S-nitrosocysteine-responsive genes modulate diverse regulatory pathways in Oryza sativa: a transcriptome profiling study
Bong-Gyu Mun A , Sang-Uk Lee A , Adil Hussain A C , Hyun-Ho Kim A , Nkulu Kabange Rolly A B , Ki-Hong Jung D and Byung-Wook Yun A E
+ Author Affiliations
- Author Affiliations
A School of Applied Bioscience, College of Agriculture and Life Science, Kyungpook National University, 80 Daehak-ro, Bukgu, Daegu, 41566, South Korea.
B Department of Food Security and Agricultural Development, Kyungpook National University, 80 Daehak-ro, Bukgu, Daegu, 41566, South Korea.
C Present address: Department of Agriculture, Abdul Wali Khan University, Nowshera Mardan Rd, Mardan 23200, Pakistan.
D Department of Plant Molecular Systems Biotechnology and Crop Biotechnology Institute, Kyung Hee University, Giheung-gu, Yongin-si, Gyeonggi-do, 17104, Republic of Korea.
E Corresponding author. Email: bwyun@knu.ac.kr
Functional Plant Biology 45(6) 630-644 https://doi.org/10.1071/FP17249
Submitted: 20 March 2017 Accepted: 5 December 2017 Published: 29 January 2018
Abstract
Rice (Oryza sativa L.) is a major food crop and also a well-established genetic model. Nitric oxide (NO) and its derivatives are important signalling molecules that actively participate in various signalling pathways in response to different stresses. In this study, we performed RNA-seq mediated transcriptomic analysis of rice after treatment with the nitric oxide donor, S-nitroso-L-cysteine (CySNO), generating an average of 37.5 and 41.5 million reads from control and treated leaf samples respectively. More than 95% of the reads were successfully mapped to the O. sativa reference genome yielding a total of 33 539 differentially expressed genes (DEGs, P < 0.05). Further analyses identified 825 genes with at least 2-fold change in the expression following treatment with CySNO (P < 0.01). The DEGs identified were involved in diverse molecular functions such as catalytic activity, binding, transport, and receptor activity and were mostly located in the membrane, organelles such as nucleus, Golgi apparatus and mitochondria. DEGs also contained several genes that regulate responses to abiotic stresses such as drought, heat, cold and salt stress and biotic stresses. We also found significantly similar expression patterns of CySNO-responsive DEGs of rice with the CySNO-responsive DEGs of Arabidopsis in a previous study. Expression patterns of genes involved in key biological functions were verified using quantitative real time (qRT)-PCR. The findings of this study suggest that NO regulates the transcriptional control of genes involved in a wide variety of physiological functions in rice, and that NO-mediated transcriptional networks are highly conserved across the plant kingdom. This study provides useful information regarding the transcriptional response of plants to nitrosative stress.
Additional keywords: nitric oxide, NO, RNA-seq, transcriptional response.
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