highlights the need for future research to quantify seasonal
 distribution and abundance of phenologically distinct groups of Pacific
 herring within Salish Sea.
description: This data set contains genotype information for herring samples
 collected from the gut contents of Chinook salmon in the Salish
 Sea.
description: Genotypes for seven nuclear DNA markers are presented in genepop
 format. Heterozygotes are coded as "001002", while homozygotes
 for alternate alleles are coded as "001001" and
 "002002".
DOI: 10.5068/d1jt3f
title: Global calculated drift potential of winds in DJF, MAM, JJA, SON

description: Soil moisture in the active aeolian layer (the top ~2 mm of the soil)
 impacts dust emission by increasing the threshold for emission, and thus
 precipitation has the potential to suppress dust emission. The purpose of
 this study was to use reanalysis and satellite data similar to those used
 in global and regional dust emission models to calculate the probability
 that a high wind event happens during the period that antecedent
 precipitation would have left the active layer wet. The results indicate
 that the answer to this question is more strongly related to regional
 climate than soil texture. For more than half of the globe with mean
 annual precipitation &lt; 500 mm/year, the probability of
 precipitation influencing dust emission is greater than 30 –
 40%.  Thus, rain-derived soil moisture in the active layer should
 not be ignored in models throughout much of the world’s dust producing
 regions.
description: Instantaneous surface wind
 speed data, matching the time period of the available precipitation data,
 from the Modern Era Retrospective Analysis for Research and Applications
 v. 2 (MERRA2) was obtained [<i>Molod et al.</i>, 2015].
 Although this data is available hourly, only 3 hourly data matching the
 times available in the TRMM precipitation dataset were used. Data were
 clipped to 60°N to 60°S and regridded to the TRMM 0.25° x 25° grid.
   3-month (DJF,
 MAM, JJA, SON) values for dust uplift potential [DUP, Figure 2,
 <i>Marsham et al.</i>, 2011] were calculated. DUP is an
 integration of the time that the wind is above a threshold (7 m
 s<sup>-1</sup>), weighted by a nonlinear (nearly cubic)
 function of the excess windspeed (i.e., windspeed minus threshold).  DUP
 was calculated on a seasonal basis from the MERRA2 wind data, and the
 season with the highest DUP was identified for each 0.25° x 0.25°
 cell. Marsham, J. H., Knippertz, P., Dixon, N. S., Parker, D. J., & Lister, G. M. S. (2011). The importance of the representation of deep convection for modeled dust-generating winds over West Africa during summer. <i>Geophysical Research Letters, 38</i>(16), L16803. http://dx.doi.org/10.1029/2011GL048368 Molod, A., Takacs, L., Suarez, M., & Bacmeister, J. (2015). Development of the GEOS-5 atmospheric general circulation model: evolution from MERRA to MERRA2. <i>Geosci. Model Dev., 8</i>(5), 1339-1356. http://www.geosci-model-dev.net/8/1339/2015/  
description: Data are in TIFF/GeoTIFF Format and can be opened in standard
 image processing (for remote sensing data) or GIS (e.g., ArcGIS, QGIS)
 software. Because the images are raw data and not image data, an image
 viewer (suitable for photos, for example) will not display the data
 correctly and may fail to open the image altogether.  The .tfw file is the
 "world" file that must accompany the .tif image (in the same
 directory) when opening in order for the image to be properly
 geographically registered.
DOI: 10.25349/d9h909
title: Silicate Compositions Database

description: Degradation of thermal and environmental barrier coatings (T/EBC) by
 interactions with molten silicate deposits (ash, sand, dust) poses a
 fundamental threat to progress in gas turbine technology. This file is the
 first publicly available, comprehensive database of its kind on potential
 silicate deposits. It features in an accompanying article addressing an
 original ICME-inspired approach (Integrated Computational Materials
 Engineering) to analyzing the high dimensional data. The article
 responds to a longstanding need for identifying a reasonable number of
 silicate compositions that may represent the wide variability in engine
 deposits arising from the airborne siliceous debris in the atmosphere.
 Investigators in the aircraft engine industry might work toward developing
 this database further. Collaborations between industry and academia might
 facilitate accelerated progress toward understanding the nature of
 high-dimensional datasets and identifying relevant exemplary compositions
 for testing T/EBC materials.
description: Silicate deposit compositions were obtained from the open
 literature in addition to a few private communications. Concentrations of
 all measured cations were first recorded for each silicate composition.
 Prior to later analyses, compositions were reduced to five principal
 oxides (CaO, MgO, FeOx, AlO1.5, SiO2) and normalized.
description: Refer to the file Silicate_Compositions_Database_readme.txt
DOI: 10.5061/dryad.nk98sf7vb
title: Paraphlomis longicalyx (Lamiaceae), a new species from the limestone area of Guangxi and Guizhou Provinces, southern China

