cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5081273
title: Wikidata Dump test1

description: RDF dump of wikidata produced with wdumps. <br> View on wdumper <b>entity count</b>: 0, <b>statement count</b>: 0, <b>triple count</b>: 0
DOI: 10.5281/zenodo.5081272
title: Wikidata Dump test1

description: RDF dump of wikidata produced with wdumps. <br> View on wdumper <b>entity count</b>: 0, <b>statement count</b>: 0, <b>triple count</b>: 0
DOI: 10.5281/zenodo.5083160
title: Large ensemble climate modelling time series for the Rhine catchment, including drought2018 storylines

description: Dataset associated with <strong>Van der Wiel, Lenderink, De Vries (2021): Physical storylines of future European drought events like 2018 based on ensemble climate modelling, <em>Weather and Climate Extremes, </em>DOI 10.1016/j.wace.2021.100350.</strong> Large ensemble climate modelling time series for the Rhine catchment. The dataset contains three ensembles (present-day, pre-industrial + 2C-warming, pre-industrial + 3C-warming) of 2000 years each, various variables related to drought are included. All data is derived from the EC-Earth global climate model (v2, Hazeleger et al. 2012, DOI 10.1007/s00382-011-1228-5). Descriptions of large ensemble experimental setup can be found in Van der Wiel et al. (2019, DOI 10.1029/2019GL081967). Files: *_d_ECEarth_??_Rhine.tar.gz Additionally, three sets of storylines of droughts similar to the western European drought of 2018 are included. These are the simulated events selected from the large ensembles, using metrics 1, 2 and 3 of Van der Wiel et al. (2021, DOI 10.1016/j.wace.2021.100350). Files: drought18_m[123]_Rhine.tar.gz
DOI: 10.5281/zenodo.5083159
title: Large ensemble climate modelling time series for the Rhine catchment, including drought2018 storylines

description: Dataset associated with <strong>Van der Wiel, Lenderink, De Vries (2021): Physical storylines of future European drought events like 2018 based on ensemble climate modelling, <em>Weather and Climate Extremes, </em>DOI 10.1016/j.wace.2021.100350.</strong> Large ensemble climate modelling time series for the Rhine catchment. The dataset contains three ensembles (present-day, pre-industrial + 2C-warming, pre-industrial + 3C-warming) of 2000 years each, various variables related to drought are included. All data is derived from the EC-Earth global climate model (v2, Hazeleger et al. 2012, DOI 10.1007/s00382-011-1228-5). Descriptions of large ensemble experimental setup can be found in Van der Wiel et al. (2019, DOI 10.1029/2019GL081967). Files: *_d_ECEarth_??_Rhine.tar.gz Additionally, three sets of storylines of droughts similar to the western European drought of 2018 are included. These are the simulated events selected from the large ensembles, using metrics 1, 2 and 3 of Van der Wiel et al. (2021, DOI 10.1016/j.wace.2021.100350). Files: drought18_m[123]_Rhine.tar.gz
DOI: 10.6073/pasta/210c56169087ceef434cfe76dae6dd70
title: Mid-19th Century Land Use on the Southern New England and New York Coasts 1832-1886

description: The widespread influence of land use and natural disturbance on population, community, and landscape dynamics and the long-term legacy of disturbance on modern ecosystems requires that a historical, broad-scale perspective become an integral part of modern ecological studies and conservation assessment and planning. In previous studies, the Harvard Forest Long Term Ecological Research (LTER) program has developed an integrated approach of paleoecological and historical reconstruction, meteorological modeling, air photo interpretation, GIS analyses, and field studies of vegetation and soils, to address fundamental ecological questions concerning the rates, direction, and causes of vegetation change, to evaluate controls over modern species and community distributions and landscape patterns, and to provide critical background for conservation and restoration planning. In the current study, we extend this approach to investigate the link between landscape history and the abundance, distribution, and dynamics of species, communities and landscapes of the Cape Cod to Long Island coastal region, including the islands of Martha's Vineyard, Nantucket, and Block Island. The study region includes many areas of high conservation priority that are linked geographically, historically, and ecologically. This data package includes GIS layers digitized by Harvard Forest researchers from copies of the US Coastal Survey “T-Sheet” maps available from the National Archives in College Park, Maryland. The US Coastal Survey, and then the US Coast and Geodetic Survey mapped the region, or specific parts of it, several times between 1832 and the 1960s. In this project we digitized the earliest T-Sheet available for each location. The original maps were surveyed between 1832 and 1886, with most of them made between 1835 to 1855. The original maps showed features such as roads, farm walls, railroads, buildings, some industrial buildings, saltworks, wharfs, and land cover including woodlands, sandplains, grasslands, open agricultural fields, cultivated areas, fruit tree orchards, wetlands, etc. Many sheets had symbols which differentiated conifer trees from hardwoods. There were some inconsistencies in what features were mapped or how they were drawn between the original T-Sheets. Since we digitized the maps over the course of several different research projects, we did not always digitize all of the same features in each geographic area, therefore users of this data are encouraged to look at scans of the original T-Sheets for their specific areas of interest (links below). We always digitized land cover and roads and occasionally buildings and fences as mentioned in the datasets below.
DOI: 10.6073/pasta/8950b47516a4fe8893443616d674eb79
title: Land Cover on the Elizabeth Islands, Martha's Vineyard, and Nantucket 1938

