Marine Biotechnology

, Volume 11, Issue 4, pp 513–519 | Cite as

Profiling the Transcriptome of Gracilaria changii (Rhodophyta) in Response to Light Deprivation

  • Chai-Ling Ho
  • Seddon Teoh
  • Swee-Sen Teo
  • Raha Abdul Rahim
  • Siew-Moi Phang
Original Article


Light regulates photosynthesis, growth and reproduction, yield and properties of phycocolloids, and starch contents in seaweeds. Despite its importance as an environmental cue that regulates many developmental, physiological, and biochemical processes, the network of genes involved during light deprivation are obscure. In this study, we profiled the transcriptome of Gracilaria changii at two different irradiance levels using a cDNA microarray containing more than 3,000 cDNA probes. Microarray analysis revealed that 93 and 105 genes were up- and down-regulated more than 3-fold under light deprivation, respectively. However, only 50% of the transcripts have significant matches to the nonredundant peptide sequences in the database. The transcripts that accumulated under light deprivation include vanadium chloroperoxidase, thioredoxin, ferredoxin component, and reduced nicotinamide adenine dinucleotide dehydrogenase. Among the genes that were down-regulated under light deprivation were genes encoding light harvesting protein, light harvesting complex I, phycobilisome 7.8 kDa linker polypeptide, low molecular weight early light-inducible protein, and vanadium bromoperoxidase. Our findings also provided important clues to the functions of many unknown sequences that could not be annotated using sequence comparison.


cDNA microarray Irradiance Gracilaria changii Light deprivation Seaweed 



This project was funded by the Intensified Research Grant for Priority Area (IRPA) no. 06-02-02-003 BTK/ER/01 from the Ministry of Science, Technology and Innovation (MOSTI) of Malaysia.

Supplementary material

10126_2008_9166_MOESM1_ESM.doc (134 kb)
Supplementary Table 1 Transcripts that were up-regulated at light deprivation. (DOC 133 KB)
10126_2008_9166_MOESM2_ESM.doc (160 kb)
Supplementary Table 2 Transcripts that were down-regulated at light deprivation. (DOC 159 KB)