description: Consisting of approximately 30 species, the genus Paraphlomis of
 the mint family are mostly restricted to the subtropical area of China. In
 this study, Paraphlomis longicalyx, a new species from southern China, is
 described and illustrated. Molecular phylogenetic studies were carried out
 to investigate the placement of the new species
 within Paraphlomis based on two nuclear ribosomal DNA
 and four plastid DNA regions. The results show that P.
 longicalyx is recovered as a distinct lineage within the genus.
 Morphologically, the new species is similar to P.
 javanica and P. foliata, but can be distinguished by its densely
 hispidulous plants, much longer calyces, and pale-yellow corollas with
 reddish-purple spots on the lower lips.
DOI: 10.5061/dryad.cvdncjt54
title: Seasonal dynamics of sinking organic matter in the Pacific Arctic Ocean revealed by nitrogen isotope ratios of amino acids

description: The Pacific Arctic Ocean has experienced a rapidly changing climate,
 sea-ice retreat, and enhanced primary production over the past few
 decades. The export production generated by photoautotrophs and
 heterotrophs has been characterized in the Arctic Ocean, but their
 seasonal variations in relative proportion are largely unknown due to the
 limited access in the ice-covered season. We measured the concentration
 and nitrogen isotope ratio of individual amino acids from sinking
 particles in the northern east Siberian Sea (KAMS1), northern Chukchi Sea
 (KAMS2), and Northwind Ridge (KAMS4) from August 2017 to July
 2019. The average trophic position, based on differences in the
 nitrogen isotope ratios of glutamic acid and phenylalanine, can indicate
 the relative proportions of biogenic organic matters derived from
 photoautotrophs and heterotrophs in sinking particles. Decreasing values
 (close to 1.0) in summer at KAMS2 in 2018 suggest that primary producers
 are responsible for most of the downward flux of sinking particles.
 However, the average trophic position at KAMS1 in 2017 increased to
 &gt; 1.5 in autumn and was maintained at approximately 1.7 during
 ice-covered winter periods, likely due to greater contributions from
 heterotrophic organisms. Exceptionally high average trophic positions
 (close to 2.0) of sinking particles in summer at KAMS1 in 2017 and KAMS4
 in 2018 were likely due to small export of photoautotrophs due to the
 surface seawater stratification and limited pelagic production. The
 average trophic position in sinking particles should reflect the
 spatiotemporal variation in export particle composition in the Pacific
 Arctic Ocean.
DOI: 10.5061/dryad.k6djh9w75
title: Sequence conservation and structural features that are common within TRP channels

description: TRP proteins are a large family of cation-selective channels, surpassed in
 variety only by voltage-gated potassium channels. Detailed molecular
 mechanisms governing how membrane voltage, ligand binding, or temperature
 can induce conformational changes promoting the open state in TRP channels
 are still a matter of debate. Aiming to unveil distinctive structural
 features common to the transmembrane domains within the TRP family, we
 performed phylogenetic reconstruction, sequence statistics, and structural
 analysis over a large set of TRP channel genes. Here we report an
 exceptionally conserved set of residues. This fingerprint is composed of
 twelve residues localized at equivalent three-dimensional positions in TRP
 channels from the different subtypes. Moreover, these amino acids are
 arranged in three groups, connected by a set of aromatics located at the
 core of the transmembrane structure. We hypothesize that differences in
 the connectivity between these different groups of residues harbors the
 apparent differences in coupling strategies used by TRP subgroups.
description: Please see Materials and Methods in published paper.
description: Amino_acid_sequences_fig1.fasta contains the sequences aligned in
 Amino_acid_alignment_Fig1_FFT-NS-i.fasta, used for generation of the
 phylogenetic reconstruction depicted in Figure 1. Phylogenetic
 reconstruction parameters are detailed in
 Tree_file_fig1.treefile. 
 Amino_acid_sequences_Fig1_FigSupl1.fasta contains the sequences
 aligned in Amino_acid_alignment_Fig1_FigSupl1_FFT-NS-i.fasta, used for
 generation of the phylogenetic reconstruction depicted in Figure 1
 supplement 1. Phylogenetic reconstruction parameters are detailed in
 Tree_file_Fig1_FigSupl1.treefile. 
 Supplementary_TableS1.xlsx contains the data of the sequences
 used in Figure 1, and Figure 1 supplement 1. Primary
 MSA.fasta is the massive sequences alignment, containing the final set of
 sequences used for the analysis of highly conserved features described on
 the manuscript (Fig.2 to 6).
DOI: 10.5061/dryad.4tmpg4fb9
title: Intraspecific independent evolution of floral spur length in response to local flower visitor size in Japanese Aquilegia in different mountain regions

