cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3535/37b-vqc-5qg
title: Picramnia sphaerocarpa Planch.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/yfe-58h-6av
title: Hauya elegans Moc. & Sessé ex DC.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/7hl-eg4-dm4
title: Quercus elliptica Née

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/js2-0s0-44v
title: Quercus segoviensis Liebm.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/gyd-7a9-7m0
title: Tabernaemontana glabra (Benth.) A. O. Simões & M. E. Endress

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/01r-45w-lhx
title: Acacia riparia Kunth

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/b82-5eb-m7q
title: Cenostigma eriostachys (Benth.) Gagnon & G.P.Lewis

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/ltd-zq7-hsp
title: Drimys granadensis L. fil.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/9ps-whz-7t3
title: Lobelia tatea (E.Wimm.) E.Wimm.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/qx0-dl2-4km
title: Ardisia compressa Kunth

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/msl-lsv-4wa
title: Verbesina L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/xby-zg9-m8s
title: Miconia sericea (D. Don) Michelang.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/qfs-k05-s5s
title: Passiflora allantophylla Mast. ex Donn. Sm.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/tcg-x1w-pjb
title: Acacia

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/wpa-ge7-d0p
title: Stigmaphyllon ellipticum (Kunth) A. Juss.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/q5b-fn3-3h3
title: Drimys granadensis L. fil.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/rkt-me7-z9w
title: Myriocarpa bifurca Liebm.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.15468/dl.92mqf9
title: Occurrence Download

description: A dataset containing 31228 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Monstera"
 ]
}

 The dataset includes 31228 records from 562 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000445-250710112747441/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.74tvp6
title: Occurrence Download

description: A dataset containing 66 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Citharexylum hirtellum"
 ]
}

 The dataset includes 66 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009044-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9vt5mj
title: Occurrence Download

description: A dataset listing the 312 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((7.67316 45.01873,7.66975 45.01417,7.67414 45.00419,7.67835 45.00131,7.68365 45.00477,7.684 45.00904,7.67408 45.01931,7.67316 45.01873))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset's 312 records were derived from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009040-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y2thpy
title: Occurrence Download

description: A dataset containing 64 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Citharexylum schottii"
 ]
}

 The dataset includes 64 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009045-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.11587/rlgayr/ygy9pn
title: RLGAYR_da_de_v1_0.zsav

description: Core data file - SPSS format - 322 observations - 128 variables
DOI: 10.11587/rlgayr/reuex6
title: RLGAYR_da_de_v1_0.zip

description: Core data file - CSV format - 322 observations - 128 variables
DOI: 10.11587/rlgayr/zzoekf
title: RLGAYR_da_de_v1_0.tab

description: Core data file - STATA format - 322 observations - 128 variables
DOI: 10.11587/rlgayr/ryztwr
title: RLGAYR_co_de_v1_0.pdf

description: Codebook and tabulation report - 322 observations - 128 variables
DOI: 10.15468/dl.9kmt2p
title: Occurrence Download

description: A dataset containing 230 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Procyon pygmaeus"
 ]
}

 The dataset includes 230 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009047-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xuw593
title: Occurrence Download

description: A dataset containing 263 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Citrullus lanatus"
 ]
}

 The dataset includes 263 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009049-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16905151
title: Supplementary data: The pangenome of Candida albicans as a genomic window into eukaryotic biodiversity

description: Supplementary Figure S0. Complete pipeline workflow of the exploratory pangenome analysis of C. albicans with each associated bioinformatic tools and their parameters. Every version of each tool is addressed in the main text. 

Supplementary Figure S1. Quality scores of C. albicans paired-end reads before and after trimming. Mean Phred quality scores per base position are shown for (S1A) raw reads and (S1B) paired reads after quality filtering with Trimmomatic. 

Supplementary Figure S2. Summary of contig number according to bp size in the assembly quality metrics for 14 C. albicans genomes evaluated with QUAST and visualized through MultiQC.

Supplementary Figure 3. (S3A) illustrates the total number of genes identified per sample, (S3B) details the distribution of gene lengths (bp, log10 scale) for each sample.

Supplementary Figure 4. (S4A) Shows the amount of orthogroups classified into the categories: core, accessory, and singleton. (S4B) Distribution of orthogroups by category in individual genomes.

