Sentence examples for ancestral architecture from inspiring English sources

Full length alignment of the main replicons of the four Cupriavidus genomes and the closely related R. solanacearum genome clearly suggests a common ancestral architecture for CHR1 (Figure 4): overall homology between their respective CHR2 replicons is much lower (Figure S2) probably owing to different evolutionary histories.

Based on the reconciled tree, the ancestral protein architectures were inferred by a modified maximum parsimonious protein ancestral architecture inference algorithm [ 25, 26].

By integrating the ancestral architecture inference algorism [ 26] into the widely applied gene duplication-loss parsimony model [ 8, 32], we established a maximum parsimony model suitable to infer and date gene duplication/loss and fusion/fission events in SRLK evolution.

Furthermore, a maximum parsimony algorithm has been established to analyze the evolution of protein architectures, in particular domain fusion and fission, based on the inferred ancestral architecture at each node in the species trees [ 25] or domain trees [ 25, 26].

It can be reconstructed as having an ancestral architecture that combined an N-terminal Ubl with a central region containing variable numbers of a novel Zn-chelating cysteine cluster domain and a C-terminal catalytically inactive version of the JAB peptidase domain.

On the basis of a reconciled species-domain tree including both SRLKs and SRLCKs, gene duplication/loss and fusion events in SRLK evolution were inferred and dated by integrating the maximum parsimony ancestral architecture inference algorithm [ 25, 26] into the widely applied gene duplication/loss model [ 32].

After the architectures of these outer nodes were inferred, they were treated as leaves to initiate another round of ancestral architecture-inferring process until the ancestral architectures at all inner nodes were inferred, after which gene duplication/loss and fusion/loss events were inferred and dated.

The trees were traversed twice and the ancestral architectures yielding the lowest cost were selected.

After a reconciled species-domain tree was generated by Notung, we inferred the ancestral architectures of all nodes along the reconciled tree according to our model.

It provides the most comprehensive assignment of SCOP domain architectures to publicly available genome sequences [19], including those in eukaryotic genomes and their ancestral architectures reconstructed from the eukaryotic species tree of life [20].

Thus, Old World monkeys display a broad spectrum of KIR haplotype variation that has been generated upon an ancestral haplotype architecture by gene duplication, gene deletion, and non-homologous recombination.