cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7937426.v1
title: Effect of Temperature and Relative Humidity on Growth of <i>Aspergillus</i> and <i>Penicillium</i> spp. and Biocontrol Activity of <i>Pseudomonas protegens</i> AS15 against Aflatoxigenic <i>Aspergillus flavus</i> in Stored Rice Grains

description: In this study, we evaluated the effect of different temperatures (10, 20, 30, and 40 °C) and relative humidities (RHs; 12, 44, 76, and 98%) on populations of predominant grain fungi (<i>Aspergillus candidus</i>, <i>Aspergillus flavus</i>, <i>Aspergillus fumigatus</i>, <i>Penicillium fellutanum</i>, and <i>Penicillium islandicum</i>) and the biocontrol activity of <i>Pseudomonas protegens</i> AS15 against aflatoxigenic <i>A. flavus</i> KCCM 60330 in stored rice. Populations of all the tested fungi in inoculated rice grains were significantly enhanced by both increased temperature and RH. Multiple linear regression analysis revealed that one unit increase of temperature resulted in greater effects than that of RH on fungal populations. When rice grains were treated with <i>P. protegens</i> AS15 prior to inoculation with <i>A. flavus</i> KCCM 60330, fungal populations and aflatoxin production in the inoculated grains were significantly reduced compared with the grains untreated with strain AS15 regardless of temperature and RH (except 12% RH for fungal population). In addition, bacterial populations in grains were significantly enhanced with increasing temperature and RH, regardless of bacterial treatment. Higher bacterial populations were detected in biocontrol strain-treated grains than in untreated control grains. To our knowledge, this is the first report showing consistent biocontrol activity of <i>P. protegens</i> against <i>A. flavus</i> population and aflatoxin production in stored rice grains under various environmental conditions of temperature and RH.
DOI: 10.6084/m9.figshare.7937405
title: Olfactory Receptor Repertoire Size in Dinosaurs

description: Olfactory receptor gene sequences for Alligator mississippiensis mined using the Olfactory receptor assigner, plus all supplemental figure files<br>
DOI: 10.6084/m9.figshare.7937411.v1
title: gVCF_NA20502

description: 1000 Genomes gVCF mapped to hs37d5 for NA20502. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937405.v1
title: Olfactory Receptor Repertoire Size in Dinosaurs

description: Olfactory receptor gene sequences for Alligator mississippiensis mined using the Olfactory receptor assigner, plus all supplemental figure files<br>
DOI: 10.6084/m9.figshare.7937372
title: gVCF_HG02721

description: 1000 Genomes gVCF mapped to hs37d5 for HG02721. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937369
title: gVCF_NA12003

description: 1000 Genomes gVCF mapped to hs37d5 for NA12003. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937372.v1
title: gVCF_HG02721

description: 1000 Genomes gVCF mapped to hs37d5 for HG02721. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937360
title: Supplementary Material for: Association of Acute Kidney Injury with Cardiovascular Events and Death in Systolic Blood Pressure Intervention Trial

description: <b><i>Rationale and Objective:</i></b> In the Systolic Blood Pressure Intervention Trial, the possible relationships between acute kidney injury (AKI) and risk of major cardiovascular events and death are not known. <b><i>Study Design:</i></b> Post hoc analysis of a multicenter, randomized, controlled, open-label clinical trial. <b><i>Setting and Participants:</i></b> Hypertensive adults without diabetes who were ≥50 years of age with prior cardiovascular disease, chronic kidney disease (CKD), 10-year Framingham risk score &gt; 15%, or age &gt; 75 years were assigned to a systolic blood pressure target of &lt; 120 mm Hg (intensive) or &lt; 140 mm Hg (standard). <b><i>Predictor:</i></b> AKI episodes. <b><i>Outcomes:</i></b> The primary outcome was a composite of myocardial infarction, acute coronary syndrome, stroke, decompensated heart failure, or cardiovascular death. The secondary outcome was death from any cause. <b><i>Analytical Approach:</i></b> AKI was defined using the Kidney Disease: Improving Global Outcomes modified criteria based solely upon serum creatinine. AKI episodes were identified by serious adverse events or emergency room visits. Cox proportional hazards models assessed the risk for the primary and secondary outcomes by AKI status. <b><i>Results:</i></b> Participants were 68 ± 9 years of age, 36% women (3,332/9,361), and 30% Black race (2,802/9,361), and 17% (1,562/9,361) with cardiovascular disease. Systolic blood pressure was 140 ± 16 mm Hg at study entry. AKI occurred in 4.4% (204/4,678) and 2.6% (120/4,683) in the intensive and standard treatment groups respectively (<i>p</i> &lt; 0.001). Those who experienced AKI had higher risk of cardiovascular events (hazard ratio [HR] 1.52, 95% CI 1.05–2.20, <i>p</i> = 0.026) and death from any cause (HR 2.33, 95% CI 1.56–3.48, <i>p</i> &lt; 0.001) controlling for age, sex, race, baseline systolic blood pressure, body mass index, number of antihypertensive medications, cardiovascular disease and CKD status, hypotensive episodes, and treatment assignment. <b><i>Limitations:</i></b> The study was not prospectively designed to determine relationships between AKI, cardiovascular events, and death. <b><i>Conclusions:</i></b> Among older adults with hypertension at high cardiovascular risk, intensive treatment of blood pressure independently increased risk of AKI, which substantially raised risks of major cardiovascular events and death.
DOI: 10.6084/m9.figshare.7937369.v1
title: gVCF_NA12003

