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152 results for “mitochondrial DNA sequences”
Phylogeny of "Philoceanus complex" seabird lice (Phthiraptera: Ischnocera) inferred from mitochondrial DNA sequences
<p>Data from "Phylogeny of “<em>Philoceanus </em>complex” seabird lice (Phthiraptera: Ischnocera) inferred from mitochondrial DNA sequences". See the file index.html for details. Data includes NEXUS files for sequences, tree files output by MrBayes and PAUP, and host-parasite association files for TreeMap.</p>
Figure 1 in Evaluation of the taxonomy of Helix cincta (Muller, 1774) and Helix nucula (Mousson, 1854); insights using mitochondrial DNA sequence data
Figure 1. Map showing the localities of samples used in the present study representing the morphologically defined species and the distribution of Helix cincta (dash line, light grey) and Helix nucula (continuous line, dark grey).
Figure 2 in Examining metrics and magnitudes of molecular genetic differentiation used to delimit cetacean subspecies based on mitochondrial DNA control region sequences
Figure 2. Relationship between ΦST and Nei's estimate of net divergence (dA) among cetacean population, subspecies, and species pairs estimated using mitochondrial DNA control region sequence data. Specific values mentioned in the text are numbered: 1 = Neophocaena species; 2 = killer whale populations. The three green squares in the left-hand side of the figure (ΦST <0.07) represent, from bottom to top, the subspecies comparisons for S. attenuata, S. longirostris, and L. obscurus, respectively.
Figure 1 in Examining metrics and magnitudes of molecular genetic differentiation used to delimit cetacean subspecies based on mitochondrial DNA control region sequences
Figure 1. Box and whisker plots showing median and 1st and 3rd quartiles, and minimum and maximum values for six metrics of genetic divergence among cetacean population, subspecies, and species pairs estimated using mitochondrial DNA control region sequence data.
Mitochondrial DNA sequencing results control and MELAS fibroblasts. Povea-Cabello, S. et al 2022.
<p>Mitochondrial DNA sequencing results from control and MELAS patients-derived dermal fibroblasts. Povea-Cabello, S. et al 2022. </p>
Figure 2. A in Mitochondrial Dna Sequence Data Indicate Evidence For Multiple Species Within Peromyscus Maniculatus
Figure 2. A) Phylogenetic tree generated using Bayesian (MrBayes; Huelsenbeck and Ronquist 2001), maximum likelihood (RAxML; Version 8.1.17, Stamatakis 2006), and parsimony methods (PAUP* v. 4.0a165, Swofford 2002) and DNA sequence data from the mitochondrial cytochrome-b gene. The topology depicted is from the Bayesian analysis. Clade probability values (≥ 0.95) for the Bayesian analysis are indicated by an asterisk (*) and are to the left of the first slash, bootstrap values for the maximum likelihood analysis are shown between the two slashes, and bootstrap values obtained from the parsimony analysis are to the right of the last slash. Line at bottom of figure depicts the nucleotide substitution rate per site per million years. B) Same phylogenetic tree as depicted in Figure 2A except unsupported nodes (C, G, and H) were collapsed.
Figure 4. Approximate distributions and associated divergence times for A in Mitochondrial Dna Sequence Data Indicate Evidence For Multiple Species Within Peromyscus Maniculatus
Figure 4. Approximate distributions and associated divergence times for A) Peromyscus maniculatus-like ancestor; B) P. melanotis-like ancestor; C) P. gambelii/keeni/sejugis/sp.-like ancestor; D) P. polionotus-like ancestor; E) P. sonoriensis-like ancestor; F) P. labecula and P. maniculatus - like ancestor; G) P. keeni/sp.-like ancestor; and H) P. keeni-like, P. gambelii-like, P. sejugis-like, and P. sp.-like ancestors. Divergence times were estimated from the BEAST analysis (Version 2.4, Bouckaert et al. 2014) of the mitochondrial cytochrome-b gene dataset (see Fig. 3). Shading schemes that correspond to species distributions are shown in the inset.
Figure 1 in Mitochondrial Dna Sequence Data Indicate Evidence For Multiple Species Within Peromyscus Maniculatus
Figure 1. Distribution of selected populations and species of the Peromyscus maniculatus species group from Canada, Mexico, and the United States. Shaded areas represent distributions of taxa (defined in figure insert) as originally defined by Hall (1981) and modified based on the results of this study. Closed circles represent collecting localities listed in the Appendix; note that multiple individuals may be represented by a single closed circle. White boxes with black stars indicate type localities for each taxon and triangles indicate localities where haplotypes representing P. sonoriensis were found to be in sympatry with samples of P. gambelii and P. labecula, respectively.
