Fig 1.
Distributions of the mean coverage of unigenes (a) and the length of unigenes and contigs (b).
Table 1.
Summary statistics of assembly and annotation for Nypa fruticans.
Fig 2.
GO functional classification of N. fruticans.
GO functional classification (level 2) of the annotated 18,761 unigenes.
Table 2.
Putative positively selected genes in N. fruticans.
Fig 3.
Frequency of different SSR motif types.
Fig 4.
Phylogenetic analysis and divergence time estimation.
(A) The phylogenetic tree of the five monocots. The results are 100% supported by the 1,000 bootstraps analysis. (B) Estimation of divergence time. Blue bars indicate 95% confidence intervals.
Fig 5.
Whole-genome duplication events of four palms.
(A) The distribution of synonymous substitution rate (Ks) of the paralogs is displayed in red and blue for N. fruticans and P. dactylifera, respectively. Peaks I and II indicated two whole-genome duplication events in both species. The yellow bars showed the distribution of Ks of the orthologs between the two species. Peak III indicated that the divergence time of the two palms was close to the recent duplication events (peak II). (B) The distribution of Ks of paralogs of E. guineensis and C. nucifera. The same two whole-genome duplication events can be found for the two species.