cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7442380
title: Non‐invasive assessment and visualization of Phytophthora cactorum infection in strawberry crowns using quantitative magnetic resonance imaging

description: Non‐invasive assessment and visualization of Phytophthora cactorum infection in strawberry crowns using quantitative magnetic resonance imaging

Tuomainen, TV1; Toljamo, A2; Kokko, H2; Nissi, MJ1,*  

1 University of Eastern Finland, Department of Technical Physics, Yliopistonranta 8, FI-70210, Kuopio, Finland  

2 University of Eastern Finland, Department of Environmental and Biological Sciences, Yliopistonranta 8, FI-70210, Kuopio, Finland        

 

*Corresponding author:  

Mikko J. Nissi  

Department of Technical Physics,

University of Eastern Finland (UEF), POB 1627  FI-70211,

Kuopio, Finland  

mikko.nissi [at] uef.fi  

+358-50-5955517    

 

 

Study and data description

Altogether 8 developing strawberry plants were investigated with MRI. From these, 4 were inoculated with a plant pathogen, Phytophthora cactorum. The MRI data was collected once a week for a total of three weeks and contains FSEMS-IR (T1 map), MEMS (T2 map), MGE (T2* map and QSM) for each plant and time point. The data includes MR data and relaxation time data as well as quantitative susceptibility maps for developing strawberry plants.

 

Folder structure

The raw data includes all data ('fid' for MRI), metadata (procpar for acquisition and reconstruction MRI parameters). Furthermore, calculated relaxation time maps (in MATLAB MAT-file format) and region-of-interest areas (MAT-files designated as ".roi" files, readable with aedes from aedes.uef.fi) are included.

 

The data set contains the following folders:



sb_href (raw data, no P. cactorum inoculation, i.e. healthy reference measurements for each plantlet)

sb_test (raw data, plantlets inoculated with P. cactorum)

qmaps (calculated quantitative maps; T1, T2, T2* and QSM).


 

Each file and/or folder are designated by:



quantitative map/measurement (fsems,mems,mge3d or t1,t2,t2star, qsm)

plantlet (s01-s04 or stol01-stol04),

healthy/inoculated (href/htest  or hydroref/hydrotest)

timepoint (d01-d03 or day01-day03)
DOI: 10.5281/zenodo.7442381
title: Non‐invasive assessment and visualization of Phytophthora cactorum infection in strawberry crowns using quantitative magnetic resonance imaging

description: Non‐invasive assessment and visualization of Phytophthora cactorum infection in strawberry crowns using quantitative magnetic resonance imaging

Tuomainen, TV1; Toljamo, A2; Kokko, H2; Nissi, MJ1,*  

1 University of Eastern Finland, Department of Technical Physics, Yliopistonranta 8, FI-70210, Kuopio, Finland  

2 University of Eastern Finland, Department of Environmental and Biological Sciences, Yliopistonranta 8, FI-70210, Kuopio, Finland        

 

*Corresponding author:  

Mikko J. Nissi  

Department of Technical Physics,

University of Eastern Finland (UEF), POB 1627  FI-70211,

Kuopio, Finland  

mikko.nissi [at] uef.fi  

+358-50-5955517    

 

 

Study and data description

Altogether 8 developing strawberry plants were investigated with MRI. From these, 4 were inoculated with a plant pathogen, Phytophthora cactorum. The MRI data was collected once a week for a total of three weeks and contains FSEMS-IR (T1 map), MEMS (T2 map), MGE (T2* map and QSM) for each plant and time point. The data includes MR data and relaxation time data as well as quantitative susceptibility maps for developing strawberry plants.

 

Folder structure

The raw data includes all data ('fid' for MRI), metadata (procpar for acquisition and reconstruction MRI parameters). Furthermore, calculated relaxation time maps (in MATLAB MAT-file format) and region-of-interest areas (MAT-files designated as ".roi" files, readable with aedes from aedes.uef.fi) are included.

 

The data set contains the following folders:



sb_href (raw data, no P. cactorum inoculation, i.e. healthy reference measurements for each plantlet)

sb_test (raw data, plantlets inoculated with P. cactorum)

qmaps (calculated quantitative maps; T1, T2, T2* and QSM).


