cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.14288/1.0432636
title: Slow heating rates increase thermal tolerance and alter mRNA HSP expression in juvenile white sturgeon (Acipenser transmontanus)

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;&lt;span lang="EN-US"&gt;Fresh&lt;/span&gt;&lt;span lang="EN-US"&gt;water fish such as white sturgeon (&lt;em&gt;Acipenser transmontanus&lt;/em&gt;) are particularly vulnerable to the effects of anthropogenically induced global warming. Critical thermal maximum tests (CT&lt;sub&gt;max&lt;/sub&gt;) are often conducted to provide insight of the impacts of changing temperatures; however, little is known about how the rate of temperature increase in these assays affects thermal tolerance. To assess the effect of heating rate (0.3&lt;span style="color:black;"&gt;°C/min, 0.03°C/min, 0.003°C/min) we measured thermal tolerance, somatic indices, and Hsp mRNA expression. &lt;/span&gt;Contrary to what has been observed in most other fish species,&lt;span style="color:black;"&gt; white sturgeon thermal tolerance&lt;/span&gt; was highest at the slowest heating rate of 0.003°C/min, suggesting an ability to rapidly acclimate to slowly increasing temperatures. Hepatosomatic index decreased in all heating rates relative to control fish, indicative of the metabolic costs of thermal stress. &lt;span style="background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-attachment:initial;background-origin:initial;background-clip:initial;"&gt;At the transcriptional level&lt;/span&gt;, slower heating rates resulted in higher mRNA expression of&lt;em&gt; Hsp90a,&lt;/em&gt; &lt;em&gt;Hsp90b, &lt;/em&gt;and &lt;em&gt;Hsp70. Hsp70 &lt;/em&gt;mRNA expression was increased in all heating rates relative to controls, whereas&lt;em&gt; &lt;/em&gt;expression of&lt;em&gt; Hsp90a &lt;/em&gt;and &lt;em&gt;Hsp90b&lt;/em&gt; mRNA only increased in the two slower trials. Together these data indicate that white sturgeon have a very plastic thermal response, which is likely energetically costly to induce. &lt;span style="background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-attachment:initial;background-origin:initial;background-clip:initial;"&gt;Acute temperature changes may be more detrimental to sturgeon as they struggle to acclimate to rapid changes in their environment, however under slower warming rates they demonstrate strong thermal plasticity to warming.&lt;/span&gt;&lt;/span&gt;&lt;/p&gt;
DOI: 10.14288/1.0434660
title: A database of breach and runout characteristics from historical tailings dam failures

description: This database includes observed characteristics from 12 tailings dam breach events, with a specific focus on observations that are needed for numerical modelling. The characteristics relevant to modelling include outflow volumes, breach processes, breach geometries, and runout observations local to the downstream area. The new database sheds light on the diversity of outflow materials, facility arrangements, breach processes, and downstream environments that affect the breach development and tailings runout. Familiarity with case studies is a crucial element of expert judgement for forward-analysis of tailings dam breaches, which this database supports. The database can also be used to define model inputs for back-analysis of additional tailings dam breach events, and simultaneously provides calibration or validation constraints with the runout observations.
DOI: 10.14288/1.0434176
title: Replication Data for: Effect of neck-rail placement on free-stall use and the force exerted on the rail by naïve dairy heifers