Figure 3 in Mitochondrial Dna Sequence Data Indicate Evidence For Multiple Species Within Peromyscus Maniculatus
Figure 3. Time-calibrated ultrametric tree obtained from the BEAST analysis (Version 2.4, Bouckaert et al. 2014) of the mitochondrial cytochrome-b gene dataset. Scale bars at nodes represent the 95% highest posterior densities and numbers associated to each node are the estimated divergence times in million years ago.
Fig. 5 in Mitochondrial DNA diversity in the acanthocephalan Prosthenorchis elegans in Colombia based on cytochrome c oxidase I (COI) gene sequence
Fig. 5. Distribution and frequency of Prosthenorchis elegans haplotypes (A–F) and haplogroups (I–II) by locality and individual. URRAS: Unidad de Rescate y Rehabilitacíon de Animales Silvestres, Universidad Nacional de Colombia; AMVA: Area Metropolitana del Valle de Aburŕa; WCS: Wildlife Conservation Society-Colombia.
Fig. 4 in Mitochondrial DNA diversity in the acanthocephalan Prosthenorchis elegans in Colombia based on cytochrome c oxidase I (COI) gene sequence
Fig. 4. Phylogenetic tree obtained using Bayesian Inference (BI) and Maximum Likelihood (ML); node supports are provided for BI\ML. Outgroup taxa: Oncicola sp, AF417000; O. luehe = Oncicola luehe, JN710452; M. ingens = Macracanthorhynchus ingens, AF416997; M. hirudinaceus = Macracanthorhynchus hirudinaceus, FR856886; O. tortuous = Oligacanthorhynchus tortuous, AF416999.
Fig. 3 in Mitochondrial DNA diversity in the acanthocephalan Prosthenorchis elegans in Colombia based on cytochrome c oxidase I (COI) gene sequence
Fig. 3. Haplotype network of Prosthenorchis elegans. Network shows relationships among P.elegans haplotypes (A–F) recovered from Saguinus leucopus and Cebus albifrons based on 633 bp of COI. All branches are of unit length (one mutational step). Labeled open circles represent observed haplotypes; areas of circles are proportional to the number observed for each haplotype. Filled circles indicate inferred haplotypes not found among sampled individuals. Double lines indicate variable sites (49, 274 and 293) resulting in changes in amino acid. Haplogroups are identified.
Fig. 2 in Mitochondrial DNA diversity in the acanthocephalan Prosthenorchis elegans in Colombia based on cytochrome c oxidase I (COI) gene sequence
Fig. 2. External morphology of Prosthenorchis elegans via scanning electron microscopy (SEM). A. View of entire body of parasite. B. Proboscis armed with hooks.
Text-fig. 4. Electrophoresis after amplification: Electrophoretical analysis of mitochondrial DNA. mtDNA sequences were amplified by primers F15.412 and R16.169 (450 bp), R16.269 (550 bp), R16.519 (800 bp). Lane 1 are primers F15.412 + R16.169, lane 2 primers F15.412 + R16.269, lane 3 primers F15.412 + R16.519, NC – negative control – water, L – 100 bp DNA ladder (band size from 100 bp to 1500 bp). in Genetic Analysis Of Possibly The Oldest Greyhound Remains Within The Territory Of The Czech Republic As Proof Of A Local Elite Presence At Chotěbuz-Podobora Hillfort In The 8 -9 Century Ad
Text-fig. 4. Electrophoresis after amplification: Electrophoretical analysis of mitochondrial DNA. mtDNA sequences were amplified by primers F15.412 and R16.169 (450 bp), R16.269 (550 bp), R16.519 (800 bp). Lane 1 are primers F15.412 + R16.169, lane 2 primers F15.412 + R16.269, lane 3 primers F15.412 + R16.519, NC – negative control – water, L – 100 bp DNA ladder (band size from 100 bp to 1500 bp).
