12 Works

Alignments and phylogenetic tree from: A new endemic species of Loasa ser. Macrospermae from northern Chile

Ludovica Santilli, Nicolas Lavandero, Claire De Schrevel, Philippe Dandois & Rafael Acuña
Alignments used for the phylogenetic work and raw phylogenetic trees obtained. A new species of Loasa, endemic‌ ‌to‌ ‌the‌ ‌northern ‌Andes‌ ‌‌of‌ ‌Chile‌ is described and evaluated, under the IUCN criteria for conservation, as critically endangered. Molecular analyses based on plastid markers place the new species within the Loasa ser. Macrospermae, with high support, and specifically as sister to Loasa acerifolia. A key to and comparative plates including all the 13 known species of Loasa...

Image-based taxonomic classification of bulk biodiversity samples using deep learning and domain adaptation

Tomochika Fujisawa, Víctor Noguerales, Emmanouil Meramveliotakis, Anna Papadopoulou & Alfried Vogler
Complex bulk samples of insects from biodiversity surveys present a challenge for taxonomic identification, which could be overcome by high-throughput imaging combined with machine learning for rapid classification of specimens. These procedures require that taxonomic labels from an existing source data set are used for model training and prediction of an unknown target sample. However, such transfer learning may be problematic for the study of new samples not previously encountered in an image set, e.g....

The life and times of Pteridinium simplex

Simon Darroch, Brandt Gibson, Maggie Syversen, Imran Rahman, Rachel Racicot, Frances Dunn, Susana Gutarra-Diaz, Eberhard Schindler, Achim Wehrmann & Marc Laflamme
Pteridinium simplex is an iconic erniettomorph taxon best known from late Ediacaran successions in South Australia, Russia, and Namibia. Despite nearly 100 years of study, there remain fundamental questions surrounding the paleobiology and -ecology of this organism, including it’s life position relative the sediment-water interface, and how it fed and functioned within benthic communities. Here, we combine a re-description of specimens housed at the Senckenberg Forschungsinstitut und Naturmuseum Frankfurt with field observations of fossiliferous surfaces...

Data from: Community assembly and metaphylogeography of soil biodiversity: insights from haplotype-level community DNA metabarcoding within an oceanic island

Carmelo Andújar Fernández, Paula Arribas, Heriberto López, Yurena Arjona, Antonio José Pérez-Delgado, Pedro Oromí, Alfried P. Vogler & Brent C. Emerson
Most of our understanding of island diversity comes from the study of aboveground systems, while the patterns and processes of diversification and community assembly for belowground biotas remain poorly understood. Here we take advantage of a relatively young and dynamic oceanic island to advance our understanding of eco-evolutionary processes driving community assembly within soil mesofauna. Using whole organism community DNA (wocDNA) metabarcoding and the recently developed metaMATE pipeline, we have generated spatially explicit and reliable...

Chemical and Mineralogical analysis, SEM images and elemental diffusion timescales

Chiara M Petrone
Major and trace elements data for whole rock and clinopyroxene; major elements data for glassy groundmasses; BSE (back-scattered electron) images of clinopyroxene; Fe-Mg elemental diffusion timescales of clinopyroxene; LA-ICP-MS chemical maps of clinopyroxene.

Ocular lens morphology is influenced by ecology and metamorphosis in frogs and toads

Kate Thomas, Amartya Mitra, Molly Womack, David Gower, Jeffrey Streicher, Brett Clark, Rayna Bell, Ryan Schott & Matthew Fujita
The shape and relative size of an ocular lens affects the focal length of the eye, with consequences for visual acuity and sensitivity. Lenses are typically spherical in aquatic animals with camera-type eyes and axially flattened in terrestrial species to facilitate vision in optical media with different refractive indices. Frogs and toads (Amphibia: Anura) are ecologically diverse, with many species shifting from aquatic to terrestrial ecologies during metamorphosis. We quantified lens shape and relative size...

