cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5519/0086138
title: Duxbury collection database

description: Access high quality colour images and original plates from the Duxbury collection, a catalogue of Cretaceous dinoflagellate cyst specimens. The database includes the original plates from Duxbury's 1983 publication, along with new: * High quality digital images. * Videos of the original specimens. * Confocal Laser Scanning Microscopy (CLSM) images, providing: extended focus images. * Red/green anaglyphs, requiring red/green glasses to appreciate the 3D effect 3D animations. * Animations of the image stack from specimens embedded in a microscope slide. All images and movies have been compressed for display on the web. To play the videos you will need to install the QuickTime plug-in. The original diagnoses and edits by Duxbury (1983) are included for each taxon, with added notes inferring subsequent changes in taxonomy.
DOI: 10.5519/0063764
title: First Fleet artwork collection

description: On 13 May 1787 eleven ships, now commonly referred to as the First Fleet, set sail from Portsmouth to establish a colony in New South Wales, Australia. They reached their destination on 18 January 1788, 18 years after Captain James Cook had first landed on the east coast of Australia at Botany Bay. One of the unplanned but long-lasting outcomes of this event was the large number of outstanding drawings of Aboriginal people, the environment and wildlife found on arrival as well as of the early foundation of the colony.
DOI: 10.5519/0076388
title: Duxbury collection

description: Access high quality colour images and original plates from the Duxbury collection, a catalogue of Cretaceous dinoflagellate cyst specimens. The database includes the original plates from Duxbury's 1983 publication, along with new: * high quality digital images * videos of the original specimens * **Confocal Laser Scanning Microscopy (CLSM)** images, providing: * extended focus images * red/green anaglyphs, requiring red/green glasses to appreciate the 3D effect * 3D animations * animations of the image stack from specimens embedded in a microscope slide All images and movies have been compressed for display on the web. To play the videos you will need to install the [QuickTime plug-in] (https://support.apple.com/en-gb/HT201175). The original diagnoses and edits by Duxbury (1983) are included for each taxon, with added notes inferring subsequent changes in taxonomy.
DOI: 10.5519/0097165
title: Metrosideros-feeding psyllids of the Hawaiian Islands

description: Abstract of publication: The Hawaiian psyllids (Psylloidea, Triozidae) feeding on Metrosideros (Myrtaceae) constitute a remarkable radiation of more than 35 species. This monophyletic group has diversified on a single, highly polymorphic host plant species, Metrosideros polymorpha. Eleven Metrosideros-feeding species included in the Insects of Hawaii by Zimmerman are redescribed, and an additional 25 new species are described. Contrary to previous classifications that placed the Metrosideros-feeders in two genera, Trioza Foerster, 1848 and Kuwayama Crawford, 1911, all 36 named species are placed in Pariaconus Enderlein, 1926; and the relationship of this genus to other Pacific taxa within the family Triozidae, and other Austro-Pacific taxa feeding on host plants in Myrtaceae is clarified. The processes of diversification in Pariaconus include shifts in galling habit, geographic isolation within and between islands, and preferences for different morphotypes of the host plant. Four species groups are recognized: the bicoloratus and minutus groups are free-living or form pit galls, and together with the kamua group (composing all of the Kauai species) form a basal assemblage; the more derived closed gall species in the ohialoha group are found on all major islands except Kauai. The diversification of Pariaconus has likely occurred over several million years. Within island diversification is exemplified in the kamua group, and within species variation in the ohialoha group, but species discovery rates suggest this radiation remains undersampled. Mitochondrial DNA barcodes are provided for 28 of the 36 species. Genetic divergence, intraspecific genetic structure, and parallel evolution of different galling biologies and morphological traits are discussed within a phylogenetic framework. Outgroup analysis for the genus Pariaconus and ancestral character state reconstruction suggest pit-galling may be the ancestral state, and the closest outgroups are Palaearctic-Australasian taxa rather than other Pacific Metrosideros-feeders.
DOI: 10.5519/0037274
title: Collection specimens

description: Specimen records from the Natural History Museum's collection
DOI: 10.5519/0084299
title: Robin Whatley's type and figured ostracods at the NHM