  1. Bird KT (1988) Agar production and quality from Gracilaria sp. strain G-16: effects of environmental factors. Bot Mar 31:33–39Google Scholar
  2. Burrows PA, Sazanov LA, Svab Z, Maliga P, Nixon P (1998) Identification of a functional respiratory complex in chloroplasts through analysis of tobacco mutants containing disrupted plastid ndh genes. EMBO J 17:868–876PubMedCrossRefGoogle Scholar
  3. Chan C-X, Teo S-S, Ho C-L, Othman RY, Phang S-M (2004) Optimisation of RNA extraction for marine red alga, Gracilaria changii (Gracilariales, Rhodophyta). J Appl Phycol 16:297–301CrossRefGoogle Scholar
  4. Cournac L, Guedeney G, Joët T, Rumeau D, Latouche G, Cerovic Z, Redding K, Horvath EM, Medgeyesy P, Peltier G (1998) Non-photochemical reduction of intersystem electron carriers in chloroplasts of higher plants and algae. In: Garab G (ed) Photosynthesis: Mechanism and Effects. Kluwer Academic, Dordrecht, The Netherlands, pp 1877–1882Google Scholar
  5. Ekman P, Pedersén M (1990) The influence of photon irradiance, day length, dark treatment, temperature, and growth rate on the agar composition of Gracilaria sordida W. Nelson and Gracilaria verrucosa (Hudson) Pappenfuss (Gigartinales, Rhodophyta). Bot Mar 33:483–495CrossRefGoogle Scholar
  6. Falkowski PG (1980) Physiological responses of phytoplankton to natural light regimes. J Plankton Res 6:295–307CrossRefGoogle Scholar
  7. Figueroa FL, Conde-Álvarez R, Gómez I (2003) Relations between electron transport rates determined by pulse amplitude modulated chlorophyll fluorescence and oxygen evolution in macroalgae under different light conditions. Photosynth Res 75:259–275PubMedCrossRefGoogle Scholar
  8. Graham LE, Wilcox LW (2000) Algae. Prentice Hall, New York, pp 618–619Google Scholar
  9. Gummadova JO, Fletcher GJ, Moolna A, Hanke GT, Hase T, Bowsher CG (2007) Expression of multiple forms of ferredoxin NADP+ oxidoreductase in wheat leaves. J Exp Bot 58:3971–3985PubMedCrossRefGoogle Scholar
  10. Hatch MD, Slack CR (1969) Studies on the mechanism of activation and inactivation of pyruvate, phosphate dikinase. Biochem J 112:549–558PubMedGoogle Scholar
  11. Kremer BP (1978) Studies on 14CO2 assimilation in marine Rhodophyceae. Mar Biol 48:47–54CrossRefGoogle Scholar
  12. Kremer BP (1979) Light independent carbon fixation by marine macroalgae. J Phycol 15:244–247CrossRefGoogle Scholar
  13. Kremer BP, Kűppers U (1977) Carboxylating enzymes and pathway of photosynthetic carbon assimilation in different marine algae—evidence for the C4 pathway? Planta 133:191–196CrossRefGoogle Scholar
  14. Macler BA (1986) Regulation of carbon flow by nitrogen and light in the red alga, Gelidium couteri. Plant Physiol 82:136–141PubMedCrossRefGoogle Scholar
  15. Mercado JM, Sánchez P, Carmona R, Niell FX (2000) Limited acclimation of photosynthesis to blue light in the seaweed Gracilaria tenuistipitata. Physiol Plantarum 114:491–498CrossRefGoogle Scholar
  16. Nuruzzaman M, Gupta M, Zhang C, Wang L, Xie W, Xiong L, Zhang Q, Lian X (2008) Sequence and expression analysis of the thioredoxin protein gene family in rice. Mol Genet Genomics 280(2):139–151 doi: 10.1007/s00438-008-0351-4 PubMedCrossRefGoogle Scholar
  17. Richardson K, Beardall J, Raven JA (1983) Adaptation of unicellular algae to irradiance: an analysis of strategies. New Phytol 93:157–191CrossRefGoogle Scholar
  18. Rotem A, Roth-Bejerano N, Arad S (1986) Effect of controlled environmental conditions on starch and agar contents of Gracilaria sp. (Rhodophyceae). J Phycol 22:117–121Google Scholar
  19. Sagert S, Forster RM, Feuerpfeil P, Schubert H (1997) Daily course of photosynthesis and photoinhibition in Chondrus crispus (Rhodophyta) from different shore levels. Eur J Phycol 32:363–371CrossRefGoogle Scholar
  20. Samsonoff WA, MacColl R (2001) Biliproteins and phycobilisomes from cyanobacteria and red algae at the extremes of habitat. Arch Microbiol 176:400–405PubMedCrossRefGoogle Scholar
  21. Shikanai T, Endo T, Hashimoto T, Yamada Y, Asada K, Yokota A (1998) Directed disruption of the tobacco ndhB gene impairs cyclic electron flow around photosystem I. Proc Natl Acad Sci U S A 95:9705–9709PubMedCrossRefGoogle Scholar
  22. Staubar EJ, Fink A, Markert C, Kruse O, Johanningmeier U, Hippler M (2003) Proteomics of Chlamydomonas reinhardtii light-harvesting proteins. Eukaryotic Cell 2:978–994CrossRefGoogle Scholar
  23. Teo S-S, Ho C-L, Teoh S, Lee W-W, Tee J-M, Raha AR, Phang S-M (2007) Analyses of expressed sequence tags (ESTs) from an agarophyte, Gracilaria changii (Gracilariales, Rhodophyta). Eur J Phycol 42:41–46CrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC 2008

Authors and Affiliations

  • Chai-Ling Ho
    • 1
  • Seddon Teoh
    • 1
  • Swee-Sen Teo
    • 1
  • Raha Abdul Rahim
    • 1
  • Siew-Moi Phang
    • 2
  1. 1.Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular SciencesUniversiti Putra MalaysiaUPM SerdangMalaysia
  2. 2.Institute of Biological SciencesUniversity of MalayaKuala LumpurMalaysia

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