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74 results for “Herbarium data”
Data from Herbarium Specimens Reveal Delays in Autumn Maple Coloration in the Northeastern United States Over the Past 150 Years
Data from "Herbarium Specimens Reveal Delays in Autumn Maple Coloration in the Northeastern United States Over the Past 150 Years". Herbarium specimens annotated for damage and phenological status paired with climate and locality information to investigate long-term trends in species-interactions and autumn phenology.
A benchmark dataset of herbarium specimen images with label data: Summary
<p>This landing page contains a CSV file compiling all data associated with herbarium specimens that are part of this dataset, as they could be found on GBIF, JACQ or FinBIF. A CSV file with and without Darwin Core extension data is available, as some CSV readers have trouble with the JSON format that is used for those extensions.</p> <p>In addition, DOI's of the individual specimens uploaded to Zenodo and direct links to the different files (JPEG, TIFF, JSON, PNG) are also included. Index of these added variables:</p> <p>- persistentID: Persistent Identifier of the collection specimen. Data uploaded as part of this dataset will not be kept in sync with changes at the collection's repository. Hence, this URI will always point to the most up to date information known about the herbarium specimen.</p> <p>- jpegURL, tiffURL, jsonURL: URL's pointing straight to the respective image and data files themselves, to facilitate (selective) batch downloads.</p> <p>- pngSegAllURL and pngSegSelURL: Segmented overlays of the herbarium specimens indicating the location of different labels and reference material on the sheet ("All") and their content ("Sel"). More information can be found in the paper (in prep) associated with this data publication and the individual depositions themselves.</p> <p>- DOI: The DOI of the deposition of images and data of these specimens on Zenodo. DOI's point to the most up-to-date version of these depositions at the time of the publication of this CSV file. As a rule, this CSV file will be updated should any changes happen to any of the depositions.</p> <p>- jpegURL2, tiffURL2: A few herbarium sheets had labels on the back and consisted therefore of two scans. As a rule, the label scans are in this category.</p>
Phenological and climate data for herbarium specimens of Streptanthus tortuosus (Brasicaceae)
<p>These data represent phenological data derived from herbarium specimens of Streptanthus tortuous collected between 1903 and 2013 in California. The associated temperature and precipitation related climate data during the year of specimen collection at the location of collection are also included.</p>
Data from: Resurrected seeds from herbarium specimens reveal rapid evolution of drought resistance in a selfing annual
<p>Premise of study: Increased aridity and drought associated with climate change are exerting unprecedented selection pressures on plant populations. Whether populations can rapidly adapt, and which life history traits might confer increased fitness under drought, remain outstanding questions. </p> <p>Methods: We utilized a resurrection ecology approach, leveraging dormant seeds from herbarium collections to assess whether populations of <em>Plantago patagonica</em> from the semi-arid Colorado Plateau have rapidly evolved in response to approximately ten years of intense drought in the region. We quantified multiple traits associated with drought escape and drought resistance and assessed the survival of ancestors and descendants under simulated drought. </p> <p>Key Results: Descendant populations displayed a significant shift in resource allocation, in which they invested less in reproductive tissues and relatively more in both above- and below-ground vegetative tissues. Plants with greater leaf biomass survived longer under terminal drought; moreover, even after accounting for the effect of increased leaf biomass, descendant seedlings survived drought longer than their ancestors. </p> <p>Conclusions: Our results document rapid adaptive evolution in response to climate change in a selfing annual and suggest that shifts in tissue allocation strategies may underlie adaptive responses to drought in arid or semi-arid environments. This work also illustrates a novel approach, documenting that under specific circumstances, seeds from herbarium specimens may provide an untapped source of dormant propagules for future resurrection experiments.</p>
Simulated Herbarium data for testing the accuracy with which specimen data can predict the timing and duration of population-level flowering displays
<p>This dataset provides code and example data for simulating specimen collections of flowering plants across North America, and for developing phenological predictions of population-level flowering onset and termination for these data. It further presents code for assessing the accuracy of these predictions relaticve to known (simulated) population-level flowering dates at the location of each collection.</p>
Morphological and DNA sequence data generated by Sanger sequencing and target capture methods for moss plants in the genus Fissidens from herbarium specimens