description: 1000 Genomes gVCF mapped to hs37d5 for NA12003. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937354
title: Data from: Tibial shock reduction by means of music-based biofeedback in over-ground running: proof-of-concept

description: This dataset contains individual metrics (demographics, running habits and our variables of interest) and time series (axial peak tibial acceleration, steps per minute) of 10 runners before and at the end of a gait retraining intervention. Subjects with elevated axial peak tibial acceleration performed a single running gait retraining session on an indoor running track at 3.2 ± 0.2 m/s in self-selected footwear. Data are from an experimental protocol approved by the Ethics Committee of Ghent University. This dataset has been used to investigate if at risk runners are capable to reduce their uni-directional tibial shock when running over-ground with a music-based biofeedback system.
DOI: 10.6084/m9.figshare.7937345
title: gVCF_NA20412

description: 1000 Genomes gVCF mapped to hs37d5 for NA20412. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937345.v1
title: gVCF_NA20412

description: 1000 Genomes gVCF mapped to hs37d5 for NA20412. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.5522/04/7937330
title: CATH protein domain classification (version 4.2)

description: <strong>CATH is a classification of protein structures downloaded from the Protein Data Bank. </strong> We group protein domains into superfamilies when there is sufficient evidence they have diverged from a common ancestor. The files contained in this dataset correspond to the version 4.2 release of the CATH classification. <br>
DOI: 10.6084/m9.figshare.7937327
title: gVCF_NA11995

description: 1000 Genomes gVCF mapped to hs37d5 for NA11995. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937336
title: Colonoscopy images

description: <b>Original frame image was extracted from colonoscopy video.</b> In this study, colonoscopy was performed using a high-resolution colonoscopy device (CV260SL, Olympus, Tokyo, Japan). Colonoscopy videos were acquired using a video capture card (SkyCaputre U6T, Skydigital, Yongsan, Korea), after signal branching from the CV260SL. The video was converted to an MP4 format to avoid alteration of the resolution, and the resolution was 1920*1080, 30fps. The colonoscopy video was decomposed into frames. A frame was extracted as a PNG file per 0.5 s using Virtualdub software.
DOI: 10.5522/04/7937330.v1
title: CATH protein domain classification (version 4.2)

description: <strong>CATH is a classification of protein structures downloaded from the Protein Data Bank. </strong> We group protein domains into superfamilies when there is sufficient evidence they have diverged from a common ancestor. The files contained in this dataset correspond to the version 4.2 release of the CATH classification. <br>
DOI: 10.6084/m9.figshare.7937327.v1
title: gVCF_NA11995

description: 1000 Genomes gVCF mapped to hs37d5 for NA11995. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937309
title: Revision of the Lichen Genus <i>Stereocaulon</i> (Stereocaulaceae, Ascomycota) in South Korea