description: Geographic differences in floral traits may reflect geographic differences
 in effective pollinator assemblages. Independent local adaptation to
 pollinator assemblages in multiple regions would be expected to cause
 parallel floral trait evolution, although sufficient evidence for this is
 still lacking. In this study, we investigated the relationship between
 flower spur length and pollinator size in 16 populations of Aquilegia
 buergeriana var. buergeriana distributed in four mountain regions in the
 Japanese Alps. We also examined the genetic relationship between yellow-
 and red-flowered individuals, to see if color differences caused genetic
 differentiation by pollinator isolation. Genetic relationships among 16
 populations were analyzed based on genome-wide single-nucleotide
 polymorphisms. Even among populations within the same mountain region,
 pollinator size varied widely, and the average spur length of A.
 buergeriana var. buergeriana in each population was strongly related to
 the average visitor size of that population. Genetic relatedness between
 populations was not related to the similarity of spur length between
 populations; rather, it was related to the geographic proximity of
 populations in each mountain region. Our results indicate that spur length
 in each population evolved independently of the population genetic
 structure but in parallel in different mountain regions. Further, yellow-
 and red-flowered individuals of A. buergeriana var. buergeriana were not
 genetically differentiated. Unlike other Aquilegia species in Europe and
 America visited by hummingbirds and hawkmoths, this species is
 consistently visited by bumblebees in Japan. As a result, genetic
 isolation by flower color has not occurred.
DOI: 10.5061/dryad.n02v6wwz5
title: Data from a mesocosm experiment on responses of larval fish and their prey to warming and browning

description: This dataset contains data from from a
 mesocom experiment with larval fish as described in the
 paper: "Huss, M., van Dorst, R.M., and Gårdmark, A.
 (2021) Larval fish body growth responses to simultaneous browning
 and warming" The data comes from a fully factorial experiment of
 warming and browning in pelagic mesocosms in two adjacent areas in the
 Baltic Sea archipelago; an artificially heated coastal bay and a natural
 area with ambient temperatures. To answer the question how simultaneous
 warming and browning of coastal food webs impact body growth and survival
 of larval perch. we innoculated the mesocosms, varying in temperature and
 colour, with larval Eurasian perch (Perca fluviatilis) and
 zooplankton prey. Browning was simulated by adding coloured
 substances to the mesocosm bags, whereas the water masses surrounding them
 in the heated and the natural bay provided the temperature treatment. The
 main result is that browning decreased body growth and survival of larval
 perch, whereas warming increased body growth but had no effect on
 survival. To understand these results, data on daily
 fish body growth estimates based on otolith microstructure
 analysis and size composition and abundance of available prey
 were analysed.  The overall conclusion is that larval fish
 responses to climate change may depend on the relative rate and extent of
 both warming and browning, as that they may even cancel each other out.
description: The readme file contains an explanation of the variables and
 abbreviations used in the dataset
DOI: 10.5061/dryad.prr4xgxn3
title: Correlations between components of the immune system

description: Background: No evidence of the possibility to alter a constituent of the
 immune system without directly affecting one of its associated components
 has been shown yet. Methods: A schematic model was developed in which two
 triggers, fasting and splenectomy, were studied for their ability to
 affect the expression of cell membrane epitopes and the cytokine secretion
 of out-of-body autogeneic and syngeneic lymphocytes. Results: Fasting
 decreased expression of CD8 and CD25 and increased TNFα levels. The effect
 of splenectomy as a trigger was investigated in non-fasting mice by
 comparing splenectomized and non-splenectomized mice. An increase in the
 CD8 expression and in TNFα, IFNg, and IL10 secretion was noted. The effect
 of splenectomy as a trigger was investigated in fasting mice by comparing
 splenectomized and non-splenectomized mice. Splenectomy had a significant
 effect on expression of CD25 and CD4 CD25 and on secretion of TNFα, IFNg,
 and IL10. To determine the effect of keeping the cells in an out-of-body
 location on the expression of lymphocyte epitopes, tubes kept on top of
 the cages of the fasting mice were compared with tubes kept on top of
 empty cages. A significant change in the CD8 expression was noted. To
 determine the effect of keeping cells in an out-of-body location on
 cytokine secretion, tubes kept on top of cages were tested for cytokine
 levels. A significant decrease was noted for the secretion of TNFα and
 IFNg. Conclusions: The data obtained from this study characterized a
 system for induction of correlations between two components of the immune
 system without a transfer of mediators. The study showed that a mouse
 could affect cells at a distance and alter the expression of surface
 markers and cytokine secretion following two types of triggers: fasting
 and/or splenectomy. Thus, an out-of-body correlation can be induced
 between two components of the immune system.
description: Data of all exepriments was
 structured into the excel file.
description: Data includes the data of all
 animals and of all parameters tested on each animal.