description: The widespread influence of land use and natural disturbance on population, community, and landscape dynamics and the long-term legacy of disturbance on modern ecosystems requires that a historical, broad-scale perspective become an integral part of modern ecological studies and conservation assessment and planning. In previous studies, the Harvard Forest Long Term Ecological Research (LTER) program has developed an integrated approach of paleoecological and historical reconstruction, meteorological modeling, air photo interpretation, GIS analyses, and field studies of vegetation and soils, to address fundamental ecological questions concerning the rates, direction, and causes of vegetation change, to evaluate controls over modern species and community distributions and landscape patterns, and to provide critical background for conservation and restoration planning. In the current study, we extend this approach to investigate the link between landscape history and the abundance, distribution, and dynamics of species, communities and landscapes of the Cape Cod to Long Island coastal region, including the islands of Martha's Vineyard, Nantucket, and Block Island. The study region includes many areas of high conservation priority that are linked geographically, historically, and ecologically. This dataset includes a land cover GIS layer created from aerial photographs from 1938. Janice Stone interpreted the photos onto acetates which were then redrawn onto USGS topographic maps using a zoom transfer scope to reduce edge distortion from the photographs. The landcover polygons were then digitized into a GIS. As 1938 is near the midpoint between the peak of 19th century agricultural land clearance and the modern plant communities of the region, this data provides valuable information on changing landscape characteristics and vegetation successional patterns which shape the modern landscape.
DOI: 10.15468/7e4fat
title: On the identity and taxonomic status of the enigmatic mantid Thespoides bolivari Chopard, 1916 (Mantodea: Mantidae, Angelinae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Rivera, Julio (2014): On the identity and taxonomic status of the enigmatic mantid Thespoides bolivari Chopard, 1916 (Mantodea: Mantidae, Angelinae). Zootaxa 3797 (1): 269-273, DOI: http://dx.doi.org/10.11646/zootaxa.3797.1.16
DOI: 10.25773/sz4n-k694
title: Migration of the Tidal Marsh Range Under Sea Level Rise for Coastal Virginia, with Land Cover Data
DOI: 10.15468/n8nq6a
title: A taxonomic revision of Otomantis Bolivar, 1890 (Mantodea: Hymenopodidae, Acromantinae) with description of five new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Lombardo, Francesco, Stiewe, Martin B. D., Ippolito, Salvatrice, Marletta, Alessandro (2014): A taxonomic revision of Otomantis Bolivar, 1890 (Mantodea: Hymenopodidae, Acromantinae) with description of five new species. Zootaxa 3797 (1): 169-193, DOI: http://dx.doi.org/10.11646/zootaxa.3797.1.13
DOI: 10.6078/m75h7dcn
title: Cattle and People: Interdisciplinary approaches to an ancient relationship
DOI: 10.6078/m71r6nnx
title: Cattle husbandry in the Iron Age and Roman Britain
DOI: 10.6084/m9.figshare.14933469
title: EVNS_Figures.zip

description: EMG and Nerve Action Potential Datasets with plotting script
DOI: 10.6084/m9.figshare.14933469.v1
title: EVNS_Figures.zip

