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865 results for “Mitochondrial genomes”
Figure 3 in New data on the mitochondrial genome of Nematocera (lower Diptera): features, structures and phylogenetic implications
Figure 3. Structures of AT-rich regions in three nematoceran species. The location and copy number of tandem repeat units are displayed by blue ovals. The non-repeat regions are indicated by red boxes. A, structure of AT-rich region in Plecia sp. B, structure of AT-rich region in Protaxymyia sp. C, structure of AT-rich region in Bradysia sp.
Figure 2 in New data on the mitochondrial genome of Nematocera (lower Diptera): features, structures and phylogenetic implications
Figure 2. Relative synonymous codon usage (RSCU) and number of amino acids in protein-coding genes (PCGs) of the mitogenomes of eight nematoceran species. Leu1 = Leu (CUN); Leu2 = Leu (UUR); Ser1 = Ser (AGN); Ser2 = Ser (UCN).
Figure 1 in New data on the mitochondrial genome of Nematocera (lower Diptera): features, structures and phylogenetic implications
Figure 1. Mitochondrial genomes of eight nematoceran species sequenced in this study. The circular maps were drawn with GENEIOUS v.10.2.2 (http://www.geneious.com/). The transcriptional direction is indicated by arrows.
Figure 6 in New data on the mitochondrial genome of Nematocera (lower Diptera): features, structures and phylogenetic implications
Figure 6. Bayesian tree of Nematocera based on PCGRNA with heterogeneous models CAT+GTR in PhyloBayes. Circles indicate that posterior probabilities = 100%. Squares indicate that posterior probabilities = 50–94%. Other posterior probabilities (95–99%) are given above the branches. Multiple sampling of different species from a single family, in addition to outgroups and Brachycera, are collapsed into triangles.
Supplementary material 1 from: Wei Z, Huang X, Shi A (2023) First mitochondrial genome of subfamily Julodinae (Coleoptera, Buprestidae) with its phylogenetic implications. ZooKeys 1139: 165-182. https://doi.org/10.3897/zookeys.1139.96216
First mitochondrial genome of subfamily Julodinae (Coleoptera, Buprestidae) with its phylogenetic implications
Phylogeny and classification of Endromidae (Lepidoptera: Bombycoidea) based on mitochondrial genomes
<p>Incomplete mitochondrial genomes of the study "Phylogeny and classification of Endromidae (Lepidoptera: Bombycoidea) based on mitochondrial genomes".</p>
FIGURE 8 in Another piece for the syllid puzzle: A new species from Japan and its mitochondrial genome reveal the enigmatic Clavisyllis (Phyllodocida: Syllidae) as a member of Eusyllinae
FIGURE 8. SEM pictures of paratype 3. A, B, D. chaetae of anterior segments; C. parapodium of anterior segment (not modified and without natatory chaetae).
FIGURE 7 in Another piece for the syllid puzzle: A new species from Japan and its mitochondrial genome reveal the enigmatic Clavisyllis (Phyllodocida: Syllidae) as a member of Eusyllinae
FIGURE 7. SEM pictures of paratype 3. A. modified notopodia with natatory chaeta and dorsal cirri; B. dorsal cirri; C. anterior half, complete lateral view; D. posterior half, lateral view; E. body surface with bundles of cilia; F. posterior end.
FIGURE 6. A in Another piece for the syllid puzzle: A new species from Japan and its mitochondrial genome reveal the enigmatic Clavisyllis (Phyllodocida: Syllidae) as a member of Eusyllinae
FIGURE 6. A. Drawing of the anterior end of the holotype with indicated structures; B. SEM picture of the anterior end of paratype 3. Highlighted structures: orange—nuchal extensions, green—lateral projections, violet—palps, blue—papillae, yellow—antennophores; C. Midbody parapodium, anterior view; D. Midbody chaetae. Scales C: 100 um, D. 20 um.
FIGURE 1 in Another piece for the syllid puzzle: A new species from Japan and its mitochondrial genome reveal the enigmatic Clavisyllis (Phyllodocida: Syllidae) as a member of Eusyllinae
FIGURE 1. Phylogenetic maximum likelihood tree of Syllidae based on the concatenated dataset (genes 18S, 16S, COI). Bootstrap support (B) values are shown next to the nodes.
FIGURE 4 in Another piece for the syllid puzzle: A new species from Japan and its mitochondrial genome reveal the enigmatic Clavisyllis (Phyllodocida: Syllidae) as a member of Eusyllinae
FIGURE 4. SEM pictures of paratype 3. A. anterior end, dorsal view; B. nuchal organs; C. anterior nuchal extensions; D. anterior end.
FIGURE 3. A. Paratype 1 in Another piece for the syllid puzzle: A new species from Japan and its mitochondrial genome reveal the enigmatic Clavisyllis (Phyllodocida: Syllidae) as a member of Eusyllinae
FIGURE 3. A. Paratype 1, complete dorsal view; B. Holotype, anterior end; C. Paratype 2, anterior end, lateral view; D. Paratype 2, anterior end, dorsal view. Visible structures are labelled: a = antennae, dc = dorsal cirrus with coloured tip, lp = lateral projetions, mnp = modified notopodium, nex = nuchal extensions, snc = natatory notochaetae, snl = sinuous nuchal lappets, p = palps.