Supplementary Figure S5. Summary count of the top 20 most abundant Pfam domains (S5B), and ortholog assignment for top 15 species in the C. albicans pangenome analysis using eggNOGG mapper.

Supplementary Table 1. Results obtained from the orthology inference analysis done with OrthoFinder, shown a presence/absence table of the orthogroups by GCA. 0 represents absence, and 1 means presence. 

Supplementary Table 2. Results obtained from the functional annotation analysis done with Funannotate, showing each gene with its assigned category (if any).
DOI: 10.5281/zenodo.17489121
title: Supplementary data: The pangenome of Candida albicans as a genomic window into eukaryotic biodiversity

description: Supplementary Figure S0. Complete pipeline workflow of the exploratory pangenome analysis of C. albicans with each associated bioinformatic tools and their parameters. Every version of each tool is addressed in the main text. 

Supplementary Figure S1. Quality scores of C. albicans paired-end reads before and after trimming. Mean Phred quality scores per base position are shown for (S1A) raw reads and (S1B) paired reads after quality filtering with Trimmomatic. 

Supplementary Figure S2. Summary of contig number according to bp size in the assembly quality metrics for 14 C. albicans genomes evaluated with QUAST and visualized through MultiQC.

Supplementary Figure 3. (S3A) illustrates the total number of genes identified per sample, (S3B) details the distribution of gene lengths (bp, log10 scale) for each sample.

Supplementary Figure 4. (S4A) Shows the amount of orthogroups classified into the categories: core, accessory, and singleton. (S4B) Distribution of orthogroups by category in individual genomes.

Supplementary Figure S5. Summary count of the top 20 most abundant Pfam domains (S5B), and ortholog assignment for top 15 species in the C. albicans pangenome analysis using eggNOGG mapper.

Supplementary Table 1. Results obtained from the orthology inference analysis done with OrthoFinder, shown a presence/absence table of the orthogroups by GCA. 0 represents absence, and 1 means presence. 

Supplementary Table 2. Results obtained from the functional annotation analysis done with Funannotate, showing each gene with its assigned category (if any).
DOI: 10.15468/dl.3yumdf
title: Occurrence Download

description: A dataset containing 343123 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Belgium",
 "TaxonKey is one of (Aponogeton distachyos, Arthurdendyus triangulatus, Cabomba caroliniana, Callosciurus finlaysonii, Cherax destructor, Corvus splendens, Crassula helmsii, Elodea densa, Eriocheir sinensis, Erythranthe guttata, Faxonius immunis, Faxonius juvenilis, Faxonius rusticus, Faxonius virilis, Gambusia affinis, Heracleum mantegazzianum, Heracleum persicum, Heracleum pubescens, Houttuynia cordata, , Impatiens glandulifera, Koenigia polystachya, Lagarosiphon major, Lepomis gibbosus, Limnoperna fortunei, Ludwigia grandiflora, Ludwigia peploides, Lysichiton americanus, Morone americana, Muntiacus reevesi, Myriophyllum aquaticum, Myriophyllum heterophyllum, Pacifastacus leniusculus, Petasites japonicus, Pontederia cordata, Procambarus acutus, Procambarus clarkii, Procambarus virginalis, Pseudorasbora parva, Pycnonotus cafer, Saururus cernuus, Sciurus carolinensis, Sciurus niger, Solenopsis invicta, Solenopsis richteri, Threskiornis aethiopicus, Vespa velutina, Zizania latifolia)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000"
 ]
}

 The dataset includes 343123 records from 87 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009021-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/13561652
title: Artist Datasets
DOI: 10.15468/dl.9c5zzw
title: Occurrence Download

description: A dataset containing 267995 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Norway",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia",
 "Year 2015-2025"
 ]
}

