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RNA-Seq analysis of Clerodendrum inerme (L.) roots in response to salt stress

文献类型： 外文期刊

作者： Xiong, Yuping 1 ; Yan, Haifeng 3 ; Liang, Hanzhi 1 ; Zhang, Yueya 1 ; Guo, Beiyi 1 ; Niu, Meiyun 1 ; Jian, Shuguang 1 ; R 1 ;

作者机构： 1.Chinese Acad Sci, Guangdong Prov Key Lab Appl Bot, South China Bot Garden, Guangzhou 510650, Guangdong, Peoples R China

2.Univ Chinese Acad Sci, Beijing 100039, Peoples R China

3.Guangxi Acad Agr Sci, Cash Crop Inst, Nanning 30007, Peoples R China

4.Miki Cho Post Off,POB 7,Ikenobe 3011-2, Miki, Kagawa 7610799, Japan

关键词： Halophyte; Clerodendrum inerme (L.) Gaertn; Salt stress; Transcriptome

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2019 年 20 卷 1 期

页码：

收录情况： SCI

摘要： Background: Clerodendrum inerme (L.) Gaertn, a halophyte, usually grows on coastal beaches as an important mangrove plant. The salt-tolerant mechanisms and related genes of this species that respond to short-term salinity stress are unknown for us. The de novo transcriptome of C. inerme roots was analyzed using next-generation sequencing technology to identify genes involved in salt tolerance and to better understand the response mechanisms of C. inerme to salt stress. Results: Illumina RNA-sequencing was performed on root samples treated with 400 mM NaCl for 0 h, 6 h, 24 h, and 72 h to investigate changes in C. inerme in response to salt stress. The de novo assembly identified 98,968 unigenes. Among these unigenes, 46,085 unigenes were annotated in the NCBI non-redundant protein sequences (NR) database, 34,756 sequences in the Swiss-Prot database and 43,113 unigenes in the evolutionary genealogy of genes: Non-supervised Orthologous Groups (eggNOG) database. 52 Gene Ontology (GO) terms and 31 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were matched to those unigenes. Most differentially expressed genes (DEGs) related to the GO terms "single-organism process", "membrane" and "catalytic activity" were significantly enriched while numerous DEGs related to the plant hormone signal transduction pathway were also significantly enriched. The detection of relative expression levels of 9 candidate DEGs by qRT-PCR were basically consistent with fold changes in RNA sequencing analysis, demonstrating that transcriptome data can accurately reflect the response of C. inerme roots to salt stress. Conclusions: This work revealed that the response of C. inerme roots to saline condition included significant alteration in response of the genes related to plant hormone signaling. Besides, our findings provide numerous salt-tolerant genes for further research to improve the salt tolerance of functional plants and will enhance research on salt-tolerant mechanisms of halophytes.

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