description: This is a list of papers on ostracods authored by Prof. Robin Whatley that contain reference to specimens housed at the Natural History Museum. The list was compiled as preparation for a talk by Giles Miller at the Geological Society on Monday 30th Jan 2017 at a meeting to commemorate the life and works of Robin Whatley. The list is by no means complete and is based mainly on data associated with the Aberystwyth University Microfossil Collection that arrived at the NHM in 2002. The dataset owner would be happy to hear of any additional papers that may not be referenced here.
DOI: 10.5519/0081120
title: Exploring the shell-based taxonomy of the Sri Lankan land snail Corilla H. and A. Adams, 1855 (Pulmonata: Corillidae) using mitochondrial DNA

description: Dataset: four concatenated alignment (including indels) of three mitochondrial genes (CO1, ND1 and 16S rRNA) for the Sri Lankan land snail Corilla (Pulmonata: Corillidae). Raheem, D.C., Breugelmans, K., Wade, C.M., Naggs, F.C., and Backeljau, T. (2017). Exploring the shell-based taxonomy of the Sri Lankan land snail Corilla H. and A. Adams, 1855 (Pulmonata: Corillidae) using mitochondrial DNA, Molecular Phylogenetics and Evolution, 107: 609-618. All datasets aligned using MAFFT v. 7 (Katoh and Standley, 2013, Molecular Biology and Evolution, 30, 772-780).
DOI: 10.5519/0008841
title: Palaeospondylus

description: Data from the paper "Questioning hagfish affinities of the enigmatic Devonian vertebrate Palaeospondylus "
DOI: 10.5519/0062900
title: Insect Pollinators Archive

description: An up to date dataset of the Insect Pollinators Initiative, A multi-institution initiative with the NHM, BBSRC and The University of Edinburgh. The archive is held at the Natural History Museum, London. Current dataset approximately 42,500.
DOI: 10.5519/0068114
title: BIOPEARL

description: DarwinCore Archive of species occurrence data to support the publication: Neal L, Linse K, Brasier MJ, Sherlock E, Glover AG (2017). Comparative marine biodiversity and depth zonation in the Southern Ocean: evidence from a new large polychaete dataset from Scotia and Amundsen seas. Marine Biodiversity
DOI: 10.5519/0054533
title: Supplementary data remipede Toxins paper

description: These data are the supplementary data accompanying a paper submitted to the journal Toxins titled Venomics of remipede crustaceans reveals novel peptide diversity and illuminates the venom's biological role. The data consists of sequence alignments of venom proteins, supplementary figures, supplementary tables, and the transcriptome assemblies referred to in the paper.
DOI: 10.5519/0007624
title: Elaeagnifolium clade (Solanum)

description: Data set of specimens used in the publication: Knapp, S., E. Sagona, A.K.Z. Carbonell and F. Chiarini (2017) A revision of the Solanum elaeagnifolium clade (Elaeagnifolium clade; subgenus Leptostemonum, Solanaceae). PhytoKeys, in press. Abstract The Solanum elaeagnifolium clade (Elaeagnifolium clade) contains five species of small, often rhizomatous, shrubs from deserts and dry forests in North and South America. Members of the clade were previously classified in sections Leprophora, Nycterium and Lathyrocarpum, and were not thought to be closely related. The group is sister to the species-rich monophyletic Old World clade of spiny solanums. The species of the group have an amphitropical distribution, with three species in Mexico and the southwestern United States and three species in Argentina. Solanum elaeagnifolium occurs in both North and South America, and is a noxious invasive weed in dry areas worldwide. Members of the group are highly variable morphologically, and this variability has led to much synonymy, particularly in the widespread S. elaeagnifolium. We here review the taxonomic history, morphology, relationships and ecology of these species and provide keys for their identification, descriptions, full synonymy (including designations of lectotypes) and nomenclatural notes. Illustrations, distribution maps and preliminary conservation assessments are provided for all species.
DOI: 10.5519/0012604
title: Chagos Coral Collection at the NHM London

