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54 results for “cytochrome oxidase subunit I”
Fig. 7. Maximum-likelihood tree for the mitochondrial DNA gene Cytochrome Oxidase C subunit 1 in A new species of the catfish Neoplecostomus (Loricariidae: Neoplecostominae) from a coastal drainage in southeastern Brazil
Fig. 7. Maximum-likelihood tree for the mitochondrial DNA gene Cytochrome Oxidase C subunit 1 for specimens of Neoplecostomus microps from rio Paraíba do Sul, rio Guapi- Açu and rio Macaé, and of Neoplecostomus paraty, using TN93+G model (n=21). Neoplecostomus paranensis and Neoplecostomus ribeirensis were used as outgroups.
Fig. 3. Cytochrome c oxidase subunit I in Analysis of COI gene, prevalence, and intensity of the bat fly Cyclopodia greeffi on roosting straw-coloured fruit bat Eidolon helvum in Southwest Nigeria
Fig. 3. Cytochrome c oxidase subunit I (COI) gene sequence phylogeny showing the relationship between Cyclopodia greeffi and other species of the same and different genera. Values obtained from Bayesian posterior are presented as supports at the nodes. BI – Bayesian posterior probability value.
MetaCOXI: An integrated collection of metazoan cytochrome oxidase subunit-I DNA sequences
<p><strong>MetaCOXI Sequences Taxonomy and Metadata</strong></p> <p>This collection is based on the integration of the European Nucleotide Archive (ENA, release 142) and the Barcode of Life Data Systems (BOLD: <a href="http://www.boldsystems.org/">http://www.boldsystems.org/</a>) data.</p> <p><strong>CONTENT: </strong>Currently it contains 5,608,848 entries of metazoan COXI sequences and their corresponding taxonomic classification and metadata. <em>MetaCOXI_Seqs.tar.gz</em> contains the full sequence collection in 'fasta' format. <em>MetaCOXI_Taxonomy_Metadata.tar.gz</em> contains the entries-associated taxonomy path and additional metadata</p> <p>Taxonomic path are provided for the following seven levels with their NCBI-TaxIDs: Kingdom, Phylum, Class, Order, Family, Genus, Species.</p> <p>For additional information visit: https://github.com/bachob5/MetaCOXI</p>
MetaCOXI: An integrated collection of metazoan cytochrome oxidase subunit-I DNA sequences
<p><strong>MetaCOXI Sequences in fasta format</strong></p> <p>This collection is based on the integration of the European Nucleotide Archive (ENA, release 142) and the Barcode of Life Data Systems (BOLD: http://www.boldsystems.org/) data.</p> <p><strong>CONTENT: </strong>Currently it contains 5,608,848 entries of metazoan COXI sequences and their corresponding taxonomic classification and metadata. MetaCOXI_Seqs_1.tar.gz contains the full sequence collection in 'fasta' format. MetaCOXI_Taxonomy_Metadata.tar.gz contains the entries-associated taxonomy path and additional metadata</p> <p>Taxonomic path are provided for the following seven levels with their NCBI-TaxIDs: Kingdom, Phylum, Class, Order, Family, Genus, Species.</p> <p>For additional information visit: https://github.com/bachob5/MetaCOXI</p>
Fig. 2. Genealogical relationships among 11 cytochrome oxidase subunit 1 in Population genetics of Oligonychus perseae (Acari: Tetranychidae) collected from avocados in Mexico and California
Fig. 2. Genealogical relationships among 11 cytochrome oxidase subunit 1 (COI) haplotypes detected in Oligonychus perseae populations in California, Mexico, and Costa Rica. Additional congeneric and outgroup sequences were retrieved from GenBank. Maximum likelihood tree constructed from a 305 base pair section of COI using PhyML. Support (aLRT) for major branches is shown.
Fig. 5. Maximum Likelihood tree, produced with Cytochrome oxidase subunit I in Morphological and Molecular Evidence Reveals the Longnose Skate (Marini, 1933) to be a Senior Synonym of Concha, Caira, Ebert & Pompert 2019.