description: How cattle respond when introduced to new housing systems is understudied. Indoor housed dairy heifers are often kept on open packs early in life and then later transition to free-stall housing. The neck-rail in free stalls acts as a physical and visual barrier intended to prevent animals from entering too far in the stall, with the aim of improving the cleanliness of the stall surface. Unfortunately, this barrier can hinder stall use and in some cases may be a hazard to animals due to physical contact. The primary aim of this study was to investigate the effects of two different neck-rail positions on frequency of stall use (for lying and standing) and misuse (standing backwards in the stall and lying down outside of the stall) by naïve dairy heifers. A secondary aim was to measure, via the use of an instrumented neck-rail, the maximum force with which heifers contacted this part of the stall. We also assessed stall cleanliness and bedding use. Holstein heifers (n=16) were randomly assigned to one of two neck-rail positions: 110 cm and 130 cm (as measured diagonally from the inside of the rear curb to the bottom of the instrumented neck-rail). Animals were tested individually and responses were measured over first 6 h following introduction to the free stalls. On average (median, min, max) heifers lay down 3.5 (0, 6) times in the free-stall when the neck-rail was positioned at 130 cm vs. 0 (0, 4) times at 110 cm. Heifers also were more likely to stand fully in the stall when the neck-rail was positions at 130 cm vs. 110 cm (3.5, 0, 9 vs. 1, 0, 3), and were also more likely to stand backwards in the stall (3, 0, 5 vs. 0, 0, 1). In contrast, heifers tested at the 130 cm position were rarely observed lying down outside of the stall (1, 0, 4), while this behavior was more common at the 110 cm treatment (4, 0, 7). Contrary to our expectation, the force with which heifers contacted the neck-rail was higher in the 130 cm vs. the 110 cm treatment (337, 6, 548 vs. 78, 26, 403 N). At the 130 cm vs. 110 cm position stalls were more likely be contaminated with feces (6, 0, 11 vs. 0, 0, 5 contaminated squares), and bedding levels showed a greater decline (10.2, 8.6, 12.2 vs. 7.6, 6.7, 11.9 cm decline). We conclude the neck-rail position acts as a barrier for naïve heifers, such that a more restrictive position reduces the likely the heifers use the stall correctly and increases misuse. Stalls with more restrictive neck-rails stay cleaner and better retain bedding, in part due to their lack of use.
DOI: 10.14288/1.0432791
title: Going, going, gone: evidence for loss of an endemic species pair of threespine sticklebacks (Gasterosteus aculeatus) with implications for protection under species-at-risk legislation

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Genomic extinction occurs when the unique combination of genetic traits that characterize distinct phenotypes is eliminated by introgressive hybridization even if population size is greater than zero. Benthic and limnetic threespine sticklebacks (&lt;em&gt;Gasterosteus aculeatus&lt;/em&gt;) constitute reproductively isolated undescribed biological species that have evolved independently in several lakes in southwestern British Columbia, Canada (known as “species pairs” in each lake). Here we investigated whether the two species that comprise the pair from Enos Lake, southeastern Vancouver Island, remain as two distinct gene pools. Multi-season samples (&gt;1200 fish) obtained over two years from throughout the lake and assayed for variation in morphological traits characteristic of the two species (i.e., body depth, dorsal spine count, gill raker counts) and at 12 microsatellite DNA loci consistently indicated the existence of only a single group of sticklebacks. There was no consistent evidence of two groups in any morphological trait, and mean gill raker counts were consistently intermediate (20–21) to those of known benthics (~18) and limnetics (~24) which together comprised strikingly bimodal distributions in historical samples. Genetic analyses employing model-based clustering also consistently indicated the presence of only a single genetic group of sticklebacks. Compared to historical samples and to benthics and limnetics from other lakes, no Enos Lake fish could be identified confidently as a pure benthic or limnetic. Our results provide the strongest evidence yet that the Enos Lake sticklebacks now consist of a single morphological and genetic population of sticklebacks, that the unique combination of genetic and morphological traits that characterized benthic and limnetic sticklebacks no longer exist, and that their current status under Canada’s &lt;em&gt;Species-at Risk Act&lt;/em&gt; as Endangered should be re-evaluated.&lt;/p&gt;
DOI: 10.14288/1.0435119
title: Digital adaptation kit for Smart Discharges: operational requirements for implementing Smart Discharge recommendations in digital systems