<p><span>Morphological evolution in mosses has long been hypothesized to accompany shifts in microhabitats and can be tested using comparative phylogenetics. These lines of inquiry have developed substantially, in part, by target capture sequencing allowing for phylogenomic scale data generated from herbarium specimens. In the present study, we test the relationship between taxonomically important morphological characters in the moss genus <em>Fissidens</em>, using both a 400-locus dataset generated using a target-capture approach as well as a three-locus phylogeny generated using sanger sequencing. Phylogenetic trees were generated using ASTRAL and Bayesian Inference and used to test the monophyly of subgenera/sections and provided the basis for ancestral character reconstruction and phylogenetic correlation analyses among five morphological characters as well as habitat moisture scored from literature. The characters <em>axillary hyaline nodules</em>, <em>limbidium</em>, <em>costa</em>, and <em>peristome morphology</em> as well as <em>sexual system</em>, <em>minimum habitat moisture</em>, <em>average habitat moisture</em>, <em>maximum habitat moisture</em>, and <em>habitat moisture niche breadth</em> each exhibit statistically significant phylogenetic signal. Significant correlations were found between the limbidium (phyllid/leaf border) and habitat moisture niche breadth, which could be interpreted as a more extensive <em>limbidium</em> enabling species to survive across a wider variety of habitats. Correlations were also found between <em>costa anatomy</em> and the <em>limbidum</em> of the gametophyte and sporophyte <em>peristome</em> <em>morphology</em>, as well as <em>average habitat moisture</em> and <em>sexual system</em>. Continued exploration of the relationships between morphological evolution, life history, and habitat will enable us to expand our understanding of functional morphology in mosses.</span></p>
Linked collectors and determiners for: Northern Territory Herbarium (DNA) AVH data.
Natural history specimen data linked to collectors and determiners held within, "Northern Territory Herbarium (DNA) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/270c3da6-45ad-4272-804b-33ac7ee33421">https://bionomia.net/dataset/270c3da6-45ad-4272-804b-33ac7ee33421</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/270c3da6-45ad-4272-804b-33ac7ee33421">https://gbif.org/dataset/270c3da6-45ad-4272-804b-33ac7ee33421</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Western Australian Herbarium (PERTH) AVH data.
Natural history specimen data linked to collectors and determiners held within, "Western Australian Herbarium (PERTH) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/5a3b50fa-c882-4129-9405-38e54c0a73f3">https://bionomia.net/dataset/5a3b50fa-c882-4129-9405-38e54c0a73f3</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/5a3b50fa-c882-4129-9405-38e54c0a73f3">https://gbif.org/dataset/5a3b50fa-c882-4129-9405-38e54c0a73f3</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: James Cook University Herbarium (JCT) AVH data.
Natural history specimen data linked to collectors and determiners held within, "James Cook University Herbarium (JCT) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/01bc220b-39b8-4837-b235-f921187af771">https://bionomia.net/dataset/01bc220b-39b8-4837-b235-f921187af771</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/01bc220b-39b8-4837-b235-f921187af771">https://gbif.org/dataset/01bc220b-39b8-4837-b235-f921187af771</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: New South Wales Plant Pathology and Mycology Herbarium (DAR) AVH data.
Natural history specimen data linked to collectors and determiners held within, "New South Wales Plant Pathology and Mycology Herbarium (DAR) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/685cff6d-e439-4552-980c-5c73d647d1bf">https://bionomia.net/dataset/685cff6d-e439-4552-980c-5c73d647d1bf</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/685cff6d-e439-4552-980c-5c73d647d1bf">https://gbif.org/dataset/685cff6d-e439-4552-980c-5c73d647d1bf</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Australian Tropical Herbarium (CNS) AVH data.
Natural history specimen data linked to collectors and determiners held within, "Australian Tropical Herbarium (CNS) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/2651f9da-9999-4cd2-9f17-293a977ffe58">https://bionomia.net/dataset/2651f9da-9999-4cd2-9f17-293a977ffe58</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/2651f9da-9999-4cd2-9f17-293a977ffe58">https://gbif.org/dataset/2651f9da-9999-4cd2-9f17-293a977ffe58</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: The University of Melbourne Herbarium (MELU) AVH data.
Natural history specimen data linked to collectors and determiners held within, "The University of Melbourne Herbarium (MELU) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/8642acf1-68f2-42b2-8ce3-97798e383cb2">https://bionomia.net/dataset/8642acf1-68f2-42b2-8ce3-97798e383cb2</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/8642acf1-68f2-42b2-8ce3-97798e383cb2">https://gbif.org/dataset/8642acf1-68f2-42b2-8ce3-97798e383cb2</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Flora Sumatra: Digitizing and data basing specimens of the Sumatran Flora deposited at Herbarium Universitas Andalas (ANDA)-Part 2.