Bemisia tabaci cryptic species: supplementary materials

Norman MacLeod, Roy Canty & Andrew Polaszek
This archive contains supplementary materials relating to the investigation of morphological differences in Bemisia tabcai puparia as rescribed in MacLeod, N., Canty, R.J., and Polazek, A., 2022, Morphology-based identification of Bemisia tabaci cryptic species puparia via embedded group-contrast convolution neural network analysis: Systematic Biology. The materials archived include (1) and inventory of all puparial images, (2) full sets of results files for the image-based t-SNE and embedded, group-contrasts CNN analyses, (3) Wolfram Mathematical™ scripting code...

Individual repeatability of avian migration phenology: a systematic review and meta-analysis

Kirsty Franklin, Malcolm Nicoll, Simon Butler, Ken Norris, Norman Ratcliffe, Shinichi Nakagawa & Jennifer Gill
Changes in phenology and distribution are being widely reported for many migratory species in response to shifting environmental conditions. Understanding these changes and the situations in which they occur can be aided by understanding consistent individual differences in phenology and distribution and the situations in which consistency varies in strength or detectability. Studies tracking the same individuals over consecutive years are increasingly reporting migratory timings to be a repeatable trait, suggesting that flexible individual responses...

First large-scale quantification study of DNA preservation in insects from natural history collections using genome-wide sequencing

Victoria Elizabeth Mullin, William Stephen, Andres Arce, Will Nash, Calum Raine, David Notton, Ashleigh Whiffin, Vladimir Blagoderov, Karim Gharbi, James Hogan, Tony Hunter, Naomi Irish, Simon Jackson, Steve Judd, Chris Watkins, Wilfried Haerty, Jeff Ollerton, Selina Brace, Richard Gill & Ian Barnes
Insect declines are a global issue with significant ecological and economic ramifications. Yet we have a poor understanding of the genomic impact these losses can have. Genome-wide data from historical specimens has the potential to provide baselines of population genetic measures to study population change, with natural history collections representing large repositories of such specimens. However, an initial challenge in conducting historical DNA data analyses, is to understand how molecular preservation varies between specimens. Here,...

Scan files, 3D reconstructions, data spreadsheet and supplementary files for Heterochrony and parallel evolution of echinoderm, hemichordate and cephalochordate internal bars

Nidia Álvarez Armada, Christopher Cameron, Jennifer Bauer & Imran Rahman
Deuterostomes comprise three phyla with radically different body plans. Phylogenetic bracketing of the living deuterostome clades suggests the latest common ancestor of echinoderms, hemichordates and chordates was a bilaterally symmetrical worm with pharyngeal openings, with these characters lost in echinoderms. Early fossil echinoderms with pharyngeal openings have been described, but their interpretation is highly controversial. Here, we critically evaluate the evidence for pharyngeal structures (gill bars) in the extinct stylophoran echinoderms Lagynocystis pyramidalis and Jaekelocarpus...

Additional file 1 of Morphospecies and molecular diversity of ‘lace corals’: the genus Reteporella (Bryozoa: Cheilostomatida) in the central North Atlantic Azores Archipelago

Lara Baptista, Björn Berning, Manuel Curto, Andrea Waeschenbach, Harald Meimberg, António M. Santos & Sérgio P. Ávila
Supplementary Material 1

Additional file 1 of Morphospecies and molecular diversity of ‘lace corals’: the genus Reteporella (Bryozoa: Cheilostomatida) in the central North Atlantic Azores Archipelago

Lara Baptista, Björn Berning, Manuel Curto, Andrea Waeschenbach, Harald Meimberg, António M. Santos & Sérgio P. Ávila
Supplementary Material 1

Registration Year

  • 2022
    12

Resource Types

  • Dataset
    12

Affiliations

  • Natural History Museum
    12
  • University of Lisbon
    2
  • Instituto de Productos Naturales y Agrobiología
    2
  • University of the Azores
    2
  • University of Porto
    2
  • University of Oxford
    2
  • University of Natural Resources and Life Sciences
    2
  • Tullie House Museum and Art Gallery
    1
  • Utah State University
    1
  • University of Michigan–Ann Arbor
    1