Fig. 2: Phylogenetic position and comparative genomics analyses. | Nature Communications

Fig. 2: Phylogenetic position and comparative genomics analyses.

From: Genomic analyses of rice bean landraces reveal adaptation and yield related loci to accelerate breeding

Fig. 2

a Genome evolution and gene family characteristics of Vigna umbellata (rice bean) and 13 other dicot species using the monocot plant Oryza sativa (rice) as an out-group. This tree was generated using 334 single-copy ortholog families. Black numerical values beside each node show the estimated divergence time of each node (MYA, million years ago) in the phylogenetic tree shown on the left. Blue and orange backgrounds represent Leguminosae and non-Leguminosae species, respectively. The number of gene families, genes in the family, and the total number of genes are shown on the right for each species. b Density distribution of synonymous nucleotide substitution levels (Ks) of syntenic orthologous (solid curves) and paralogous genes (dashed curves). Vum: Vigna umbellata; Gma: Glycine max; Van: V. angularis; Pvu: Phaseolus vulgaris; Vst: V. stipulacea; Vun: V. unguiculata; Vra: V. radiata. c Insertion bursts of full-length LTR elements in the genomes of V. umbellata and other four Vigna species. Source data are provided as a Source Data file.

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