 

Each file and/or folder are designated by:



quantitative map/measurement (fsems,mems,mge3d or t1,t2,t2star, qsm)

plantlet (s01-s04 or stol01-stol04),

healthy/inoculated (href/htest  or hydroref/hydrotest)

timepoint (d01-d03 or day01-day03)
DOI: 10.5281/zenodo.10529564
title: Data and software for "Deep-cycle turbulence in the upper Pacific Equatorial Ocean: characterization by LES and heat flux parameterization"

description: LES, TAO and chi-pod data used to parameterize the seasonal cycle of deep-cycle turbulent heat flux in the upper Pacific equatorial ocean.
DOI: 10.5281/zenodo.10547546
title: Data and software for "Deep-cycle turbulence in the upper Pacific Equatorial Ocean: characterization by LES and heat flux parameterization"

description: LES, TAO and chi-pod data used to parameterize the seasonal cycle of deep-cycle turbulent heat flux in the upper Pacific equatorial ocean.
DOI: 10.5281/zenodo.10552971
title: Data and software for "Deep-cycle turbulence in the upper Pacific Equatorial Ocean: characterization by LES and heat flux parameterization"

description: LES, TAO and chi-pod data used to parameterize the seasonal cycle of deep-cycle turbulent heat flux in the upper Pacific equatorial ocean.
DOI: 10.5281/zenodo.7567158
title: Data and software for "Deep-cycle turbulence in the upper Pacific Equatorial Ocean: characterization by LES and heat flux parameterization"

description: LES, TAO and chi-pod data used to parameterize the seasonal cycle of deep-cycle turbulent heat flux in the upper Pacific equatorial ocean.
DOI: 10.5281/zenodo.7567159
title: Data and software for "Deep-cycle turbulence in the upper Pacific Equatorial Ocean: characterization by LES and heat flux parameterization"

description: LES, TAO and chi-pod data used to parameterize the seasonal cycle of deep-cycle turbulent heat flux in the upper Pacific equatorial ocean.
DOI: 10.5281/zenodo.8216309
title: Data and software for "Deep-cycle turbulence in the upper Pacific Equatorial Ocean: characterization by LES and heat flux parameterization"

description: LES, TAO and chi-pod data used to parameterize the seasonal cycle of deep-cycle turbulent heat flux in the upper Pacific equatorial ocean.
DOI: 10.21227/h43f-dc68
title: IEEEXtreme11: Maximum Sum

description: This dataset contains a total of 1433 submissions, with 3% correct solutions and 56% partial solutions. Link to the original challenge: https://csacademy.com/ieeextreme-practice/task/04dfa70efd936271ae191cb1a97eb876/ See the included PDF document for details about the original challenge.
DOI: 10.21227/r8td-a279
title: FDFD Simulations

description: This paper presents a deep learning model for fast and accurate radar detection and pixel-level localization of large concealed metallic weapons on pedestrians walking along a sidewalk. The considered radar is stationary, with a multi-beam antenna operating at 30 GHz with 6 GHz bandwidth. A large modeled data set has been generated by running 2155 2D-FDFD simulations of torso cross sections of persons walking toward the radar in various scenarios.
DOI: 10.21227/1ahh-tv70
title: IEEEXtreme 11: Lion Territory

description: This dataset contains a total of 1443 submissions, with 2% correct solutions and 53% partial solutions. Link to the original challenge: https://csacademy.com/ieeextreme-practice/task/15443fc9f89feb90bc30096f43b308af/ See the included PDF document for details about the original challenge.
DOI: 10.48577/jpl.hmydfo
title: Relativistic electron precipitation driven by mesoscale transients, inferred from conjugate ground and multi-spacecraft platforms

description: Precipitation of relativistic electrons into the Earth’s atmosphere regulates the outer radiation belt fluxes and contributes to magnetosphere-atmosphere coupling. One of the main drivers of such precipitation is electron scattering by whistler-mode waves. Such waves typically originate at the equator, where they can resonate with and scatter subrelativistic (tens to a few hundred keV) electrons). However, they can occasionally be ducted by strong density gradients and propagate along field lines far from the equator, reaching middle latitudes; there they can resonate with and scatter relativistic (&gt;500 keV) electrons. Both whistler-mode wave generation and ducting can be driven by equatorial mesoscale (order of one Earth radius) transient structures at the nightside (driven by injections) and the dayside (driven by ultra-low-frequency waves). Here we combine mea surements of whistler-mode waves from ground observatories, relativistic electron precipitation from low-altitude satellites, total electron content maps from GPS receivers, and magnetic field and electron flux from equatorial satellites. We show that the observed relativistic electron precipitation is likely due to mid-latitude whistler-mode waves driven by equatorial transients. These ducted whistler-mode waves are likely absent in statistical models of wave occurrence rate, resulting in an underestimate of relativistic electron precipitation by mesoscale transients. These effects need to be further quantified, parametrized and duly incorporated in future models.
DOI: 10.48577/jpl.thpp7b
title: Ubiquitous acceleration in calving of the Greenland Ice Sheet, 1985-2022