description: The Natural History Museum, London, holds a collection of &gt;6000 specimens of dry-preserved hard (mainly scleractinian) corals from the Chagos Archipelago in the Indian Ocean (British Indian Ocean Territory). These were collected from three expeditions in the 1970s. This archipelago of &gt;50 islands includes the Great Chagos Bank which is the largest coral atoll in the world. The ecosystems are impacted very little by pollution or fishing and therefore represent an important resource for scientific study, including that of climate change. The collection is largely in good condition and extremely comprehensive taxonomically, covering ca. 75 genera. The NHM also holds some associated documentation from the original expeditions.
DOI: 10.5519/0082274
title: Crania and mandible data from 'river dolphins' and other odontocetes

description: Landmark data from odontocete skulls, plus associated metadata, used in [Page CE, Cooper N. (2017) Morphological convergence in ‘river dolphin’ skulls. PeerJ 5:e4090 https://doi.org/10.7717/peerj.4090](https://doi.org/10.7717/peerj.4090) to quantify convergence among 'river dolphins'. Dataset includes data from all four river dolphin species, and 20 other species of odontocete.
DOI: 10.5519/0023421
title: Psylloidea phylogenomics

description: Resolving the psyllid tree of life and understanding evolutionary relationships in the superfamily Psylloidea is challenging due to the lack of clear morphological synapomorphies for many groups. Shot-gun sequencing using mixed pool DNAs for more than 400 species resulted in recovery from de novo assemblies of near complete mitogenomes (≥ 10 kb) for 359 species, and partial genomes (5-10 kb) for an additional 40 species. The resulting phylogeny improves and clarifies the family classification and resolves some of the long standing uncertainties in relationships within and between genera. A whole nuclear genome scan approach using the Anchored Hybrid Enrichment (AHE) method (total 447 loci with average length 760 bases from an estimated 373 nuclear genes) for a representative subset of taxa confirms the placement of major groupings and overall tree topology found with the mitochondrial data. The data generated represent a major increase in molecular resources for this superfamily.
DOI: 10.5519/0089190
title: Site-level dataset used in Phillips et al. (2017) The effect of fragment area on site-level biodiversity

description: Habitat fragmentation accompanies habitat loss, and drives additional biodiversity change; but few global biodiversity models explicitly analyse the effects of both fragmentation and loss. Here we propose and test the hypothesis that, as fragment area increases, species density (the number of species in a standardised plot) will scale with an exponent given by the difference between the exponents of the species-area relationships for islands (z ~ 0.25) and in contiguous habitat (z ~ 0.15), and test whether scaling varies between land uses. We also investigate the scaling of overall abundance and rarefaction-based richness, as some mechanisms make different predictions about how fragment area should affect them. The relevant data from the taxonomically and geographically broad PREDICTS database were used to model the three diversity measures, testing their scaling with fragment area and whether the scaling exponent varied among land uses (primary forest, secondary forest, plantation forest, cropland and pasture). In addition, the consistency of the response of species density to fragment area was tested across three well represented taxa (Magnoliopsida, Hymenoptera and 'herptiles'). Species density and total abundance showed area-scaling exponents of 0.07 and 0.16, respectively, and these exponents did not vary significantly among land uses; rarefaction-based richness by contrast did not increase consistently with area. These results suggest that the area-scaling of species density is driven by the area-scaling of total abundance, with additive edge effects (species moving into the small fragments from the surroundings) opposing - but not fully overcoming - the effect of fragment area on overall density of individuals. The interaction between fragment area and higher taxon (plants, vertebrates and invertebrates), which remained in the rarefied richness model, indicates that mechanisms may vary among groups.
DOI: 10.5519/0019732
title: Moth Ultraviolet Reflectance Survey

description: The moth ultraviolet (UV) reflectance survey dataset is constituted of images showing the portion above 360 nm of the UVA reflection of specimens belonging to 176 moth species. The dataset images are of 1760 specimens (10 per species) and of the whole drawers where they are stored together with other specimens in the British and Irish Lepidoptera collection at the NHM, London. The dataset contains also images of the same drawers in visible light for comparison. These moths were collected mainly in the second half of the 19th and across the 20th centuries; their collection information has been transcribed and every specimen was barcoded as part of the iCollections digitisation project, and this information is available on the NHM portal. Through the barcodes it is possible to contextualise the UV reflectance in relation to temporal, geographical and environmental factors. This survey aims to support further investigations of this character (the UV reflectance), which is well known for playing important roles in butterfly and other animal group communication and taxonomy.
DOI: 10.5519/0093278
title: Baleen stable isotope data

