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8 results for “Exhippolysmata”
Figure 5 in Exploring phylogenetic informativeness and nuclear copies of mitochondrial DNA (numts) in three commonly used mitochondrial genes: mitochondrial phylogeny of peppermint, cleaner, and semi-terrestrial shrimps (Caridea: Lysmata, Exhippolysmata, and Merguia)
Figure 5. Phylogenetic informativeness of three mtDNA gene fragments (16S, 12S, and COI) in peppermint, cleaner, and semi-terrestrial shrimps. (A) Phylogenetic informativeness (PI) profiles of the three different mtDNA gene fragments studied through relative time in shrimps from the genera Lysmata, Exhippolysmata, and Merguia. The sum of the instantaneous asymptotic informativeness of all sites in each gene is plotted. The arrows and numbers above or below them indicate the relative time (arrow) and magnitude (numbers) at which PI reaches its maximum value. (B) Tree topology resulting from the maximum-likelihood analysis of the sequences studied with a relative time-enforced branch length. This phylogeny was used to calculate the PI profiles in panel (A). Species pertaining to the different monophyletic clades previously revealed by the combined analyses of the three mtDNA gene fragments are highlighted with different colours, as in Figure 3.
Figure 7. Neighbour-nets generated using SplitsTree4 in Exploring phylogenetic informativeness and nuclear copies of mitochondrial DNA (numts) in three commonly used mitochondrial genes: mitochondrial phylogeny of peppermint, cleaner, and semi-terrestrial shrimps (Caridea: Lysmata, Exhippolysmata, and Merguia)
Figure 7. Neighbour-nets generated using SplitsTree4 from the three mtDNA gene fragments studied (16S, 12S, and COI) in shrimps from the genera Lysmata, Exhippolysmata, and Merguia. Species pertaining to the different monophyletic clades previously revealed by the combined analyses of the three mtDNA gene fragments are highlighted with different colours, as in Figure 3. Abbreviations: LA, Lysmata ankeri; LABP, Lysmata cf. vittata; LAM, Lysmata amboinensis; LARG, Lysmata argentopuctata; LBA, Lysmata bahia; LBO, Lysmata boggessi; LCA, Lysmata californica; LD, Lysmata debelius; LGA, Lysmata galapagensis; LGB, Lysmata grabhami; LGR, Lysmata gracilirostris; LH, Lysmata hochi; LHO, Lysmata holthuisi; LI, Lysmata intermedia; LIM2, Lysmata cf. intermedia; LK, Lysmata kuekenthali; LM, Lysmata moorei; LN, Lysmata nayaritensis; LNI, Lysmata nilita; LO, Lysmata olavoi; LP, Lysmata pederseni; LRA, Lysmata rafa; LSET, Lysmata seticaudata; LT, Lysmata cf. ternatensis; LV, Lysmata vittata; LU, Lysmata udoi; LWEF, Lysmata wurdemanni EFL; LWG, Lysmata wurdemanni TX; LWWF, Lysmata wurdemanni WFL; EXO, Exhippolysmata oplophoroides; EXE, Exhippolysmata ensirostris; MO, Merguia oligodon; MR, Merguia rhizophorae; and NSP, Nikoides sp.
Figure 3 in Exploring phylogenetic informativeness and nuclear copies of mitochondrial DNA (numts) in three commonly used mitochondrial genes: mitochondrial phylogeny of peppermint, cleaner, and semi-terrestrial shrimps (Caridea: Lysmata, Exhippolysmata, and Merguia)
Figure 3. Tree topology resulting from the combined analysis of the three mtDNA gene fragments studied (16S, 12S, and COI) for shrimps from the genus Lysmata (29 taxa), Exhippolysmata (two taxa), Merguia (two taxa), and one out-group (Nikoides sp.), under maximum likelihood (ML). Numbers above or below the branches represent the bootstrap values obtained from the maximum likelihood (ML) analysis in TREEFINDER and posterior probabilities from the Bayesian inference (BI) analysis in MrBayes (ML/BI). The general topology of the trees obtained from ML and BI analyses was the same.
Figure 1 in Exploring phylogenetic informativeness and nuclear copies of mitochondrial DNA (numts) in three commonly used mitochondrial genes: mitochondrial phylogeny of peppermint, cleaner, and semi-terrestrial shrimps (Caridea: Lysmata, Exhippolysmata, and Merguia)
Figure 1. Amino acid usage analysis (mean amino acid count per sequence) for COI reference sequences (from selected species of crustaceans: Macrobrachium rosenbergii, Exopalaemon caricaudinata, Halocaridina rubra, and Cherax destructor), for COI orthologous sequences obtained from shrimps from the genus Lysmata, and for COI-like cloned sequences from Lysmata seticaudata. The error bars in each graph represent the highest and lowest amino acid counts per sequence in the three data sets. Amino acid determination and naming follows the invertebrate mitochondrial translation code, and was performed in MEGA 5.
Figure 2 in Exploring phylogenetic informativeness and nuclear copies of mitochondrial DNA (numts) in three commonly used mitochondrial genes: mitochondrial phylogeny of peppermint, cleaner, and semi-terrestrial shrimps (Caridea: Lysmata, Exhippolysmata, and Merguia)
Figure 2. Tree topologies resulting from the analysis of COI-like cloned sequences from Lysmata seticaudata and mtDNA COI gene fragments for shrimps from the genus Lysmata (29 taxa), Exhippolysmata (two taxa), Merguia (two taxa), and one out-group (Nikoides sp.), under maximum likelihood (ML) and Bayesian inference (BI). Numbers above or below the branches represent the bootstrap values obtained from the ML analysis in TREEFINDER, and posterior probabilities from the BI analysis in MrBayes.
Figure 3 in Molecular systematics of peppermint and cleaner shrimps: phylogeny and taxonomy of the genera Lysmata and Exhippolysmata (Crustacea: Caridea: Hippolytidae)
Figure 3. The habitus and colour pattern (dorsal view) of the shrimps Lysmata amboinensis (left) and Lysmata grabhami (right).
Figure 2 in Molecular systematics of peppermint and cleaner shrimps: phylogeny and taxonomy of the genera Lysmata and Exhippolysmata (Crustacea: Caridea: Hippolytidae)
Figure 2. Phylogenetic tree obtained from minimum evolution (ME) analysis of the partial 16S rRNA gene for shrimps from the genus Lysmata, and other selected taxa from the Caridea. Numbers above or below the branches represent the bootstrap values obtained from maximum parsimony (MP) and ME analyses in PAUP* and MEGA 4.4 (MP/ME). The white and black squares represent the presence or absence, respectively, of a developed accessory branch in each species. The images of the shrimps (from top to bottom) represent Lysmata wurdemanni, Lysmata debelius, Lysmata hochi, and Lysmata galapagensis.
Figure 1 in Molecular systematics of peppermint and cleaner shrimps: phylogeny and taxonomy of the genera Lysmata and Exhippolysmata (Crustacea: Caridea: Hippolytidae)
Figure 1. Phylogenetic tree obtained from Bayesian inference (BI) analysis of the partial 16S rRNA gene for shrimps from the genus Lysmata, and other selected taxa from the Caridea. Numbers above or below the branches represent the posterior probabilities from the BI analysis and bootstrap values obtained from maximum likelihood (ML) in PAUP* (BI/ML). The white and black squares represent the presence or absence, respectively, of a developed accessory branch in each species. The images of the shrimps (from top to bottom) represent Lysmata wurdemanni, Lysmata grabhami, Lysmata intermedia, and Lysmata hochi.
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