description: Nearly every glacier in Greenland has thinned or retreated over the past few decades1–4 . Terminus12 retreat can accelerate glacier flow, causing sea level rise5–8 , and excess iceberg calving increases13 freshwater input into the ocean, impacting ocean circulation and the distribution of heat energy14 around the globe9–11 . The mass balance of the Greenland Ice Sheet is of critical importance for15 understanding the impacts of climate change12 , yet mass lost to calving-front retreat has gone16 undetected by conventional methods of satellite gravimetry, satellite altimetry, and surface-velocity17 measurements. Here, we combine 236,328 manually- and AI- derived observations of glacier18 terminus positions collected between 1985 and 2022 to generate a 120 m resolution mask that19 defines ice sheet extent every month for nearly four decades. We find that since 1985, the20 Greenland Ice Sheet has lost 5091±72 km2 of area, corresponding to 1034±120 Gt of ice lost to21 retreat. Our results indicate that by neglecting calving-front retreat, current consensus estimates of22 ice-sheet mass balance 4,12 have underestimated recent mass loss from Greenland by as much as23 20%. On seasonal timescales, Greenland loses 193±25 km2 (63±6 Gt) of ice to retreat each year24 from a maximum extent in May to a minimum between September and October. We find that25 2 multi-decadal retreat is highly correlated with the magnitude of seasonal advance and retreat of26 each glacier, meaning that terminus position variability on seasonal timescales can serve as an27 indicator of glacier sensitivity to longer-term climate change
DOI: 10.48577/jpl.340wxe
title: On-orbit spatial performance characterization for thermal infrared imagers of Landsat 7, 8 and 9, ECOSTRESS and CTI

description: In this analysis of the spatial resolving power of thermal imagery products we focus on four satellite instruments that are used in research and applications, for example to monitor land surface temperature and derive evapotranspiration. These are thermal imagers on Landsat 7, Landsat 8, and Landsat 9, as well as the ECOsystem Spaceborne Thermal Radiometer Experiment on Space Station (ECOSTRESS). We compiled sets of close-in-time, day-time images of bridges surrounded by open water bodies, captured by each of the satellite imagers during cloud-free moments. Where possible, we also included some images captured by the Compact Thermal Imager (CTI), a technology demonstrator that was co-located with ECOSTRESS on the International Space Station in 2019. Bridges were found to provide a sufficient thermal contrast with the water surface to quantify the line-spread function of satellite-based thermal products. The full-width-at-half-max of a gaussian beam model fitted to this transect quantifies the on-orbit spatial resolution of different imagers. The results show some loss of spatial resolving power in the final product delivered to end-users as compared to the at-sensor characterization of spatial resolution. For Landsat 7, 8 and 9, the spatial resolution of the thermal bands is 1.5 times the ground sampling distance of 60 m and 100 m respectively. For the ECOSTRESS the difference is up to twice the sampling distance of 78 by 69 m2 . Since spatial resolution is a main driver for instrument design it is important to understand and communicate this discrepancy between pre-flight design parameters and the characteristics of the surface imagery delivered to the user community. The goal of this research is to facilitate an improved fusion of current and future satellite observations into harmonized products with superior temporal and spatial characteristics.
DOI: 10.48577/jpl.awtvff
title: Evidence of Ice-Rich Layered Deposits in the Medusae Fossae Formation of Mars

description: Subsurface reflectors in radar sounder data from the MARSIS instrument aboard the Mars Express spacecraft indicate significant dielectric contrasts between layers in the Martian Medusae Fossae Formation (MFF). Large density changes that create dielectric contrasts are less likely in deposits of volcanic ash, eolian sediments, and dust, and compaction models show that homogeneous fine-grained material cannot readily account for the inferred density and dielectric constant where the deposits are more than a kilometer thick. The presence of subsurface reflectors is consistent with a multi-layer structure of an ice-poor cap above an ice-rich unit analogous to the Martian Polar Layered Deposits. The volume of an ice-rich component across the entire MFF below a 300-600 m dry cover corresponds to a global equivalent layer of water of ~1.5 to ~2.7 m or ~30% to 50% of the total estimated in the North Polar cap.
DOI: 10.6084/m9.figshare.25043528
title: mortality.csv

