Revealing the molecular secrets of marine diatoms

Annual Review of Plant Biology

Volumn 53, Issue , 2002, Pages 109-130

  Falciatore, Angela ^a   Bowler, Chris ^a  

^a STAZIONE ZOOLOGICA ANTON DOHRN   (Italy)

Author keywords

Iron; Marine algae; Photoperception; Quorum sensing; Silica

Indexed keywords

BIOLOGY; DIATOM; ELECTRON MICROSCOPY; PHYSIOLOGY; REVIEW; ULTRASTRUCTURE;

DIATOMS; MARINE BIOLOGY; MICROSCOPY, ELECTRON;

ALGAE; BACILLARIOPHYTA; EUKARYOTA; NITZSCHIA ALBA;

EID: 0036999521     PISSN: 15435008     EISSN: None     Source Type: Book Series    
DOI: 10.1146/annurev.arplant.53.091701.153921     Document Type: Review

References (100)

1. Apt KE, Kroth-Pancic PG, Grossman AR. 1997. Stable nuclear transformation of the diatom Phaeodactylum tricornutum. Mol. Gen. Genet. 252:572-79
2. Arabidopsis Genome Initiative. 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796-815
3. Armbrust EV. 1999. Identification of a new gene family expressed during the onset of sexual reproduction in the centric diatom Thalassiosira weissflogii. Appl. Env. Microbiol. 65:3121-28
4. Armbrust EV. 2000. Structural features of nuclear genes in the centric diatom Thalassiosira weissflogii (Bacillariophyceae). J. Phycol. 36:942-46
5. Armbrust EV, Chisholm SW. 1990. Role of light and the cell cycle on the induction of spermatogenesis in a centric diatom. J. Phycol. 26:470-78
6. Baldauf SL, Roger AJ, Wenk-Siefert I, Doolittle WF. 2000. A kingdom-level phylogeny of eukaryotes based on combined protein data. Science 290:972-77
7. Béjà O, Aravind L, Koonin EV, Suzuki MT, Hadd A, et al. 2000. Bacterial rhodopsin: evidence for a new type of phototrophy in the sea. Science 289:1902-6
8. Béjà O, Spudich EN, Spudich JL, Leclerc M, DeLong EF. 2001. Proteorhodopsin phototrophy in the ocean. Nature 411:786-89
9. Besendahl A, Qiu YL, Lee J, Palmer JD, Bhattacharya D. 2000. The cyanobacterial origin and vertical transmission of the plastid tRNA(Leu) group-I intron. Curr. Genet. 37:12-23
10. Bhattacharya D, Medlin L. 1995. The phylogeny of plastids: a review based on comparisons of small-subunit ribosomal RNA coding regions. J. Phycol. 31:489-98
11. Bhaya D, Grossman A. 1991. Targeting proteins to diatom plastids involves transport through an endoplasmic reticulum. Mol. Gen. Genet. 229:400-4
12. Bhaya D, Grossman AR. 1993. Characterization of gene clusters encoding the fucoxanthin chlorophyll proteins of the diatom Phaeodactylum tricornutum. Nucl. Acids Res. 21:4458-66
13. Borowitzka MA, Chiappino ML, Volcani BE. 1977. Ultrastructure of a chain-forming diatom Phaeodactylum tricornutum. J. Phycol. 13:162-70
14. Borowitzka MA, Volcani BE. 1978. The polymorphic diatom Phaeodactylum tricornutum: ultrastructure of its morphotypes. J. Phycol. 14:10-21
15. Boyd PW, Watson AJ, Law CS, Abraham ER, Trull T. 2000. A mesoscale phytoplankton bloom in the polar Southern Ocean stimulated by iron fertilization. Nature 407:695-702
16. Brott LL, Nait RR, Pikas DJ, Kirkpatfick SM, Tomiln DW, et al. 2001. Ultrafast holographic nanopatterning of biocatalytically formed silica. Nature 413:29-93
17. Brzezinski MA, Olson RJ, Chisholm SW. 1990. Silicon availability and cell-cycle progression in marine diatoms. Mar. Ecol. Prog. Ser. 67:83-96