Fig. 5. Maximum Likelihood tree, produced with Cytochrome oxidase subunit I (COI) sequences of Dipturus argentinensis, D. lamillai, Zearaja brevicaudata, Z. chilensis, Z. nasuta and Amblyraja doellojuradoi as outgoup. Barcode Index Number assigned by Barcode of Life Datasystem (A) and the results of species delimitation analyses using bPTP (B) and ABGD (C) algorithms are shown as vertical bars on the right. Dipturus lamillai sequences are marked in bold.
Figure 1 in A comprehensive phylogenetic analysis of Grapsoidea crabs (Decapoda: Brachyura) based on mitochondrial cytochrome oxidase subunit 1 (CO1) genes
Figure 1. PCR images of eight Grapsoidea species. "1" is S. sinensis; "2" is C. sinensis; "3" is P. bidens; "4" is H. latimera; "5" is H. tientsinensis; "6" is H. wuana; "7" is H. sanguineus; "8" is V. litterata.
Figure. Phylogram showing phylogenetic relationships estimated using maximum likelihood analysis of 16S rRNA and COXI gene revealed the grouping of Orthochirus iranus, O. farzanpay, O. stockwelli, O. zagrosensis, O. innesi (JQ514244.1 Morocco), and O. bicolor (KT716038.1 India), with the outgroup species Androctonus crassicauda (FJ217732). in A study of genetic diversity among different population of Orthochirus sp. based on cytochrome C oxidase subunit I and 16srRNA sequencing
Figure. Phylogram showing phylogenetic relationships estimated using maximum likelihood analysis of 16S rRNA and COXI gene revealed the grouping of Orthochirus iranus, O. farzanpay, O. stockwelli, O. zagrosensis, O. innesi (JQ514244.1 Morocco), and O. bicolor (KT716038.1 India), with the outgroup species Androctonus crassicauda (FJ217732).
Figure 5. A minimum evolution tree using cytochrome c oxidase subunit 1 in DNA barcoding of black cherry aphid Myzus cerasi (Fabricus, 1775) (Hemiptera: Aphididae) populations collected from Prunus avium and Prunus cerasus
Figure 5. A minimum evolution tree using cytochrome c oxidase subunit 1 sequences from Myzus cerasi populations.
Figure 4. A maximum likelihood tree using cytochrome c oxidase subunit 1 in DNA barcoding of black cherry aphid Myzus cerasi (Fabricus, 1775) (Hemiptera: Aphididae) populations collected from Prunus avium and Prunus cerasus
Figure 4. A maximum likelihood tree using cytochrome c oxidase subunit 1 sequences from Myzus cerasi populations.
Fig. 3. Blattella vaga cytochrome c oxidase subunit I in First record of Blattella vaga (Blattodea: Ectobiidae) from southern Alabama
Fig. 3. Blattella vaga cytochrome c oxidase subunit I-like protein gene, partial sequence; mitochondrial gene for mitochondrial product. Using GenBank data Sequence ID: AF228735.1, Length: 1,235, there was one 98% match confirming that the sequence for the wild-caught male cockroach matched the published sequence for B. vaga.
Figure 2. Bayesian phylogram for cytochrome c oxidase subunit I sequences. Upper Sacramento River basin haplotypes are distributed among clades A–D in Extensive diversification of pebblesnails (Lithoglyphidae: Fluminicola) in the upper Sacramento River basin, northwestern USA
Figure 2. Bayesian phylogram for cytochrome c oxidase subunit I sequences. Upper Sacramento River basin haplotypes are distributed among clades A–D. Posterior probability values ≥ 90% are shown. Upper Sacramento River basin lineages newly discovered in this study are highlighted by the larger font. Specimen codes are from Table 1.
Figure S1 in A comprehensive phylogenetic analysis of Grapsoidea crabs (Decapoda: Brachyura) based on mitochondrial cytochrome oxidase subunit 1 (CO1) genes
Figure S1. Nucleotide sequences alignment information of the CO1 genes of eight Grapsoidea species.
