Orginal Article

Bioinformatic and Expression Analysis of Rice Ubiquitin-conjugating Enzyme Gene Family

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  • The Functional Genomics Center, Fujian Agriculture and Forestry University, Fuzhou 350002, China;
*Corresponding author, E-mail:gdlufafu@163.com

Received date: 2015-11-30

  Revised date: 2016-03-16

  Online published: 2016-05-10

Abstract

The ubiquitin / proteasome system plays an important role in plant growth and development, morphogenesis and disease resistance. Recent studies have shown that some pathogens can mimic the host plant ubiquitin / proteasome system components to achieve their own purposes. Ubiquitin-conjugating enzyme is the second enzyme in the ubiquitination process and is indispensable for the plant ubiquitin/proteasome system. Previous studies showed that there are 48 predicted ubiquitin-conjugating enzyme genes in rice genome. In order to preliminarily elucidate the functions of rice ubiquitin-conjugating enzyme genes in plant disease resistance, bioinformatic, RNA-seq and qRT-PCR methods were used to analyze characteristics and expression patterns of rice ubiquitin-conjugating enzyme gene family. Phylogenetic tree analyses indicate that the 48 rice ubiquitin-conjugating enzyme genes can be divided into 3 groups, 7 sub-groups in total. Protein domain analysis showed that ubiquitin-conjugating enzyme genes mainly consist of a big ubiquitin-conjugating enzyme catalytic domain. Expression analysis in silico suggested that most of the rice ubiquitin-conjugating enzymes can be induced by blast fungus infection. Plant cis-acting elements analysis indicated that four pathogen resistance cis-acting elements and one hypersensitivity reaction cis-acting element have high distribution in the promoter region of the 48 rice ubiquitin-conjugating enzyme genes. RNA-seq data from compatible and incompatible monogenic rice after rice blast fungus infection showed that 44 rice ubiquitin-conjugating enzyme genes were expressed at 36 hours after treatment, among which more than 50% were highly expressed genes. qRT-PCR analysis showed that expression of some ubiquitin-conjugating enzyme genes can be induced by the inoculation of rice blast fungus both in compatible and incompatible monogenic rice. However, in incompatible rice the expression of rice ubiquitin-conjugating enzyme genes tends to be inhibited after rice blast fungus inoculation.

Cite this article

Xin LIU, Heng ZHANG, Hu-fei KAN, Li-shuai ZHOU, Hao HUANG, Lin-lin SONG, Huan-chen ZHAI, Jun ZHANG, Guo-dong LU . Bioinformatic and Expression Analysis of Rice Ubiquitin-conjugating Enzyme Gene Family[J]. Chinese Journal OF Rice Science, 2016 , 30(3) : 223 -231 . DOI: 10.16819/j.1001-7216.2016.5177

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