18. Casotti R, Mazza S, Ianora A, Miralto A. 2001. Strategies to reduce mortality in marine and freshwater phytoplankton. ASLO Aquat. Sci. Meet. Spec. Sess., Albuquerque, New Mex.
19. Coale KH, Johnson KS, Fitzwater SE, Gordon RM, Tanner S, et al. 1996. A massive phytoplankton bloom induced by an ecosystem-scale iron fertilization experiment in the equatorial Pacific Ocean. Nature 383:495-501
20. Curie C, Panaviene Z, Loulergue C, Dellaporta SL, Briat JF, et al. 2001. Maize yellow stripel encodes a membrane protein directly involved in Fe(III) uptake. Nature 409:346-49
21. Darley WM. 1968. Deoxyribonucleic acid content of the three cell types of Phaeodactylum tricornutum Bohlin. J. Phycol. 4:219-20
22. Delwiche CF, Palmer JD. 1997. The origin of plastids and their spread via secondary symbiosis. In Origins of Algae and Their Plastids, ed. D Bhattacharya, pp. 53-86. Vienna/New York: Springer Verlag
23. Douglas S, Zauner S, Fraunholz M, Beaton M, Penny S, et al. 2001. The highly reduced genome of an enslaved algal nucleus. Nature 410:1091-96
24. Dunahay TG, Jarvis EE, Dais SS, Roessler PG. 1996. Manipulation of microalgal lipid production using genetic engineering. Appl. Biochem. Biotech. 57/58:223-31
25. Dunahay TG, Jarvis EE, Roessler PG. 1995. Genetic transformation of the diatoms Cyclotella cryptica and Navicula saprophila. J. Phycol. 31:1004-12
26. Escoubas J-M, Lomas M, LaRoche J, Falkowski PG. 1995. Light intensity regulation of cab gene transcription is signaled by the redox state of plastoquinone pool. Proc. Natl. Acad. Sci. USA 92:10237-41
27. Falciatore A, Casotti R, Leblanc C, Abrescia C, Bowler C. 1999. Transformation of nonselectable reporter genes in marine diatoms. Mar. Biotech. 1:239-51
28. Falciatore A, Formiggini F, Bowler C. 2001. Reporter genes and in vivo imaging. In Molecular Plant Biology: A Practical Approach, ed. P Gilmartin, C Bowler, 2:265-83. Oxford, UK: Oxford Univ. Press
29. Falciatore A, Ribera D'Alcalà M, Croot P, Bowler C. 2000. Perception of environmental signals by a marine diatom. Science 288:2363-66
30. Falkowski PG, Barber RT, Smetacek V. 1998. Biogeochemical controls and feedbacks on ocean primary production. Science 281:200-6
31. Falkowski PG, LaRoche J. 1991. Acclimation to spectral irradiance in algae. J. Phycol. 27:8-14
32. Fischer H, Robl I, Sumper M, Kröger N. 1999. Targeting and covalent modification of cell wall and membrane proteins heterologously expressed in the diatom Cylindrotheca fusiformis (Bacillariophyceae). J. Phycol. 35:113-20
33. Fisher AE, Harrison PJ. 1996. Does carbohydrate content affect the sinking rate of marine diatoms? J. Phycol. 32:360-65
34. Furukawa T, Watanabe M, Shihira-Ishikawa I. 1998. Green- and blue-light-mediated chloroplast migration in the centric diatom Pleurosira laevis. Protoplasma 203:214-20
35. Gibbs SP. 1981. The chloroplasts of some algal groups may have evolved from endosymbiotic eukaryotic algae. Ann. New York Acad. Sci. 361:193-208
36. Grossman AR. 2000. Chlamydomonas reinhardtii and photosynthesis: genetics to genomics. Curr. Opin. Plant Biol. 3:132-37
37. Grossman AR, Schaefer MR, Chiang GG, Collier JL. 1993. Environmental effects on the light-harvesting complex of cyanobacteria. J. Bacteriol. 175:575-82
