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452 results for “Mitogenomics”
The invasive land flatworm Arthurdendyus triangulatus: repeated sequences in the mitogenome, extra-long cox2 gene and paralogous rRNA clusters
<p>Fasta and tbl files for the mitogenomes of various Rhynchodeminae</p>
Figure 8 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 8 Dugesia ancoraria, paratype RMNH.VER.21525.1, sagittal sections. A. Photomicrograph showing ejaculatory duct, penis papilla, and seminal vesicle; B. Photomicrograph showing copulatory bursa, common atrium, and gonopore; C. Photomicrograph showing copulatory bursa, and bursal canal. Scale bars: 100 μm.
Figure 6 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 6 Dugesia ancoraria, holotype PLA-0101, sagittal sections, anterior to the right. A. Photomicrograph showing copulatory bursa, ejaculatory duct, penis papilla, and seminal vesicle; B. Photomicrograph showing copulatory bursa, bursal canal, and gonopore; C. Photomicrograph showing copulatory bursa, and bursal canal. Scale bars: 100 μm.
Figure 5 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 5 External morphology of Dugesia ancoraria. A. Living sexual animal in dorsal view; B. Living sexual animal in ventral view; C. Anterior end, dorsal view; D. Ventral view of rear end, showing pharynx, mouth and gonopore. Scale bars: 500 μm.
Figure 4 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 4 Possible mechanisms of mitochondrial gene rearrangement in Continenticola estimated using CREx, with reference to phylogenetic relationships. On the left-hand side, phylogenetic tree obtained from Maximum likelihood and Bayesian analysis of the concatenated dataset for the protein-coding and rRNA genes within mitochondrial genomes; numbers at nodes indicate support values (pp/bs); Asterisks (*) indicate that bootstrap is not applicable to these nodes because of different topologies of trees generated by BI and ML methods. Pink lines connect species that share the same gene order. On the right-hand side, changes of gene order in mitochondrial genomes in several species of triclad; protein-coding genes in blue, tRNA genes in white, rRNA genes in grey; lines with different colours indicate transpositions of different genes; red lines indicate tandem duplication random loss (TDRL) events between species, while the orange colour indicates where TDRL events occurred.
Figure 2 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 2 Maximum likelihood phylogenetic tree topology inferred from the concatenated dataset (18S rDNA, ITS-1, 28S rDNA and COI). Numbers at nodes indicate support values (bootstrap/ posterior probability). Asterisks (*) indicate support values lower than 50% bs/0.50 pp, or posterior probability not applicable to this node, because of different topologies of trees generated by BI and ML methods. Scale bar: substitutions per site.
Figure 3 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 3 Arrangement of the mitochondrial genome of Dugesia ancoraria. Outer circle: annotation of genes, with protein-coding genes, ribosomal RNAs and transfer RNAs represented by cyan, orange, and red, respectively. Intermediate circle: sequencing coverage, with green colour indicating coverage greater than 95% average coverage. Inner circle, with the blue colour indicating GC content and the thin orange circle indicating 50% of GC content. The picture in the middle represents an individual of D. ancoraria.
Figure 1 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 1 Locality and habitat of Dugesia ancoraria. A. Sampling locality in Guangdong Province, China; B, C. Habitat at sampling locality.
Figure 7 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 7 Dugesia ancoraria, paratype PLA-0102, sagittal sections. A. Photomicrograph showing ejaculatory duct, penis papilla, and seminal vesicle; B. Photomicrograph showing copulatory bursa, bursal canal, and gonopore. Scale bars: 100 μm.
Supplementary material 1 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Bayesian inference phylogenetic tree topology
Figure 9 from: Zhu Y, Huang J, Sluys R, Liu Y, Sun T, Wang A-T, Zhang Y (2024) Integrative description of a new species of Dugesia (Platyhelminthes, Tricladida, Dugesiidae) from southern China, with its complete mitogenome and a biogeographic evaluation. Zoosystematics and Evolution 100(1): 167-182. https://doi.org/10.3897/zse.100.114016
Figure 9 Dugesia ancoraria, Sagittal reconstruction of the copulatory apparatus of the holotype. A. Male copulatory apparatus; B. Female copulatory apparatus. Scale bars: 100 μm.
Figure 8 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 8 M. orthomargina, female A body, dorsal view B the same, lateral view C head and anterior part of pronotum, dorsal view D the same, lateral view E head, frontal view.
Figure 9 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 9 M. orthomargina, female A left fore femur, lateral view B left mid femur, lateral view C left hind femur, lateral view D left hind tibia, lateral view E left posterior tarsus, lateral view F subgenital plate of female, lateral view G subgenital plate of female, ventral view. male, paratype.
Figure 6 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 6 Macromotettixoides maoershanensis sp. nov., holotype female A body, dorsal view B the same, lateral view C head and anterior part of pronotum, dorsal view D the same, lateral view E head, frontal view.
Figure 7 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 7 Macromotettixoides maoershanensis sp. nov., holotype female A left fore femur, lateral view B left mid femur, lateral view C left hind femur, lateral view D left hind tibia, lateral view E left posterior tarsus, lateral view F subgenital plate of female, lateral view G subgenital plate of female, ventral view. male, paratype H body in dorsal view I body in lateral view.
Figure 2 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 2 Relative synonymous codon usage (RSCU) of the mitochondrial genomes of three species in Macromotettixoides.
Figure 1 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 1 Circular map of the mitogenomes AM. orthomarginaBM. maoershanensis sp. nov. CM. brachycorna sp. nov.
Figure 10 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 10 Macromotettixoides brachycorna sp. nov., holotype female A body, dorsal view B the same, lateral view C head and anterior part of pronotum, dorsal view D head, lateral view E head and anterior part of pronotum, frontal view F left fore femur, lateral view G left mid femur, lateral view.
Figure 11 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Figure 11 Macromotettixoides brachycorna sp. nov., holotype female A left hind femur, lateral view B left hind tibia, lateral view C left posterior tarsus, lateral view D subgenital plate of female, lateral view E subgenital plate of female, ventral view. male, paratype F body in dorsal view G body in lateral view.
Supplementary material 2 from: Reyes-Velasco J, Goutte S, Freilich X, Boissinot S (2021) Mitogenomics of historical type specimens clarifies the taxonomy of Ethiopian Ptychadena Boulenger, 1917 (Anura, Ptychadenidae). ZooKeys 1070: 135-149. https://doi.org/10.3897/zookeys.1070.66598
Table S1
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.