description: We tested microbial effects on local adaptation in four paired populations of an abundant alpine plant from two community types, dry and moist meadow. We conducted a greenhouse experiment over five months, manipulating source population, soil moisture, and soil microbiome, and measuring plant survival and biomass to assess treatment effects.
DOI: 10.6084/m9.figshare.25043528.v1
title: mortality.csv

description: We tested microbial effects on local adaptation in four paired populations of an abundant alpine plant from two community types, dry and moist meadow. We conducted a greenhouse experiment over five months, manipulating source population, soil moisture, and soil microbiome, and measuring plant survival and biomass to assess treatment effects.
DOI: 10.48577/jpl.zo3a3f
title: Fluorescent-Labeling of Amino Acids with Dry 5-Carboxyfluorescein Succinimidyl Ester for In-Situ Analysis of Future Missions to Ocean Worlds

description: Ocean worlds, such as Europa and Enceladus, are compelling cases in the search forextraterrestrial life due to the presence of liquid water, a key component for life to arise. Aminoacids provide three biosignatures that could help distinguish the biotic or abiotic origin of a sample.Capillary electrophoresis coupled to a laser-induced fluorescence detector is the ideal approach forin-situ analysis of chiral amino acids originating from ocean worlds based on sample compatibility,high resolution, and enhanced sensitivity. However, one limitation of this approach is thenecessary step of derivatizing amino acids with a fluorescent tag. The expected long duration offuture missions to ocean worlds dictates that any reagent needed must be stored in a way to avoidpossible degradation. In the case of fluorescent dyes, the best approach is to store the dyes as ananhydrous powder. However, the general procedure for derivatization with such dyes involves theuse of dye in liquid form, as a solution of a known concentration. The efficiency of labeling from2dry dye has never been demonstrated. Here, we demonstrate that using dried CFSE dye (the onlyform stable for long-term storage under mission conditions) to label chiral amino acids havesimilar labeling efficiencies compared to previously published labeling methods using the dye insolution
DOI: 10.48577/jpl.6mesed
title: What forcing mechanisms affect the interannual sea level co-variability between the Northeast and Southeast Coasts of the United States?

description: Interannual sea-level variations between the United States (U.S.) Northeast and Southeast Coasts separated by Cape Hatteras are significantly less correlated than those within their respective sectors, but the cause is poorly understood. Here we investigate atmospheric forcing mechanisms that affect the interannual sea-level co-variability between these two sectors using an adjoint reconstruction and decomposition approach in the framework of Estimating the Circulation and Climate of the Ocean (ECCO) ocean state estimate. We compare modeled and observed sea-level changes at representative locations in each sector: Nantucket Island, Massachusetts for the Northeast and Charleston, South Carolina for the Southeast. The adjoint reconstruction and decomposition approach used in this work allows for identification and quantification of the causal mechanisms that were responsible for observed variability, here coastal sea-level variations. Coherent sea-level variations in Nantucket and Charleston arise from nearshore wind stress anomalies north of Cape Hatteras and buoyancy forcing, especially from the subpolar North Atlantic, while offshore wind stress anomalies, in contrast, reduces co-variability. Offshore wind stress contributes much more to interannual sea-level variation at Charleston than to that at Nantucket, causing incoherent sea level variations between the two locations. Buoyancy forcing anomalies south of Charleston, including over the Florida shelf, the Gulf of Mexico, and the Caribbean Sea, also reduce co-variability because they induce sea-level responses at Charleston but not Nantucket. However, the relative impact of buoyancy forcing on interannual sea-level co-variability between the two sectors is much smaller than that of offshore wind stress.
DOI: 10.48577/jpl.u3eckd
title: Propyne: Determination of physical properties and unit cell parameters under Titan-relevant conditions

description: With its large size, dense atmosphere, methane-based hydrological-like cycle, and diverse surface features, the Saturnian moon Titan is one of the most unique of the outer Solar System satellites. Study of the photochemically-produced molecules in Titan’s atmosphere is critical in order to understand the mechanics of the atmosphere and by extension, the interactions between atmosphere, surface, and subsurface water ocean. One example is propyne vapor, a photochemically-produced species in Titan’s upper atmosphere expected to condense in Titan’s stratosphere at lower altitudes. Propyne may also be a trace species in Titan’s stratospheric co-condensed ice clouds detected by Cassini CIRS (Composite InfraRed Spectrometer). Bulk structural characterization of propyne ice is currently incomplete, and is lacking in published laboratory Raman spectra and X-ray diffraction data. Here we present a laboratory characterization of propyne ice, including the first published X-ray diffraction and Raman spectroscopy results for propyne ice.
DOI: 10.48577/jpl.zpz6bn
title: Diurnal Patterns in the Observed Cloud Liquid Water Path Response to Droplet Number Perturbations

