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

Transcriptome Analysis of Sugarcane Response to the Infection by Sugarcane Steak Mosaic Virus... 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. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Tropical Plant Biology Springer Journals

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

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Publisher
Springer Journals
Copyright
Copyright © 2016 by Springer Science+Business Media New York
Subject
Life Sciences; Plant Sciences; Plant Genetics & Genomics; Plant Breeding/Biotechnology; Plant Ecology; Transgenics
ISSN
1935-9756
eISSN
1935-9764
DOI
10.1007/s12042-016-9183-2
Publisher site
See Article on Publisher Site

Abstract

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.

Journal

Tropical Plant BiologySpringer Journals

Published: Dec 15, 2016

References