38. Guillou L, Chretiennot-Dinet MJ, Medlin LK, Claustre H, Loiseaux-de Goer S, et al. 1999. Bolidomonas: a new genus with two species belonging to a new algal class, the Bolidophyceae (Heterokonta). J. Phycol. 35:368-81
39. Harper MA. 1977. Movements. In The Biology of Diatoms, ed. D Werner, pp. 224-49. Berkeley, CA: Univ. Calif. Press
40. Harris EH. 2000. Chlamydomonas as a model organism. Annu. Rev. Plant Physiol. Plant Mol. Biol. 52:363-406
41. Hildebrand M, Dahlin K. 2000. Nitrate transporter genes from the diatom Cylindrotheca fusiformis (Bacillariophyceae): mRNA levels controlled by nitrogen source and by the cell cycle. J. Phycol. 36:702-13
42. Hildebrand M, Dahlin K, Volcani BE. 1998. Characterization of a silicon transporter gene family in Cylindrotheca fusiformis: sequences, expression analysis, and identification of homologs in other diatoms. Mol. Gen. Genet. 260:480-86
43. Hildebrand M, Volcani BE, Gassmann W, Schroeder JI. 1997. A gene family of silicon transporters. Nature 385:68-89
44. Hutchins DA, Witter AE, Butler A, Luther GW III. 1999. Competition among marine phytoplankton for different chelated iron species. Nature 400:858-61
45. Jarvis EE, Dunahay TG, Brown LM. 1992. DNA nucleoside composition and methylation in several species of microalgae. J. Phycol. 28:356-62
46. Kagawa T, Sakai T, Suetsugu N, Oikawa K, Ishiguro S, et al. 2001. Arabidopsis NPLI: a phototropin homolog controlling the chloroplast high-light avoidance response. Science 291:2138-41
47. Kehoe DM, Grossman AR. 1996. Similarity of a chromatic adaptation sensor to phytochrome and ethylene receptors. Science 273:1409-12
48. Kemp AES, Pike J, Pearce RB, Lange CB. 2000. The "fall dump" - a new perspective on the role of a "shade flora" in the annual cycle of diatom production and export flux. Deep-Sea Res. 47:2129-54
49. Kirk JTO. 1983. Light and Photosynthesis in Aquatic Ecosystems. Cambridge, UK: Cambridge Univ. Press
50. Kociolek JP, Stoermer EF. 1989. Chromosome numbers in diatoms: a review. Diatom Res. 4:47-54
51. Kowallik KV. 1992. Origin and Evolution of Plastids from Chlorophyll-a+c-Containing Algae: Suggested Ancestral Relationships to Red and Green Algal Plastids, ed. RA Lewin. New York/London: Chapman Hall
52. Kröger N, Bergsdorf C, Sumper M. 1994. A new calcium-binding glycoprotein family constitutes a major diatom cell wall component. EMBO J. 13:4676-83
53. Kröger N, Bergsdorf C, Sumper M. 1996. Frustulins: domain conservation in a protein family associated with diatom cell walls. Eur. J. Biochem. 239:259-64
54. Kröger N, Deutzmann R, Bergsdorf C, Sumper M. 2000. Species-specific polyamines from diatoms control silica morphology. Proc. Natl. Acad. Sci. USA 97:14133-38
55. Kröger N, Deutzmann R, Sumper M. 1999. Polycationic peptides from diatom biosilica that direct silica nanosphere formation. Science 286:1129-32
56. Kröger N, Lehmann G, Rachel R, Sumper M. 1997. Characterization of a 200-kDa diatom protein that is specifically associated with a silica-based substructure of the cell wall. Eur. J. Biochem. 250:99-105
57. Kröger N, Wetherbee R. 2000. Pleuralins are involved in theca differentiation in the diatom Cylindrotheca fusiformis. Protist 151:263-73
