cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11347796
title: Pinus heldreichii chorology

description: Distribution map of Bosnian pine (<i>Pinus heldreichii</i>)<br><br>These maps were produced by combining numerous and heterogeneous data collected from atlas monographs providing complete species distribution maps, from national to regional atlases, occurrence geo-databases, scientific and grey literature.<br>The maps were created using ESRI shapefiles (*.shp, *.shx, *.dbf, *.prj files) archived in the ZIP file. Species range is mapped with polygon features (name suffix "plg"), which define continuous areas of occupancy of the species, and with point features (name suffix "pnt"), which identify more fragmented and isolated populations. If synanthropic occurrences are reported outside the species natural range, additional point and/or polygon shapefiles are also present (suffix "syn").<br>Polygon borders delimiting species ranges are generalized across the mainland and sea boundaries. This offers the possibility to mask sea areas or to clip and extract the terrestrial range parts using GIS data layers of the users' choice. An additional version of polygon ranges are clipped with a coastline (name suffix "clip"), which have been derived from Natural Earth dataset "Admin 0 - Countries" 1:50M version 4.1.0 (https://www.naturalearthdata.com).<br><br>Please cite as:<br>Caudullo, G., Welk, E., San-Miguel-Ayanz, J., 2017. Chorological maps for the main European woody species. Data in Brief 12, 662-666. DOI: doi.org/10.1016/j.dib.2017.05.007<br><br>Additional information and used references are on 'supplementary materials' document:<br>https://doi.org/10.6084/m9.figshare.5091901<br><br>Chorological maps are part of the "European Atlas of Forest Tree Species" project:<br>https://w3id.org/mtv/FISE-Comm/v01
DOI: 10.6084/m9.figshare.11347745
title: Supplementary Material for: Development and Application of Transposable Element-Based Chromosomal Markers for the St Genome in Triticeae

description: The St genome, originating from <i>Pseudoroegneria</i> (Nevski) Á. Löve, plays an important role in Triticeae. In this study, the <i>Pseudoroegneria stipifolia </i>genome (2n = 2x = 14, StSt) was screened to identify sequences that could be used for FISH. A total of 163 effective clones were obtained from the genomic plasmid library which was constructed by DNase I digestion of <i>P. stipifolia</i> nuclear genomic DNA. Analysis of these clones identified 112 with characteristics of transposable elements (TEs), 13 with characteristics of tandem repetitive sequences, 8 with characteristics of mRNA sequences, and 30 unknown sequences. Fluorescent signals were detected for 11 of 41 TE sequences on <i>P. stipifolia</i> chromosomes after in situ hybridization and were divided into 4 types according to signal distribution patterns: over the whole St genome chromosomes, telomere to pericentromeric regions, centromere to pericentromeric regions, and terminal regions. The affinity between St and Y genomes was studied using the 11 TE probes in 3 StStYY species. Five TE probes showed no obvious difference between subgenomes, 2 probes displayed divergence only in 2 StStYY species, and 4 probes exhibited significant differences among 3 StStYY species. These results provide a preliminary understanding of the sequence composition of the St genome and enabled 11 novel TE probes to be developed and applied.
DOI: 10.6084/m9.figshare.11347790
title: Pinus peuce chorology

