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Bayesian inference (BI) phylogenetic tree based on concatenated mitochondrial 16S, COI, ND4 and CYTB genes; lineage partitions recovered from CYTB-based PTP analyses are presented besides the BI tree (only the CYTB dataset was utilized for PTP analyses because it contains more representative samples ...
Sequence alignment and phylogenetic analyses Sequences were obtained from WASABI (Kauff et al. 2007) as well as from previous publications (e.g.Lutzoni et al. 2004,Schoch et al. 2009b). Taxa was aligned by using default options for a simultaneous method of estimating alignments and tree phyl...
Fig. 2: Maximum-likelihood phylogenetic trees of three key functional enzymes in cold seep sediments. Phylogenetic trees are based on amino acid alignments foraPmoA,bmethanotrophic McrA, andcDsrA protein sequences. The sequences from the same taxonomic groups (class, order, or family level) are...
3.2. Phylogenetic relationships of Megacodon The data set of phylogenetic analyses comprised 62 accessions with 2383 characters. Because the topologies of phylogenetic trees from ML and BI analyses were mostly identical, only the ML tree is shown with the posterior probabilities (PP) from BI analysis...
While a two-taxon application is trivial, the methods outlined above are completely general and apply to datasets and phylogenies of arbitrary size. Our average of averages is easily computed for any tree topology, binary or multifurcating, without regard to the placement of the phylogenetic root...
Phylogenetic tree of theCrocidura oliviericomplex. Final phylogenetic tree for members of theCrocidura oliviericomplex using one specimen per locality and per clade, with 156 individual specimens. Tree built using Bayesian Inference and data from three mitochondrial (16S, cytb and COI) and four nucle...
Most relationships could be resolved with confidence dividing the gene family into strongly supported clusters in most tree reconstructions. UCP2 and UCP3 genes are sister clusters and the avian UCP gene is grouped within the UCP3 cluster. Figure 1 Phylogenetic relationships of proteins within the ...
spider miteTetranychus(Supplementary Data1). The concatenated phylogenetic tree built on the genomic sets based on 4758 genes confirmed the close relationship between the three mite species compared to other Acari (Fig.3). The honey bee ectoparasitic mites,Varroa, andTropilaelapsshared 813 lineage-...