Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress

Dittami SM, Scornet D, Petit J-L, Ségurens B, Da Silva C, Corre E, Dondrup M, Glatting K-H, König R, Strerck L, Rouzé P, et al. (2009)
Genome Biology 10(6): R66.

Download
OA
Journal Article | Original Article | Published | English
Author
; ; ; ; ; ; ; ; ; ; ;
All
Abstract
Background: Brown algae (Phaeophyceae) are phylogenetically distant from red and green algae and an important component of the coastal ecosystem. They have developed unique mechanisms that allow them to inhabit the intertidal zone, an environment with high levels of abiotic stress. Ectocarpus siliculosus is being established as a genetic and genomic model for the brown algal lineage, but little is known about its response to abiotic stress. Results: Here we examine the transcriptomic changes that occur during the short term acclimation of E. siliculosus to three different abiotic stress conditions (hyposaline, hypersaline and oxidative stress). Our results show that almost 70% of the expressed genes are regulated in response to at least one of these stressors. Although there are several common elements with terrestrial plants, such as repression of growth-related genes, switching from primary production to protein and nutrient recycling processes, and induction of genes involved in vesicular trafficking, many of the stress-regulated genes are either not known to respond to stress in other organisms or are have been found exclusively in E. siliculosus. Conclusions: This first large-scale transcriptomic study of a brown alga demonstrates that, unlike terrestrial plants, E. siliculosus undergoes extensive reprogramming of its transcriptome during the acclimation to mild abiotic stress. We identify several new genes and pathways with a putative function in the stress response and thus pave the way for more detailed investigations of the mechanisms underlying the stress tolerance of brown algae.
Publishing Year
ISSN
PUB-ID

Cite this

Dittami SM, Scornet D, Petit J-L, et al. Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress. Genome Biology. 2009;10(6):R66.
Dittami, S. M., Scornet, D., Petit, J. - L., Ségurens, B., Da Silva, C., Corre, E., Dondrup, M., et al. (2009). Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress. Genome Biology, 10(6), R66. doi:10.1186/gb-2009-10-6-r66
Dittami, S. M., Scornet, D., Petit, J. - L., Ségurens, B., Da Silva, C., Corre, E., Dondrup, M., Glatting, K. - H., König, R., Strerck, L., et al. (2009). Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress. Genome Biology 10, R66.
Dittami, S.M., et al., 2009. Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress. Genome Biology, 10(6), p R66.
S.M. Dittami, et al., “Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress”, Genome Biology, vol. 10, 2009, pp. R66.
Dittami, S.M., Scornet, D., Petit, J.-L., Ségurens, B., Da Silva, C., Corre, E., Dondrup, M., Glatting, K.-H., König, R., Strerck, L., Rouzé, P., Van de Peer, Y., Cock, J.M., Boyen, C., Tonon, T.: Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress. Genome Biology. 10, R66 (2009).
Dittami, Simon M., Scornet, Delphine, Petit, Jean-Louis, Ségurens, Béatrice, Da Silva, Corinne, Corre, Erwan, Dondrup, Michael, Glatting, Karl-Heinz, König, Rainer, Strerck, Lieven, Rouzé, Pierre, Van de Peer, Yves, Cock, J. Marc, Boyen, Catherine, and Tonon, Thierry. “Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress”. Genome Biology 10.6 (2009): R66.
All files available under the following license(s):
Copyright Statement:
This Item is protected by copyright and/or related rights. [...]
Main File(s)
File Name
Access Level
OA Open Access

This data publication is cited in the following publications:
This publication cites the following data publications:

46 Citations in Europe PMC

Data provided by Europe PubMed Central.

Ecological and evolutionary genomics of marine photosynthetic organisms.
Coelho SM, Simon N, Ahmed S, Cock JM, Partensky F., Mol Ecol 22(3), 2013
PMID: 22989289
Intra-platform comparison of 25-mer and 60-mer oligonucleotide Nimblegen DNA microarrays.
Fenart S, Chabi M, Gallina S, Huis R, Neutelings G, Riviere N, Thomasset B, Hawkins S, Lucau-Danila A., BMC Res Notes 6(), 2013
PMID: 23375116
Analysis of expressed sequence tags from the marine microalga Pseudochattonella farcimen (Dictyochophyceae).
Dittami SM, Riisberg I, John U, Orr RJ, Jakobsen KS, Edvardsen B., Protist 163(1), 2012
PMID: 21820956
Towards deciphering dynamic changes and evolutionary mechanisms involved in the adaptation to low salinities in Ectocarpus (brown algae).
Dittami SM, Gravot A, Goulitquer S, Rousvoal S, Peters AF, Bouchereau A, Boyen C, Tonon T., Plant J 71(3), 2012
PMID: 22394375
Plant abiotic stress signaling.
Akpinar BA, Avsar B, Lucas SJ, Budak H., Plant Signal Behav 7(11), 2012
PMID: 22990453
Mannitol-1-phosphate dehydrogenase activity in Ectocarpus siliculosus, a key role for mannitol synthesis in brown algae.
Rousvoal S, Groisillier A, Dittami SM, Michel G, Boyen C, Tonon T., Planta 233(2), 2011
PMID: 20981555
Microarray estimation of genomic inter-strain variability in the genus Ectocarpus (Phaeophyceae).
Dittami SM, Proux C, Rousvoal S, Peters AF, Cock JM, Coppée JY, Boyen C, Tonon T., BMC Mol Biol 12(), 2011
PMID: 21226968
Integrative analysis of metabolite and transcript abundance during the short-term response to saline and oxidative stress in the brown alga Ectocarpus siliculosus.
Dittami SM, Gravot A, Renault D, Goulitquer S, Eggert A, Bouchereau A, Boyen C, Tonon T., Plant Cell Environ 34(4), 2011
PMID: 21281312
OUROBOROS is a master regulator of the gametophyte to sporophyte life cycle transition in the brown alga Ectocarpus.
Coelho SM, Godfroy O, Arun A, Le Corguillé G, Peters AF, Cock JM., Proc Natl Acad Sci U S A 108(28), 2011
PMID: 21709217
Stemming epigenetics in marine stramenopiles.
Maumus F, Rabinowicz P, Bowler C, Rivarola M., Curr Genomics 12(5), 2011
PMID: 22294878
Examination of triacylglycerol biosynthetic pathways via de novo transcriptomic and proteomic analyses in an unsequenced microalga.
Guarnieri MT, Nag A, Smolinski SL, Darzins A, Seibert M, Pienkos PT., PLoS One 6(10), 2011
PMID: 22043295
Genetic regulation of life cycle transitions in the brown alga Ectocarpus.
Coelho SM, Godfroy O, Arun A, Le Corguillé G, Peters AF, Cock JM., Plant Signal Behav 6(11), 2011
PMID: 22067105
Toward systems biology in brown algae to explore acclimation and adaptation to the shore environment.
Tonon T, Eveillard D, Prigent S, Bourdon J, Potin P, Boyen C, Siegel A., OMICS 15(12), 2011
PMID: 22136637
A sequence-tagged genetic map for the brown alga Ectocarpus siliculosus provides large-scale assembly of the genome sequence.
Heesch S, Cho GY, Peters AF, Le Corguillé G, Falentin C, Boutet G, Coëdel S, Jubin C, Samson G, Corre E, Coelho SM, Cock JM., New Phytol 188(1), 2010
PMID: 20456050
The Ectocarpus genome and the independent evolution of multicellularity in brown algae.
Cock JM, Sterck L, Rouzé P, Scornet D, Allen AE, Amoutzias G, Anthouard V, Artiguenave F, Aury JM, Badger JH, Beszteri B, Billiau K, Bonnet E, Bothwell JH, Bowler C, Boyen C, Brownlee C, Carrano CJ, Charrier B, Cho GY, Coelho SM, Collén J, Corre E, Da Silva C, Delage L, Delaroque N, Dittami SM, Doulbeau S, Elias M, Farnham G, Gachon CM, Gschloessl B, Heesch S, Jabbari K, Jubin C, Kawai H, Kimura K, Kloareg B, Küpper FC, Lang D, Le Bail A, Leblanc C, Lerouge P, Lohr M, Lopez PJ, Martens C, Maumus F, Michel G, Miranda-Saavedra D, Morales J, Moreau H, Motomura T, Nagasato C, Napoli CA, Nelson DR, Nyvall-Collén P, Peters AF, Pommier C, Potin P, Poulain J, Quesneville H, Read B, Rensing SA, Ritter A, Rousvoal S, Samanta M, Samson G, Schroeder DC, Ségurens B, Strittmatter M, Tonon T, Tregear JW, Valentin K, von Dassow P, Yamagishi T, Van de Peer Y, Wincker P., Nature 465(7298), 2010
PMID: 20520714
Diurnal oscillations of metabolite abundances and gene analysis provide new insights into central metabolic processes of the brown alga Ectocarpus siliculosus.
Gravot A, Dittami SM, Rousvoal S, Lugan R, Eggert A, Collén J, Boyen C, Bouchereau A, Tonon T., New Phytol 188(1), 2010
PMID: 20862781

81 References

Data provided by Europe PubMed Central.

GOLEM: an interactive graph-based gene-ontology navigation and analysis tool.
Sealfon RS, Hibbs MA, Huttenhower C, Myers CL, Troyanskaya OG., BMC Bioinformatics 7(), 2006
PMID: 17032457
The control of the false discovery rate in multiple testing under dependency.
Benjamini Y, Yekutieli D., 2001
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ., Nucleic Acids Res. 25(17), 1997
PMID: 9254694
Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T., Genome Res. 13(11), 2003
PMID: 14597658
HECTAR: a method to predict subcellular targeting in heterokonts.
Gschloessl B, Guermeur Y, Cock JM., BMC Bioinformatics 9(), 2008
PMID: 18811941
TMAP: a new email and WWW service for membrane-protein structural predictions.
Milpetz F, Argos P, Persson B., Trends Biochem. Sci. 20(5), 1995
PMID: 7610486

Export

0 Marked Publications

Open Data PUB

Web of Science

View record in Web of Science®

Sources

PMID: 19531237
PubMed | Europe PMC

Search this title in

Google Scholar