cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7054451
title: TABLE S3. PCA LOADINGS AND EIGENVALUES FOR LOG-TRANSFORMED MORPHOMETRIC ANALYSES from Unexpected diversity within the extinct elephant birds (Aves: Aepyornithidae) and a new identity for the world's largest bird

description: Madagascar's now-extinct radiation of large-bodied ratites, the elephant birds (Aepyornithidae), has been subject to little modern research compared to the island's mammalian megafauna and other Late Quaternary giant birds. The family's convoluted and conflicting taxonomic history has hindered accurate interpretation of morphological diversity and has restricted modern research into their evolutionary history, biogeography and ecology. We present a new quantitative analysis of patterns of morphological diversity of aepyornithid skeletal elements, including material from all major global collections of aepyornithid skeletal remains, and constituting the first taxonomic reassessment of the family for over 50 years. Linear morphometric data collected from appendicular limb elements, and including nearly all type specimens, were examined using multivariate cluster analysis and the Bayesian Information Criterion, and with estimation of missing data using multiple imputation and expectation maximization algorithms. These analyses recover three distinct skeletal morphotypes within the Aepyornithidae. Two of these morphotypes are associated with the type specimens of the existing genera <i>Mullerornis</i> and <i>Aepyornis</i>, and represent small-bodied and medium-bodied aepyornithids, respectively. <i>Aepyornis</i> contains two distinct morphometric subgroups, which are identified as the largely allopatric species <i>A. hildebrandti</i> and <i>A. maximus.</i> The third morphotype, which has not previously been recognized as a distinct genus, is described as the novel taxon <i>Vorombe titan</i>. <i>Vorombe</i> represents the largest-bodied aepyornithid and is the world's largest bird, with a mean body mass of almost 650 kg. This new taxonomic framework for the Aepyornithidae provides an important new baseline for future studies of avian evolution and the Quaternary ecology of Madagascar.
DOI: 10.6084/m9.figshare.7054451.v1
title: TABLE S3. PCA LOADINGS AND EIGENVALUES FOR LOG-TRANSFORMED MORPHOMETRIC ANALYSES from Unexpected diversity within the extinct elephant birds (Aves: Aepyornithidae) and a new identity for the world's largest bird

description: Madagascar's now-extinct radiation of large-bodied ratites, the elephant birds (Aepyornithidae), has been subject to little modern research compared to the island's mammalian megafauna and other Late Quaternary giant birds. The family's convoluted and conflicting taxonomic history has hindered accurate interpretation of morphological diversity and has restricted modern research into their evolutionary history, biogeography and ecology. We present a new quantitative analysis of patterns of morphological diversity of aepyornithid skeletal elements, including material from all major global collections of aepyornithid skeletal remains, and constituting the first taxonomic reassessment of the family for over 50 years. Linear morphometric data collected from appendicular limb elements, and including nearly all type specimens, were examined using multivariate cluster analysis and the Bayesian Information Criterion, and with estimation of missing data using multiple imputation and expectation maximization algorithms. These analyses recover three distinct skeletal morphotypes within the Aepyornithidae. Two of these morphotypes are associated with the type specimens of the existing genera <i>Mullerornis</i> and <i>Aepyornis</i>, and represent small-bodied and medium-bodied aepyornithids, respectively. <i>Aepyornis</i> contains two distinct morphometric subgroups, which are identified as the largely allopatric species <i>A. hildebrandti</i> and <i>A. maximus.</i> The third morphotype, which has not previously been recognized as a distinct genus, is described as the novel taxon <i>Vorombe titan</i>. <i>Vorombe</i> represents the largest-bodied aepyornithid and is the world's largest bird, with a mean body mass of almost 650 kg. This new taxonomic framework for the Aepyornithidae provides an important new baseline for future studies of avian evolution and the Quaternary ecology of Madagascar.
DOI: 10.6084/m9.figshare.7054445
title: TABLE S1. AEPYORNITHID LIMB BONE SPECIMENS AND MEASUREMENTS INCLUDED IN MORPHOMETRIC ANALYSIS from Unexpected diversity within the extinct elephant birds (Aves: Aepyornithidae) and a new identity for the world's largest bird