 The dataset includes 267995 records from 67 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009035-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.29973898
title: Near T2T haplotype-resolved genomes of cacao (Theobroma cacao) variety CCN51

description: As a cornerstone of the global chocolate industry, cacao cultivation supports millions of livelihoods. The modern hybrid variety CCN51 is the most widely planted cultivar in Latin America, valued for its exceptional yield, broad disease resistance, and superior adaptability. Here, we present a high-quality, haplotype-resolved, near Telomere-to-Telomere (T2T) genome assembly for CCN51, generated using PacBio HiFi long-reads and Hi-C data. The assembly spans 414.0 Mb and 417.7 Mb for the two haplotypes and exhibits a high k-mer completeness of 99.24%. Our comprehensive annotation predicted 22,941 and 22,948 protein-coding genes in the two haplotypes, respectively. Furthermore, our improved analysis of transposable elements (TEs) revealed a high TE content of 62.36% in CCN51, with a classification rate of 59%, representing a significant improvement over previous reports. This comprehensive genomic resource provides a vital foundation for deciphering the genetic basis of CCN51's exceptional agronomic traits. The genomic data generated from this work will directly support genomics-assisted breeding, facilitating the development of high-yield, high-quality cacao varieties with enhanced resilience to environmental and biological stresses.
DOI: 10.6084/m9.figshare.29973898.v2
title: Genome assembly and gene models of <i>Theobroma cacao</i> CCN51

description: Cacao beans are the key raw material for the global chocolate industry, supporting the livelihoods of 40-50 million people worldwide. CCN 51 is the one of the most successful modern hybrid cacao varieties developed in Ecuador in the 1960s. Today, this variety covers the largest cultivation area in Latin America, because of its high yield, disease resistance and superior adaptability. In response to concerns about mono-clone cultivation of CCN 51 in Latin America, cacao breeders have focused on developing new varieties using CCN 51 as a parent. The high productivity, disease tolerance, and superior fertilizer response of CCN 51 have been incorporated into a series of new varieties, while breeders have also sought to improve flavor profiles through hybridization with fine-flavor traditional varieties. Genomic resources are essential to accelerate cacao breeding. While a series of cacao genomes have been developed for wild and traditional varieties, none are specifically representing modern cacao varieties, particularly the hybrid varieties. Here, we present a de novo genome assembly for CCN 51, one of the most significant modern cacao varieties. We achieved a complete chromosome-scale, haplotype-resolved genome assembly using Nanopore HiFi CCS long reads and Hi-C technology. This genome will be highly useful to uncover the genetic architecture of the superior phenotype of CCN 51. The findings from this research, along with the tools developed, will aid in genomics-assisted cacao breeding, contributing to an effective response to biotic and abiotic constraints and development of cacao varieties with both high yield and superior quality attributes.
DOI: 10.6084/m9.figshare.29973898.v3
title: Near T2T haplotype-resolved genomes of cacao (Theobroma cacao) variety CCN51

description: As a cornerstone of the global chocolate industry, cacao cultivation supports millions of livelihoods. The modern hybrid variety CCN51 is the most widely planted cultivar in Latin America, valued for its exceptional yield, broad disease resistance, and superior adaptability. Here, we present a high-quality, haplotype-resolved, near Telomere-to-Telomere (T2T) genome assembly for CCN51, generated using PacBio HiFi long-reads and Hi-C data. The assembly spans 414.0 Mb and 417.7 Mb for the two haplotypes and exhibits a high k-mer completeness of 99.24%. Our comprehensive annotation predicted 22,941 and 22,948 protein-coding genes in the two haplotypes, respectively. Furthermore, our improved analysis of transposable elements (TEs) revealed a high TE content of 62.36% in CCN51, with a classification rate of 59%, representing a significant improvement over previous reports. This comprehensive genomic resource provides a vital foundation for deciphering the genetic basis of CCN51's exceptional agronomic traits. The genomic data generated from this work will directly support genomics-assisted breeding, facilitating the development of high-yield, high-quality cacao varieties with enhanced resilience to environmental and biological stresses.
DOI: 10.15468/dl.75bmby
title: Occurrence Download

description: A dataset containing 2489322 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "Geometry POLYGON((-55.44591 -27.27494,-54.67143 -26.41117,-54.18737 -23.91419,-54.67143 -23.60407,-55.49431 -23.78137,-55.59112 -21.81809,-57.52733 -21.68321,-58.10819 -19.23445,-61.20612 -19.05153,-62.85189 -20.19137,-62.9003 -22.31155,-60.28642 -24.44409,-58.05978 -25.4972,-59.07629 -27.31796,-58.15659 -28.04665,-56.3172 -27.87563,-55.44591 -27.27494))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2489322 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009042-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/13561665
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.6084/m9.figshare.30477902
title: Figures and Raw Data for the Manuscript 'LONP1 Regulates Mitochondrial and Microtubule Dynamics to Promote Chlamydial Homotypic Inclusion Fusion'

