Differential transcriptional profile through cell cycle progression in Arabidopsis cultures under simulated microgravity

K.Y. Kamal; J.J.W.A. van Loon; F.J. Medina; R. Herranz

doi:10.1016/j.ygeno.2019.01.007

Differential transcriptional profile through cell cycle progression in Arabidopsis cultures under simulated microgravity

K.Y. Kamal, J.J.W.A. van Loon, F.J. Medina, R. Herranz

Maxillofacial Surgery (VUmc)

Research output: Contribution to Journal › Article › Academic › peer-review

Abstract

Plant cell proliferation is affected by microgravity during spaceflight, but involved molecular mechanisms, key for space agronomy goals, remain unclear. To investigate transcriptomic changes in cell cycle phases caused by simulated microgravity, an Arabidopsis immobilized synchronous suspension culture was incubated in a Random Positioning Machine. After simulation, a transcriptomic analysis was performed with two subpopulations of cells (G2/M and G1 phases enriched) and an asynchronous culture sample. Differential expression was found at cell proliferation, energy/redox and stress responses, plus unknown biological processes gene ontology groups. Overall expression inhibition was a common response to simulated microgravity, but differences peak at the G2/M phase and stress response components change dramatically from G2/M to the G1 subpopulation suggesting a differential adaptation response to simulated microgravity through the cell cycle. Cell cycle adaptation using both known stress mechanisms and unknown function genes may cope with reduced gravity as an evolutionary novel environment.

Original language	English
Pages (from-to)	1956-1965
Journal	Genomics
Volume	111
Issue number	6
DOIs	https://doi.org/10.1016/j.ygeno.2019.01.007
Publication status	Published - Dec 2019

Funding

This work was supported by the Spanish “Plan Estatal de Investigación Científica y Técnica y de Innovación” of the Ministry of Economy, Industry and Competitiveness [to F.J.M., Grant numbers AYA2012-33982 and ESP2015-64323-R , co-funded by ERDF ], by a pre-doctoral fellowship from CSIC , Spain [to K.Y.K., JAE-PreDoc Program , Ref. JAEPre_2010_01894 ], the ESA-ELIPS Program [to R.H., ESA GIA Project, contract number 4000105761 ], and ESA support [to J.v.L., via contract TEC-MMG/2012/263 and 4000107455/12/NL/PA ]. The skillful technical assistance of Mrs. Mercedes Carnota (CIB-CSIC) is gratefully acknowledged, as well as the Technical Services of Genomics of CIB-CSIC for the help with the RT-PCR methods, Ludivine Soubigou-Taconnat and Sandrine Balzergue from INRA for their support in the microarray data processing and Mr. Alan Dowson for his support at the TEC-MMG LIS lab (ESA-ESTEC). We also thank Dr. Crisanto Gutierrez, at CBM (UAM-CSIC) for the generous supply of MM2d cultures. This work is part of a PhD Thesis dissertation presented by K.Y.K. at the Complutense University of Madrid, Spain. This work was supported by the Spanish ?Plan Estatal de Investigaci?n Cient?fica y T?cnica y de Innovaci?n? of the Ministry of Economy, Industry and Competitiveness [to F.J.M. Grant numbers AYA2012-33982 and ESP2015-64323-R, co-funded by ERDF], by a pre-doctoral fellowship from CSIC, Spain [to K.Y.K. JAE-PreDoc Program, Ref. JAEPre_2010_01894], the ESA-ELIPS Program [to R.H. ESA GIA Project, contract number 4000105761], and ESA support [to J.v.L. via contract TEC-MMG/2012/263 and 4000107455/12/NL/PA]. K.Y.K. F.J.M. R.H. conceived and designed the experiments. K.Y.K. R.H. J.v.L. performed the experiment and analyzed the data. J.v.L. operated ground-based facilities. K.Y.K. F.J.M. R.H. wrote the manuscript. All authors critically reviewed the manuscript. An Electronic Supplementary Material is provided, including 6 Tables and 2 Figures. The authors declare no competing financial interest.

Funders	Funder number
CSIC , Spain
ESA GIA	4000105761
ESA-ELIPS
ESA-ESTEC
MM2d
Ecological Society of America
Universidad Complutense de Madrid
Consejo Superior de Investigaciones Científicas	JAEPre_2010_01894
Institut National de la Recherche Agronomique
Comisión Asesora de Investigación Científica y Técnica
European Regional Development Fund
Ecological Society of Australia	4000107455/12/NL/PA, TEC-MMG/2012/263
Ministerio de Economía, Industria y Competitividad, Gobierno de España	ESP2015-64323-R, AYA2012-33982
CBM International

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title = "Differential transcriptional profile through cell cycle progression in Arabidopsis cultures under simulated microgravity",

abstract = "Plant cell proliferation is affected by microgravity during spaceflight, but involved molecular mechanisms, key for space agronomy goals, remain unclear. To investigate transcriptomic changes in cell cycle phases caused by simulated microgravity, an Arabidopsis immobilized synchronous suspension culture was incubated in a Random Positioning Machine. After simulation, a transcriptomic analysis was performed with two subpopulations of cells (G2/M and G1 phases enriched) and an asynchronous culture sample. Differential expression was found at cell proliferation, energy/redox and stress responses, plus unknown biological processes gene ontology groups. Overall expression inhibition was a common response to simulated microgravity, but differences peak at the G2/M phase and stress response components change dramatically from G2/M to the G1 subpopulation suggesting a differential adaptation response to simulated microgravity through the cell cycle. Cell cycle adaptation using both known stress mechanisms and unknown function genes may cope with reduced gravity as an evolutionary novel environment.",

author = "K.Y. Kamal and {van Loon}, J.J.W.A. and F.J. Medina and R. Herranz",

year = "2019",

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AU - Kamal, K.Y.

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AU - Herranz, R.

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AB - Plant cell proliferation is affected by microgravity during spaceflight, but involved molecular mechanisms, key for space agronomy goals, remain unclear. To investigate transcriptomic changes in cell cycle phases caused by simulated microgravity, an Arabidopsis immobilized synchronous suspension culture was incubated in a Random Positioning Machine. After simulation, a transcriptomic analysis was performed with two subpopulations of cells (G2/M and G1 phases enriched) and an asynchronous culture sample. Differential expression was found at cell proliferation, energy/redox and stress responses, plus unknown biological processes gene ontology groups. Overall expression inhibition was a common response to simulated microgravity, but differences peak at the G2/M phase and stress response components change dramatically from G2/M to the G1 subpopulation suggesting a differential adaptation response to simulated microgravity through the cell cycle. Cell cycle adaptation using both known stress mechanisms and unknown function genes may cope with reduced gravity as an evolutionary novel environment.

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Differential transcriptional profile through cell cycle progression in Arabidopsis cultures under simulated microgravity

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