An integrated analysis of molecular acclimation to high light in the marine diatom Phaeodactylum tricornutum

PLoS ONE

Volumn 4, Issue 11, 2009, Pages

  Nymark, Marianne ^a   Valle, Kristin C ^a   Brembu, Tore ^a   Hancke, Kasper ^a   Winge, Per ^a   Andresen, Kjersti ^a   Johnsen, Geir ^a   Bones, Atle M ^a  

^a NORWEGIAN UNIVERSITY OF SCIENCE AND TECHNOLOGY   (Norway)

Author keywords

[No Author keywords available]

Indexed keywords

REACTIVE OXYGEN METABOLITE; CARBON; CHLOROPHYLL; COMPLEMENTARY RNA; DIADINOXANTHIN; XANTHOPHYLL;

ARTICLE; CELL PROTECTION; CELL STRUCTURE; CONTROLLED STUDY; CULTURE TECHNIQUE; DIATOM; FLUORESCENCE ANALYSIS; GENETIC REGULATION; LIGHT EXPOSURE; METABOLITE; NONHUMAN; PHAEODACTYLUM TRICORNUTUM; PHASE TRANSITION; PHOTOACCLIMATIZATION; PHOTOREACTIVITY; PHOTOSYNTHESIS; TIME SERIES ANALYSIS; TRANSCRIPTION REGULATION; ACCLIMATIZATION; BIOLOGICAL MODEL; CHEMISTRY; ELECTRON TRANSPORT; GENETIC TRANSCRIPTION; LIGHT; METABOLISM; PHYSIOLOGY; PIGMENTATION; PLASTID; TIME;

ALGAE; BACILLARIOPHYTA; NITZSCHIA ALBA; PHAEODACTYLUM TRICORNUTUM;

ACCLIMATIZATION; CARBON; CHLOROPHYLL; DIATOMS; ELECTRON TRANSPORT; LIGHT; MODELS, BIOLOGICAL; PHOTOSYNTHESIS; PIGMENTATION; PLASTIDS; RNA, COMPLEMENTARY; TIME FACTORS; TRANSCRIPTION, GENETIC; XANTHOPHYLLS;

EID: 70449591297     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0007743     Document Type: Article

References (66)