description: A key uncertainty in Aerosol-cloud interactions is the cloud liquid water path (LWP) response to increased aerosols (λ). LWP can either increase due to precipitation suppres sion or decrease due to entrainment-drying. Previous research suggests that precipita16 tion suppression dominates in thick clouds, while entrainment-drying prevails in thin clouds. The time scales of the two competing effects are vastly different, requiring temporally resolved observations. We analyze 3-day Lagrangian trajectories of stratocumulus clouds over the southeast Pacific using 2019-2021 geostationary data. We find that clouds with a LWP exceeding 200 g m−2 exhibit a positive response, while clouds with lower LWP show a negative response. We observe a significant diurnal cycle in λ, indicating a more strongly negative daytime adjustment driven by entrainment-drying. In contrast, at night, precipitation suppression can occasionally fully counteract the entrainment-drying mechanism. Overall, λ appears weaker than previously suggested in studies that do not account for the diurnal cycle.
DOI: 10.6084/m9.figshare.25006955
title: Treating pain in sickle cell disease by means of focused ultrasound neuromodulation (Intracranial recordings)

description: We have demonstrated a novel transcranial focused ultrasound technology for pain treatment, that promises to provide non-pharmacologic chronic pain treatment for patients associated with underlying conditions such as cancer or sickle cell disease (SCD).The Intracranial recordings were conducted from 2 experimental in vivo mice. This work was supported in part by NIH EB029354, NS124564, and NS131069. Animal care and handling are according to the regulation of Institutional Animal Care and Use Committee of Carnegie Mellon University and complied with National Institutes of Health guidelines. More information can be found in the corresponding manuscript:Kim MG*, Yu K*, Yeh C-Y, Fouda R, Argueta D, Kiven S, Ni Y, Niu X, Chen Q, Kim K, Gupta K, He B. Low-intensity transcranial focused ultrasound changes pain-associated behaviors by modulating pain processing brain circuits. bioRxiv: https://doi.org/10.1101/2022.12.07.519518 (*Equal contribution, first author)If anyone uses the whole or part of the dataset provided here, we kindly ask you to cite the above publication in any of your publications or presentations:
DOI: 10.48577/jpl.dwzx8n
title: High-contrast JWST-MIRI spectroscopy of planet-forming disks for the JDISC Survey

description: The JWST Disk Infrared Spectral Chemistry Survey (JDISCS) aims to understand the evolution of the chemistry of inner protoplanetary disks using the Mid-InfraRed Instrument (MIRI) on the James Webb Space Telescope (JWST). With a growing sample of &gt; 30 disks, the survey implements a custom method to calibrate the MIRI Medium Resolution Spectrometer (MRS) to contrasts of better than 1:300 across its 4.9-28 µm spectral range. This is achieved using observations of Themis-family asteroids as precise empirical reference sources. High spectral contrast enables precise retrievals of physical parameters, searches for rare molecular species and isotopologues, and constraints on the inventories of carbon- and nitrogen-bearing species. JDISCS also offers significant improvements to the MRS wavelength and resolving power calibration. We describe the JDISCS calibrated data and demonstrate its quality using observations of the disk around the solar-mass young star FZ Tau. The FZ Tau MIRI spectrum is dominated by strong emission from warm water vapor. We show that the water and CO line emission originates from the disk surface and traces a range of gas temperatures of ∼500–1500 K. We retrieve parameters for the observed CO and H2O lines, and show that they are consistent with a radial distribution represented by two temperature components. A high water abundance of n(H2O) ∼ 10−4 fills the disk surface at least out to the 350 K isotherm at 1.5 au. We search the FZ Tau environs for extended emission detecting a large (radius of ∼300 au) ring of emission from H2 gas surrounding FZ Tau, and discuss its origin.
DOI: 10.13019/rpzw-bx12
title: SIMPLE Database and Model for Base Year 2017

description: This is a database workflow for SIMPLE Databate and Model for Base Year 2017. This database is for the non-gridded version of SIMPLE and is defined for 153 regions. It takes crop production data from FAOSTAT via API and allows users to change database ass