description: Distribution map of Macedonian pine (<i>Pinus peuce</i>)<br><br>These maps were produced by combining numerous and heterogeneous data collected from atlas monographs providing complete species distribution maps, from national to regional atlases, occurrence geo-databases, scientific and grey literature.<br>The maps were created using ESRI shapefiles (*.shp, *.shx, *.dbf, *.prj files) archived in the ZIP file. Species range is mapped with polygon features (name suffix "plg"), which define continuous areas of occupancy of the species, and with point features (name suffix "pnt"), which identify more fragmented and isolated populations. If synanthropic occurrences are reported outside the species natural range, additional point and/or polygon shapefiles are also present (suffix "syn").<br>Polygon borders delimiting species ranges are generalized across the mainland and sea boundaries. This offers the possibility to mask sea areas or to clip and extract the terrestrial range parts using GIS data layers of the users' choice. An additional version of polygon ranges are clipped with a coastline (name suffix "clip"), which have been derived from Natural Earth dataset "Admin 0 - Countries" 1:50M version 4.1.0 (https://www.naturalearthdata.com).<br><br>Please cite as:<br>Caudullo, G., Welk, E., San-Miguel-Ayanz, J., 2017. Chorological maps for the main European woody species. Data in Brief 12, 662-666. DOI: doi.org/10.1016/j.dib.2017.05.007<br><br>Additional information and used references are on 'supplementary materials' document:<br>https://doi.org/10.6084/m9.figshare.5091901<br><br>Chorological maps are part of the "European Atlas of Forest Tree Species" project:<br>https://w3id.org/mtv/FISE-Comm/v01
DOI: 10.6084/m9.figshare.11347745.v1
title: Supplementary Material for: Development and Application of Transposable Element-Based Chromosomal Markers for the St Genome in Triticeae

description: The St genome, originating from <i>Pseudoroegneria</i> (Nevski) Á. Löve, plays an important role in Triticeae. In this study, the <i>Pseudoroegneria stipifolia </i>genome (2n = 2x = 14, StSt) was screened to identify sequences that could be used for FISH. A total of 163 effective clones were obtained from the genomic plasmid library which was constructed by DNase I digestion of <i>P. stipifolia</i> nuclear genomic DNA. Analysis of these clones identified 112 with characteristics of transposable elements (TEs), 13 with characteristics of tandem repetitive sequences, 8 with characteristics of mRNA sequences, and 30 unknown sequences. Fluorescent signals were detected for 11 of 41 TE sequences on <i>P. stipifolia</i> chromosomes after in situ hybridization and were divided into 4 types according to signal distribution patterns: over the whole St genome chromosomes, telomere to pericentromeric regions, centromere to pericentromeric regions, and terminal regions. The affinity between St and Y genomes was studied using the 11 TE probes in 3 StStYY species. Five TE probes showed no obvious difference between subgenomes, 2 probes displayed divergence only in 2 StStYY species, and 4 probes exhibited significant differences among 3 StStYY species. These results provide a preliminary understanding of the sequence composition of the St genome and enabled 11 novel TE probes to be developed and applied.
DOI: 10.6084/m9.figshare.11347790.v1
title: Pinus peuce chorology

description: Distribution map of Macedonian pine (<i>Pinus peuce</i>)<br><br>These maps were produced by combining numerous and heterogeneous data collected from atlas monographs providing complete species distribution maps, from national to regional atlases, occurrence geo-databases, scientific and grey literature.<br>The maps were created using ESRI shapefiles (*.shp, *.shx, *.dbf, *.prj files) archived in the ZIP file. Species range is mapped with polygon features (name suffix "plg"), which define continuous areas of occupancy of the species, and with point features (name suffix "pnt"), which identify more fragmented and isolated populations. If synanthropic occurrences are reported outside the species natural range, additional point and/or polygon shapefiles are also present (suffix "syn").<br>Polygon borders delimiting species ranges are generalized across the mainland and sea boundaries. This offers the possibility to mask sea areas or to clip and extract the terrestrial range parts using GIS data layers of the users' choice. An additional version of polygon ranges are clipped with a coastline (name suffix "clip"), which have been derived from Natural Earth dataset "Admin 0 - Countries" 1:50M version 4.1.0 (https://www.naturalearthdata.com).<br><br>Please cite as:<br>Caudullo, G., Welk, E., San-Miguel-Ayanz, J., 2017. Chorological maps for the main European woody species. Data in Brief 12, 662-666. DOI: doi.org/10.1016/j.dib.2017.05.007<br><br>Additional information and used references are on 'supplementary materials' document:<br>https://doi.org/10.6084/m9.figshare.5091901<br><br>Chorological maps are part of the "European Atlas of Forest Tree Species" project:<br>https://w3id.org/mtv/FISE-Comm/v01
DOI: 10.6084/m9.figshare.11347805.v1
title: Liquidambar orientalis chorology