58. Lang M, Apt KE, Kroth PG. 1998. Protein transport into "complex" diatom plastids utilizes two different targeting signals. J. Biol. Chem. 273:30973-78
59. LaRoche J, Boyd PW, McKay RML, Geider RJ. 1996. Flavodoxin as an in situ marker for iron stress in phytoplankton. Nature 382:802-5
60. LaRoche J, Mortain-Bertrand A, Falkowski PG. 1991. Light intensity-induced changes in cab mRNA and light-harvesting complex II apoprotein levels in the unicellular chlorophyte Dunaliella tertiolecta. Plant Physiol. 97:147-53
61. Leblanc C, Falciatore A, Bowler C. 1999. Semi-quantitative RT-PCR analysis of photoregulated gene expression in marine diatoms. Plant Mol. Biol. 40:1031-44
62. Lee RE. 1999. Heterokontophyta, Bacillariophyceae. In Phycology, ed. RE Lee, pp. 415-58. Cambridge, UK: Cambridge Univ. Press
63. Lewin JC. 1958. The taxonomic position of Phaeodactylum tricornutum. J. Gen. Microbiol. 18:427-32
64. Lewin JC, Lewin RA, Philpott DE. 1958. Observations on Phaeodactylum tricornutum. J. Gen. Microbiol. 18:418-26
65. Mann DG. 1993. Patterns of sexual reproduction in diatoms. Hydrobiologia 269/270:11-20
66. Mann S, Ozin GA. 1996. Synthesis of inorganic materials with complex form. Nature 382:313-18
67. Martin JH, Coale KH, Johnson KS, Fitzwater SE, Gordon RM, et al. 1994. Testing the iron hypothesis in ecosystems of the equatorial Pacific Ocean. Nature 371:123-29
68. Martin-Jezequel V, Hildebrand M, Brzezinski MA. 2000. Silicon metabolism in diatoms: implications for growth. J. Phycol. 36:821-40
69. Medlin LK, Kooistra WCH, Schmid A-MM. 2000. A review of the evolution of the diatoms - a total approach using molecules, morphology and geology. In The Origin and Early Evolution of the Diatoms: Fossil, Molecular and Biogeographical Approaches, ed. A Witkowski, J Sieminska, pp. 13-35. Cracow: W Szafer Inst. Bot., Pol. Acad. Sci.
70. Medlin LK, Kooistra WHCF, Gersonde R, Sims PA, Wellbrock U. 1997. Is the origin of the diatoms related to the end-Permian mass extinction? Nova Hedwigia 65:1-11
71. Mewes HW, Albermann K, Bahr M, Frishman D, Gleissner A, et al. 1997. Overview of the yeast genome. Nature 387 (Suppl.):7-65
72. Miralto A, Barone G, Romano G, Poulet SA, Ianora A, et al. 1999. The insidious effect of diatoms on copepod reproduction. Nature 402:173-76
73. Morse DE. 1999. Silicon biotechnology: harnessing biological silica production to construct new materials. Trends Biotechnol. 17:230-32
74. Norton TA, Melkonian M, Andersen RA. 1996. Algal biodiversity. Phycologia 35:308-26
75. Owens TG. 1986. Light-harvesting function in the diatom Phaeodactylum tricornutum. Plant Physiol. 80:732-38
76. Parkinson J, Gordon R. 1999. Beyond micromachining: the potential of diatoms. Trends Biotechnol. 17:190-96
77. Parsek M, Greenberg EP. 2000. Acylhomoserine lactone quorum sensing in Gram-negative bacteria: a signaling mechanism involved in associations with higher organisms. Proc. Natl. Acad. Sci. USA 97:8789-93
78. Pickett-Heaps J, Schmid A-MM, Edgar LA. 1990. The cell biology of diatom valve formation. In Progress in Phycological Research, ed. FE Round, DJ Chapman. 7:1-168. Bristol, UK: BioPress Ltd.