description: &lt;br /&gt;&lt;strong&gt;Background:&lt;/strong&gt; To ensure countries can effectively benefit from digital health investments, digital adaptation kits (DAKs) are designed to facilitate the accurate reflection of clinical, public health and data use guidelines within the digital systems countries are adopting. DAKs are operational, software-neutral, standardized documentation that distill clinical, public health and data use guidance into a format that can be transparently incorporated into digital systems. &lt;br /&gt; &lt;br /&gt;&lt;strong&gt;Objectives:&lt;/strong&gt; This DAK provides operational requirements for implementing Smart Discharges recommendations in digital systems. With a focus on discharge care, this DAK aims to provide a common language across various audiences – discharge and other programme managers, software developers, and implementers of digital systems – to ensure a common understanding of the appropriate health information content within a defined health programme area, as a mechanism to catalyse the effective use of these digital systems. The key objectives of this DAK are:&lt;ul style=“list-style-type:square”&gt; &lt;li&gt;to ensure adherence to clinical, public health and data use guidelines, and facilitate consistency of the health content that is used to inform the development of a patient-centred digital tracking and decision-support (DTDS) system;&lt;/li&gt; &lt;li&gt;to enable both health programme leads and digital health teams (including software developers) to have a joint understanding of the health content within the digital system, with a transparent mechanism to review the validity and accuracy of the health content; and&lt;/li&gt; &lt;li&gt;to provide a starting point of the core data elements and decision-support logic that should be included within DTDS systems for Smart Discharges.&lt;/li&gt;&lt;/ul&gt; &lt;br /&gt;&lt;strong&gt;Acknowledgements:&lt;/strong&gt; The Institute for Global Health (IGH) is grateful for the contributions of its collaborators. This digital adaptation kit was coordinated by Peter Lewis, Charly Huxford, Jessica Trawin, Dustin Dunsmuir, Matthew Wiens, and Mark Ansermino of IGH; and Clare Komugisha of the World Alliance for Lung and Intensive Care Medicine in Uganda (WALIMU). &lt;br /&gt;
DOI: 10.14288/1.0433251
title: Gowardia zebrina sp. nov., a new species in a little-known genus of arctic-alpine lichens (Parmeliaceae)

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;The fruticose lichen genus &lt;em&gt;Gowardia&lt;/em&gt; (Parmeliaceae) was recently segregated from Alectoria based on phylogeny, morphology, secondary chemistry, ecology and distribution. As currently circumscribed, &lt;em&gt;Gowardia&lt;/em&gt; comprises two wide-ranging species of arctic-alpine regions. Here we describe a third species, &lt;em&gt;G. zebrina &lt;/em&gt;sp. nov., apparently endemic to subalpine regions in mountainous northwestern North America. &lt;em&gt;Gowardia&lt;/em&gt; &lt;em&gt;zebrina&lt;/em&gt; differs from other species in the genus by its combined subpendent habit, uniformly capillary branches, predominantly isotomic branching, pale-and-dark banding of the terminal branches, and epiphytic ecology. Morphological examination of North American herbarium specimens filed under &lt;em&gt;A. nigricans&lt;/em&gt; suggests the existence of several additional undescribed species of &lt;em&gt;Gowardia&lt;/em&gt;. A brief overview of morphological diversity in these species is given, shedding new light on the question of whether &lt;em&gt;Gowardia&lt;/em&gt; should be subsumed under &lt;em&gt;Alectoria&lt;/em&gt;, as some have suggested, or is more appropriately recognized as a distinct genus.&lt;/p&gt;
DOI: 10.14288/1.0435087
title: GaitMotion: A Multitask Dataset for Pathological Gait Forecasting

description: We provide a dataset for the gait analysis which contains extensive ground truths from gait events at the sample index level to gait parameters for normal and pathological walking patterns. We also provide a baseline model to predict the gait parameters from IMU recordings. Please refer to https://github.com/Zhang-Wenwen/GaitMotion for more details.
DOI: 10.15468/dl.w32yk2
title: Occurrence Download

description: A dataset containing 391 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (North America, South America)",
 "TaxonKey is Agave rhodacantha Trel."
 ]
}

 The dataset includes 391 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011044-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/aps-w21-sqh
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/aqp-fpa-ybs
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4xa-599-jvn
title: Cytherella (Cytherella) Jones, 1849

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/6v0-qat-jg7
title: Cibicides Montfort, 1808

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/49h-090-4wm
title: Peneroplis planatus (Fichtel & Moll, 1798)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/rks-r64-rag
title: Cytherella (Cytherella) Jones, 1849

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/6sb-vba-bxn
title: †Reussella truncata Hofker, 1957

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/dbj-srx-f9e
title: Cycloseris Milne Edwards & Haime, 1849

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/pzb-3q3-zmy
title: †Reussella uvigeriniformis Hofker, 1957

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yey-m7c-ytv
title: †Aragonia velascoensis (Cushman, 1925)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/586-7zh-0v4
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/apc-cpp-241
title: Discorbinella bertheloti (d'Orbigny, 1839)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/c5j-16t-46s
title: Valvulineria Cushman, 1926

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ndc-j8v-9xb
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/1yv-7m5-qsr
title: Heterostegina depressa d'Orbigny, 1826

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/r7m-pff-w2h
title: Cancris auricula (Fichtel & Moll, 1798)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8lk-bmn-3w8
title: Xestoleberis (Xestoleberis) Sars, 1866

