Find research datasets worth reusing

opennotspecifiedMay 2022View details →

FIGURE 4. Saturation plots for 2 rRNA gens, 13 in Seven new mitochondrial genomes of phytophagous scarab beetles (Coleoptera Scarabaeidae) and phylogenetic implications

FIGURE 4. Saturation plots for 2 rRNA gens, 13 protein-coding genes, and a concatenated dataset (from 13 protein-coding genes), left to right. The plot shows uncorrected pairwise divergences in transitions (s) and transversions (v) against divergences calculated with the GTR model. Green, transversions; blue, transitions.

opennotspecifiedMay 2022View details →

FIGURE 7 in Seven new mitochondrial genomes of phytophagous scarab beetles (Coleoptera Scarabaeidae) and phylogenetic implications

FIGURE 7. Phylogenetic tree produced using maximum likelihood (ML) and Bayesian (BI) methods based on amino acids of 13 PCGs. The numbers on the left are Bayesian posterior probabilities (PP), and those on the right are maximum likelihood bootstrap values (BS). Asterisk indicates that this node is different in ML and BI.

opencc-by-4.0Jul 2022View details →

The first complete mitochondrial genome in the family Attevidae (Atteva aurea) of the order Lepidoptera

Figure 1. Four tandem repeat units found between trnG and trnA with various copy numbers (A1–A4, B1–B3, C1–C12, and D1–D2). The nucleotide position is indicated at each end of the sequence in relation to the mitochondrial genome of Atteva aurea. Figure 2. Linear arrangement of the mitochondrial genome of A. aurea. Gene sizes are not drawn to scale. Non-underlined and underlined gene names indicate forward and reverse transcriptional directions, respectively. Translocated genes are indicated by lines with arrows. Table 1. Summary of Atteva aurea mitochondrial genome. Supplementary material 1. List of primers used to amplify and sequence the Atteva aurea mitochondrial genome.

opennotspecifiedAug 2022View details →

FIGURE 7 in The complete mitochondrial genome of Thereuopoda clunifera (Chilopoda: Scutigeridae) and phylogenetic implications within Chilopoda

FIGURE 7. Nucleotide-based phylogenetic tree of 25 Myriapoda species with one Merostomata species as an outgroup. Numbers at nodes represent the posterior probability for the Bayesian analysis and bootstrap values for Maximum Likelihood analysis. "-" indicates this clade not supported by ML analysis.

opennotspecifiedAug 2022View details →

FIGURE 4 in The complete mitochondrial genome of Thereuopoda clunifera (Chilopoda: Scutigeridae) and phylogenetic implications within Chilopoda

FIGURE 4. Evolutionary rates of PCGs among T. clunifera and other 8 species of Chilopoda. Ka: nonsynonymous substitution rate; Ks: synonymous substitution rate. Box and whisker plots represented the value of Ka/Ks for each PCGEvolutionary rates of PCGs among T. clunifera and other 8 species of Chilopoda. Ka: nonsynonymous substitution rate; Ks: synonymous substitution rate. Box and whisker plots represented the value of Ka/Ks for each PCG.

Figure 5 in Phylogenetic relationships of Brachycera (Insecta: Diptera) inferred from mitochondrial genome sequences

Figure 5. Chronogram for major clades of Brachycera estimated by BEAST 1.8.4 based on 107-taxon_PCG_nt12 (scale on x-axis in mya). At the branching nodes, numbers show the estimated divergence times and blue bars represent the time interval for 95% probability of actual node age.

Figure 4 in Phylogenetic relationships of Brachycera (Insecta: Diptera) inferred from mitochondrial genome sequences

Figure 4. The simplified ML tree inferred from the dataset 107-taxon_PCG_aa by using IQ-TREE, under the data partitions and best-fitting models selected by PartitionFinder 2. Node numbers show the bootstrap support values (> 50). The insect pictures are provided by Yuqiang Xi.

Figure 1 in Phylogenetic relationships of Brachycera (Insecta: Diptera) inferred from mitochondrial genome sequences

Figure 1. Representations of previous hypotheses for the relationships among major groups of Brachycera inferred from morphologically-based or molecular studies by authors cited. A, Woodley (1989) based on morphological data; B, Wiegmann et al. (2003) based on morphological and molecular data; C, Yeates (2002) based on morphological data; D, Wiegmann et al. (2011) based on morphological and molecular data; E, Shin et al. (2018) based on molecular data; F, Bayless et al. (2021) based on molecular data.

Figure 3. The Bayesian tree inferred from the dataset 107 in Phylogenetic relationships of Brachycera (Insecta: Diptera) inferred from mitochondrial genome sequences

Figure 3. The Bayesian tree inferred from the dataset 107-taxon_PCG_nt12 using PhyloBayes, under the site-heterogeneous mixture model (CAT-GTR). Node numbers show the posterior probability values (> 0.90). The insect pictures are provided by Yuqiang Xi.

