Extended Data Fig. 3: Subgenomes of A. anomala. | Nature Plants

Extended Data Fig. 3: Subgenomes of A. anomala.

From: Assembly of Arundinella anomala genome to facilitate single-cell resolved functional and developmental characterization of C4 distinctive cells

Extended Data Fig. 3: Subgenomes of A. anomala.The alternative text for this image may have been generated using AI.

a, Estimated insertion times of LTR-RTs in A subgenome and B subgenome of A. anomala. The X- and Y-axes indicate the insertion times and the density of intact LTR-RTs at each time, respectively. b, Multiple sequence alignment of randomly selected centromeric monomer sequences identified from A. anomala genome. Two distinct types of centromeric repeat units were detected: a 103 bp monomer (bottom) and a 137 bp monomer (top). The 137 bp unit represents an extended variant formed by a 34 bp insertion within the 103 bp sequence. c, The stacked bar chart shows the relative abundance of the 103 bp (blue) and 137 bp (orange) centromeric monomers identified in the centromeric regions of each chromosome. The Y-axis indicates the percentage of each repeat type within the centromeric region of each chromosome. d, Distribution of the estimated synonymous substitution rates (Ks) for syntenic conserved gene pairs between the A and B subgenomes. e, Distribution of the estimated lineage specific ratios of nonsynonymous substitution rates to synonymous substitution rates for syntenically conserved genes between the A and B subgenomes. Ks: synonymous nucleotide substitution rate. Ka: nonsynonymous substitution rates.

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