description: Lichen genus <i>Stereocaulon</i> (Schreb.) Hoffm is distributed throughout the world. Although 15 <i>Stereocaulon</i> species have been recorded in Korea, no detailed taxonomic or revisionary research has been conducted for nearly two decades. In this study, we collected 260 putative <i>Stereocaulon</i> spp. samples and identified the species based on morphological, chemical, and molecular characteristics. From the collected samples, 10 species of <i>Stereocaulon</i> were identified, nine of which had already been reported, although this was the first report for the tenth, <i>S</i>. <i>octomerellum</i> Hue, in Korea. General characteristics of <i>Stereocaulon</i> spp. include coralloid phyllocladia and tubercular cephalodia; however, the specimen first collected in Korea was a rare species with tomentum on the pseudopodetia. The specimen of <i>S. octomerellum</i> is characterized by the presence of a primary thallus, granule to short coralloid phyllocladia, and pseudopodetia up to 1 cm in size, with tubercular cephalodia. To determine the phylogeny of the specimens, we compared the ITS sequences of ribosomal DNA and the β-tubulin gene sequences. Phylogenetic analysis showed that the Korean <i>Stereocaulon</i> species were monophyletic and placed in the previous phylogenetic classification. Species of <i>S. intermedium</i> and <i>S. exutum</i>, however, were polyphyletic, and are morphologically variable and widespread species. Overall, we present here detailed morphological and chemical descriptions of each species identified and a revised key of all known <i>Stereocaulon</i> species in South Korea.
DOI: 10.6084/m9.figshare.7937309.v1
title: Revision of the Lichen Genus <i>Stereocaulon</i> (Stereocaulaceae, Ascomycota) in South Korea

description: Lichen genus <i>Stereocaulon</i> (Schreb.) Hoffm is distributed throughout the world. Although 15 <i>Stereocaulon</i> species have been recorded in Korea, no detailed taxonomic or revisionary research has been conducted for nearly two decades. In this study, we collected 260 putative <i>Stereocaulon</i> spp. samples and identified the species based on morphological, chemical, and molecular characteristics. From the collected samples, 10 species of <i>Stereocaulon</i> were identified, nine of which had already been reported, although this was the first report for the tenth, <i>S</i>. <i>octomerellum</i> Hue, in Korea. General characteristics of <i>Stereocaulon</i> spp. include coralloid phyllocladia and tubercular cephalodia; however, the specimen first collected in Korea was a rare species with tomentum on the pseudopodetia. The specimen of <i>S. octomerellum</i> is characterized by the presence of a primary thallus, granule to short coralloid phyllocladia, and pseudopodetia up to 1 cm in size, with tubercular cephalodia. To determine the phylogeny of the specimens, we compared the ITS sequences of ribosomal DNA and the β-tubulin gene sequences. Phylogenetic analysis showed that the Korean <i>Stereocaulon</i> species were monophyletic and placed in the previous phylogenetic classification. Species of <i>S. intermedium</i> and <i>S. exutum</i>, however, were polyphyletic, and are morphologically variable and widespread species. Overall, we present here detailed morphological and chemical descriptions of each species identified and a revised key of all known <i>Stereocaulon</i> species in South Korea.
DOI: 10.6084/m9.figshare.7937297
title: Biocontrol Activity of Volatile-Producing <i>Bacillus megaterium</i> and <i>Pseudomonas protegens</i> Against <i>Aspergillus</i> and <i>Penicillium</i> spp. Predominant in Stored Rice Grains: Study II

description: In our previous studies, <i>Bacillus megaterium</i> KU143<i>, Microbacterium testaceum</i> KU313, and <i>Pseudomonas protegens</i> AS15 have been shown to be antagonistic to <i>Aspergillus flavus</i> in stored rice grains. In this study, the biocontrol activities of these strains were evaluated against <i>Aspergillus candidus, Aspergillus fumigatus</i>, <i>Penicillium fellutanum</i>, and <i>Penicillium islandicum</i>, which are predominant in stored rice grains. <i>In vitro</i> and <i>in vivo</i> antifungal activities of the bacterial strains were evaluated against the fungi on media and rice grains, respectively. The antifungal activities of the volatiles produced by the strains against fungal development and population were also tested using I-plates. In <i>in vitro</i> tests, the strains produced secondary metabolites capable of reducing conidial germination, germ-tube elongation, and mycelial growth of all the tested fungi. In <i>in vivo</i> tests, the strains significantly inhibited the fungal growth in rice grains. Additionally, in I-plate tests, strains KU143 and AS15 produced volatiles that significantly inhibited not only mycelial growth, sporulation, and conidial germination of the fungi on media but also fungal populations on rice grains. GC-MS analysis of the volatiles by strains KU143 and AS15 identified 12 and 17 compounds, respectively. Among these, the antifungal compound, 5-methyl-2-phenyl-1H-indole, was produced by strain KU143 and the antimicrobial compounds, 2-butyl 1-octanal, dimethyl disulfide, 2-isopropyl-5-methyl-1-heptanol, and 4-trifluoroacetoxyhexadecane, were produced by strain AS15. These results suggest that the tested strains producing extracellular metabolites and/or volatiles may have a broad spectrum of antifungal activities against the grain fungi. In particular, <i>B. megaterium</i> KU143 and <i>P. protegens</i> AS15 may be potential biocontrol agents against <i>Aspergillus</i> and <i>Penicillium</i> spp. during rice grain storage.
DOI: 10.6084/m9.figshare.7937297.v1
title: Biocontrol Activity of Volatile-Producing <i>Bacillus megaterium</i> and <i>Pseudomonas protegens</i> Against <i>Aspergillus</i> and <i>Penicillium</i> spp. Predominant in Stored Rice Grains: Study II

