Figure 1.
Nodule sections of Vigna unguiculata and Leucaena leucocephala.
(A–B) Nitrogen fixing nodules of V. unguiculata (21 days post inoculation, A) and L. leucocephala (35 days post inoculation, B). (C–D) Semithin sections of nodules from V. unguiculata (C) and L. leucocephala (D), the asterisk indicates the meristem zone of indeterminate nodules of L. leucocephala (D). (E–F) Ultrathin sections of nodules from V. unguiculata (E) and L. leucocephala (F), red arrowheads indicate the peribacteroid membrane; and PHB granules are seen as electron-transparent droplets in the cytoplasm of bacteroids.
Table 1.
An overview of the RNA-Seq data.
Figure 2.
Distributions of differentially expressed genes across replicons of Sinorhizobium sp. NGR234.
a, pNGR234a; b, pNGR234b; Chromosome, cNGR234; three replicons were separated by dashed lines. log2 Ratio(VB/F), the base 2 logarithm value for the ratio of expression level between bacteroids of Vigna unguiculata (VB) and free-living (F) Sinorhizobium sp. NGR234; LB/F, the ratio between L. leucocephala bacteroids and free-living bacteria; LB/VB, the ratio between L. leucocephala bacteroids and V. unguiculata bacteroids. The red bars above the horizontal line represent genes with the log2 Ratio values >1.0 whereas the blue bars below the horizontal line indicate genes with the log2 Ratio values<−1.0.
Table 2.
Differentially expressed genes in three replicons of Sinorhizobium sp. NGR234.
Figure 3.
Validation of RNA-seq results by quantitative reverse transcription-polymerase chain reaction (qRT-PCR).
Expression of 13 genes was determined using qRT-PCR for the free-living Sinorhizobium sp. NGR234, L. leucocephala and V. unguiculata bacteroids. The expression ratios were calculated for L. leucocephala bacteroids vs. free-living (LB_vs_F), V. unguiculata bacteroids vs. free-living (VB_vs_F), and L. leucocephala bacteroids vs. V. unguiculata bacteroids (LB_vs_VB). The log2-transformed expression ratios from RNA-seq (vertical axis) and qRT-PCR (horizontal axis) are shown. The solid and dashed line(s) depicted the linear curve and the individual confidence intervals (95%). The linear equation and R square values are shown.
Table 3.
Differentially expressed genes encoding ABC transporters.
Table 4.
Expression patterns of phaP genes encoding phasins.