description: Distribution map of oriental sweetgum (<i>Liquidambar orientalis</i>)<br><br>These maps were produced by combining numerous and heterogeneous data collected from atlas monographs providing complete species distribution maps, from national to regional atlases, occurrence geo-databases, scientific and grey literature.<br>The maps were created using ESRI shapefiles (*.shp, *.shx, *.dbf, *.prj files) archived in the ZIP file. Species range is mapped with polygon features (name suffix "plg"), which define continuous areas of occupancy of the species, and with point features (name suffix "pnt"), which identify more fragmented and isolated populations. If synanthropic occurrences are reported outside the species natural range, additional point and/or polygon shapefiles are also present (suffix "syn").<br>Polygon borders delimiting species ranges are generalized across the mainland and sea boundaries. This offers the possibility to mask sea areas or to clip and extract the terrestrial range parts using GIS data layers of the users' choice. An additional version of polygon ranges are clipped with a coastline (name suffix "clip"), which have been derived from Natural Earth dataset "Admin 0 - Countries" 1:50M version 4.1.0 (https://www.naturalearthdata.com).<br><br>Please cite as:<br>Caudullo, G., Welk, E., San-Miguel-Ayanz, J., 2017. Chorological maps for the main European woody species. Data in Brief 12, 662-666. DOI: doi.org/10.1016/j.dib.2017.05.007<br><br>Additional information and used references are on 'supplementary materials' document:<br>https://doi.org/10.6084/m9.figshare.5091901<br><br>Chorological maps are part of the "European Atlas of Forest Tree Species" project:<br>https://w3id.org/mtv/FISE-Comm/v01
DOI: 10.6084/m9.figshare.11347751.v1
title: Platanus orientalis chorologu

description: Distribution map of field elm (<i>Platanus orientalis</i>)<br><br>These maps were produced by combining numerous and heterogeneous data collected from atlas monographs providing complete species distribution maps, from national to regional atlases, occurrence geo-databases, scientific and grey literature.<br>The maps were created using ESRI shapefiles (*.shp, *.shx, *.dbf, *.prj files) archived in the ZIP file. Species range is mapped with polygon features (name suffix "plg"), which define continuous areas of occupancy of the species, and with point features (name suffix "pnt"), which identify more fragmented and isolated populations. If synanthropic occurrences are reported outside the species natural range, additional point and/or polygon shapefiles are also present (suffix "syn"). <br>Polygon borders delimiting species ranges are generalized across the mainland and sea boundaries. This offers the possibility to mask sea areas or to clip and extract the terrestrial range parts using GIS data layers of the users' choice. An additional version of polygon ranges are clipped with a coastline (name suffix "clip"), which have been derived from Natural Earth dataset "Admin 0 - Countries" 1:50M version 4.1.0 (https://www.naturalearthdata.com). <br><br>Please cite as:<br>Caudullo, G., Welk, E., San-Miguel-Ayanz, J., 2017. Chorological maps for the main European woody species. Data in Brief 12, 662-666. DOI: doi.org/10.1016/j.dib.2017.05.007 <br><br>Additional information and used references are on 'supplementary materials' document:<br>https://doi.org/10.6084/m9.figshare.5091901<br><br>Chorological maps are part of the "European Atlas of Forest Tree Species" project:<br>https://w3id.org/mtv/FISE-Comm/v01
DOI: 10.6084/m9.figshare.11347751.v2
title: Platanus orientalis chorology