Figure 2 in Phylogenetic relationships of Brachycera (Insecta: Diptera) inferred from mitochondrial genome sequences

Figure 2. The simplified ML tree inferred from the dataset 187-taxon_PCG_nt123 using IQ-TREE, under the data partitions and best-fitting models selected by PartitionFinder 2. Node numbers show the bootstrap support values (> 50). For the full tree, see Supporting Information, Fig. S3A. The insect pictures are provided by Yuqiang Xi.

opencc-by-4.0Oct 2022View details →

Complete mitochondrial genome of the forensically important carrion beetle, Necrodes nigricornis (Coleoptera: Silphidae)

To enrich the genomic data pools of the family Silphidae for subsequent mitogenome-based large-scale phylogenetic study and development of a diverse type of molecular marker (e.g., species identification by restriction fragment length polymorphism and loop-mediated isothermal amplification), which have considerable forensic importance, we sequenced the complete mitogenome of the N. nigricornis for the first time. This sequence was analyzed for mitogenome characteristics, along with a brief comparison to other familial species, and used for phylogenetic analysis within the family Silphidae.

FIGURE 4 in The complete mitochondrial genome of the Korean endemic millipede Anaulaciulus koreanus (Verhoeff, 1937), with notes on the gene arrangement of millipede orders

FIGURE 4. Comparison diagram of mitochondrial gene arrangement patterns of nine millipede species. One-letter codes corresponding to the amino acids of the tRNAs are used. Diagram is adapted and modified from Brewer et al. (2013).

FIGURE 2 in The complete mitochondrial genome of the Korean endemic millipede Anaulaciulus koreanus (Verhoeff, 1937), with notes on the gene arrangement of millipede orders

FIGURE 2. Potential stem and loop structures of the junctional sequences of (A) COI-COII, (B) ATP8-ATP6, (C) ND6- Cytb, (D) ND4L-ND4, and (E) ATP6-COIII, and (F) a non-coding region in the mitochondrial genome of Anaulaciulus koreanus (Verhoeff, 1937). The anticodon sequences are boxed, and termination codons or incomplete termination codons are drawn with an underline or side-line. The number of nucleotide sequences in each loop is shown.

FIGURE 1 in The complete mitochondrial genome of the Korean endemic millipede Anaulaciulus koreanus (Verhoeff, 1937), with notes on the gene arrangement of millipede orders

FIGURE 1. The mitochondrial genome structures of Anaulaciulus koreanus (Verhoeff, 1937). The direction of transcription for each gene is shown by an arrow. The hatch-marked area is a large non-coding region.

FIGURE 3 in The complete mitochondrial genome of the Korean endemic millipede Anaulaciulus koreanus (Verhoeff, 1937), with notes on the gene arrangement of millipede orders

FIGURE 3. Putative secondary structures of the 22 tRNAs observed from the mitochondrial genome of Anaulaciulus koreanus (Verhoeff, 1937)

opencc-zeroJan 2018View details →

Supplementary material 1 from: Yuhui X, Lijun Z, Yue H, Xiaoqi W, Chen Z, Huilun Z, Ruoran W, Da P, Hongying S (2017) Complete mitochondrial genomes from two species of Chinese freshwater crabs of the genus Sinopotamon recovered using next-generation sequencing reveal a novel gene order (Brachyura, Potamidae). ZooKeys 705: 41-60. https://doi.org/10.3897/zookeys.705.11852

Figure S1 : Explanation note: Comparisons of the consensus sequence and variable sites in the entire mNCR for Sinopotamon yaanense, S. yangtsekiense and S. xiushuiense. The conserved central domain is grey shaded, and the extended termination associated sequences (ETAS) is underlined.

opennotspecifiedMay 2024View details →

FIGURE 2 A–L in A new species of the genus Xistra (Orthoptera: Tetrigoidea: Metrodorinae) with comments on the characters of mitochondrial genome

FIGURE 2 A–L. Xistra zhengi Deng, sp. nov., A-J ♀, K-L ♁. A—head, frontal view; B—head and pronotum, dorsal view; C—head, lateral view; D—left fore femur, lateral view; E—left middle femur, lateral view; F—left hind femur, lateral view; G—left hind tibia, lateral view; H—left hind tarsi, lateral view; I—ovipositor of female, lateral view; J—female subgenital plate, ventral view; K—male subgenital plate, lateral view; L—male subgenital plate, ventral view (Scale bar = 1 mm).

opennotspecifiedMay 2024View details →

FIGURE 1 A–D in A new species of the genus Xistra (Orthoptera: Tetrigoidea: Metrodorinae) with comments on the characters of mitochondrial genome

FIGURE 1 A–D. Xistra zhengi Deng, sp. nov., ♀, ♁. A—body of female, dorsal view; B—body of male, dorsal view; C—body of female, lateral view; D—body of male, lateral view (Scale bar = 1 mm).

opennotspecifiedMay 2024View details →

FIGURE 5. The secondary structures for 22 in A new species of the genus Xistra (Orthoptera: Tetrigoidea: Metrodorinae) with comments on the characters of mitochondrial genome

FIGURE 5. The secondary structures for 22 tRNA genes of the Xistra zhengi, sp. nov. Watson–Crick base pairings and mismatches are represented by dashes (-) and pluses (★).