RNA-seq for gene identification and transcript profiling in relation to root growth of bermudagrass (Cynodon dactylon) under salinity stress

doi:10.1186/s12864-015-1799-3

CORC > 武汉植物园 > 中国科学院武汉植物园

	RNA-seq for gene identification and transcript profiling in relation to root growth of bermudagrass (Cynodon dactylon) under salinity stress
	Amombo, Erick; Hu, Longxing; Li, Huiying; Chen, Liang; Lou, Yanhong; Fu, Jinmin
刊名	BMC GENOMICS
	2015-08-04
卷号	16 页码:12
关键词	Cynodon dactylon Cell wall loosening Salt stress Transcriptome Root growth
ISSN号	1471-2164
DOI	10.1186/s12864-015-1799-3
英文摘要	Background: Soil salinity is one of the most significant abiotic stresses affecting plant shoots and roots growth. The adjustment of root architecture to spatio-temporal heterogeneity in salinity is particularly critical for plant growth and survival. Bermudagrass (Cynodon dactylon) is a widely used turf and forage perennial grass with a high degree of salinity tolerance. Salinity appears to stimulate the growth of roots and decrease their mortality in tolerant bermudagrass. To estimate a broad spectrum of genes related to root elongation affected by salt stress and the molecular mechanisms that control the positive response of root architecture to salinity, we analyzed the transcriptome of bermudagrass root tips in response to salinity. Results: RNA-sequencing was performed in root tips of two bermudagrass genotypes contrasting in salt tolerance. A total of 237,850,130 high quality clean reads were generated and 250,359 transcripts were assembled with an average length of 1115 bp. Totally, 103,324 unigenes obtained with 53,765 unigenes (52 %) successfully annotated in databases. Bioinformatics analysis indicated that major transcription factor (TF) families linked to stress responses and growth regulation (MYB, bHLH, WRKY) were differentially expressed in root tips of bermudagrass under salinity. In addition, genes related to cell wall loosening and stiffening (xyloglucan endotransglucosylase/hydrolases, peroxidases) were identified. Conclusions: RNA-seq analysis identified candidate genes encoding TFs involved in the regulation of lignin synthesis, reactive oxygen species (ROS) homeostasis controlled by peroxidases, and the regulation of phytohormone signaling that promote cell wall loosening and therefore root growth under salinity.
资助项目	National Natural Science Foundation of China[31101563] ; National Natural Science Foundation of China[31272194] ; China-Africa Center for Research and Education, CAS[SAJC201325]
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
语种	英语
出版者	BIOMED CENTRAL LTD
WOS记录号	WOS:000358905900003
内容类型	期刊论文
源URL	[http://202.127.146.157/handle/2RYDP1HH/223]
专题	中国科学院武汉植物园
通讯作者	Fu, Jinmin
作者单位	Chinese Acad Sci, Key Lab Plant Germplasm Enhancement & Specialty A, Wuhan Bot Garden, Wuhan 430074, Hubei, Peoples R China
推荐引用方式 GB/T 7714	Amombo, Erick,Hu, Longxing,Li, Huiying,et al. RNA-seq for gene identification and transcript profiling in relation to root growth of bermudagrass (Cynodon dactylon) under salinity stress[J]. BMC GENOMICS,2015,16:12.
APA	Amombo, Erick,Hu, Longxing,Li, Huiying,Chen, Liang,Lou, Yanhong,&Fu, Jinmin.(2015).RNA-seq for gene identification and transcript profiling in relation to root growth of bermudagrass (Cynodon dactylon) under salinity stress.BMC GENOMICS,16,12.
MLA	Amombo, Erick,et al."RNA-seq for gene identification and transcript profiling in relation to root growth of bermudagrass (Cynodon dactylon) under salinity stress".BMC GENOMICS 16(2015):12.