description: This dataset contains d13C and d15N stable isotope data from northern hemisphere rorqual whale (Balaenoptera) baleen taken from our collections. This includes data from the baleen of the Hintze Hall blue whale. The data has been used in various research papers. Additional data allow the analyses in these papers to be carried out and mostly encompass environmental datasets or the outputs of various simulation models. **Note that if trying to link these data to analyses in GitHub, an update to this site has changed all "." in column headers to "_". These will need to be changed before the code will work. Apologies.**
DOI: 10.5519/0009648
title: Old World morelloids

description: Specimens used in the published monograph of the Old World members of the Morelloid clade of Solanum (black nightshades) Särkinen TE, Poczai P, Barboza GE, van der Weerden GM, Baden M and Knapp S (2018) A revision of the Old World Black Nightshades (Morelloid clade of Solanum L., Solanaceae). PhytoKeys 106: 1-223. https://phytokeys.pensoft.net/articles.php?id=21991 The Morelloid clade, also known as the black nightshades or “Maurella” (Morella), is one of the 10 major clades within Solanum L. The pantropical clade consists of 74 currently recognised non-spiny herbaceous and suffrutescent species with simple or branched hairs with or without glandular tips, with a centre of distribution in the tropical Andes. A secondary centre of diversity is found in Africa, where a set of mainly polyploid taxa occur. A yet smaller set of species is found in Australasia and Europe, including Solanum nigrum L., the type of the genus Solanum. Due to the large number of published synonyms, combined with complex morphological variation, our understanding of species limits and diversity in the Morelloid clade has remained poor despite detailed morphological studies carried out in conjunction with breeding experiments. Here we provide the first taxonomic overview of the entire group in the Old World, including Africa, Asia, Australia, Europe and islands of the Pacific since the 19th century. Complete synonomy, morphological descriptions, distribution maps, and common names and uses are provided for all 19 species occurring outside the Americas (i.e., Africa, Asia, Australia, Europe and islands of the Pacific). We treat 12 species native to the Old World, as well as 7 taxa that are putatively introduced and/or invasive in the region. The current knowledge of the origin of the polyploid species is summarised. A key to all of species occurring in the Old World, together with line drawings and colour figures are also provided to aid identification both in herbaria and in the field. Preliminary conservation assessments are provided for all species.
DOI: 10.5519/0097768
title: The Fossil Historical Collections

description: There are three historical collections in the Palaeontology which have great importance for the history of the NHM. These are the Sloane, König and Pennant Collections. Over 100 specimens belong to the Sir Hans Sloane (1660-1753) Collection. The collection of Carl Dietrich Eberhard König (1774-1851), first Keeper of the Department of Natural History and Modern Curiosities, numbers about 50 specimens, described in Icones fossilium sectiles (1825). Finally, there is the collection of Thomas Pennant (1726-1798), an 18th century zoologist, antiquarian and correspondent of Gilbert White, which was donated in 1912 by the Earl of Denbigh. This comprises about 1000 specimens, some of which were described in Pennant’s manuscript Reliquiae Diluviannae, or a Catalogue of such bodies as were deposited in the Earth by the Deluge. Specimens in these collections are an invaluable resource for historical research and are the founding core of the British Museum and later The Natural History Museum. They mark the progress of early palaeontological exploration. Each collection contains fossils belonging to various groups, including molluscs, echinoderms, brachiopods, sponges, bryozoans, arthropods, fishes, reptiles, mammals and plants.
DOI: 10.5519/0073010
title: Jins_Uropeltidae

description: Uropeltidae mtDNA alignments and morphological data
DOI: 10.5519/0068715
title: Eggplant wild relative plastome phylogeny

