Nitrite Promotes the Growth and Decreases the Lignin Content of indica Rice Calli: A Comprehensive Transcriptome Analysis of Nitrite-Responsive Genes during In Vitro Culture of Rice

Wang, Xin; Li, Yang; Fang, Gen; Zhao, Qingchuan; Zeng, Qi; Li, Xuemei; Gong, Hanyu; Li, Yangsheng
April 2014
PLoS ONE;Apr2014, Vol. 9 Issue 4, p1
Academic Journal
As both major macronutrients and signal molecules, nitrogen metabolites, such as nitrate and nitrite, play an important role in plant growth and development. In this study, the callus growth of indica rice cv. 9311 was significantly enhanced by nitrite, whereas the soluble protein content remained unchanged. The deep RNA sequencing technology (RNA-seq) showed that the transcriptional profiles of cv. 9311 calli were significantly changed after adding nitrite to the nitrate-free medium, and these nitrite-responsive genes were involved in a wide range of plant processes, particularly in the secondary metabolite pathways. Interestingly, most of the genes involved in phenylpropanoid-related pathways were coordinately down-regulated by nitrite, such as four cinnamoyl-CoA reductase, and these in turn resulted in the decrease of lignin content of indica calli. Furthermore, several candidate genes related to cell growth or stress responses were identified, such as genes coding for expansins, SMALL AUXIN UP RNA (SAUR) and HSP20s, and these suggested that nitrite could probably serve as a transcriptome signal to enhance the indica calli growth by regulation of various downstream genes expression. This study contributes to a better understanding of the function of nitrite during the process of plant tissue culture and could aid in the application of this technology to improved indica genetic transformation efficiency.


Related Articles

  • Analysis of coexpression genes in Oryza sativa L. treated with low-energy ion-beam. Wanguang Chen; Yanzhao Zhang; Yanwei Cheng; Huiyuan Ya // Applied Mechanics & Materials;2014, Issue 675-677, p1129 

    Xindao-18(Oryza sativa L. subsp. japónica Kato) were irratiated with a low-energy ion-beam, the growth form were observed and transcriptome of samples were sequenced by Illumina HiSeq2000 platform. The different expression genes were identified from transcriptomes control and treated samples....

  • Overexpression of OsDof12 affects plant architecture in rice (Oryza sativa L.). Qi Wu; Dayong Li; Dejun Li; Xue Liu; Xianfeng Zhao; Xiaobing Li; Shigui Li; Lihuang Zhu // Frontiers in Plant Science;Oct2015, p1 

    Dof (DNA binding with one finger) proteins, a class of plant-specific transcription factors, are involved in plant growth and developmental processes and stress responses. However, their biological functions remain to be elucidated, especially in rice (Oryza sativa L.). Previously, we have...

  • Identification of Transcriptome SNPs for Assessing Allele-Specific Gene Expression in a Super-Hybrid Rice Xieyou9308. Zhai, Rongrong; Feng, Yue; Zhan, Xiaodeng; Shen, Xihong; Wu, Weiming; Yu, Ping; Zhang, Yingxin; Chen, Daibo; Wang, Huimin; Lin, Zechuan; Cao, Liyong; Cheng, Shihua // PLoS ONE;Apr2013, Vol. 8 Issue 4, p1 

    Hybridization, a common process in nature, can give rise to a vast reservoir of allelic variants. Combination of these allelic variants may result in novel patterns of gene action and is thought to contribute to heterosis. In this study, we analyzed genome-wide allele-specific gene expression...

  • AtERF15 is a positive regulator of ABA response. Lee, Seul-bee; Lee, Sun-ji; Kim, Soo // Plant Cell Reports;Jan2015, Vol. 34 Issue 1, p71 

    Key message: The Arabidopsis AP2/ERF family transcription factor AtERF15 is nuclear-localized and positively regulates ABA and stress responses. Abstract: Abscisic acid (ABA) is a major plant hormone that controls the expression of hundreds genes involved in various aspects of plant growth and...

  • Preliminary Functional Analysis of the Isoforms of OsHsfA2a ( Oryza sativa L.) Generated by Alternative Splicing. Wang, Hongtian; Bian, Mingdi; Yang, Zhenming; Lin, Chentao; Shi, Wuliang // Plant Molecular Biology Reporter;Mar2013, Vol. 31 Issue 1, p38 

    Alternative splicing (AS), i.e., generating multiple mRNA transcripts from a single gene, is known to contribute to proteome diversity and gene regulation in eukaryotes. OsHsfA2a, a gene encoding a heat shock transcription factor (HSF) in rice ( Oryza. sativa L. cv. Nipponbare) generates six...

  • OsWRKY74, a WRKY transcription factor, modulates tolerance to phosphate starvation in rice. Xiaoyan Dai; Yuanyuan Wang; Wen-Hao Zhang // Journal of Experimental Botany;Feb2016, Vol. 67 Issue 3, p947 

    The WRKY transcription factor family has 109 members in the rice genome, and has been reported to be involved in the regulation of biotic and abiotic stress in plants. Here, we demonstrated that a rice OsWRKY74 belonging to group III of the WRKY transcription factor family was involved in...

  • Isolation and identification of an AP2/ERF factor that binds an allelic cis-element of rice gene LRK6. WANG, QIANJIE; QI, WEIWEI; WANG, YING; SUN, FAN; QIAN, XIAOYIN; LUO, XIAOJIN; YANG, JINSHUI // Genetics Research;Oct2011, Vol. 93 Issue 5, p319 

    Allelic expression of the rice yield-related gene, leucine-rich receptor-like kinase 6 (LRK6), in the hybrid of 93-11 (Oryza sativa L. subsp. Indica var. 93-11) and Nipponbare (O. sativa L. subsp. Japonica var. Nipponbare) is determined by allelic promoter cis-elements. Using deletion analysis...

  • Computational identification of anthocyanin-specific transcription factors using a rice microarray and maximum boundary range algorithm. Chang Kug Kim; Shoshi Kikuchi; Jang Ho Hahn; Soo Chul Park; Yong Hwan Kim; Byun Woo Lee // Evolutionary Bioinformatics;2010, Issue 6, p133 

    This study identifies 2,617 candidate genes related to anthocyanin biosynthesis in rice using microarray analysis and a newly developed maximum boundary range algorithm. Three seed developmental stages were examined in white cultivar and two black Dissociation insertion mutants. The resultant...

  • Isolation, structural analysis, and expression characteristics of the maize TIFY gene family. Zhang, Zhongbao; Li, Xianglong; Yu, Rong; Han, Meng; Wu, Zhongyi // Molecular Genetics & Genomics;Oct2015, Vol. 290 Issue 5, p1849 

    TIFY, previously known as ZIM, comprises a plant-specific family annotated as transcription factors that might play important roles in stress response. Despite TIFY proteins have been reported in Arabidopsis and rice, a comprehensive and systematic survey of ZmTIFY genes has not yet been...


Read the Article


Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics