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We have analyzed gene duplication patterns and duplication types among the available teleost genomes and found that a large number of genes were tandemly and intrachromosomally duplicated, suggesting their origin of independent and continuous duplication.
The three continuous duplication events showed varying effects on shaping the site-specific altered selective constrains of the class C GPCR VFTMs.
The linearized NJ tree of the orthologous VFTMs under the global clock model suggests that three continuous duplication events had occurred in early stages of vertebrates.
Our results also reveal that three continuous duplication events occurred in order to shape the evolutionary topology of class C GPCRs.
The phylogenetic tree demonstrates that JcCS4 JcCS9 forms a cluster, suggesting that continuous duplication of the original JcCS gene occurred recently (Supplementary Fig. S2 and Supplementary Table S9).
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After undergoing three continuous duplications, the GB2 group retained their original structure and functions and are similarly related to bacterial PBPs except for their ligand-binding abilities.
Whereas the genome content of Stramenochromes is of comparable size to the LSCA, genomes of pathogenic oomycetes have been growing by gains and by continuous duplications on both the internal as well as the terminal branches.
To summarize, the results of this analysis demonstrate that the impact of HGT on genome evolution in dinoflagellates is reinforced by continuous duplications of the transferred genes and consequent diversification of the resulting paralogs.
Our analysis uncovered that oomycete genomes, emanating from a common ancestor of Stramenopiles that had a rather large genome encoding for ∼10,000 genes, were growing by continuous duplications that predominantly affected ancestral OGs.
The increased genome content of the extant oomycetes is mainly caused by three events: gains, continuous duplications at internal branches of the species phylogeny, and a high number of duplications at branches leading to the extant taxa, for example, P. infestans, S. parasitica, and P. ultimum.
Such findings demonstrated the significance of continuous gene duplication as well as that of whole genome duplication in the course of genome evolution.
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