1. Field CB, Behrenfeld MJ, Randerson JT, Falkowski P (1998) Primary production of the biosphere: integrating terrestrial and oceanic components. Science 281: 237-240.
2. Long S, Humphries S, Falkowski P (1994) Photoinhibition of photosynthesis in nature. Annu Rev Plant Physiol Plant Mol Biol 45: 633-662.
3. Raven JA, Geider RJ (2003) Adaptation, acclimation and regulation in algal photosynthesis. In: Larkum AW, Douglas SE, Raven JA, eds. Photosynthesis in algae. Dordrecht: Kluwer academic publ. pp 386-412.
4. Armbrust V, Berges JA, Bowler C, Green B, Martinez D, et al. (2004) The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism. Science 306: 79-85.
5. Bowler C, Allen AE, Badger JH, Grimwood J, Jabbari K, et al. (2008) The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature 456: 239-244.
6. Genty B, Briantais JM, Baker NR (1989) The relationship between the quantum yield of photosynthetic electron-transport and quenching of chlorophyll fluorescence. Biochim Biophys Acta 990: 87-92.
7. Falkowski PG, Chen YB (2003) Photoacclimation of light harvesting systems in eukaryotic algae. In: Green BR, Parson WW, eds. Light harvesting antennas in photosynthesis. Dordrecht: Kluwer Academic Publ. pp 423-447.
8. Müller P, Li XP, Niyogi KK (2001) Non-photochemical quenching. A response to excess light energy. Plant Physiol 125: 1558-1566.
9. Horton P, Ruban AV, Walters RG (1996) Regulation of light harvesting in green plants. Ann Rev Plant Physiol Plant Mol Biol 47: 655-684.
10. Gilmore AM (1997) Mechanistic aspects of xanthophyll cycle-dependent photoprotection in higher plant chloroplasts and leaves. Physiol Planta 99: 197-209.
11. Lavaud J, Rousseau B, Etienne AL (2004) General features of photoprotection by energy dissipation in planktonic diatoms (Bacillariophyceae). J Phycol 40: 130-137.
12. Johnsen G, Prézelin BB, Jovine RVM (1997) Fluorescence excitation spectra and light utilization in two red tide dinoflagellates. Limnol Oceanogr 42: 1166-1177.
13. Brunet C, Johnsen G, Lavaud J, Roy S (2009) Pigments and photoacclimation processes. In: Roy S, Egeland E, Johnsen G, Llewellyn C, eds. Pigments in Oceanography. Cambridge: Cambridge University Press, In press.
14. Ruban AV, Lavaud J, Rousseau B, Guglielmi G, Horton P, Etienne AL (2004) The super-excess energy dissipation in diatom algae: comparative analysis with higher plants. Photosynth Res 82: 165-175.
15. Owens TG (1986) Light-harvesting function in the diatom Phaeodactylum tricornutum. II. Distribution of excitation energy between the photosystems. Plant Physiol 80: 739-746.
16. Horton P, Ruban AV (1992) Regulation of photosystem II. Photosynth Res 34: 375-385.
17. Barber J (1995) Molecular basis of the vulnerability of photosystem-II to damage by light. Aust J Plant Physiol 22: 201-208.
18. Niyogi KK (1999) Photoprotection revisited: genetic and molecular approaches. Annu Rev Plant Physiol Lant Mol Biol 50: 333-359.
19. Adir N, Zer H, Shochat S, Ohad I (2003) Photoinhibition - a historical perspective. Photosynth Res 76: 343-370.
20. Ohad I, Adir N, Koike H, Kyle DJ, Inoue Y (1990) Mechanism of photoinhibition in vivo. A reversible light-induced conformational change of reaction center II is related to an irreversible modification of the D1 protein. J Biol Chem 265: 1972-1979.
21. Yamamoto Y, Aminaka R, Yoshioka M, Khatoon M, Komayama K, et al. (2008) Quality control of photosystem II: impact of light and heat stresses. Photosynth Res 98: 589-608.
22. Shapira M, Lers A, Heifetz PH, Irihimovitz V, Osmond CB, et al. (1997) Differential regulation of chloroplast gene expression in Chlamydomonas reinhardtii during photoacclimation: light stress transiently suppresses synthesis of the Rubisco LSU protein while enhancing synthesis of the PS II D1 protein. Plant Mol Biol 33: 1001-1011.