79. Qiu Y-L, Palmer JD. 1999. Phylogeny of early land plants: insights from genes and genomes. Trends Plant Sci. 4:26-30
80. 4 photosynthesis in a marine diatom. Nature 407:996-99
81. Scala S, Bowler C. 2001. Molecular insights into the novel aspects of diatom biology. Cell. Mol. Life Sci. 58:1666-73
82. Scala S, Carels N, Falciatore A, Chiusano ML, Bowler C. 2002. Genome properties of the diatom Phaeodactylum tricornutum and comparison with the genomes of other eukaryotes. Plant Physiol. In press
83. Sineshchekov OA, Govorunova EV. 1999. Rhodopsin-mediated photosensing in green flagellated algae. Trends Plant Sci. 4:58-63
84. Smetacek V. 1999. Diatoms and the ocean carbon cycle. Protist 150:25-32
85. Smetacek V. 2001. A watery arms race. Nature 411:745
86. Smith NA, Singh SP, Wang MB, Stoutjesdijk PA, Green AG, et al. 2000. Total silencing by intron-spliced hairpin RNAs. Nature 407:319-20
87. Tréguer P, Nelson DM, Van Bennekom AJ, DeMaster DJ, Leynaert A, et al. 1995. The silica balance in the world ocean: a reestimate. Science 268:375-79
88. Trewavas A. 2000. Signal perception and transduction. In Biochemistry and Molecular Biology of Plants, ed. BB Buchanan, W Gruissem, RL Jones, pp. 930-87. Rockville, MA: Am. Soc. Plant Physiol.
89. Valentin K, Cattolico RA, Zetsche K. 1992. Phylogenetic Origin of the Plastids. New York/London: Chapman Hall
90. van de Poll WH, Vrieling EG, Gieskes WWC. 1999. Location and expression of frustulins in the pennate diatoms Cylindrotheca fusiformis, Navicula pelliculosa, and Navicula salinarum (Bacillariophyceae). J. Phycol. 35:1044-53
91. Van Den Hoek C, Mann DG, Johns HM. 1997. Algae. An Introduction to Phycology. Cambridge, UK: Cambridge Univ. Press
92. Vaulot D, Olson RJ, Chisholm SW. 1986. Light and dark control of the cell cycle in two phytoplankton species. Exp. Cell Res. 167:38-52
93. Vaulot D, Olson RJ, Merkel SM, Chisholm SW. 1987. Cell cycle response to nutrient starvation in two marine phytoplankton species. Mar. Biol. 95:625-30
94. Veldhuis MJW, Cucci TL, Sieracki ME. 1997. Cellular DNA content of marine phytoplankton using two new fluorochromes: taxonomic and ecological implications. J. Phycol. 33:527-41
95. Villareal TA. 1989. Division cycles in the nitrogen-fixing Rhizosolenia (Bacillariophyceae)-Richelia (Nostocaceae) symbiosis. Br. Phycol. J. 24:357-65
96. Wolfe GR, Cunningham FX, Durnford D, Green BR, Gantt E. 1994. Evidence for a common origin of chloroplasts with light-harvesting complexes of different pigmentation. Nature 367:566-68
97. Zamore PD, Tuschl T, Sharp PA, Bartel DP. 2000. RNAi: double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 101:25-33
98. Zaslavskaia LA, Lippmeier JC, Kroth PG, Grossman AR, Apt KE. 2000. Transformation of the diatom Phaeodactylum tricornutum (Bacillariophyceae) with a variety of selectable marker and reporter genes. J. Phycol. 36:379-86
99. Zaslavskaia LA, Lippmeier JC, Shih C, Ehrhardt D, Grossman AR, et al. 2001. Trophic conversion of an obligate photoautotrophic organism through metabolic engineering. Science 292:2073-75
100. Zurzolo C, Bowler C. 2001. Exploring bioinorganic pattern formation in diatoms. A story of polarized trafficking. Plant Physiol. 127:1339-45