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17 results for “12S rRNA”
Fig. 4 in MITOCHONDRIAL 16S AND 12S rRNA SEQUENCE ANALYSIS IN FOUR SALMONID SPECIES FROM ROMANIA
Fig. 4. Majority with bootstrap support consensus trees for combined data (16S rRNA and 12S rRNA). (a) Combined data Neighbor Joining tree, distance model Kimura 2 Parameters, transition/transversion ratio 2.3; (b) combined data Maximum Parsimony tree; (c) combined data Maxi-
Fig. 3. Majority with bootstrap support consensus trees for 12S in MITOCHONDRIAL 16S AND 12S rRNA SEQUENCE ANALYSIS IN FOUR SALMONID SPECIES FROM ROMANIA
Fig. 3. Majority with bootstrap support consensus trees for 12S rRNA. (a) 12S rRNA Maximum Parsimony tree; (b) 12S rRNA Neighbor Joining tree, distance model Kimura 2 Parameters, transi-
Fig. 2. Majority with bootstrap support consensus trees for 16S in MITOCHONDRIAL 16S AND 12S rRNA SEQUENCE ANALYSIS IN FOUR SALMONID SPECIES FROM ROMANIA
Fig. 2. Majority with bootstrap support consensus trees for 16S rRNA. (a) 16S rRNA Neighbor Joining tree, distance model Kimura 2 Parameters, transition/transversion ratio 2.3; (b) 16S rRNA Maximum Parsimony tree; (c) 16S rRNA Maximum Likelihood tree
Figure 1 in Evolutionary systematics of the Indian mouse Mus famulus Bonhote, 1898: molecular (DNA/DNA hybridization and 12S rRNA sequences) and morphological evidence
Figure 1. Phylogenetic trees derived from the DNA/DNA hybridization analysis. A and B: Consensus trees resulting from the bootstrap analysis of delta-Tm (A) and delta-mode (B) 12*12 matrices. BP values are indicated when different from 100%. The lengths of the branches correspond to one tree arbitrarily selected among those of the consensus. C and D: Average consensus trees resulting from the weighted jacknife procedure for delta-Tm (C) and delta-mode (D) 13*13 matrices. The thin lines represent nodes that were not present in maximum and minimum consensus trees or that are not supported for all combinations of single deletion analysis. uUnlabelled taxa. The names in bold indicate the differences that can be observed between the two distance estimators (Tm, Mode).
Figure 4 in Evolutionary systematics of the Indian mouse Mus famulus Bonhote, 1898: molecular (DNA/DNA hybridization and 12S rRNA sequences) and morphological evidence
Figure 4. Fifty per cent majority rule consensus of 52 trees derived from the morphological analysis. Each mostparsimonious tree is 54 steps long, and has a Consistency Index of 0.52, a Retention Index of 0.72, and a Rescaled Consistency Index of 0.37. Values given below the branches represent the percentage of trees containing the specified clades.
Figure 3. Synthetic tree derived from the 12S in Evolutionary systematics of the Indian mouse Mus famulus Bonhote, 1898: molecular (DNA/DNA hybridization and 12S rRNA sequences) and morphological evidence
Figure 3. Synthetic tree derived from the 12S rRNA datasets with the inclusion of all substitutions (TV + TI). The thin lines indicate nodes that are not robustly supported by all kinds of analysis. The robustness of the different nodes are indicated as follows: [BP(BPweighted analysis)/BSI (Parsimony)]/[BP(NJ)/Reliability Percentage (ML)].
Figure 2 in Mitochondrial 12S rRNA sequences support the existence of a third species of freshwater blackfish (Percicthyidae: Gadopsis) from south-eastern Australia
Figure 2. Phylogenetic trees, using the PAUP software package (Swofford, 1998). A, Maximum parsimony, using a full exhaustive search with 1000 bootstrap replicates. B, Distance analysis, using the neighbour-joining option, bootstrap replicates set at 1000. C, Maximum likelihood, using the Tamura-Nei model with 100 bootstrap replicates.
Bony fish 12S rRNA sequencing data from coastal water samples in gulf of Maine
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FIGURE 1 in A mitochondrial 12S and 16S rRNA phylogeny of critical genera of Phoridae (Diptera) and related families of Aschiza
FIGURE 1. Maximum likelihood tree derived from analysis of concatenated dipteran 12S and 16S mitochondrial DNA sequences (ln likelihood = 5910.51681, proportion of invariable sites 0.291, gamma shape parameter = 0.480). Taxa as in Table 1. The Hilara maura sequence was assigned as outgroup. The names of suborders, series, families, subfamilies and tribes are also indicated where they are relevant to the discussion in the text. Numbers refer to Bayesian posterior probabilities as percent (top) or percent support in a nonparametric bootstrap analysis by neighborjoining of maximum likelihood distances (bottom). Where only one number occurs it refers to a Bayesian posterior probability: that branch received less than 50% support in the nonparametric bootstrap analysis. Support values for the branch leading to the Phoridae are in bold.