description: EMG and Nerve Action Potential Datasets with plotting script
DOI: 10.15468/yqhmz4
title: A new species of the sandperch genus Parapercis from the western Indian Ocean (Perciformes: Pinguipedidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Ho, Hsuan-Ching, Heemstra, Phillip C., Imamura, Hisashi (2014): A new species of the sandperch genus Parapercis from the western Indian Ocean (Perciformes: Pinguipedidae). Zootaxa 3802 (3): 335-345, DOI: http://dx.doi.org/10.11646/zootaxa.3802.3.3
DOI: 10.6084/m9.figshare.14537981.v1
title: An overview of <i>Favolus</i> from the Neotropics, including four new species

description: <i>Favolus</i> is a monophyletic genus of polypores that causes white rot of various woody plants. The genus has a worldwide distribution and is ecologically and economically important. Several taxa have been described or reported from the Neotropics, and <i>F. brasiliensis</i>, described originally from Brazil, is the type species for the genus. Based on molecular investigations, <i>F. brasiliensis</i> is now known to represent a species complex. The species is morphologically and phylogenetically circumscribed and epitypified here, and <i>F. rugulosus</i> is proposed as a new related species. <i>Favolus grammocephalus</i> and <i>Polyporus philippinensis</i>, initially described from Asia, have also recently been recorded from the Neotropics, so these taxa were included in this investigation employing morphological and multigene (mitochondrial, ribosomal, and protein-coding regions) phylogenetic analyses. These latter two species do not occur in the Neotropics, but the misapplied names actually represent three new species: <i>F. pseudogrammocephalus, F. radiatifibrillosus</i>, and <i>F. yanomami</i>. Nine species of <i>Favolus</i> are documented now for the Neotropics. Detailed descriptions of <i>F. brasiliensis</i> and all new taxa are provided, along with comments, illustrations, a map of potential distribution, and a key for neotropical species of <i>Favolus</i>.
DOI: 10.6084/m9.figshare.14600018
title: Variability of decomposing ability among fungi associated with the bleaching of subtropical leaf litter

description: A diverse array of fungi take part in decomposition, but the variability of their decomposing ability is not fully understood. A total of 49 isolates of Ascomycota and Basidiomycota were obtained from bleached areas of leaf litter in a subtropical forest in southern Japan, and their ability to decompose leaves and recalcitrant compounds was quantified in pure culture. Mass loss of leaves of <i>Castanopsis sieboldii</i> (Fagaceae) and <i>Schima wallichii</i> (Theaceae) was evaluated at 20 C for 12 wk in vitro. Fungi caused a loss of −0.4% to 34.3% of the original leaf mass. The greatest mass loss was caused by four isolates of <i>Mycena</i> (Tricholomataceae). Isolates of Lachnocladiaceae caused greater mass loss of recalcitrant compounds, registered as acid-unhydrolyzable residue (AUR), which includes lignin, relative to Xylariaceae. Isolates of Rhytismataceae, Lachnocladiaceae, Marasmiaceae, and Omphalotaceae exhibited selective decomposition of AUR, <i>Mycena</i> exhibited simultaneous decomposition of AUR and components other than AUR, and Xylariaceae exhibited selective decomposition of components other than AUR. Mass losses of leaves and AUR caused by each fungal isolate were similar for <i>C. sieboldii</i> and <i>S. wallichii</i>. The <i>Mycena</i> isolates obtained from <i>C. sieboldii</i> caused greater mass losses of leaves and AUR than those obtained from the other tree species, suggesting a “home-field advantage” of decomposing potentialities, with implications for natural interactions beyond the in vitro system evaluated here.
DOI: 10.6084/m9.figshare.14600018.v1
title: Variability of decomposing ability among fungi associated with the bleaching of subtropical leaf litter

description: A diverse array of fungi take part in decomposition, but the variability of their decomposing ability is not fully understood. A total of 49 isolates of Ascomycota and Basidiomycota were obtained from bleached areas of leaf litter in a subtropical forest in southern Japan, and their ability to decompose leaves and recalcitrant compounds was quantified in pure culture. Mass loss of leaves of <i>Castanopsis sieboldii</i> (Fagaceae) and <i>Schima wallichii</i> (Theaceae) was evaluated at 20 C for 12 wk in vitro. Fungi caused a loss of −0.4% to 34.3% of the original leaf mass. The greatest mass loss was caused by four isolates of <i>Mycena</i> (Tricholomataceae). Isolates of Lachnocladiaceae caused greater mass loss of recalcitrant compounds, registered as acid-unhydrolyzable residue (AUR), which includes lignin, relative to Xylariaceae. Isolates of Rhytismataceae, Lachnocladiaceae, Marasmiaceae, and Omphalotaceae exhibited selective decomposition of AUR, <i>Mycena</i> exhibited simultaneous decomposition of AUR and components other than AUR, and Xylariaceae exhibited selective decomposition of components other than AUR. Mass losses of leaves and AUR caused by each fungal isolate were similar for <i>C. sieboldii</i> and <i>S. wallichii</i>. The <i>Mycena</i> isolates obtained from <i>C. sieboldii</i> caused greater mass losses of leaves and AUR than those obtained from the other tree species, suggesting a “home-field advantage” of decomposing potentialities, with implications for natural interactions beyond the in vitro system evaluated here.
DOI: 10.6084/m9.figshare.14537981
title: An overview of <i>Favolus</i> from the Neotropics, including four new species