23. Hihara Y, Kamei A, Kanehisa M, Kaplan A, Ikeuchi M (2001) DNA microarray analysis of cyanobacterial gene expression during acclimation to high light. Plant Cell 13: 793-806.
24. Stolte W, Kraay GW, Noordeloos AAM, Riegman R (2000) Genetic and physiological variation in pigment composition of Emiliania huxleyi (Prymnesiophyceae) and the potential use of its pigment ratios as a quantitative physiological marker. J Phycol 36: 529-539.
25. Rodriguez F, Chauton M, Johnsen G, Andresen K, Olsen LM, Zapata M (2006) Photoacclimation in phytoplankton: implications for biomass estimates, pigment functionality and chemotaxonomy. Mar Biol 148: 963-971.
26. Perry MJ, Talbot MC, Alberte RS (1981) Photoadaptation in marine phytoplankton: Response of the photosynthetic unit. Mar Biol 62: 91-101.
27. Clayton RK, Wang RT (1971) Photochemical reaction centers from Rhodopseudomonas-spheroids. In: Methods in Enzymology, Vol. 23. Photosynthesis, part A. New York: Academic Press. pp 696-704.
28. Nakamura K, Ogawa T, Shibata K (1976) Chlorophyll and peptide compositions in the two photosystems of marine green algae. Biochim Biophys Acta 423: 227-236.
29. Schuster G, Lisitsky I, Klaff P (1999) Polyadenylation and degradation of mRNA in the chloroplast. Plant Physiol 120: 937-944.
30. Tanaka R, Tanaka A (2007) Tetrapyrrole biosynthesis in higher plants. Annu Rev Plant Biol 58: 321-346.
31. Wilhelm C, Büchel C, Fisahn J, Goss R, Jakob T, et al. (2006) The regulation of carbon and nutrient assimilation in diatoms is significantly different from green algae. Protist 157: 91-124.
32. Coesel S, Obornik M, Varela J, Falciatore A, Bowler C (2008) Evolutionary origins and functions of the carotenoid biosynthetic pathway in marine diatoms. PLoS ONE 3: e2896.
33. Zhu SH, Green B (2008) Light-harvesting and photoprotection in diatoms: identification and expression of L818-like proteins in photosynthesis. In: Allen JF, Gantt E, Golbeck JH, eds. Energy from the Sun, 14th International Congress on Photosynthesis. Dordrecht: Springer. pp 261-264.
34. Nelson N, Yocum CF (2006) Structure and function of photosystems I and II. Annu Rev Plant Biol 57: 521-565.
35. Oudot-Le Secq MP, Grimwood J, Shapiro H, Armbrust EV, Bowler C, Green BR (2007) Chloroplast genomes of the diatoms Phaeodactylum tricornutum and Thalassiosira pseudonana: comparison with other plastid genomes of the red lineage. Mol Genet Genomics 277: 427-439.
36. Enami I, Okumura A, Nagao R, Suzuki T, Iwai M, Shen JR (2008) Structures and functions of the extrinsic proteins of photosystem II from different species. Photosynth Res 98: 349-363.
37. Chen H, Zhang D, Guo J, Wu H, Jin M, et al. (2006) A Psb27 homologue in Arabidopsis thaliana is required for efficient repair of photodamaged photosystem II. Plant Mol Biol 61: 567-575.
38. Plücken H, Müller B, Grohmann D, Westhoff P, Eichacker LA (2002) The HCF136 protein is essential for assembly of the photosystem II reaction center in Arabidopsis thaliana. FEBS lett 532: 85-90.
39. Roose JL, Pakrasi HB (2008) The Psb27 protein facilitates manganese cluster assembly in photosystem II. J Biol Chem 283: 4044-4050.
40. Komenda J, Nickelsen J, Tichý M, Prášil O, Eichacker LA, et al. (2008) The cyanobacterial homologue of HCF136/YCF48 is a component of an early photosystem II assembly complex and is important for both the efficient assembly and repair of photosystem II in Synechocyctis sp. PCC 6803. J Biol Chem 283: 22390-22399.
41. Jensen PE, Bassi R, Boekema EJ, Dekker JP, Jansson S, et al. (2007) Structure, function and regulation of plant photosystem I. Biochim Biophys Acta 1767: 335-352.
42. Kroth PG, Chiovitti A, Gruber A, Martin-Jezequel V, Mock T, et al. (2008) A model for carbohydrate metabolism in the diatom Phaeodactylum tricornutum deduced from comparative whole genome analysis. PLoS ONE 3: e1426.
43. Krieger-Liszkay A, Fufezan C, Trebst A (2008) Singlet oxygen production in photosystem II and related protection mechanism. Photosynth Res 98: 551-564.