description: This study aims to explore how <i>Chlamydia trachomatis</i> regulates mitochondrial and microtubule dynamics through the LONP1 protein, ultimately promoting homotypic inclusion fusion. A range of techniques, including Western blot (WB), immunofluorescence staining, PCR, electron microscopy, and calcium ion live-cell probes, were employed to systematically analyze the role of LONP1 in modulating cellular structure and function during <i>Chlamydia trachomatis</i> infection.
DOI: 10.6084/m9.figshare.30477902.v1
title: Figures and Raw Data for the Manuscript 'LONP1 Regulates Mitochondrial and Microtubule Dynamics to Promote Chlamydial Homotypic Inclusion Fusion'

description: This study aims to explore how <i>Chlamydia trachomatis</i> regulates mitochondrial and microtubule dynamics through the LONP1 protein, ultimately promoting homotypic inclusion fusion. A range of techniques, including Western blot (WB), immunofluorescence staining, PCR, electron microscopy, and calcium ion live-cell probes, were employed to systematically analyze the role of LONP1 in modulating cellular structure and function during <i>Chlamydia trachomatis</i> infection.
DOI: 10.6084/m9.figshare.30477902.v2
title: Figures and Raw Data for the Manuscript 'LONP1 Regulates Mitochondrial and Microtubule Dynamics to Promote Chlamydial Homotypic Inclusion Fusion'

description: This study aims to explore how <i>Chlamydia trachomatis</i> regulates mitochondrial and microtubule dynamics through the LONP1 protein, ultimately promoting homotypic inclusion fusion. A range of techniques, including Western blot (WB), immunofluorescence staining, PCR, electron microscopy, and calcium ion live-cell probes, were employed to systematically analyze the role of LONP1 in modulating cellular structure and function during <i>Chlamydia trachomatis</i> infection.
DOI: 10.15468/dl.cqb3kf
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Citrullus vulgaris"
 ]
}

 The dataset includes 35 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009051-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2n3uem
title: Occurrence Download

description: A dataset containing 3820 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "DatasetKey is University of Minnesota Insect Collection",
 "OccurrenceStatus is Present",
 "TaxonKey is Hoplopleuridae"
 ]
}

 The dataset includes 3820 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009050-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/13561671
title: News UAD
DOI: 10.18739/a2jw86q01
title: Overwintering Temperature and specific conductance data from Toolik Lake, North Slope, Alaska. 2023-2024

description: Lakes are abundant in the terrestrial arctic, extending over about one quarter of the territory. For approximately nine months of the year, the waters of arctic lakes are under ice. Despite the duration of the ice-covered period, few studies have addressed the limnology (biological, chemical, and physical features) of these lakes during winter and how conditions under ice effect the stratification and ecology of lakes during the summer. We evaluate the full year cycle of stratification and circulation in order to quantify the effects of hydrodynamics on nutrient and gas fluxes and place the results within the context of climate change in the Arctic. The goals of our study include: (1) quantifying physical and biogeochemical controls on under ice thermal structure and circulation, the flowpath of snow melt, and mixing during spring and fall (2) quantifying respiration rates in arctic lakes of differing morphology and on geological substrates (3) illustrating the linkages and feedbacks between these physical and biogeochemical processes, (4) linking temperature under the ice in winter to temperatures in the lakes in summer (5) quantifying rates of drawdown of oxygen (6) and evaluating the consequences of cryoconcentration on density structure and circulation under the ice.
 Our research has been being conducted in lakes studied by the Arctic Long Term Ecological Research (ARC LTER). The selected lakes are: Toolik Lake, Lake E1, Lake E5, Lake E6 and Lake N2. The lakes range in size from 1 to 1500 hectares. We measured temperature and bio-geochemical lake parameters in two different formats: time series, and profile data. Time series of water temperatures, specific conductance, pressure, and dissolved oxygen at several depths were obtained from a taut-line mooring in different seasons (summer and winter) across multiple years (between fall 2012 and fall 2016) We measured profiles of temperature and bio-geochemical lake parameters at the deepest site (and occasionally other sites) in all lakes during the same time as the time series. Efforts have been continued on Toolik Lake since 2016. Much of the previous data has been archived. The data here are the overwintering temperature and specific conductance data from 2023-2024.