Data for: Both Conifer II and Gnetales are characterized by a high frequency of ancient mitochondrial gene transfer to the nuclear genome
<p><strong>Background:</strong> Mitochondrial gene transfer/loss is common in land plants, and therefore the fate of missing mitochondrial genes has attracted more and more attention. The gene content of gymnosperm mitochondria varies greatly, supplying a system for studying the evolutionary fate of missing mitochondrial genes.</p> <p><strong>Results:</strong> Here we studied the tempo and pattern of mitochondrial gene loss/transfer in gymnosperms represented by all 13 families, using high-throughput sequencing of both DNA and cDNA. All 41 mitochondrial protein-coding genes were found in cycads, <em>Ginkgo</em> and Pinaceae, whereas multiple mitochondrial genes were absent in Conifer II and Gnetales. In Conifer II, gene transfer from mitochondria to the nucleus followed by loss of the mitochondrial copy was common, but complete loss of a gene in both mitochondrial and nuclear genomes was rare. In contrast, both gene transfer and loss were commonly found in Gnetales. Notably, in Conifer II and Gnetales, the same five mitochondrial genes were transferred to the nuclear genome, and these gene transfer events occurred, respectively, in ancestors of the two lineages. A two-step transfer mechanism (retroprocessing and subsequent DNA-mediated gene transfer) may be responsible for mitochondrial gene transfer in Conifer II and Gnetales. Moreover, the mitochondrial gene content variation is correlated with gene length, GC content, hydrophobicity, and nucleotide substitution rates in land plants.</p> <p><strong>Conclusions: </strong>This study reveals a complete evolutionary scenario for mitochondrial genes of gymnosperms and the factors responsible for mitochondrial gene content variation in land plants.</p>
FIGURE 3. Correlation between the genetic p in Complete Mitochondrial genome of Eisenia nordenskioldi pallida Malevich, 1956 from Korea, with remarks on the phylogeny of the E. nordenskiodi complex (Megadrili; Lumbricidae)
FIGURE 3. Correlation between the genetic p-distances of the barcoding region (cox1) and the 13PCGs of the E. nordenskioldi s.l. taxa.
FIGURE 2 in Complete Mitochondrial genome of Eisenia nordenskioldi pallida Malevich, 1956 from Korea, with remarks on the phylogeny of the E. nordenskiodi complex (Megadrili; Lumbricidae)
FIGURE 2. Phylogenetic relationships of 14 Lumbricidae species, based on the nucleotide sequences of the 13 PCGs. Drawida japonica was included as an outgroup. Numbers at the branches represent Bayesian probabilities and bootstrap support (%). The blue clades represent unpigmented, the red ones pigmented specimens. The two unpigmented Korean specimens are marked in malachite-green.
FIGURE 1 in Complete Mitochondrial genome of Eisenia nordenskioldi pallida Malevich, 1956 from Korea, with remarks on the phylogeny of the E. nordenskiodi complex (Megadrili; Lumbricidae)
FIGURE 1. Phylogenetic relationships of 33 Crassiclitellata species, including E. nordenskioldi cf. pallida No. 1 and No. 3, based on the 13 PCG nucleotide sequences. Drawida japonica was included as an outgroup. Numbers at the branches represent ML bootstrap support.
Phylogenetic Analysis Based on the Complete Mitochondrial Genomes of Eight Nymphalidae Species (Lepi-doptera: Papilionoidea)
<p>Table S1: Basic sequence characteristics of mitochondrial genomes of eight newly sequenced species in Nymphalidae;</p> <p>Table S2: Base composition, AT content, AT-skew, GC-skew and total length (bp) of 105 species in all three codon positions, codon position 1, codon position 2 and codon position 3 in this study. The species highlighted in red are the ones that were sequenced;</p> <p>Table S3:<strong> </strong>Taxonomic information and GenBank accession numbers for 105 mitogenomes in Nymphalidae selected for characteristics and phylogenetic analysis in this study.</p>
FIGURE 2 in Mitochondrial genome of Poecilimon cretensis (Orthoptera: Tettigoniidae: Phaneropterinae): Strong phylogenetic signals in gene overlapping regions
FIGURE 2. Phylogenetic tree inferred by maximum likelihood using W-IQ-Tree from 13 Phaneropterinae mitogenomes representing different tribes (number along the nodes indicate bootstrap support).
Figure 3 in The first genomic resource for the 'near threatened' Neotropical otter Lontra longicaudis (Carnivora: Mustelidae): mitochondrial genome characterisation and insights into phylomitogenomic relationships in the family Mustelidae
Figure 3. An analysis of selective pressure in the protein coding genes (PCGs) of Lontra longicaudis indicates that the Ka/Ks value can show whether a gene is undergoing selection, and based on the magnitude of the value, what type of selection is taking place. Ka/Ks values <1 indicate purifying selection, whereas values equal to 1 indicate neutral selection. The Ka/Ks ratios (vertical axis) were calculated for each of the 13 PCGs (horizontal axis) by performing pairwise comparisons with L. lutra. Photo credit: John Tomsett.
Figure 6 in The first genomic resource for the 'near threatened' Neotropical otter Lontra longicaudis (Carnivora: Mustelidae): mitochondrial genome characterisation and insights into phylomitogenomic relationships in the family Mustelidae
Figure 6. Phylomitogenomic analysis of Lontra longicaudis and related species in the family Mustelidae. Total-evidence phylogenetic tree obtained from ML analysis based on a concatenated alignment of amino acids of the 13 protein-coding genes present in the mitochondrial genome of representatives of the family Mustelidae. The branches are colour coded to represent their respective bootstrap values. Photo credit: John Tomsett.
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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)
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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.