Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
452
datasets available to search
ShareScore release 0.9.0
Dataset results
452 results for “Mitogenomics”
Supplementary material 3 from: Yang C, Du X, Liu Y, Yuan H, Wang Q, Hou X, Gong H, Wang Y, Huang Y, Li X, Ye H (2022) Comparative mitogenomics of the genus Motacilla (Aves, Passeriformes) and its phylogenetic implications. ZooKeys 1109: 49-65. https://doi.org/10.3897/zookeys.1109.81125
Figure S3
Fig. 3. The Bayesian topology plotted onto a in Phylogeny of the Hawkmoth Tribe Ambulycini (Lepidoptera: Sphingidae): Mitogenomes from Museum Specimens Resolve Major Relationships
Fig. 3. The Bayesian topology plotted onto a map of the Earth.
Figure 1 from: Conrado AC, Arruda H, Stanton DWG, James SW, Kille P, Brown G, Silva E, Dupont L, Taheri S, Morgan AJ, Simões N, Rodrigues A, Montiel R, Cunha L (2017) The complete mitochondrial DNA sequence of the pantropical earthworm Pontoscolex corethrurus (Rhinodrilidae, Clitellata): Mitogenome characterization and phylogenetic positioning. ZooKeys 688: 1-13. https://doi.org/10.3897/zookeys.688.13721
Figure 1 - The mitochondrial genome of Pontoscolex corethrurus (Müller, 1857). Gene order and positions are shown, including the putative control region. IUPAC single letter codes are used to identify transfer RNA. The L1, L2, S1, and S2 transfer RNAs are differentiated on the basis of their anti-codons TAG, TAA, TCT, and TGA, respectively.
Figure 2 from: Conrado AC, Arruda H, Stanton DWG, James SW, Kille P, Brown G, Silva E, Dupont L, Taheri S, Morgan AJ, Simões N, Rodrigues A, Montiel R, Cunha L (2017) The complete mitochondrial DNA sequence of the pantropical earthworm Pontoscolex corethrurus (Rhinodrilidae, Clitellata): Mitogenome characterization and phylogenetic positioning. ZooKeys 688: 1-13. https://doi.org/10.3897/zookeys.688.13721
Figure 2 - Phylogenetic relationships among phylum Annelida based on the combined 13,416 bp nucleotide positions. Total alignment length is greater than the combined P. corethrurus protein coding and rRNA sequence lengths due to overlapping protein coding sequences that are subsequently concatenated, and indel regions in the alignment. The posterior probability value of BI analyses and bootstrap support values of ML analyses (in the order: BI, ML) are indicated near the branches.
Figure 7 from: Niu W, Yu S, Tian P, Xiao J (2018) Complete mitochondrial genome of Echinophyllia aspera (Scleractinia, Lobophylliidae): Mitogenome characterization and phylogenetic positioning. ZooKeys 793: 1-14. https://doi.org/10.3897/zookeys.793.28977
Figure 7 Inferred phylogenetic relationships based on the concatenated nucleotide sequences of 13 mitochondrial protein-coding genes using Bayesian inference (BI) and maximum likelihood (ML). Numbers on branches are Bayesian posterior probabilities and bootstrap percentages.
Figure 2 from: Niu W, Yu S, Tian P, Xiao J (2018) Complete mitochondrial genome of Echinophyllia aspera (Scleractinia, Lobophylliidae): Mitogenome characterization and phylogenetic positioning. ZooKeys 793: 1-14. https://doi.org/10.3897/zookeys.793.28977
Figure 2 The mitochondrial genome of Echinophylliaaspera. Gene order and positions are shown; all the genes are encoded on H-strand. COI, COII, COIII refer to the cytochrome oxidase subunits, Cyt b refers to cytochrome b, ND1-ND6 refer to NADH dehydrogenase components.
Figure 1 from: Korábek O, Petrusek A, Rovatsos M (2019) The complete mitogenome of Helix pomatia and the basal phylogeny of Helicinae (Gastropoda, Stylommatophora, Helicidae). ZooKeys 827: 19-30. https://doi.org/10.3897/zookeys.827.33057
Figure 1 The inferred phylogenetic relationships between the five helicid mitogenomes available. Branch supports are given for maximum likelihood analyses based on nucleotide data, amino acid data under homogeneous model, and amino acid data under site-heterogeneous model (in this order). The latter was run under alternative settings, see details in the text. Shimodaira–Hasegawa-like approximate likelihood ratio test (SH-aLRT) and standard bootstrap percentages (BP) are reported. Values of SH-aLRT >90 % and BP >75 % are considered positive support. Cylindrus is included as an outgroup.
