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410 results for “eukaryotic”
Supplementary material 1 from: Sogawa S, Tsuchiya K, Nagai S, Shimode S, Kuwahara VS (2022) Annual dynamics of eukaryotic and bacterial communities revealed by 18S and 16S rRNA metabarcoding in the coastal ecosystem of Sagami Bay, Japan. Metabarcoding and Metagenomics 6: e78181. https://doi.org/10.3897/mbmg.6.78181
Figures S1–S8
Supplementary material 2 from: Martin JL, Santi I, Pitta P, John U, Gypens N (2022) Towards quantitative metabarcoding of eukaryotic plankton: an approach to improve 18S rRNA gene copy number bias. Metabarcoding and Metagenomics 6: e85794. https://doi.org/10.3897/mbmg.6.85794
Supplementary Data 2
Supplementary material 1 from: Martin JL, Santi I, Pitta P, John U, Gypens N (2022) Towards quantitative metabarcoding of eukaryotic plankton: an approach to improve 18S rRNA gene copy number bias. Metabarcoding and Metagenomics 6: e85794. https://doi.org/10.3897/mbmg.6.85794
Supplementary Data 1
Supplementary material 3 from: Martin JL, Santi I, Pitta P, John U, Gypens N (2022) Towards quantitative metabarcoding of eukaryotic plankton: an approach to improve 18S rRNA gene copy number bias. Metabarcoding and Metagenomics 6: e85794. https://doi.org/10.3897/mbmg.6.85794
Supplementary Data 3
Supplementary material 4 from: Martin JL, Santi I, Pitta P, John U, Gypens N (2022) Towards quantitative metabarcoding of eukaryotic plankton: an approach to improve 18S rRNA gene copy number bias. Metabarcoding and Metagenomics 6: e85794. https://doi.org/10.3897/mbmg.6.85794
Tables S1–S4, Figures S1–S4
Figure 8 in Comparative genomics reveals the evolutionary history of the unicellular eukaryote class Litostomatea and its adaptive evolution based on biochemical metabolic capacity
Figure 8. RSCU of 14 newly sequenced litostomatean genomes/transcriptomes. Each codon is ploưed.
Data from: A congruent phylogenomic signal places eukaryotes within the Archaea.
Determining the relationships among the major groups of cellular life is important for understanding the evolution of biological diversity, but is difficult given the enormous time spans involved. In the textbook 'three domains' tree based on informational genes, eukaryotes and Archaea share a common ancestor to the exclusion of Bacteria. However, some phylogenetic analyses of the same data have placed eukaryotes within the Archaea, as the nearest relatives of different archaeal lineages. We compared the support for these competing hypotheses using sophisticated phylogenetic methods and an improved sampling of archaeal biodiversity. We also employed both new and existing tests of phylogenetic congruence to explore the level of uncertainty and conflict in the data. Our analyses suggested that much of the observed incongruence is weakly supported or associated with poorly fitting evolutionary models. All of our phylogenetic analyses, whether on small subunit and large subunit ribosomal RNA or concatenated protein-coding genes, recovered a monophyletic group containing eukaryotes and the TACK archaeal superphylum comprising the Thaumarchaeota, Aigarchaeota, Crenarchaeota and Korarchaeota. Hence, while our results provide no support for the iconic three-domain tree of life, they are consistent with an extended eocyte hypothesis whereby vital components of the eukaryotic nuclear lineage originated from within the archaeal radiation.
Data from: Gene transfer from bacteria and archaea facilitated evolution of an extremophilic eukaryote
Some microbial eukaryotes, such as the extremophilic red alga Galdieria sulphuraria, can live in hot, toxic metal-rich, acidic environments. To elucidate the underlying molecular mechanisms of adaptation, we sequenced the 13.7 Mb genome of G. sulphuraria. This alga shows an enormous metabolic flexibility, growing either photoautotrophically or heterotrophically on more than 50 carbon sources. Environmental adaptation seems to have been facilitated by horizontal gene transfer from various bacteria and archaea, often followed by gene family expansion. At least 5% of protein-coding genes of G. sulphuraria were probably acquired horizontally. These proteins are involved in ecologically important processes ranging from heavy metal detoxification to glycerol uptake and metabolism. Thus, our findings show that a pan-domain gene pool has facilitated environmental adaptation in this unicellular eukaryote.
Data for "Characterization of Intact Eukaryotic Cells with Subcellular Spatial Resolution by Photothermal-Induced Resonance Infrared Spectroscopy and Imaging"
<p>Dataset used for the article "Characterization of Intact Eukaryotic Cells with Subcellular Spatial Resolution by Photothermal-Induced Resonance Infrared Spectroscopy and Imaging" Molecules 2019, 24, 4504; doi:10.3390/molecules24244504</p>
Environmental DNA captures diurnal fluctuations of surface eukaryotes on a tropical coral reef
<p>Data and code for Dowell et al (2023) submission to Environmental DNA.</p>
Data from: A congruent phylogenomic signal places eukaryotes within the Archaea.
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Data from: Turning the crown upside down: gene tree parsimony roots the eukaryotic tree of life
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Data from: Complex phylogeographic patterns in the freshwater alga Synura provide new insights on ubiquity versus endemism in microbial eukaryotes
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Data from: Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses
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Data from: A single Tim translocase in the mitosomes of Giardia intestinalis illustrates convergence of protein import machines in anaerobic eukaryotes
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Data from: Recent events dominate interdomain lateral gene transfers between prokaryotes and eukaryotes and, with the exception of endosymbiotic gene transfers, few ancient transfer events persist
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Data from: A potential case of reinforcement in a facultatively sexual unicellular eukaryote
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Data from: Next-generation sequencing to inventory taxonomic diversity in eukaryotic communities: a test for freshwater diatoms
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Data from: Metabarcoding reveals environmental factors influencing spatio-temporal variation in pelagic micro-eukaryotes
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Data from: The Proterozoic record of eukaryotes
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ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
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.