44. Li Y, Wang Z, Sun X, Tang K (2008) Current opinions on the functions of tocopherol based on the genetic manipulation of tocopherol biosynthesis in plants. J Integr Plant Biol 50: 1057-1069.
45. Lamkemeyer P, Laxa M, Collin V, Li W, Finkemeier I, et al. (2006) Peroxiredoxin Q of Arabidopsis thaliana is attached to the thylakoids and functions in context of photosynthesis. Plant J 45: 968-981.
46. Meyer Y, Siala W, Bashandy T, Riondet C, Vignols F, et al. (2008) Glutaredoxins and thioredoxins in plants. Biochim Biophys Acta 1783: 589-600.
47. Schürmann P, Buchanan BB (2008) The ferredoxin/thioredoxin system of oxygenic photosynthesis. Antioxid Redox Signal 10: 1235-1273.
48. Wang F, Zhong NQ, Gao P, Wang GL, Wang HY, et al. (2008) SsTypA1, a chloroplast-specific TypA/BipA-type GTPase from the halophytic plant Suaeda salsa, plays a role in oxidative stress tolerance. Plant Cell Environ 31: 982-994.
49. Brown JS (1988) Photosynthetic pigment organization in diatoms (Bacillariophyceae). J Phycol 24: 96-102.
50. Oeltjen A, Krumbein WE, Rhiel E (2002) Investigations on transcript sizes, steady state mRNA concentrations and diurnal expression of genes encoding fucoxanthin chlorophyll a/c light harvesting polypeptides in the centric diatom Cyclotella cryptica. Plant Biol 4: 250-257.
51. Mock T, Valentin K (2004) Photosynthesis and cold acclimation: molecular evidence from a polar diatom. J Phycol 40: 732-741.
52. Lohr M, Wilhelm C (1999) Algae displaying the diadinoxanthin cycle also possess the violaxanthin cycle. Proc Natl Acad Sci U S A 96: 8784-8789.
53. Lohr M, Wilhelm C (2001) Xanthophyll synthesis in diatoms: quantification of putative intermediates and comparison of pigment conversion kinetics with rate constants derived from a model. Planta 212: 382-391.
54. Savard F, Richard C, Guertin M (1996) The Chlamydomonas reinhardtii LI818 gene represents a distant relative of the cabI/II genes that is regulated during the cell cycle and in response to illumination. Plant Mol Biol 32: 461-473.
55. Richard C, Ouellet H, Guertin M (2000) Characterization of the LI818 polypeptide from the green unicellular alga Chlamydomonas reinhardtii. Plant Mol Biol 42: 303-316.
56. Zhirong L, Wakao S, Fischer BB, Niyogi KK (2009) Sensing and responding to excess light. Annu Rev Plant Biol 60: 239-260.
57. Ballottari M, Dall'Osto L, Morosinotto T, Bassi R (2007) Contrasting behaviour of higher plant photosystem I and II antenna systems during acclimation. J Biol Chem 282: 8947-8958.
58. Guillard RRL (1975) Culture of phytoplankton for feeding marine invertebrates. In: Smith WL, Chanley MH, eds. Culture of marine invertebrate animals. New York: Plenum Press. pp 26-60.
59. Andersen RA, Morton SL, Sexton JP (1997) Provasoli-Guillard National Center for culture of marine phytoplankton 1997 list of strains. J Phycol 33: 1-75.
60. Smyth GK (2004) Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Statistical Applications in Genetics and Molecular Biology 3, No. 1, Article 3.
61. Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Statist Soc B 57: 289-300.
62. Ramakers C, Ruijter JM, Deprez RH, Moorman AFM (2003) Assumption-free analysis of quantitative real-time polymerase chain reaction (PCR) data. Neurosci Lett 339: 62-66.
63. Pfaffl MW, Horgan GW, Dempfle L (2002) Relative expression software tool (REST©) for group-wise comparison and statistical analysis of relative expression results in real-time PCR. Nucleic Acids Res 30: e36.
64. Van Kooten O, Snell JFH (1990) The use of chlorophyll fluorescence nomenclature in plant stress physiology. Photosynth Res 25: 147-150.
65. 14C assimilation. J Phycol 44: 501-514.
66. Sakshaug E, Bricaud A, Dandonneau Y, Falkowski PG, Kiefer DA, et al. (1997) Parameters of photosynthesis: definitions, theory and interpretation of results. J Plankton Res 19: 1637-1670.