Tropical Plant Biology

, Volume 10, Issue 1, pp 45–55 | Cite as

Transcriptome Analysis of Sugarcane Response to the Infection by Sugarcane Steak Mosaic Virus (SCSMV)

  • Meng Dong
  • Guangyuan Cheng
  • Lei Peng
  • Qian Xu
  • Yongqing Yang
  • Jingsheng Xu


Sugarcane streak mosaic virus (SCSMV) is one of the pathogens causing sugarcane mosaic disease (SMD). Transcriptome of a susceptible sugarcane cultivar challenged by SCSMV was studied by high-throughput, paired-end RNA sequencing. Overall, we obtained 63,025 unigenes, including 14,384 unigenes measuring more than 1 kb each. We annotated 38,505 unigenes with COG, GO, KEGG, KOG, Pfam, Swiss-Prot and Nr. We screened 4982 differently expressed genes (DEGs) including 3841 annotated DEGs, of which 3791 were up-regulated, and 50 were down-regulated. The expression of DEGs in the three KEGG pathways, unbiquitin proteolytic system, proteasome and translational pathways in endoplasmic reticulum (ER) was investigated in response to stress and unfolded protein response (UPR). Interestingly, the DEGs in the 3 pathways were up-regulated. We tested eight DEGs encoding proteins in response to ER stress and UPR. We found that these genes were up-regulated in sugarcane challenged by SCSMV. This study presented the first report of the sugarcane transcriptome following SCSMV infection. It sheds light on the genetic mechanisms in sugarcane in response to SCSMV infection.


Sugarcane SCSMV Transcriptome qRT-PCR 



We are grateful to the financial support by National High-tech R&D Program of China (863 Program) (2013AA102604), National Natural Science Foundation (31371688) and the earmarked fund for the Modern Agriculture Technology of China (CARS-20-1-1).

Author Contributions

MD and JX designed the research, analyze data and wrote the paper; GC, LP and QX performed the research; YY analyzed the data.

Supplementary material

12042_2016_9183_Fig6_ESM.jpg (495 kb)
Fig. S1

A. Virus detection of the tissue cultured sugarcane plantlets by RT-PCR. Lane 1, negative control. Lane 2–11 in up row, samples negative for SCMV and SrMV, respectively. Lane 2–11 in down row, in which lane 2–5 showing samples negative for SCSMV, while lane 2–5 showing samples positive for SCSMV. B. Sugarcane samples for qRT-PCR. Samples negative for SCMV in the up row. Samples negative for SrMV in the middle row. Samples positive for SCSMV in the basal row. (JPEG 495 kb)

12042_2016_9183_Fig7_ESM.jpg (435 kb)
Fig. S2

A. MA plot of DEGs. B. Volcano plot of gene expression between control and virus-infected sugarcane. (JPEG 434 kb)

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Copyright information

© Springer Science+Business Media New York 2016

Authors and Affiliations

  • Meng Dong
    • 1
  • Guangyuan Cheng
    • 1
  • Lei Peng
    • 1
  • Qian Xu
    • 1
  • Yongqing Yang
    • 1
  • Jingsheng Xu
    • 1
  1. 1.Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of AgricultureFujian Agriculture and Forestry UniversityFuzhouChina

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