description: Madagascar's now-extinct radiation of large-bodied ratites, the elephant birds (Aepyornithidae), has been subject to little modern research compared to the island's mammalian megafauna and other Late Quaternary giant birds. The family's convoluted and conflicting taxonomic history has hindered accurate interpretation of morphological diversity and has restricted modern research into their evolutionary history, biogeography and ecology. We present a new quantitative analysis of patterns of morphological diversity of aepyornithid skeletal elements, including material from all major global collections of aepyornithid skeletal remains, and constituting the first taxonomic reassessment of the family for over 50 years. Linear morphometric data collected from appendicular limb elements, and including nearly all type specimens, were examined using multivariate cluster analysis and the Bayesian Information Criterion, and with estimation of missing data using multiple imputation and expectation maximization algorithms. These analyses recover three distinct skeletal morphotypes within the Aepyornithidae. Two of these morphotypes are associated with the type specimens of the existing genera <i>Mullerornis</i> and <i>Aepyornis</i>, and represent small-bodied and medium-bodied aepyornithids, respectively. <i>Aepyornis</i> contains two distinct morphometric subgroups, which are identified as the largely allopatric species <i>A. hildebrandti</i> and <i>A. maximus.</i> The third morphotype, which has not previously been recognized as a distinct genus, is described as the novel taxon <i>Vorombe titan</i>. <i>Vorombe</i> represents the largest-bodied aepyornithid and is the world's largest bird, with a mean body mass of almost 650 kg. This new taxonomic framework for the Aepyornithidae provides an important new baseline for future studies of avian evolution and the Quaternary ecology of Madagascar.
DOI: 10.6084/m9.figshare.7054442
title: TABLE S2. PCA LOADINGS AND EIGENVALUES FOR MORPHOMETRIC ANALYSES from Unexpected diversity within the extinct elephant birds (Aves: Aepyornithidae) and a new identity for the world's largest bird

description: Madagascar's now-extinct radiation of large-bodied ratites, the elephant birds (Aepyornithidae), has been subject to little modern research compared to the island's mammalian megafauna and other Late Quaternary giant birds. The family's convoluted and conflicting taxonomic history has hindered accurate interpretation of morphological diversity and has restricted modern research into their evolutionary history, biogeography and ecology. We present a new quantitative analysis of patterns of morphological diversity of aepyornithid skeletal elements, including material from all major global collections of aepyornithid skeletal remains, and constituting the first taxonomic reassessment of the family for over 50 years. Linear morphometric data collected from appendicular limb elements, and including nearly all type specimens, were examined using multivariate cluster analysis and the Bayesian Information Criterion, and with estimation of missing data using multiple imputation and expectation maximization algorithms. These analyses recover three distinct skeletal morphotypes within the Aepyornithidae. Two of these morphotypes are associated with the type specimens of the existing genera <i>Mullerornis</i> and <i>Aepyornis</i>, and represent small-bodied and medium-bodied aepyornithids, respectively. <i>Aepyornis</i> contains two distinct morphometric subgroups, which are identified as the largely allopatric species <i>A. hildebrandti</i> and <i>A. maximus.</i> The third morphotype, which has not previously been recognized as a distinct genus, is described as the novel taxon <i>Vorombe titan</i>. <i>Vorombe</i> represents the largest-bodied aepyornithid and is the world's largest bird, with a mean body mass of almost 650 kg. This new taxonomic framework for the Aepyornithidae provides an important new baseline for future studies of avian evolution and the Quaternary ecology of Madagascar.
DOI: 10.6084/m9.figshare.7054445.v1
title: TABLE S1. AEPYORNITHID LIMB BONE SPECIMENS AND MEASUREMENTS INCLUDED IN MORPHOMETRIC ANALYSIS from Unexpected diversity within the extinct elephant birds (Aves: Aepyornithidae) and a new identity for the world's largest bird

description: Madagascar's now-extinct radiation of large-bodied ratites, the elephant birds (Aepyornithidae), has been subject to little modern research compared to the island's mammalian megafauna and other Late Quaternary giant birds. The family's convoluted and conflicting taxonomic history has hindered accurate interpretation of morphological diversity and has restricted modern research into their evolutionary history, biogeography and ecology. We present a new quantitative analysis of patterns of morphological diversity of aepyornithid skeletal elements, including material from all major global collections of aepyornithid skeletal remains, and constituting the first taxonomic reassessment of the family for over 50 years. Linear morphometric data collected from appendicular limb elements, and including nearly all type specimens, were examined using multivariate cluster analysis and the Bayesian Information Criterion, and with estimation of missing data using multiple imputation and expectation maximization algorithms. These analyses recover three distinct skeletal morphotypes within the Aepyornithidae. Two of these morphotypes are associated with the type specimens of the existing genera <i>Mullerornis</i> and <i>Aepyornis</i>, and represent small-bodied and medium-bodied aepyornithids, respectively. <i>Aepyornis</i> contains two distinct morphometric subgroups, which are identified as the largely allopatric species <i>A. hildebrandti</i> and <i>A. maximus.</i> The third morphotype, which has not previously been recognized as a distinct genus, is described as the novel taxon <i>Vorombe titan</i>. <i>Vorombe</i> represents the largest-bodied aepyornithid and is the world's largest bird, with a mean body mass of almost 650 kg. This new taxonomic framework for the Aepyornithidae provides an important new baseline for future studies of avian evolution and the Quaternary ecology of Madagascar.
DOI: 10.6084/m9.figshare.7054295
title: Species distinctions among closely related strains of Eustigmatophyceae (Stramenopiles) emphasizing ITS2 sequence-structure data: <i>Eustigmatos</i> and <i>Vischeria</i>