Natural history specimen data linked to collectors and determiners held within, "Flora Sumatra: Digitizing and data basing specimens of the Sumatran Flora deposited at Herbarium Universitas Andalas (ANDA)-Part 2". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/39e85504-1ebe-4671-be65-19ccdc1d7c7d">https://bionomia.net/dataset/39e85504-1ebe-4671-be65-19ccdc1d7c7d</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/39e85504-1ebe-4671-be65-19ccdc1d7c7d">https://gbif.org/dataset/39e85504-1ebe-4671-be65-19ccdc1d7c7d</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Data mobilized by the National Herbarium of Benin in the framework of the JRS Biodiversity project of Benin.
Natural history specimen data linked to collectors and determiners held within, "Data mobilized by the National Herbarium of Benin in the framework of the JRS Biodiversity project of Benin". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/9d850f67-e358-4dfb-8748-57cd668031e8">https://bionomia.net/dataset/9d850f67-e358-4dfb-8748-57cd668031e8</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/9d850f67-e358-4dfb-8748-57cd668031e8">https://gbif.org/dataset/9d850f67-e358-4dfb-8748-57cd668031e8</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: National Herbarium of Victoria (MEL) AVH data.
Natural history specimen data linked to collectors and determiners held within, "National Herbarium of Victoria (MEL) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/4ce8e3f9-2546-4af1-b28d-e2eadf05dfd4">https://bionomia.net/dataset/4ce8e3f9-2546-4af1-b28d-e2eadf05dfd4</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/4ce8e3f9-2546-4af1-b28d-e2eadf05dfd4">https://gbif.org/dataset/4ce8e3f9-2546-4af1-b28d-e2eadf05dfd4</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Tasmanian Herbarium (HO) AVH data.
Natural history specimen data linked to collectors and determiners held within, "Tasmanian Herbarium (HO) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/42301ebf-d36a-4e4f-a061-d37d778c2365">https://bionomia.net/dataset/42301ebf-d36a-4e4f-a061-d37d778c2365</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/42301ebf-d36a-4e4f-a061-d37d778c2365">https://gbif.org/dataset/42301ebf-d36a-4e4f-a061-d37d778c2365</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Aix-Marseille Université - MARS herbarium – Cytogenetic data-base.
Natural history specimen data linked to collectors and determiners held within, "Aix-Marseille Université - MARS herbarium – Cytogenetic data-base". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/4521e9af-e6c4-4f0c-9701-f2cd0c279b32">https://bionomia.net/dataset/4521e9af-e6c4-4f0c-9701-f2cd0c279b32</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/4521e9af-e6c4-4f0c-9701-f2cd0c279b32">https://gbif.org/dataset/4521e9af-e6c4-4f0c-9701-f2cd0c279b32</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Some Angiosperm Data of the Forest Herbarium Ibadan (FHI) Nigeria.
Natural history specimen data linked to collectors and determiners held within, "Some Angiosperm Data of the Forest Herbarium Ibadan (FHI) Nigeria". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/0e89ef93-34c2-4942-97f6-9d995edb1f8f">https://bionomia.net/dataset/0e89ef93-34c2-4942-97f6-9d995edb1f8f</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/0e89ef93-34c2-4942-97f6-9d995edb1f8f">https://gbif.org/dataset/0e89ef93-34c2-4942-97f6-9d995edb1f8f</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Data from CRSN herbarium digitization initiative under BID-funded project.
Natural history specimen data linked to collectors and determiners held within, "Data from CRSN herbarium digitization initiative under BID-funded project". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/bcffbc19-b28c-42ae-995a-ff852e158ce5">https://bionomia.net/dataset/bcffbc19-b28c-42ae-995a-ff852e158ce5</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/bcffbc19-b28c-42ae-995a-ff852e158ce5">https://gbif.org/dataset/bcffbc19-b28c-42ae-995a-ff852e158ce5</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: John T. Waterhouse Herbarium (UNSW) AVH data.
Natural history specimen data linked to collectors and determiners held within, "John T. Waterhouse Herbarium (UNSW) AVH data". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/0c56af33-2b10-48af-a87b-f67b6881f036">https://bionomia.net/dataset/0c56af33-2b10-48af-a87b-f67b6881f036</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/0c56af33-2b10-48af-a87b-f67b6881f036">https://gbif.org/dataset/0c56af33-2b10-48af-a87b-f67b6881f036</a>. Formatted as a Frictionless Data package.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
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OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.