description: <i>Favolus</i> is a monophyletic genus of polypores that causes white rot of various woody plants. The genus has a worldwide distribution and is ecologically and economically important. Several taxa have been described or reported from the Neotropics, and <i>F. brasiliensis</i>, described originally from Brazil, is the type species for the genus. Based on molecular investigations, <i>F. brasiliensis</i> is now known to represent a species complex. The species is morphologically and phylogenetically circumscribed and epitypified here, and <i>F. rugulosus</i> is proposed as a new related species. <i>Favolus grammocephalus</i> and <i>Polyporus philippinensis</i>, initially described from Asia, have also recently been recorded from the Neotropics, so these taxa were included in this investigation employing morphological and multigene (mitochondrial, ribosomal, and protein-coding regions) phylogenetic analyses. These latter two species do not occur in the Neotropics, but the misapplied names actually represent three new species: <i>F. pseudogrammocephalus, F. radiatifibrillosus</i>, and <i>F. yanomami</i>. Nine species of <i>Favolus</i> are documented now for the Neotropics. Detailed descriptions of <i>F. brasiliensis</i> and all new taxa are provided, along with comments, illustrations, a map of potential distribution, and a key for neotropical species of <i>Favolus</i>.
DOI: 10.6084/m9.figshare.14538041
title: Development and evaluation of a target enrichment bait set for phylogenetic analysis of oomycetes

description: Target enrichment is a term that encompasses multiple related approaches where desired genomic regions are captured by molecular baits, leaving behind redundant or non-target regions in the genome, followed by amplification and next-generation sequencing of those captured regions. A molecular bait set was developed based on 426 single-copy, oomycete-specific orthologs and 3 barcoding genes. The bait set was tested on 27 oomycete samples (belonging to the Saprolegniales, Albuginales, and Peronosporales) derived from live and herbarium specimens, as well as control samples of true fungi and plants. Results show that (i) our method greatly enriches for the targeted orthologs on oomycete samples, but insignificantly on fungal and plant samples; (ii) an average of 263 out of 429 orthologs (61%) were recovered from oomycete live and herbarium specimens; (iii) sequencing roughly 100 000 read pairs per sample is sufficient for optimal ortholog recovery while maintaining low sequencing costs; and (iv) the expected relationships were recovered by phylogenetic analysis from the data generated. This is the first report of an oomycete-specific target enrichment method with broad potential applications for evolutionary and taxonomic studies. A key benefit of our target enrichment method is that it allows researchers to easily unlock the vast and unexplored oomycete genomic diversity stored in natural history collections.
DOI: 10.6084/m9.figshare.14766261
title: Phylogenetic relationships among false truffle genera of Paxillaceae—<i>Alpova, Melanogaster, Neoalpova</i>, and <i>Paralpova</i>, gen. nov