description: There is an increasing interest in the Eustigmatophyceae, a class of stramenopile microalgae, because they offer a variety of high-value health-beneficial compounds, e.g. polyunsaturated fatty acids (PUFAs), while concomitantly producing high biomass. Clarification of the taxonomy of these organisms at the species level is important in order to achieve reproducible results and constant yields of valuable compounds in their exploitation. Here the distinction of the, so far exclusively, morphologically defined species of the genera <i>Eustigmatos</i> and <i>Vischeria</i> was tested. Distinctions inferred from almost full 18S and ITS2 rRNA as well as plastid-encoded <i>rbc</i>L gene sequences were evaluated following a morphological investigation. The ITS2 secondary-structure-based phylogenies separated independent lineages (species) with long internal branches. This recommends ITS2 as a promising marker for a DNA metabarcoding approach (culture-independent biodiversity assessment). In contrast, the 18S V4 region which is commonly used in metabarcoding was almost invariant, whereas the almost full length sequences distinguished eight groups/types of strains. Monophyly of the species was supported by shared ITS2 secondary structure features, making them distinct from other eustigmatophyte lineages in concordance with phylogenetic analyses. No groups of strains were congruently supported by all three markers. Consequently, the previous distinction of two genera on the basis of morphology cannot be retained and the species should be accommodated in a single genus, <i>Vischeria</i>. Taxonomic changes among the species with the definition of epitypes, on the basis of cryopreserved strains, are recommended. Two findings point to a more complex evolutionary history of the species. The <i>rbc</i>L and nuclear markers resulted in disparate groupings of strains. In three species divergent intragenomic ITS2 paralogues were revealed. Therefore, a still broader taxon sampling, in conjunction with a deep sequencing approach, is needed for a more comprehensive understanding of the complex evolution of eustigmatophyte species.
DOI: 10.6084/m9.figshare.7054295.v1
title: Species distinctions among closely related strains of Eustigmatophyceae (Stramenopiles) emphasizing ITS2 sequence-structure data: <i>Eustigmatos</i> and <i>Vischeria</i>

description: There is an increasing interest in the Eustigmatophyceae, a class of stramenopile microalgae, because they offer a variety of high-value health-beneficial compounds, e.g. polyunsaturated fatty acids (PUFAs), while concomitantly producing high biomass. Clarification of the taxonomy of these organisms at the species level is important in order to achieve reproducible results and constant yields of valuable compounds in their exploitation. Here the distinction of the, so far exclusively, morphologically defined species of the genera <i>Eustigmatos</i> and <i>Vischeria</i> was tested. Distinctions inferred from almost full 18S and ITS2 rRNA as well as plastid-encoded <i>rbc</i>L gene sequences were evaluated following a morphological investigation. The ITS2 secondary-structure-based phylogenies separated independent lineages (species) with long internal branches. This recommends ITS2 as a promising marker for a DNA metabarcoding approach (culture-independent biodiversity assessment). In contrast, the 18S V4 region which is commonly used in metabarcoding was almost invariant, whereas the almost full length sequences distinguished eight groups/types of strains. Monophyly of the species was supported by shared ITS2 secondary structure features, making them distinct from other eustigmatophyte lineages in concordance with phylogenetic analyses. No groups of strains were congruently supported by all three markers. Consequently, the previous distinction of two genera on the basis of morphology cannot be retained and the species should be accommodated in a single genus, <i>Vischeria</i>. Taxonomic changes among the species with the definition of epitypes, on the basis of cryopreserved strains, are recommended. Two findings point to a more complex evolutionary history of the species. The <i>rbc</i>L and nuclear markers resulted in disparate groupings of strains. In three species divergent intragenomic ITS2 paralogues were revealed. Therefore, a still broader taxon sampling, in conjunction with a deep sequencing approach, is needed for a more comprehensive understanding of the complex evolution of eustigmatophyte species.
DOI: 10.6084/m9.figshare.7054202
title: Observer dca