description: The data set comprises the original data files and scripts used to generate analyses in the publication Aubriot X, Knapp S, Syfert MM, Poczai P, Buerki S (2018) Shedding new light on the origin and spread of the brinjal eggplant (Solanum melongena L.) and its wild relatives. American Journal of Botany XX: xxx-xxx ABSTRACT PREMISE OF THE STUDY: While brinjal eggplant (Solanum melongena L.) is the second most important solanaceaous fruit crop, we lack firm knowledge of its evolutionary relationships. This in turn limits efficient use of crop wild relatives in eggplant improvement. Here, we examine the hypothesis of linear step-wise expansion of the eggplant group from Africa to Asia. METHODS: We use museum collections to generate nuclear and full-plastome data for all species of the eggplant clade. We combine a phylogenomic approach with distribution data to infer a biogeographic scenario for the clade. KEY RESULTS: The eggplant clade has Pleistocene origins in northern Africa. Dispersals to tropical Asia gave rise to Solanum insanum, the wild progenitor of the eggplant, and to African distinct lineages of widespread and southern African species. Results suggest that spread of species to southern Africa has been recent and likely facilitated by large mammalian herbivores such as African elephant and impala feeding on Solanum fruits. CONCLUSIONS: Rather than a linear ‘Out Of Africa’ sequence, our results are more consistent with an initial dispersal event into Asia, and subsequent wide dispersal and differentiation across Africa driven by large mammalian herbivores. Our evolutionary results will impact future work on eggplant domestication and use of wild relatives in breeding of this increasingly important solanaceous crop.
DOI: 10.5519/0020467
title: 3D Cetacean Scanning

description: 3D scans of ten Cetacean skulls collected between 1873 and 2007. The dataset contains both baleen and toothed whales including _Physeter macrocephalus_ (a sperm whale) the largest of the toothed whales and the largest toothed predator on Earth. Scanning was done by Kate Burton using a Creaform Go!Scan 50 structured light scanner and the scans were processed using Geomagic Wrap software. Specimen and context data was provided by Richard Sabin. For access to high resolution scans of these specimens please contact [Richard Sabin](http://www.nhm.ac.uk/our-science/departments-and-staff/staff-directory/richard-sabin.html).
DOI: 10.5519/0034287
title: Morelloid clade of Solanum in Brazil

description: Dataset of specimen and localities of Brazilian species of the Morelloid clade of Solanum (black nightshades)
DOI: 10.5519/0094640
title: Fenton et al Reproducibility

description: The data required to run the analyses in Fenton et al "Factors affecting consistency and accuracy in identifying modern macroperforate planktonic foraminifera".
DOI: 10.5519/0009075
title: Maddock_montanus

description: Hypogeophis DNA alignments
DOI: 10.5519/0078378
title: Xenophyophores

description: Xenophyophores, giant foraminifera, are distinctive members of the deep-sea megafauna that accumulate large masses of waste material (‘stercomare’) within their agglutinated tests, and organise their cells as branching strands enclosed within an organic tube (the ‘granellare’ system). Using non-destructive, three-dimensional micro-CT imaging we explored these structures in three species from the abyssal eastern Pacific Clarion-Clipperton Zone (CCZ). In Psammina spp., the low-density stercomare occupied much of the test interior, while high-density granellare strands branched throughout the structure. In Galatheammina sp. the test comprised a mixture of stercomare and test particles, with the granellare forming a web-like system of filaments. The granellare occupied 2.8-5.1%, the stercomare 72.4-82.4%, and test particles 14.7-22.5%, of the ‘body’ volume in the two Psammina species. The corresponding proportions in Galatheammina sp. were 1.7% (granellare), 39.5% (stercomare) and 58% (test particles). These data provide a potential basis for estimating the contribution of xenophyophores to seafloor biomass in areas like the CCZ where they dominate the megafauna. As in most xenophyophore species, the granellare hosted huge numbers of tiny barite crystals. We speculate that these help to support the extensive granellare system, as well as reducing the cell volume and lightening the metabolic burden required to maintain it. Full article: http://www.dx.doi.org/10.1038/s41598-018-30186-2
DOI: 10.5519/0090655
title: Al Sabouni et al Reproducibility

description: The data required to run the analyses in Al Sabouni et al "Reproducibility of species recognition in modern planktonic foraminifera and its implications for measures of community structure". Also, the images of the specimens.