Figure 3. Tetractinellida cytochrome c oxidase subunit I in An unprecedented new genus and family of Tetractinellida (Porifera, Demospongiae) from New Zealand's Colville Ridge, with a new type of mitochondrial group I intron
Figure 3. Tetractinellida cytochrome c oxidase subunit I (COI) maximum likelihood (ML) trees reconstructed with RAxML under the generalized time-reversible Gamma – GTRGAMMA – model: 140 sequences At each key node, ML bootstrap supports (100 bootstrap replicates) and Bayesian posterior probabilities are given. There are two bootstrap supports: nucleotide analyses/amino-acid analyses (only bootstrap supports above 50 are shown). GenBank accession numbers are given after each taxon name. Presence of mitochondrial introns are given in the COI tree (the number given to each intron indicates its position with respect to the Amphimedon queenslandica complete COI as reference).
Figure 4. Bootstrap consensus neigbor-joining tree deduced from the cytochrome c oxidase subunit I in A revision of the Monopis monachella species complex (Lepidoptera: Tineidae) from China
Figure 4. Bootstrap consensus neigbor-joining tree deduced from the cytochrome c oxidase subunit I gene sequences. Numbers indicate bootstrap proportions (%).
Figure 5. Bootstrap consensus minimum evolution tree deduced from the cytochrome c oxidase subunit I in A revision of the Monopis monachella species complex (Lepidoptera: Tineidae) from China
Figure 5. Bootstrap consensus minimum evolution tree deduced from the cytochrome c oxidase subunit I gene sequences. Numbers indicate bootstrap proportions (%).
Figure 4 in Cytochrome c oxidase subunit I barcode species delineation methods imply critically underestimated diversity in 'common' Hermeuptychia butterflies (Lepidoptera: Nymphalidae: Satyrinae)
Figure 4. Percentage of pairwise comparisons within each class of genetic distances (p-distance) for Hermeuptychia sequences calculated between (black bars) and within (grey bars) species. Species delimitation was based on the recursive partitioning ABGD analysis.
Figure 3. A in Cytochrome c oxidase subunit I barcode species delineation methods imply critically underestimated diversity in 'common' Hermeuptychia butterflies (Lepidoptera: Nymphalidae: Satyrinae)
Figure 3. A, relationships from our phylogenetic analyses based on Bayesian inference. Support values> 50 are indicated with posterior probability values indicated above the branch and bootstrap values indicated below the branch. Names and morphology group symbols are as presented in Seraphim et al. (2014), 'ns' indicates new sequences, and numbers in parentheses indicate the number of species within clades as indicated by the ABGD (recursive partitioning) approach. B, relationships among Hermeuptychia species redrawn from the phylogeny presented in Seraphim et al. (2014), for comparison.
Figure 2 in Cytochrome c oxidase subunit I barcode species delineation methods imply critically underestimated diversity in 'common' Hermeuptychia butterflies (Lepidoptera: Nymphalidae: Satyrinae)
Figure 2. Bayesian inference (BEAST2) tree for Hermeuptychia COI barcode sequences with posterior probabilities (top)> 0.5 and bootstrap values (bottom)> 50 indicated. Sequences generated in this study have voucher numbers beginning 'LEP' or 'IN' and are highlighted in blue. Species boundaries as indicated by the three most plausible implementations of each approach, bPTP (ML) (black), ABGD (recursive partitioning) (green) and GMYC (multiple thresholds) (grey), are illustrated as coloured bars on the side. * indicates groups that were recovered as one putative species but appear separated owing to the underlying phylogeny. Red vertical bars denote putative species that do not include an previously published sequences. Horizontal coloured bars and symbols beside sample voucher names denote morphology groupings identified in Seraphim et al. (2014).
FIGURE 1. Neighbor-joining tree for cytochrome c oxidase subunit I in Description of a new Kempnyia Klapálek from Brazil (Plecoptera: Perlidae) with life stages associated using DNA barcodes
FIGURE 1. Neighbor-joining tree for cytochrome c oxidase subunit I (COI) sequences (450 bp) from Kempnyia KlapÁlek and related stoneflies from Rio de Janeiro, Brazil modeled by Kimura-2-parameter (K2P).
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