Extended Data Fig. 4: Copy number conservation of lncRG1 and lncRG2 in the soybean pan-genome and evolution of lncRG3 and lncRG4.
From: Long noncoding RNAs underlie multiple domestication traits and leafhopper resistance in soybean
a, Genomic sequence and gene alignments among the soybean pan-genome accessions at the lncRG1-lncRG2 region, including flanking genes. Boxes represent genes and grey color indicate syntenic blocks among genomes. b, Relative expression levels of lncRG1, lncRG2, lncRG3 and lncRG4 in the stem tips of Wm82 and PI 479752, as determined by qRT-PCR. The dots show the values from biologically independent samples (n = 3). Data are represented as mean ± SEM. c-d, Secondary structures of lncRG3 and lncRG4 and the sRNAs mapped to their inverted repeats. e, nucleotide diversity within the inverted repeats of lncRG1, lncRG2, lncRG3 and lncRG4. The dots show the values of nucleotide diversity calculated from different soybean pan-genome accessions (n = 27). The horizontal lines indicate the medians, and the boxes represent the interquartile range (IQR). The whiskers represent the range of 1.5 times IQR and dots beyond the whiskers are outlier values. The numbers above the boxes are P values determined by a two-sided Student’s t-test.