description: In our previous studies, <i>Bacillus megaterium</i> KU143<i>, Microbacterium testaceum</i> KU313, and <i>Pseudomonas protegens</i> AS15 have been shown to be antagonistic to <i>Aspergillus flavus</i> in stored rice grains. In this study, the biocontrol activities of these strains were evaluated against <i>Aspergillus candidus, Aspergillus fumigatus</i>, <i>Penicillium fellutanum</i>, and <i>Penicillium islandicum</i>, which are predominant in stored rice grains. <i>In vitro</i> and <i>in vivo</i> antifungal activities of the bacterial strains were evaluated against the fungi on media and rice grains, respectively. The antifungal activities of the volatiles produced by the strains against fungal development and population were also tested using I-plates. In <i>in vitro</i> tests, the strains produced secondary metabolites capable of reducing conidial germination, germ-tube elongation, and mycelial growth of all the tested fungi. In <i>in vivo</i> tests, the strains significantly inhibited the fungal growth in rice grains. Additionally, in I-plate tests, strains KU143 and AS15 produced volatiles that significantly inhibited not only mycelial growth, sporulation, and conidial germination of the fungi on media but also fungal populations on rice grains. GC-MS analysis of the volatiles by strains KU143 and AS15 identified 12 and 17 compounds, respectively. Among these, the antifungal compound, 5-methyl-2-phenyl-1H-indole, was produced by strain KU143 and the antimicrobial compounds, 2-butyl 1-octanal, dimethyl disulfide, 2-isopropyl-5-methyl-1-heptanol, and 4-trifluoroacetoxyhexadecane, were produced by strain AS15. These results suggest that the tested strains producing extracellular metabolites and/or volatiles may have a broad spectrum of antifungal activities against the grain fungi. In particular, <i>B. megaterium</i> KU143 and <i>P. protegens</i> AS15 may be potential biocontrol agents against <i>Aspergillus</i> and <i>Penicillium</i> spp. during rice grain storage.
DOI: 10.6084/m9.figshare.7937285
title: gVCF_HG02716

description: 1000 Genomes gVCF mapped to hs37d5 for HG02716. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937291
title: gVCF_NA20362

description: 1000 Genomes gVCF mapped to hs37d5 for NA20362. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937285.v1
title: gVCF_HG02716

description: 1000 Genomes gVCF mapped to hs37d5 for HG02716. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937291.v1
title: gVCF_NA20362

description: 1000 Genomes gVCF mapped to hs37d5 for NA20362. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7937261
title: The Major Postharvest Disease of Onion and Its Control with Thymol Fumigation During Low-Temperature Storage

description: Onion (<i>Allium cepa</i> L.) is one of the major vegetable crops in Korea that are damaged and lost by pathogenic fungal infection during storage due to a lack of proper storage conditions. The aim of this study was to determine an appropriate control measure using thymol to increase the shelf life of onions. To control fungal infections that occur during low-temperature storage, it is necessary to identify the predominant fungal pathogens that appear in low-temperature storage houses. <i>Botrytis aclada</i> was found to be the most predominant fungal pathogen during low-temperature storage. The antifungal activity of the plant essential oil thymol was tested and compared to that of the existing sulfur treatments. <i>B. aclada</i> growth was significantly inhibited up to 16 weeks with spray treatments using a thymol solution. To identify an appropriate method for treating onions in a low-temperature storage house, thymol was delivered by two fumigation treatment methods, either by heating it in the granule form or as a solution at low-temperature storage conditions (<i>in vivo</i>). We confirmed that the disease severity was reduced up to 96% by fumigating thymol solution compared to the untreated control. The efficacy of the fumigation of thymol solution was validated by testing onions in a low-temperature storage house in Muan, Jeollanam-do. Based on these results, the present study suggests that fumigation of the thymol solution as a natural preservative and fungicide can be used as an eco-friendly substitute for existing methods to control postharvest disease in long-term storage crops on a commercial scale.
DOI: 10.6084/m9.figshare.7937261.v1
title: The Major Postharvest Disease of Onion and Its Control with Thymol Fumigation During Low-Temperature Storage

