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Publication Type J
Authors Hu, LX; Li, HY; Chen, L; Lou, YH; Amombo, E; Fu, JM
Author Full Name Hu, Longxing; Li, Huiying; Chen, Liang; Lou, Yanhong; Amombo, Erick; Fu, Jinmin
Title RNA-seq for gene identification and transcript profiling in relation to root growth of bermudagrass (Cynodon dactylon) under salinity stress
Source BMC GENOMICS
Language English
Document Type Article
Author Keywords Cynodon dactylon; Cell wall loosening; Salt stress; Transcriptome; Root growth
Keywords Plus CELL-WALL; ELONGATION ZONE; DIFFERENTIAL EXPRESSION; SIGNALING PATHWAY; REFERENCE GENOME; WRKY GENE; MAIZE; ARABIDOPSIS; PLANTS; GENOTYPES
Abstract 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.
Author Address [Hu, Longxing; Li, Huiying; Chen, Liang; Lou, Yanhong; Amombo, Erick; Fu, Jinmin] Chinese Acad Sci, Key Lab Plant Germplasm Enhancement & Specialty A, Wuhan Bot Garden, Wuhan 430074, Hubei, Peoples R China
Reprint Address Fu, JM (reprint author), Chinese Acad Sci, Key Lab Plant Germplasm Enhancement & Specialty A, Wuhan Bot Garden, Wuhan 430074, Hubei, Peoples R China.
E-mail Address jfu@wbgcas.cn
Funding Agency and Grant Number National Natural Science Foundation of China [31101563, 31272194]; China-Africa Center for Research and Education, CAS [SAJC201325]
Funding Text This work was financially supported by the Young Scientists Fund of the National Natural Science Foundation of China (Grant No. 31101563), China-Africa Center for Research and Education, CAS (SAJC201325) and National Natural Science Foundation of China (Grant No. 31272194).
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Cited Reference Count 59
Times Cited 13
Total Times Cited Count (WoS, BCI, and CSCD) 13
Publisher BIOMED CENTRAL LTD
Publisher City LONDON
Publisher Address 236 GRAYS INN RD, FLOOR 6, LONDON WC1X 8HL, ENGLAND
ISSN 1471-2164
29-Character Source Abbreviation BMC GENOMICS
ISO Source Abbreviation BMC Genomics
Publication Date AUG 4
Year Published 2015
Volume 16
Article Number 575
Digital Object Identifier (DOI) 10.1186/s12864-015-1799-3
Page Count 12
Web of Science Category Biotechnology & Applied Microbiology; Genetics & Heredity
Subject Category Biotechnology & Applied Microbiology; Genetics & Heredity
Document Delivery Number CO1HT
Unique Article Identifier WOS:000358905900003
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