Dataset for Mitogenome Assembly Training, part of the Galaxy Training Network (GTN)
Open the record for dataset details and reuse information.
Fig. 3 in Divergent evolution of mitogenomics in Cetartiodactyla niche adaptation
Fig. 3 Sequence identity plots based on 11 Cetartiodactyla species
Fig. 4 in Divergent evolution of mitogenomics in Cetartiodactyla niche adaptation
Fig. 4 The Bayesian inference tree of Cetartiodactyla based on 13 protein-coding gene datasets
TABLE 1 in Contribution to the Chinese subfamily Rhaphidophorinae Walker, 1869 (Orthoptera: Rhaphidophoridae: Rhaphidophorinae) IV: Seven new species of Rhaphidophora and one new mitogenome
<p>TABLE 1. Annotation and gene organization of the <i>Rhaphidophora quadrispina</i> mitogenome.</p><table><tbody><tr><th>Gene</th><th><b>Strand</b></th><th><b>Location</b></th><th><b>Size (bp)</b></th><th><b>ovl/nc</b></th><th><b>Codons</b></th><th><b>Anticodon</b></th></tr></tbody><tbody><tr><th>trnaI</th><td>J</td><td>1 <b>–</b> 65</td><td>65</td><td>-3</td><td></td><td>GAT</td></tr><tr><th>trnaQ</th><td>N</td><td>63 <b>–</b> 131</td><td>69</td><td>7</td><td></td><td>TTG</td></tr><tr><th>trnaM</th><td>J</td><td>139 <b>–</b> 208</td><td>70</td><td>0</td><td></td><td>CAT</td></tr><tr><th>ND2</th><td>J</td><td>209 <b>–</b> 1237</td><td>1029</td><td>-1</td><td>ATG/TAA</td><td></td></tr><tr><th>trnaW</th><td>J</td><td>1237 <b>–</b> 1303</td><td>67</td><td>-8</td><td></td><td>TCA</td></tr><tr><th>trnaC</th><td>N</td><td>1296 <b>–</b> 1365</td><td>70</td><td>12</td><td></td><td>GCA</td></tr><tr><th>trnaY</th><td>N</td><td>1378 <b>–</b> 1444</td><td>67</td><td>-8</td><td></td><td>GTA</td></tr><tr><th>COI</th><td>J</td><td>1437 <b>–</b> 2981</td><td>1545</td><td>-5</td><td>ATT/TAA</td><td></td></tr><tr><th>trnaL2</th><td>J</td><td>2977 <b>–</b> 3042</td><td>66</td><td>0</td><td></td><td>TAA</td></tr><tr><th>COII</th><td>J</td><td>3043 <b>–</b> 3732</td><td>690</td><td>2</td><td>ATT/TAA</td><td></td></tr><tr><th>trnaR</th><td>J</td><td>3735 <b>–</b> 3804</td><td>70</td><td>-1</td><td></td><td>CTT</td></tr><tr><th>trnaD</th><td>J</td><td>3804 <b>–</b> 3871</td><td>68</td><td>0</td><td></td><td>GTC</td></tr><tr><th>ATP8</th><td>J</td><td>3872 <b>–</b> 4030</td><td><b>159</b></td><td>-7</td><td>ATT/TAA</td><td></td></tr><tr><th>ATP6</th><td>J</td><td>4024 <b>–</b> 4701</td><td>678</td><td>2</td><td>ATG/TAA</td><td></td></tr><tr><th>COIII</th><td>J</td><td>4704 <b>–</b> 5492</td><td>789</td><td>9</td><td>ATG/TAA</td><td></td></tr><tr><th>trnaG</th><td>J</td><td>5502 <b>–</b> 5567</td><td>66</td><td>0</td><td></td><td>TCC</td></tr><tr><th>ND3</th><td>J</td><td>5568 <b>–</b> 5921</td><td>354</td><td>-2</td><td>ATT/TAG</td><td></td></tr><tr><th>trnaA</th><td>J</td><td>5920 <b>–</b> 5983</td><td>64</td><td>-1</td><td></td><td>TGC</td></tr><tr><th>trnaR</th><td>J</td><td>5983 <b>–</b> 6047</td><td>65</td><td>4</td><td></td><td>TCG</td></tr><tr><th>trnaN</th><td>J</td><td>6052 <b>–</b> 6118</td><td>67</td><td>0</td><td></td><td>GTT</td></tr><tr><th>trnaS1</th><td>J</td><td>6119 <b>–</b> 6185</td><td>67</td><td>14</td><td></td><td>GCT</td></tr><tr><th>trnaE</th><td>J</td><td>6200 <b>–</b> 6265</td><td>66</td><td>8</td><td></td><td>TTC</td></tr><tr><th>trnaF</th><td>N</td><td>6264 <b>–</b> 6329</td><td>66</td><td>-3</td><td></td><td>GAA</td></tr><tr><th>ND5</th><td>N</td><td>6327 <b>–</b> 8061</td><td><b>1735</b></td><td>0</td><td><b>GTG</b> /T(AA)</td><td></td></tr><tr><th>trnaH</th><td>N</td><td>8062 <b>–</b> 8125</td><td>64</td><td>3</td><td></td><td>GTG</td></tr><tr><th>ND4</th><td>N</td><td>8129 <b>–</b> 9464</td><td>1336</td><td>-7</td><td>ATG/T(AA)</td><td></td></tr><tr><th>ND4L</th><td>N</td><td>9458 <b>–</b> 9751</td><td>294</td><td>7</td><td>ATG/TAA</td><td></td></tr><tr><th>trnaT</th><td>J</td><td>9759 <b>–</b> 9824</td><td>66</td><td>0</td><td></td><td>TGT</td></tr><tr><th>trnaP</th><td>N</td><td>9825 <b>–</b> 9891</td><td>67</td><td>2</td><td></td><td>TGG</td></tr><tr><th>ND6</th><td>J</td><td>9894 <b>–</b> 10421</td><td>528</td><td>-1</td><td>ATT/TAA</td><td></td></tr><tr><th>CytB</th><td>J</td><td>10421 <b>–</b> 11557</td><td>1137</td><td>2</td><td>ATG/TAA</td><td></td></tr><tr><th>trnaS2</th><td>J</td><td>11560 <b>–</b> 11628</td><td>69</td><td>16</td><td></td><td>TGA</td></tr><tr><th>ND1</th><td>N</td><td>11645 <b>–</b> 12580</td><td>936</td><td>15</td><td>TTG/TAG</td><td></td></tr><tr><th>trnaL1</th><td>N</td><td>12596 -12660</td><td>65</td><td><b>-23</b></td><td></td><td>TAG</td></tr><tr><th>rrnL</th><td>N</td><td>12638 <b>–</b> 13950</td><td>1313</td><td><b>30</b></td><td></td><td></td></tr><tr><th>trnaV</th><td>N</td><td>13981 <b>–</b> 14052</td><td>72</td><td>0</td><td></td><td>TAC</td></tr><tr><th>rrnS</th><td>N</td><td>14053 <b>–</b> 14843</td><td>791</td><td>0</td><td></td><td></td></tr><tr><th>CR</th><td></td><td>14844 <b>–</b> 15892</td><td>1048</td><td></td><td></td><td></td></tr></tbody></table>
TABLE 2 in Contribution to the Chinese subfamily Rhaphidophorinae Walker, 1869 (Orthoptera: Rhaphidophoridae: Rhaphidophorinae) IV: Seven new species of Rhaphidophora and one new mitogenome
<p>TABLE 2. Nucleotide composition and skew of <i>Rhaphidophora quadrispina</i> mitogenome.</p><table><tbody><tr><th></th><th>A%</th><th>T%</th><th>C%</th><th>G%</th><th>A+T%</th><th>AT-skew</th><th>GC-skew</th></tr></tbody><tbody><tr><th>Genome</th><td>41.35</td><td>34.18</td><td>14.84</td><td>9.62</td><td>75.53</td><td>0.09</td><td>-0.21</td></tr><tr><th>PCGs</th><td>40.78</td><td>33.52</td><td>15.40</td><td>10.30</td><td>74.30</td><td>0.10</td><td>-0.20</td></tr><tr><th>PCGs-1st</th><td>37.89</td><td>36.21</td><td>17.10</td><td>8.80</td><td>74.10</td><td><b>0.02</b></td><td>-0.32</td></tr><tr><th>PCGs-2nd</th><td>47.00</td><td>34.15</td><td>11.94</td><td>6.91</td><td>81.15</td><td>0.16</td><td>-0.27</td></tr><tr><th>PCGs-3rd</th><td>37.45</td><td>30.19</td><td>17.16</td><td>15.20</td><td>67.64</td><td>0.11</td><td><b>-0.06</b></td></tr><tr><th>tRNAs</th><td>38.01</td><td>13.33</td><td>37.87</td><td>10.78</td><td><b>51.34</b></td><td><b>0.48</b></td><td><b>-0.56</b></td></tr><tr><th>rRNAs</th><td>44.58</td><td>33.32</td><td>14.40</td><td>7.70</td><td>77.90</td><td>0.14</td><td>-0.30</td></tr><tr><th>CR</th><td>39.94</td><td>41.75</td><td>12.68</td><td>5.62</td><td><b>81.69</b></td><td><b>-0.02</b></td><td>-0.39</td></tr></tbody></table>
Figure 2 in Complete mitogenome of Chinese shrew mole Uropsilus soricipes (Milne- Edwards, 1871) (Mammalia: Talpidae) and genetic structure of the species in the Jiajin Mountains (China)
Figure 2. Gene content and organization of mitochondrial genome of Uropsilus soricipes.