description: Distribution map of Oriental plane (<i>Platanus orientalis</i>)<br><br>These maps were produced by combining numerous and heterogeneous data collected from atlas monographs providing complete species distribution maps, from national to regional atlases, occurrence geo-databases, scientific and grey literature.<br>The maps were created using ESRI shapefiles (*.shp, *.shx, *.dbf, *.prj files) archived in the ZIP file. Species range is mapped with polygon features (name suffix "plg"), which define continuous areas of occupancy of the species, and with point features (name suffix "pnt"), which identify more fragmented and isolated populations. If synanthropic occurrences are reported outside the species natural range, additional point and/or polygon shapefiles are also present (suffix "syn"). <br>Polygon borders delimiting species ranges are generalized across the mainland and sea boundaries. This offers the possibility to mask sea areas or to clip and extract the terrestrial range parts using GIS data layers of the users' choice. An additional version of polygon ranges are clipped with a coastline (name suffix "clip"), which have been derived from Natural Earth dataset "Admin 0 - Countries" 1:50M version 4.1.0 (https://www.naturalearthdata.com). <br><br>Please cite as:<br>Caudullo, G., Welk, E., San-Miguel-Ayanz, J., 2017. Chorological maps for the main European woody species. Data in Brief 12, 662-666. DOI: doi.org/10.1016/j.dib.2017.05.007 <br><br>Additional information and used references are on 'supplementary materials' document:<br>https://doi.org/10.6084/m9.figshare.5091901<br><br>Chorological maps are part of the "European Atlas of Forest Tree Species" project:<br>https://w3id.org/mtv/FISE-Comm/v01
DOI: 10.6084/m9.figshare.11347652
title: TrainingImageAndConditioningData_In_TreeDirectSampling

description: The training image and conditioning data in the tree-based direct sampling are stored and shared.<br>
DOI: 10.6084/m9.figshare.11347652.v1
title: TrainingImageAndConditioningData_In_TreeDirectSampling

description: The training image and conditioning data in the tree-based direct sampling are stored and shared.<br>
DOI: 10.6084/m9.figshare.11347586
title: DenmarkGroundwater_3D_TrainingImage.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347586.v1
title: DenmarkGroundwater_3D_TrainingImage.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347589
title: DenmarkGroundwater_3D_SoftData_Uniform.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347580
title: DenmarkGroundwater_3D_SimulationDomain.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347583
title: DenmarkGroundwater_3D_softData.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347589.v1
title: DenmarkGroundwater_3D_SoftData_Uniform.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347571
title: Antarctica_Model.txt

description: Antarctica topography simulation in Tree-based Direct Sampling
DOI: 10.6084/m9.figshare.11347574
title: DenmarkGroundwater_3D_HardData.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347580.v1
title: DenmarkGroundwater_3D_SimulationDomain.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347574.v1
title: DenmarkGroundwater_3D_HardData.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347583.v1
title: DenmarkGroundwater_3D_softData.txt

description: These materials are training image and conditioning data in Tree-based Direct Sampling paper Section 5.2.<br>
DOI: 10.6084/m9.figshare.11347571.v1
title: Antarctica_Model.txt

description: Antarctica topography simulation in Tree-based Direct Sampling
DOI: 10.6084/m9.figshare.11347499
title: Navigating to the most promising directions amid complex fields of vaccine development: a chlamydial case study