Fig 1 in Evolutionary relationships of Macaca fascicularis fascicularis (Raffles 1821) (Primates: Cercopithecidae) from Singapore revealed by Bayesian analysis of mitochondrial DNA sequences
Fig 1. Map of Southeast Asia showing the approximate location of the new (Singapore and Bali) and GenBank sequences included in the study. Numbers correspond to the following locations (haplotype IDs in parentheses): ★, Singapore (Sing1–3); 1, Vietnam (Viet1 & 2); 2, Cambodia (Camb1 & 2); 3, Thailand (Thai1); 4, Thailand (Thai2); 5, Malaysia (Selangor1 & 2); 6, Malaysia (Johor); 7, south Sumatra, Indonesia (Sumatra1 & 2, Java1); 8, Java (Java1); 9, Kalimantan, Borneo (Borneo3); 10, Sarawak, Borneo (Borneo1); 11, Sepilok, Borneo (Borneo2); 12, Bali, Indonesia (Bali1 & 2); 13, Sibuyan, Philippines (Phil1); 14, Bangkok, Thailand (Thai3 & 4); 15, Malaysia (W. Malay); 16, Malaysia (E. Malay2); 17 Malaysia (E. Malay1);18, north Sumatra (Sumatra3–6, 9); 19, west Borneo, Indonesia (Borneo9); 20, west Borneo, Indonesia (Borneo4–7); 21, central Borneo, Indonesia (Borneo4 & 6); 22, Bangka, south Sumatra (Sumatra 7 & 8); 23, Java, Indonesia (Java2 & 3); 24, northeast Borneo, Indonesia (Borneo8); 25, Mindanao, Philippines (Phil2); 26, Timor (Timor). Several Borneo haplotypes appear in multiple locations.
Fig 4. Median-joining haplotype network for M in Evolutionary relationships of Macaca fascicularis fascicularis (Raffles 1821) (Primates: Cercopithecidae) from Singapore revealed by Bayesian analysis of mitochondrial DNA sequences
Fig 4. Median-joining haplotype network for M. fascicularis. The size of the circular nodes representing haplotypes is proportional to the number of sequences comprising the haplotype. Shading of circular nodes corresponds to general geographic groupings including Sundaic islands (white), mainland Indochina (gray), Malay Peninsula and northern Sumatra (dark gray), and Singapore (black). Haplotype identifications are presented in Table 1.
Fig 3 in Evolutionary relationships of Macaca fascicularis fascicularis (Raffles 1821) (Primates: Cercopithecidae) from Singapore revealed by Bayesian analysis of mitochondrial DNA sequences
Fig 3. Phylogenetic tree topology from Bayesian inference of 12S/tRNA-val/16S mtDNA sequences using a Birth-Death speciation tree prior, and HYK+G+I nucleotide substitution model in BEAST v2.1.3. Lettered identifications for clades are presented below the branches at major nodes. Posterior probabilities are displayed above the branches at nodes. Numbers in parentheses appearing with haplotype identifications are presented in Table 1, and correspond to numbered locations presented on the Figure 1 map. The Singapore haplotypes form two phylogenetic subgroupings, one from the Bukit Timah Nature Reserve (Sing1) and the other from the Central Catchment Nature Reserve (Sing2 & Sing3).
Fig 2 in Evolutionary relationships of Macaca fascicularis fascicularis (Raffles 1821) (Primates: Cercopithecidae) from Singapore revealed by Bayesian analysis of mitochondrial DNA sequences
Fig 2. Map of central Singapore showing the sampling locations in the Bukit Timah (BTNR) and Central Catchment (CCNR) Nature Reserves. Map created using ArcGIS® (ESRI® 2015).
Fig. 1 in Molecular Systematics of Mouse Opossums (Didelphidae: Marmosa): Assessing Species Limits using Mitochondrial DNA Sequences, with Comments on Phylogenetic Relationships and Biogeography
Fig. 1. Provenance of sequenced specimens of Marmosa (localities of sequenced outgroup specimens are not shown). Numbers refer to entries in the Gazetteer (appendix).
Fig. 3 in Molecular Systematics of Mouse Opossums (Didelphidae: Marmosa): Assessing Species Limits using Mitochondrial DNA Sequences, with Comments on Phylogenetic Relationships and Biogeography
Fig. 3. The maximum-likelihood tree inferred from the best-fit model of nucleotide substitution (table 4). ML bootstrap support values and Bayesian posterior probabilities are indicated above and below branches, respectively. Branch and terminal labels follow the same conventions explained in the caption to figure 2.
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