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5xx-q26-pbx
title: †Bolivinoides Cushman, 1927

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mn7-l0t-dlm
title: Apodemus sylvaticus (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/3g9-tsc-pxj
title: Lobatula wuellerstorfi (Schwager, 1866)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/z7d-h7e-z94
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nvg-n1m-1g7
title: Dentalina Risso, 1826

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/z68-hz6-2bn
title: †Cristellaria (Robulus) teschi Ten Dam & Reinhold, 1947

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/518-a89-sxh
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/h79-j35-01t
title: †Arenobulimina preslii (Reuss, 1845)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hta-8h6-48y
title: Neorotalia calcar (d'Orbigny in Deshayes, 1830)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qbg-pf9-vaa
title: †Uvigerina tenuipustulata van Voorthuysen, 1950

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/x96-1th-y3c
title: †Krithe pernoides (Bornemann, 1855)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gec-6vm-0zw
title: Pseudotriloculina rotunda (d'Orbigny in Schlumberger, 1893)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/wdw-srx-3nw
title: Cancris auricula (Fichtel & Moll, 1798)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/t6n-ycp-z6s
title: Cornuspira carinata (Costa, 1856)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/vbr-g38-ksf
title: Cytherella (Cytherella) Jones, 1849

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/22z-zzw-x0z
title: Cytherella (Cytherella) Jones, 1849

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nbk-vdd-9j1
title: Lituotuba lituiformis (Brady, 1879)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/9kr-zl4-apg
title: Laevidentalina filiformis (d'Orbigny, 1826)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/a1c-wxt-rc0
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4zb-8kq-xzd
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/49j-mq5-v48
title: †Dentalina divergens Reuss, 1865

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7za-y1r-68a
title: Fissurina orbignyana Seguenza, 1862

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5c5-1q5-2wq
title: Hyalinea balthica (Schröter, 1783)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/c5t-p02-6qz
title: Apodemus sylvaticus (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/a07-nx5-5sf
title: †Ammobaculites expansus Plummer, 1933

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/t8z-h76-b5f
title: Liebusella soldanii (Jones & Parker, 1860)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.22002/mfey4-5zr25
title: H. Neapolitanus Carboxysomes

description: Carboxysomes purified from H. Neapolitanus, WT, high resolution
description: <strong>Tilt Series Date:</strong> 2019-08-21</p>
<strong>Data Taken By:</strong> LaurenAnn Metskas</p>
<strong>Species / Specimen:</strong> Halothiobacillus neapolitanus</p>
<strong>Strain:</strong> c2</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-66.0°, 66.0°), step: 3°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: 0.0 μm,  magnification: 81000x. </p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> IMOD, ctffind4, novaCTF, custom bash and Matlab scripts</p>
<strong>Collaborators and Roles:</strong> purified by Tom Laughlin in the Savage lab at Berkeley; data collected by Lauren Ann Metskas; data processed by Lauren Ann Metskas</p>
<strong>Purification / Growth Conditions / Treatment:</strong> purified by the Savage lab</p>
<strong>Sample Preparation:</strong> protochip C-flat 2/2-300 grid, 10nm BSA-gold, 100% humidity, defocus varying -1 to -5.5 microns</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lma2019-08-21-7/rawdata/</p>07_dose-filt.st,  Tilt Series (Pixel Size 0.1104 nm), 3.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lma2019-08-21-7/rawdata/07_dose-filt.st"
        > <i class="download icon"></i> Download </a></p>

        07_dose-filt.rec,  Reconstruction (Pixel Size 0.8832 nm), 626.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lma2019-08-21-7/3dimage_113025/07_dose-filt.rec"
        > <i class="download icon"></i> Download </a></p>

        scripts.tar.bz2,  zipped processing scripts, 11.7 kB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lma2019-08-21-7/file_26579/scripts.tar.bz2"
        > <i class="download icon"></i> Download </a></p>

        frames.tar.bz2,  zipped raw frames, 1.6 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lma2019-08-21-7/file_26578/frames.tar.bz2"
        > <i class="download icon"></i> Download </a></p>

        TS_07.mrc.mdoc,  30.1 kB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lma2019-08-21-7/rawdata/TS_07.mrc.mdoc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.628w9k
title: Occurrence Download

description: A dataset containing 612 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Argentina",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Oxymycterus"
 ]
}

 The dataset includes 612 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036423-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.