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7054202.v1
title: Observer dca

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7054199
title: Observer ckf

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053950
title: An Alternative Pulse Classification Algorithm Based on Multiple Wavelet Analysis

description: Data for article named: An Alternative Pulse Classification Algorithm Based on Multiple Wavelet Analysis
DOI: 10.6084/m9.figshare.7053950.v1
title: A Pulse Classification Algorithm Based on Multiple Wavelet Analysis

description: Dataset of article: 'A Pulse Classification Algorithm Based on Multiple Wavelet Analysis'
DOI: 10.6084/m9.figshare.7053872
title: Satellite images

description: satellite images
DOI: 10.6084/m9.figshare.7053839
title: Annotation dataset

description: Complete list of blast annotations and GOterms associated with our final unigene assembly.
DOI: 10.6084/m9.figshare.7053848
title: Observer sel

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053848.v1
title: Observer sel

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053836
title: Transcriptome assembly

description: Final de novo transcriptome assembly of Formica fusca
DOI: 10.6084/m9.figshare.7053833
title: Observer ofv

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053836.v1
title: Transcriptome assembly

description: Final de novo transcriptome assembly of Formica fusca
DOI: 10.6084/m9.figshare.7053830
title: Observer nzf

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053833.v1
title: Observer ofv

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053830.v1
title: Observer nzf

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053818
title: Dataset for: Structure of Asp-bound Peptidase E from Salmonella enterica: Active site at dimer interface illuminates Asp recognition

description: Peptidase-E, a non-classical serine peptidase, is specific for dipeptides with N-terminal aspartate. This stringent substrate specificity remains largely unexplained. We report an aspartate-bound structure of Peptidase-E at 1.83 Å resolution. In contrast to previous reports, the enzyme forms a dimer and the active site is located at dimer interface, well shielded from the solvent. Role of functionally important residues can now be explained on the basis of new structural information. Stringent aspartate specificity of the enzyme is due to electrostatics and molecular complementarity in the active site.
DOI: 10.6084/m9.figshare.7053824
title: Observer nkh

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053818.v1
title: Dataset for: Structure of Asp-bound Peptidase E from Salmonella enterica: Active site at dimer interface illuminates Asp recognition

description: Peptidase-E, a non-classical serine peptidase, is specific for dipeptides with N-terminal aspartate. This stringent substrate specificity remains largely unexplained. We report an aspartate-bound structure of Peptidase-E at 1.83 Å resolution. In contrast to previous reports, the enzyme forms a dimer and the active site is located at dimer interface, well shielded from the solvent. Role of functionally important residues can now be explained on the basis of new structural information. Stringent aspartate specificity of the enzyme is due to electrostatics and molecular complementarity in the active site.
DOI: 10.6084/m9.figshare.7053824.v1
title: Observer nkh

description: The instructions how to use this data set are available in a text file titled 'The relative contribution of color and material in object selection.txt' which can be found at https://github.com/BrainardLab/ColorMaterial .
DOI: 10.6084/m9.figshare.7053815
title: Dataset for: Tripeptide binding in a Proton-Dependent Oligopeptide Transporter

description: Proton-dependent oligopeptide transporters (POTs) are important for uptake of di-/tripeptides in many organisms and for drug transport in humans. The binding mode of dipeptides has been well described. However, it is still debated how tripeptides are recognized. Here we show that tripeptides of the sequence Phe-Ala-Xxx bind with similar affinities as dipeptides to the POT transporter from Streptococcus thermophilus (PepTSt). We furthermore determined a 2.3-Å structure of PepTSt in complex with Phe-Ala-Gln. Here the phenylalanine and alanine residues of the peptide adopt the same positions as previously observed for the Phe-Ala dipeptide, while the glutamine side chain extends into a hitherto uncharacterized pocket. This pocket is adaptable in size and can likely accommodate a wide variety of peptide side chains.
DOI: 10.6084/m9.figshare.7053701.v1
title: Data-files of ecology and evolution.xlsx

description: The data of manuscripts number ECE-2018-09-01065 of the journal "ecology and evolution"
DOI: 10.6084/m9.figshare.7053701.v2
title: Data-files of ecology and evolution.xlsx

description: The data of manuscripts number ECE-2018-09-01065 of the journal "ecology and evolution"
DOI: 10.6084/m9.figshare.7053701
title: Data-files of ecology and evolution.xlsx

description: The data of manuscripts number ECE-2018-09-01065 of the journal "ecology and evolution"