Arid
DOI10.1186/s12864-016-2562-0
Effects of drought and salt-stresses on gene expression in Caragana korshinskii seedlings revealed by RNA-seq
Li, Shaofeng1; Fan, Chengming2; Li, Yan2; Zhang, Jianhui2; Sun, Jingshuang1; Chen, Yuhong2; Tian, Changyan3; Su, Xiaohua4; Lu, Mengzhu4; Liang, Chengzhi2; Hu, Zanmin2
通讯作者Hu, Zanmin
来源期刊BMC GENOMICS
ISSN1471-2164
出版年2016
卷号17
英文摘要

Background: Drought and soil salinity are major abiotic stresses. The mechanisms of stress tolerance have been studied extensively in model plants. Caragana korshinskii is characterized by high drought and salt tolerance in northwestern China; unique patterns of gene expression allow it to tolerate the stress imposed by dehydration and semi-desert saline soil. There have, however, been no reports on the differences between C. korshinskii and model plants in the mechanisms underlying their drought and salt tolerance and regulation of gene expression.


Results: Three sequencing libraries from drought and salt-treated whole-seedling-plants and the control were sequenced to investigate changes in the C. korshinskii transcriptome in response to drought and salt stresses. Of the 129,451 contigs, 70,662 (54.12 %) were annotated with gene descriptions, gene ontology (GO) terms, and metabolic pathways, with a cut-off E-value of 10(-5). These annotations included 56 GO terms, 148 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways, and 25 Clusters of Orthologous Groups (COG). On comparison of the transcriptomes of the control, drought-and salt-treated plants, 1630 and 1521 contigs showed significant differences in transcript abundance under drought and salt stresses. Compared to the differentially expressed genes (DEGs) in drought-or salt-treated Arabidopsis in the database, 542 DEGs in drought-treated C. korshinskii and 529 DEGs in salt-treated samples were presumably unique to C. korshinskii. The transcription profiles revealed that genes related to transcription factors, protein kinases, and antioxidant enzymes are relevant to the tolerance of drought and salt stress in this species. The expression patterns of 38 randomly selected DEGs were confirmed by quantitative real-time PCR and were essentially consistent with the changes in transcript abundance identified by RNA-seq.


Conclusions: The present study identified potential genes involved in drought and salt tolerance in C. korshinskii, as well as many DEGs uniquely expressed in drought-or salt-treated C. korshinskii samples compared to Arabidopsis. To our knowledge, this study is the first exploration of the C. korshinskii transcriptome under drought and salt conditions, and these results will facilitate the discovery of specific stress-resistance-related genes in C. korshinskii, possibly leading to the development of novel plant cultivars through genetic engineering.


英文关键词Caragana korshinskii Transcriptome Illumina sequencing Drought-stress tolerance Salt-stress tolerance
类型Article
语种英语
国家Peoples R China
收录类别SCI-E
WOS记录号WOS:000371595700005
WOS关键词NAC TRANSCRIPTION FACTORS ; HIGH-SALINITY STRESSES ; SIGNAL-TRANSDUCTION ; PROTEIN-KINASE ; WATER-STRESS ; TOLERANCE ; ARABIDOPSIS ; COLD ; OVEREXPRESSION ; RESISTANCE
WOS类目Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS研究方向Biotechnology & Applied Microbiology ; Genetics & Heredity
来源机构中国科学院新疆生态与地理研究所
资源类型期刊论文
条目标识符http://119.78.100.177/qdio/handle/2XILL650/191859
作者单位1.Chinese Acad Forestry, Expt Ctr Forestry North China, Beijing 100023, Peoples R China;
2.Chinese Acad Sci, Inst Genet & Dev Biol, Datun Rd, Beijing 100101, Peoples R China;
3.Chinese Acad Sci, Xinjiang Inst Ecol & Geog, Urumqi 830011, Peoples R China;
4.Chinese Acad Forestry, Res Inst Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China
推荐引用方式
GB/T 7714
Li, Shaofeng,Fan, Chengming,Li, Yan,et al. Effects of drought and salt-stresses on gene expression in Caragana korshinskii seedlings revealed by RNA-seq[J]. 中国科学院新疆生态与地理研究所,2016,17.
APA Li, Shaofeng.,Fan, Chengming.,Li, Yan.,Zhang, Jianhui.,Sun, Jingshuang.,...&Hu, Zanmin.(2016).Effects of drought and salt-stresses on gene expression in Caragana korshinskii seedlings revealed by RNA-seq.BMC GENOMICS,17.
MLA Li, Shaofeng,et al."Effects of drought and salt-stresses on gene expression in Caragana korshinskii seedlings revealed by RNA-seq".BMC GENOMICS 17(2016).
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