description: A phylogenetic analysis of nuc rDNA internal transcribed spacer region ITS1-5.8S-ITS2 (ITS), nuc rDNA 28S domains D1–D2 (28S), and the region between conserved domains 6 and 7 of RNA polymerase II second largest subunit (<i>RPB2</i>) from multiple species of <i>Alpova</i> and <i>Melanogaster</i> revealed four major clades, proposed here as distinct genera: <i>Melanogaster, Alpova</i> s. str. containing the type species <i>A. cinnamomeus, Neoalpova</i> for the species around <i>N. rubescens</i>, and the new genus <i>Paralpova</i>, proposed here for <i>P. artikutzensis</i>, sp. nov. <i>Alpova, Neoalpova</i>, and <i>Paralpova</i> form a monophyletic lineage of hypogeous fungi with a pseudoparenchymatic structure in their peridium (at least in the inner layer) that could be interpreted as a single genus, but they are separated due to distinct morphological and ecological traits. <i>Alpova</i> s. str. is employed for species strictly associated with <i>Alnus</i>, lacking a conspicuous odor, and producing relatively small basidiomata and basidiospores &lt;10 µm long. <i>Neoalpova</i> and <i>Paralpova</i> occur under other hosts, present a conspicuous odor, have larger basidiomata and basidiospores than <i>Alpova</i>, and have a prosenchymatic peridiopellis. Finally, <i>Paralpova</i> is characterized by the yellowish gleba, monosporic or bisporic basidia, and basidiospores &gt;15 µm long with a mean length/width ratio (Q<sub>m</sub>) of &lt;2.0. In addition, two new species of <i>Neoalpova</i> are proposed: <i>N. arenicola</i>, associated with Mediterranean forests in sandy soils and with spores slightly smaller and wider than those of <i>N. rubescens</i>, and <i>N. montecchii</i>, a cryptic species very similar to <i>N. rubescens</i> but for its putatively smaller peridiopellis elements and its genetic profile.
DOI: 10.6084/m9.figshare.14538041.v1
title: Development and evaluation of a target enrichment bait set for phylogenetic analysis of oomycetes

description: Target enrichment is a term that encompasses multiple related approaches where desired genomic regions are captured by molecular baits, leaving behind redundant or non-target regions in the genome, followed by amplification and next-generation sequencing of those captured regions. A molecular bait set was developed based on 426 single-copy, oomycete-specific orthologs and 3 barcoding genes. The bait set was tested on 27 oomycete samples (belonging to the Saprolegniales, Albuginales, and Peronosporales) derived from live and herbarium specimens, as well as control samples of true fungi and plants. Results show that (i) our method greatly enriches for the targeted orthologs on oomycete samples, but insignificantly on fungal and plant samples; (ii) an average of 263 out of 429 orthologs (61%) were recovered from oomycete live and herbarium specimens; (iii) sequencing roughly 100 000 read pairs per sample is sufficient for optimal ortholog recovery while maintaining low sequencing costs; and (iv) the expected relationships were recovered by phylogenetic analysis from the data generated. This is the first report of an oomycete-specific target enrichment method with broad potential applications for evolutionary and taxonomic studies. A key benefit of our target enrichment method is that it allows researchers to easily unlock the vast and unexplored oomycete genomic diversity stored in natural history collections.
DOI: 10.6084/m9.figshare.14690774
title: Morphological and genetic diversification of <i>Russula floriformis</i>, sp. nov., along the Isthmus of Panama

description: Species of <i>Russula</i> are ubiquitous members of ectomycorrhizal fungal communities in tropical ecosystems. However, an important part of the total tropical diversity of this genus and its biogeographic patterns is unknown due to the lack of studies on <i>Russula</i> in tropical ecosystems. We combined molecular, morphological, ecological, and biogeographic data to elaborate concepts for two new subspecies of <i>R. floriformis</i> (subsection <i>Substriatinae</i>). <i>Russula floriformis</i> subsp. <i>floriformis</i> and <i>R. floriformis</i> subsp. <i>symphoniae</i> are described as new from montane forest dominated by <i>Quercus</i> and/or <i>Oreomunnea</i> (Fagales) from Colombia and Panama, respectively. Phylogenies were constructed using nuc rDNA internal transcribed spacer region ITS1-5.8S-ITS2 (ITS), D1–D2 domains of nuc 28S rDNA (28S), and partial regions of the second largest subunit of RNA polymerase II (<i>rpb2</i>) and translation elongation factor 1-alpha (<i>tef1</i>). Similar environmental conditions, similar morphology, and an ITS sequence similarity higher than 99% with only three different positions indicate that these two subspecies are closely related. Detailed observations of microscopic structures and analyses of further DNA loci, however, revealed morphological and molecular characteristics that allow distinguishing the two subspecies of <i>R. floriformis</i>. Spatial distribution and phylogenetic proximity of the two <i>Russula</i> subspecies and their ectomycorrhizal hosts, i.e., species of <i>Quercus</i>, suggest that their diversification is a result of comigration, adaptation, and geographic isolation along the Isthmus of Panama during the Pliocene and Pleistocene.