Table 1.
Assembly results of sugarcane transcriptome using trinity software.
Table 2.
Statistics of differentially expressed genes.
Figure 1.
Venn diagram of differentially co-expressed genes in both sugarcane cultivars after S. scitamineum inoculation at the same time points.
DR24, DR48 and DR120 denote differentially expressed gene sets obtained from “ROC”22 samples at 24, 48, and 120 h after S. scitamineum inoculation compared to controls 24 h after water inoculation, respectively; DY24, DY48 and DY120 denote differentially expressed gene sets obtained from Yacheng05-179 samples at 24, 48 and 120 h after S. scitamineum inoculation compared to control sample 24 h after water inoculation, respectively. All DEGs: differentially expressed genes.
Figure 2.
Venn diagram of differentially co-expressed genes in both sugarcane cultivar after S. scitamineum inoculation at different time points.
DR24, DR48 and DR120 denote differentially expressed gene sets obtained from “ROC”22 samples at 24, 48 and 120 h after S. scitamineum inoculation compared to control sample at 24 h after water inoculation, respectively; DY24, DY48 and DY120 denote differentially expressed gene sets obtained from Yacheng05-179 samples at 24, 48 and 120 h after S. scitamineum inoculation compared to control sample at 24 h after water inoculation, respectively; All DEGs, all differentially expressed genes; Up-regulation DEGs, up-regulated genes; Down-regulation DEGs, down-regulated genes.
Figure 3.
Venn diagram showing the number of genes with sustained differential co-expression between both sugarcane cultivars.
DR-up and DR-down denote continuously up-regulated/down-regulated gene sets in “ROC”22 samples at 24, 48 and 120 h after S. scitamineum inoculation compared to control sample 24 h after water inoculation, respectively; DY-up and DY-down denote continuously up-regulated/down-regulated gene sets in Yacheng05-179 samples at 24, 48 and 120 h after S. scitamineum inoculation compared to control sample 24 h after water inoculation, respectively.
Figure 4.
Cluster heatmap of expression patterns of differentially co-expressed genes in both sugarcane cultivars at different time points after S. scitamineum inoculation.
T1, T2, T3 and T4 denote “ROC”22 at 24 h after water inoculation, and at 24, 48 and 120 h after S. scitamineum inoculation, respectively; T5, T6, T7 and T8 denote Yacheng05-179 at 24 h after water inoculation, and at 24, 48 and 120 h after S. scitamineum inoculation, respectively; k1∼k9 indicate nine distinct expression patterns of differentially co-expressed genes.
Figure 5.
Dynamic expression models of differentially expressed genes in “ROC”22 after S. scitamineum inoculation (T1→T2→T3→T4).
T1, T2, T3 and T4 denote “ROC”22 at 24 h after water inoculation, and at 24, 48 and 120 h after S. scitamineum inoculation, respectively.
Figure 6.
Dynamic expression models of differentially expressed genes in Yacheng05-179 after S. scitamineum inoculation (T5→T6→T7→T8).
T5, T6, T7 and T8 denote Yacheng05-179 at 24 h after water inoculation, and at 24, 48 and 120 h after S. scitamineum inoculation, respectively.
Table 3.
Dynamic expression patterns of differentially expressed genes in “ROC”22 after S. scitamineum inoculation.
Table 4.
Dynamic expression patterns of differentially expressed genes in Yacheng05-179 after S. scitamineum inoculation.
Table 5.
Analysis of GO classifications involving differentially co-expressed genes in three models of distinct and notable dynamic expression patterns in both sugarcane genotypes.
Table 6.
Analysis of pathways involving differentially expressed genes after S. scitamineum inoculation in “ROC”22.
Table 7.
Analysis of pathways involving differentially expressed genes after S. scitamineum inoculation in Yacheng05-179.
Table 8.
Expression of resistance-related genes in sugarcane after S. scitamineum infection.
Figure 7.
Analysis of the gene encoding sugarcane chitinase.
(A) Transcript levels of ScChi during sugarcane-Sporisorium scitamineum interaction. The data of RT-qPCR was normalized to the GAPDH expression level. All data points (deduction its mock) are means ±SE (n = 3). Y, Yacheng05-179; R, “ROC”22. 24 h, 48 h and 120 h, sugarcane buds inoculation with S. scitamineum at 24 h, 48 h and 120 h, respectively; qPCR, detection results of real-time fluorescent quantitative PCR; log2FC, fold change of the differential expression of chitinase gene in the transcriptome. (B) The infection results of Nicotiana benthamiana Fusarium solani var. coeruleum and Botrytis cinerea by infiltrated with the 35S::ScChi-containing Agrobacterium strain. The disease symptom was assessed 20 d after inoculation. (C) The antimicrobial action of chitinase (T0 generation of ScChi transgenic N. benthamiana) on Fusarium solani var. coeruleum. CK, the control of normal culture on Fusarium solani var. coeruleum; 35S::ScChi, the antimicrobial action of chitinase of T0 generation of ScChi transgenic N. benthamiana; 1∼3, chitinase from three different T0 generation of ScChi transgenic N. benthamiana, respectively; 4, chitinase from T0 generation of pCAMBIA 1301 transgenic N. benthamiana; 5, chitinase from untransgenic N. benthamiana; 6, 0.1 mol/L sodium acetate buffer (pH 5.0). Read arrow indicated the antibacterial effect.
Figure 8.
RT-qPCR validation of parts of differentially expressed genes identified by Illumina sequencing.
Q1, metacaspase-1-like gene; Q2, ribonuclease 3-like gene; Q3, pathogenesis-related protein (PR-10) gene; Q4, sucrose transporter (SUT1) gene; Q5, vacuolar amino acid transporter 1-like gene; Q6, heat shock protein-like gene. Y, Yacheng05-179; R, “ROC”22; 24 h, 48 h and 120 h, sugarcane buds inoculation with Sporisorium scitamineum at 24 h, 48 h and 120 h, respectively; qPCR, detection results of real-time fluorescent quantitative PCR; log2FC, fold change of the differential expression genes in the transcriptome.