FIGURE 3b. Maximum likelihood phylogram constructed from combined cyt b and 12S rRNA sequences for 20 in Specific limits and emerging diversity patterns in East African populations of laminate-toothed rats, genus Otomys (Muridae: Murinae: Otomyini): Revision of the Otomys typus complex 3024
FIGURE 3b. Maximum likelihood phylogram constructed from combined cyt b and 12S rRNA sequences for 20 Otomys specimens, one representative of Parotomys brantsii and four murine outgroups under the best-fit GTR+I+G model. Support indices for each node (1 – 23) are given beside the phylogram (BPP/ MLbs/ UwPbs/ 6PPbs/ NJpbs/ Njcbs). For both phylogenies (Figure 3a and 3b), the relative branch thickness indicates significant nodal support from the phylogenetic reconstruction methods employed herein (four to six methods—thick lines; two methods—intermediate lines). Dashed lines show unsupported relationships; Abbreviations and symbols: NS - BPP <0.95; "-" indicates that the node was not present in the relevant analysis, or percentage bootstrap support below 50%.
FIGURE 2 in Phylogeny and affiliation of European Anthomyzidae (Diptera) based on mitochondrial 12S and 16S rRNA
FIGURE 2. Resulting phylogram conducted by Bayesian analyses of the combined 12S and 16S rRNA gene sequences. The posterior probabilities (over 0.50) are shown above the branches.
FIGURE 1 in Phylogeny and affiliation of European Anthomyzidae (Diptera) based on mitochondrial 12S and 16S rRNA
FIGURE 1. Anthomyza gracilis Fallén, 1823, female (Russia: Moscow region), body length 2.8 mm. Photo by D. Gavryushin.
Data from: Seabird and Louse Coevolution: Complex Histories Revealed by 12S rRNA Sequences and Reconciliation Analyses
We investigated the coevolutionary history of seabirds (orders Procellariiformes and Sphenisciformes) and their lice (order Phthiraptera). Independent trees were produced for the seabirds (tree derived from 12S ribosomal RNA (rRNA), isozyme, and behavioral data) and their lice (trees derived from 12S rRNA data). Brookâ s parsimony analysis (BPA) supported a general history of cospeciation (consistency index = 0.84, retention index = 0.81). We inferred that the homoplasy in the BPA was caused by one intrahost speciation, one potential host switching and eight or nine sorting events. Using reconciliation analysis we quantified the cost of fitting the louse tree onto the seabird tree. The reconciled TreeMap tree postulated one host switching, nine cospeciation, three or four intrahost speciation and 11 to 14 sorting events. The number of cospeciation events was significantly more than would be expected due to chance. The sequence data were used to test for rate heterogeneity for both seabirds and lice. The seabird tree showed no significant rate heterogeneity over all of its branches whereas part of the louse tree did show rate heterogeneity. An examination of the codivergent nodes revealed that seabirds and lice have cospeciated synchronously, and that lice have evolved at about 5.5 times the rate of seabirds. Sequence data supported some of the postulated intrahost speciation events (Halipeurus pre-dated the evolution of their present hosts). Sequence data also supported some of the postulated host-switching events. These results demonstrate the value of sequence data and reconciliation analyses in unraveling complex histories between hosts and their parasites.
Fig. 1 in MITOCHONDRIAL 16S AND 12S rRNA SEQUENCE ANALYSIS IN FOUR SALMONID SPECIES FROM ROMANIA
Fig. 1. Variable sites in 16S rRNA (1) and 12S rRNA (2). The numbers represent the position occupied in the 16S rRNA, and 12S rRNA respectively. Identical sites are indicated by the symbol "·" and
Figure 5. Bootstrap 50 in Evolutionary systematics of the Indian mouse Mus famulus Bonhote, 1898: molecular (DNA/DNA hybridization and 12S rRNA sequences) and morphological evidence
Figure 5. Bootstrap 50% majority rule consensus tree from analysis of the morphological data. Bootstrap support values (100 heuristic bootstrap replicates, 10 addition replicates, random addition sequence) are shown above the branches.
Figure 1 in Mitochondrial 12S rRNA sequences support the existence of a third species of freshwater blackfish (Percicthyidae: Gadopsis) from south-eastern Australia
Figure 1. Sample locations: 1. Mosquito Creek, 2. Eight Mile Creek, 3. Wimmera River, 4. Wannon River, 5. Darlot Creek, 6. Brucknell Creek, 7. Gellibrand River, 8. Stony Creek, 9. Cudgewa Creek (G. bispinosus), 10. Little Forester Creek (Tasmania), 11. MacDonald River (New South Wales).
Data from: Seabird and Louse Coevolution: Complex Histories Revealed by 12S rRNA Sequences and Reconciliation Analyses
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