Coordinated Regulations of mRNA Synthesis and Decay during Cold Acclimation in Arabidopsis Cells.

Handle URI:
http://hdl.handle.net/10754/623440
Title:
Coordinated Regulations of mRNA Synthesis and Decay during Cold Acclimation in Arabidopsis Cells.
Authors:
Arae, Toshihiro; Isai, Shiori; Sakai, Akira; Mineta, Katsuhiko ( 0000-0002-4727-045X ) ; Hirai, Masami Yokota; Suzuki, Yuya; Kanaya, Shigehiko; Yamaguchi, Junji; Naito, Satoshi; Chiba, Yukako
Abstract:
Plants possess a cold acclimation system to acquire freezing tolerance through pre-exposure to non-freezing low temperatures. The transcriptional cascade of C-repeat binding factors (CBFs)/dehydration response element-binding factors (DREBs) is considered a major transcriptional regulatory pathway during cold acclimation. However, little is known regarding the functional significance of mRNA stability regulation in the response of gene expression to cold stress. The actual level of individual mRNAs is determined by a balance between mRNA synthesis and degradation. Therefore, it is important to assess the regulatory steps to increase our understanding of gene regulation. Here, we analyzed temporal changes in mRNA amounts and half-lives in response to cold stress in Arabidopsis cell cultures based on genome-wide analysis. In this mRNA decay array method, mRNA half-life measurements and microarray analyses were combined. In addition, temporal changes in the integrated value of transcription rates were estimated from the above two parameters using a mathematical approach. Our results showed that several cold-responsive genes, including Cold-regulated 15a, were relatively destabilized, whereas the mRNA amounts were increased during cold treatment by accelerating the transcription rate to overcome the destabilization. Considering the kinetics of mRNA synthesis and degradation, this apparently contradictory result supports that mRNA destabilization is advantageous for the swift increase in CBF-responsive genes in response to cold stress.
KAUST Department:
Computational Bioscience Research Center (CBRC)
Citation:
Arae T, Isai S, Sakai A, Mineta K, Hirai MY, et al. (2017) Coordinated Regulations of mRNA Synthesis and Decay during Cold Acclimation in Arabidopsis Cells. Plant and Cell Physiology. Available: http://dx.doi.org/10.1093/pcp/pcx059.
Publisher:
Oxford University Press (OUP)
Journal:
Plant and Cell Physiology
Issue Date:
18-Apr-2017
DOI:
10.1093/pcp/pcx059
Type:
Article
ISSN:
0032-0781; 1471-9053
Sponsors:
We thank Chieko Saito and Hitomi Sekihara (Hokkaido University) for technical assistance with the experimental procedures and Ayuko Kuwahara (RIKEN) for technical assistance with the microarray analysis. T87 cells were provided by RIKEN BioResource Center. We used the Radioisotope Laboratory of the Faculty of Science, Hokkaido University.
Additional Links:
https://academic.oup.com/pcp/article-lookup/doi/10.1093/pcp/pcx059
Appears in Collections:
Articles; Computational Bioscience Research Center (CBRC)

Full metadata record

DC FieldValue Language
dc.contributor.authorArae, Toshihiroen
dc.contributor.authorIsai, Shiorien
dc.contributor.authorSakai, Akiraen
dc.contributor.authorMineta, Katsuhikoen
dc.contributor.authorHirai, Masami Yokotaen
dc.contributor.authorSuzuki, Yuyaen
dc.contributor.authorKanaya, Shigehikoen
dc.contributor.authorYamaguchi, Junjien
dc.contributor.authorNaito, Satoshien
dc.contributor.authorChiba, Yukakoen
dc.date.accessioned2017-05-09T12:54:45Z-
dc.date.available2017-05-09T12:54:45Z-
dc.date.issued2017-04-18en
dc.identifier.citationArae T, Isai S, Sakai A, Mineta K, Hirai MY, et al. (2017) Coordinated Regulations of mRNA Synthesis and Decay during Cold Acclimation in Arabidopsis Cells. Plant and Cell Physiology. Available: http://dx.doi.org/10.1093/pcp/pcx059.en
dc.identifier.issn0032-0781en
dc.identifier.issn1471-9053en
dc.identifier.doi10.1093/pcp/pcx059en
dc.identifier.urihttp://hdl.handle.net/10754/623440-
dc.description.abstractPlants possess a cold acclimation system to acquire freezing tolerance through pre-exposure to non-freezing low temperatures. The transcriptional cascade of C-repeat binding factors (CBFs)/dehydration response element-binding factors (DREBs) is considered a major transcriptional regulatory pathway during cold acclimation. However, little is known regarding the functional significance of mRNA stability regulation in the response of gene expression to cold stress. The actual level of individual mRNAs is determined by a balance between mRNA synthesis and degradation. Therefore, it is important to assess the regulatory steps to increase our understanding of gene regulation. Here, we analyzed temporal changes in mRNA amounts and half-lives in response to cold stress in Arabidopsis cell cultures based on genome-wide analysis. In this mRNA decay array method, mRNA half-life measurements and microarray analyses were combined. In addition, temporal changes in the integrated value of transcription rates were estimated from the above two parameters using a mathematical approach. Our results showed that several cold-responsive genes, including Cold-regulated 15a, were relatively destabilized, whereas the mRNA amounts were increased during cold treatment by accelerating the transcription rate to overcome the destabilization. Considering the kinetics of mRNA synthesis and degradation, this apparently contradictory result supports that mRNA destabilization is advantageous for the swift increase in CBF-responsive genes in response to cold stress.en
dc.description.sponsorshipWe thank Chieko Saito and Hitomi Sekihara (Hokkaido University) for technical assistance with the experimental procedures and Ayuko Kuwahara (RIKEN) for technical assistance with the microarray analysis. T87 cells were provided by RIKEN BioResource Center. We used the Radioisotope Laboratory of the Faculty of Science, Hokkaido University.en
dc.publisherOxford University Press (OUP)en
dc.relation.urlhttps://academic.oup.com/pcp/article-lookup/doi/10.1093/pcp/pcx059en
dc.subjectMrna Half-lifeen
dc.subjectCold Stress Responseen
dc.subjectArabidopsis Cultured Cellsen
dc.subjectCbf Responsive Geneen
dc.subjectMrna Decay Arrayen
dc.titleCoordinated Regulations of mRNA Synthesis and Decay during Cold Acclimation in Arabidopsis Cells.en
dc.typeArticleen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.identifier.journalPlant and Cell Physiologyen
dc.contributor.institutionGraduate School of Life Science, Hokkaido University, Sapporo 060-0810, Japan.en
dc.contributor.institutionDepartment of Mathematics, Hokkaido University, Sapporo 060-0810, Japan.en
dc.contributor.institutionRIKEN Center for Sustainable Resource Science, Yokohama 230-0045, Japan.en
dc.contributor.institutionGraduate School of Information Science, Nara Institute of Science and Technology, Ikoma 630-0192, Japan.en
dc.contributor.institutionFaculty of Science, Hokkaido University, Sapporo 060-0810, Japan.en
dc.contributor.institutionGraduate School of Agriculture, Hokkaido University, Sapporo 060-8589, Japan.en
kaust.authorMineta, Katsuhikoen
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