description: Onion (<i>Allium cepa</i> L.) is one of the major vegetable crops in Korea that are damaged and lost by pathogenic fungal infection during storage due to a lack of proper storage conditions. The aim of this study was to determine an appropriate control measure using thymol to increase the shelf life of onions. To control fungal infections that occur during low-temperature storage, it is necessary to identify the predominant fungal pathogens that appear in low-temperature storage houses. <i>Botrytis aclada</i> was found to be the most predominant fungal pathogen during low-temperature storage. The antifungal activity of the plant essential oil thymol was tested and compared to that of the existing sulfur treatments. <i>B. aclada</i> growth was significantly inhibited up to 16 weeks with spray treatments using a thymol solution. To identify an appropriate method for treating onions in a low-temperature storage house, thymol was delivered by two fumigation treatment methods, either by heating it in the granule form or as a solution at low-temperature storage conditions (<i>in vivo</i>). We confirmed that the disease severity was reduced up to 96% by fumigating thymol solution compared to the untreated control. The efficacy of the fumigation of thymol solution was validated by testing onions in a low-temperature storage house in Muan, Jeollanam-do. Based on these results, the present study suggests that fumigation of the thymol solution as a natural preservative and fungicide can be used as an eco-friendly substitute for existing methods to control postharvest disease in long-term storage crops on a commercial scale.
DOI: 10.6084/m9.figshare.7937246
title: Cancer Datasheets

description: Cancer datasheets for classification of cancer samples based on tumor immune phenotype according to expression of the Immunologic Constant of Rejection gene signature.
DOI: 10.6084/m9.figshare.7937252
title: Supplementary Material for: Urinary Biomarkers of Tubular Damage Are Associated with Mortality but Not Cardiovascular Risk among Systolic Blood Pressure Intervention Trial Participants with Chronic Kidney Disease

description: <b><i>Background:</i></b> Kidney tubulointerstitial fibrosis on biopsy is a strong predictor of chronic kidney disease (CKD) progression, and CKD is associated with elevated risk of cardiovascular disease (CVD). Tubular health is poorly quantified by traditional kidney function measures, including estimated glomerular filtration rate (eGFR) and albuminuria. We hypothesized that urinary biomarkers of tubular injury, inflammation, and repair would be associated with higher risk of CVD and mortality in persons with CKD. <b><i>Methods:</i></b> We measured urinary concentrations of interleukin-18 (IL-18), kidney injury molecule-1, neutrophil gelatinase-associated lipocalin, monocyte chemoattractant protein-1, and chitinase-3-like protein-1 (YKL-40) at baseline among 2,377 participants of the Systolic Blood Pressure Intervention Trial who had an eGFR &lt; 60 mL/min/1.73 m<sup>2</sup>. We used Cox proportional hazards models to evaluate biomarker associations with CVD events and all-cause mortality. <b><i>Results:</i></b> At baseline, the mean age of participants was 72 ± 9 years, and eGFR was 48 ± 11 mL/min/1.73 m<sup>2</sup>. Over a median follow-up of 3.8 years, 305 CVD events (3.6% per year) and 233 all-cause deaths (2.6% per year) occurred. After multivariable adjustment including eGFR, albuminuria, and urinary creatinine, none of the biomarkers showed statistically significant associations with CVD risk. Urinary IL-18 (hazard ratio [HR] per 2-fold higher value, 1.14; 95% CI 1.01–1.29) and YKL-40 (HR per 2-fold higher value, 1.08; 95% CI 1.02–1.14) concentrations were each incrementally associated with higher mortality risk. Associations were similar when stratified by randomized blood pressure arm. <b><i>Conclusions:</i></b> Among hypertensive trial participants with CKD, higher urinary IL-18 and YKL-40 were associated with higher risk of mortality, but not CVD.