title: Comparative transcriptome analysis of leaves and roots in response to sudden increase in salinity in Brassica napus by RNA-seq.
abstract: Amphidiploid species in the Brassicaceae family, such as Brassica napus, are more tolerant to environmental stress than their diploid ancestors.A relatively salt tolerant B. napus line, N119, identified in our previous study, was used. N119 maintained lower Na(+) content, and Na(+)/K(+) and Na(+)/Ca(2+) ratios in the leaves than a susceptible line. The transcriptome profiles of both the leaves and the roots 1 h and 12 h after stress were investigated. De novo assembly of individual transcriptome followed by sequence clustering yielded 161,537 nonredundant sequences. A total of 14,719 transcripts were differentially expressed in either organs at either time points. GO and KO enrichment analyses indicated that the same 49 GO terms and seven KO terms were, respectively, overrepresented in upregulated transcripts in both organs at 1 h after stress. Certain overrepresented GO term of genes upregulated at 1 h after stress in the leaves became overrepresented in genes downregulated at 12 h. A total of 582 transcription factors and 438 transporter genes were differentially regulated in both organs in response to salt shock. The transcriptome depicting gene network in the leaves and the roots regulated by salt shock provides valuable information on salt resistance genes for future application to crop improvement.
authors.affiliation: Graduate School of Agricultural Science, Tohoku University, 1-1 Tsutsumidori Amamiyamachi, Aoba-ku, Sendai, Miyagi 981-8555, Japan.
authors.forename: Hui-Yee
authors.identifier: 0000-0002-4549-2729
authors.initials: HY
authors.lastname: Yong
authors.affiliation: Graduate School of Agricultural Science, Tohoku University, 1-1 Tsutsumidori Amamiyamachi, Aoba-ku, Sendai, Miyagi 981-8555, Japan ; Molecular Population Genetics Group, Temasek Lifesciences Laboratory, 1 Research Link, National University of Singapore, Singapore 117604.
authors.forename: Zhongwei
authors.initials: Z
authors.lastname: Zou
authors.affiliation: ACGT Sdn. Bhd. Lot L3-I-1, Enterprise 4, Technology Park Malaysia, 57000 Kuala Lumpur, Malaysia.
authors.forename: Eng-Piew
authors.identifier: 0000-0003-4224-5228
authors.initials: EP
authors.lastname: Kok
authors.affiliation: ACGT Sdn. Bhd. Lot L3-I-1, Enterprise 4, Technology Park Malaysia, 57000 Kuala Lumpur, Malaysia.
authors.forename: Bih-Hua
authors.identifier: 0000-0001-7738-1866
authors.initials: BH
authors.lastname: Kwan
authors.affiliation: ACGT Sdn. Bhd. Lot L3-I-1, Enterprise 4, Technology Park Malaysia, 57000 Kuala Lumpur, Malaysia ; National Heart Centre Singapore Pte. Ltd., 17 Third Hospital Avenue No. 01-00, Singapore 168752.
authors.forename: Kingsley
authors.initials: K
authors.lastname: Chow
authors.affiliation: Graduate School of Agricultural Science, Tohoku University, 1-1 Tsutsumidori Amamiyamachi, Aoba-ku, Sendai, Miyagi 981-8555, Japan.
authors.forename: Shiori
authors.identifier: 0000-0002-6860-7314
authors.initials: S
authors.lastname: Nasu
authors.affiliation: Graduate School of Agricultural Science, Tohoku University, 1-1 Tsutsumidori Amamiyamachi, Aoba-ku, Sendai, Miyagi 981-8555, Japan.
authors.forename: Masami
authors.initials: M
authors.lastname: Nanzyo
authors.affiliation: Graduate School of Agricultural Science, Tohoku University, 1-1 Tsutsumidori Amamiyamachi, Aoba-ku, Sendai, Miyagi 981-8555, Japan.
authors.forename: Hiroyasu
authors.initials: H
authors.lastname: Kitashiba
authors.affiliation: Graduate School of Agricultural Science, Tohoku University, 1-1 Tsutsumidori Amamiyamachi, Aoba-ku, Sendai, Miyagi 981-8555, Japan.
authors.forename: Takeshi
authors.initials: T
authors.lastname: Nishio
mesh_terms: D029688:Brassica napus / Q000502:physiology*; D018506:Gene Expression Regulation, Plant / Q000502:physiology; D018515:Plant Leaves / Q000502:physiology*; D018517:Plant Roots / Q000502:physiology*; D018749:RNA, Plant / Q000235:genetics*; D054712:Salinity; D055049:Salt Tolerance / Q000502:physiology*; D017423:Sequence Analysis, RNA / Q000379:methods; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism*; D059467:Transcriptome / Q000502:physiology*
chemical_list: D018749:RNA, Plant; D014157:Transcription Factors