description: <b>Background</b>: Vaccine-development research is proliferating making it difficult to determine the most promising vaccine candidates. Exemplary of this problem is vaccine development against <i>Chlamydia</i>, a pathogen of global public health and financial importance. <b>Methods</b>: We systematically extracted data from studies that included chlamydial load or host immune parameter measurements, estimating 4,453 standardized effect sizes between control and chlamydial immunization experimental groups. <b>Results</b>: Chlamydial immunization studies most often used (78%) laboratory mouse models. Depending on chlamydial species, single and multiple recombinant protein, viral and bacterial vectors, dendritic transfer, and dead whole pathogen were most effective at reducing chlamydial load. Immunization-driven decrease in chlamydial load was associated with increases in IFNg, IgA, IgG1, and IgG2a. Using data from individual studies, the magnitude of IgA and IgG2a increase was correlated with chlamydial load reduction. IFNg also showed this pattern for <i>C. trachomatis</i>, but not for <i>C. muridarum</i>. We also reveal the chlamydial vaccine development field to be highly bias toward studies showing these effects, limiting lessons learned from negative results. <b>Conclusions</b>: Most murine immunizations against <i>Chlamydia</i> reduced chlamydial load and increased host immune parameters. These methods are novel for vaccine development and are critical in identifying trends where large quantities of literature exist.
DOI: 10.6084/m9.figshare.11347499.v1
title: Navigating to the most promising directions amid complex fields of vaccine development: a chlamydial case study

description: <b>Background</b>: Vaccine-development research is proliferating making it difficult to determine the most promising vaccine candidates. Exemplary of this problem is vaccine development against <i>Chlamydia</i>, a pathogen of global public health and financial importance. <b>Methods</b>: We systematically extracted data from studies that included chlamydial load or host immune parameter measurements, estimating 4,453 standardized effect sizes between control and chlamydial immunization experimental groups. <b>Results</b>: Chlamydial immunization studies most often used (78%) laboratory mouse models. Depending on chlamydial species, single and multiple recombinant protein, viral and bacterial vectors, dendritic transfer, and dead whole pathogen were most effective at reducing chlamydial load. Immunization-driven decrease in chlamydial load was associated with increases in IFNg, IgA, IgG1, and IgG2a. Using data from individual studies, the magnitude of IgA and IgG2a increase was correlated with chlamydial load reduction. IFNg also showed this pattern for <i>C. trachomatis</i>, but not for <i>C. muridarum</i>. We also reveal the chlamydial vaccine development field to be highly bias toward studies showing these effects, limiting lessons learned from negative results. <b>Conclusions</b>: Most murine immunizations against <i>Chlamydia</i> reduced chlamydial load and increased host immune parameters. These methods are novel for vaccine development and are critical in identifying trends where large quantities of literature exist.
DOI: 10.25375/uct.11347475
title: Contrasting parental color-morphs increase regularity of prey deliveries in an African raptor: Data

description: The paper based on this dataset has been published in Behavioral Ecology with the title "Contrasting parental color-morphs increase regularity of prey deliveries in an African raptor"<br>Abstract: Disassortative mating in color-polymorphic raptors is a proposed mechanism for the maintenance of color polymorphism in populations. Selection for such a mating system may occur if there are fitness advantages of mating with a contrasting morph. In the black sparrowhawk (Accipiter melanoleucus), mixed-morph pairs may have a selective advantage, since they produce offspring which have higher survival rates. Two hypotheses, which may explain the mechanism, are the 'avoidance-image' and 'complementarity' hypotheses: The first suggests that within a predator's territory, prey develop a search-image for the more commonly encountered parental morph, for example, the male morph during incubation and brooding. Females of a contrasting morph to their partner would then have higher capture rates once they commence hunting in the later nestling phase. Thus, the avoidance-image hypothesis predicts higher provisioning rates for mixed-morph pairs. Alternatively, the 'complementarity' hypothesis posits that different color morphs exploit different environmental conditions, allowing mixed-morph pairs to hunt under a wider range of conditions and predicts that food is delivered more consistently. We test these hypotheses using nest cameras to record prey delivery rates during the late nestling phase when both parents are foraging. We found support for the 'complementarity' hypothesis, with mixed-morph pairs delivering food more consistently, but not at a higher rate. The higher consistency in prey deliveries may explain the improved survival of the offspring of mixed-morph pairs, and therefore play a role in maintaining the stability of color-polymorphism in this system.<br>
DOI: 10.6084/m9.figshare.11347436
title: data and R script

description: Data in "txt" format and R script<br>Scientific Reports 2020