FIGURE 1 in First record of Seira dowlingi (Wray, 1953) (Collembola, Entomobryidae, Seirinae) from China and mitogenome comparison with the New World specimens
FIGURE 1. Habitus of a Chinese specimen of Seira dowlingi preserved in ethanol (Scale bar: 500μm).
Figure 5. The polymorphism sites among the 25 in Biased heteroplasmy within the mitogenomic sequences of Gigantometra gigas revealed by sanger and high-throughput methods
Figure 5. The polymorphism sites among the 25 different cloning sequences of cox1. Weblogo 3.0 was used to show the nucleotide content of 25 cloning sequences of cox1 (Crooks et al., 2004). The abscissa stands for the number of the bases, while the ordinate stands for the proportion of nucleotide content provided by the 25 different cloning sequences in the same position. The sequence length between the two arrows stands for the barcode fragment size of cox1. The black triangles show the polymorphism positions in the 25 different cloning sequences, the red circles show the positions exhibited obvious second-peak in the results of direct Sanger sequencing without cloning, and the yellow stars show the different sites between the results of Sanger and HTS.
Figure 2 in Biased heteroplasmy within the mitogenomic sequences of Gigantometra gigas revealed by sanger and high-throughput methods
Figure 2. The different nucleotides of all 13 PCGs in mitogenomes obtained by Sanger and HTS sequencing. The different sequences of HTS sequencing are separately compared with the consequence of Sanger method. The horizontal axis stands for the nucleotide position, of which the sequences of 13 PCGs are ordered according to the circular mitochondrial DNA from nad2 to nad1 in the clockwise direction. The vertical axis stands for the number of the different sites in the sequences of 13 PCGs, and the different nucleotide in each site of all three HTS sequences compared with Sanger is shown in the corresponding panel.
FIGURE 3. The K2P in Comparative mitogenomes and phylogenetic analysisreveal taxonomicrelationship of genera Teredorus and Systolederus (Orthoptera, Tetrigoidea)
FIGURE 3. The K2P distances among three Teredorus species and Systolederus spicupennis.
Figure 3 from: Zhao L, Gao T, Lu W (2015) Complete mitochondrial DNA sequence of the endangered fish (Bahaba taipingensis): Mitogenome characterization and phylogenetic implications. ZooKeys 546: 181-195. https://doi.org/10.3897/zookeys.546.5964
Figure 3 - Phylogenetic relationships among Sciaenidae species based on the combined 9988 bp nucleotide positions. The posterior probability value of BI analyses and bootstrap support values of ML analyses (in the order: BI, ML) are indicated near the branches.
Figure 2 from: Zhao L, Gao T, Lu W (2015) Complete mitochondrial DNA sequence of the endangered fish (Bahaba taipingensis): Mitogenome characterization and phylogenetic implications. ZooKeys 546: 181-195. https://doi.org/10.3897/zookeys.546.5964
Figure 2 - Potential secondary structure of the origin of L-strand replication (OL) of Bahaba taipingensis mtDNA.
Supplementary material 3 from: Sullivan JP, Hopkins CD, Pirro S, Peterson R, Chakona A, Mutizwa TI, Mukweze Mulelenu C, Alqahtani FH, Vreven E, Dillman CB (2022) Mitogenome recovered from a 19 th Century holotype by shotgun sequencing supplies a generic name for an orphaned clade of African weakly electric fishes (Osteoglossomorpha, Mormyridae). ZooKeys 1129: 163-196. https://doi.org/10.3897/zookeys.1129.90287
Cyt b plus nuclear markers phylogenetic analysis
ScienceDex guides
Understand access before you commit
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.