Silicon uptake in diatoms revisited: A model for saturable and nonsaturable uptake kinetics and the role of silicon transporters

Plant Physiology

Volumn 146, Issue 3, 2008, Pages 1397-1407

  Thamatrakoln, Kimberlee ^a,b   Hildebrand, Mark ^a  

^a UNIVERSITY OF CALIFORNIA SAN DIEGO   (United States)

^b RUTGERS UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACILLARIOPHYTA; THALASSIOSIRA PSEUDONANA;

CARRIER PROTEIN; GERMANIUM; RADIOISOTOPE; SILICIC ACID;

ARTICLE; BIOLOGICAL MODEL; CELL WALL; COMPARATIVE STUDY; DIATOM; DIFFUSION; GROWTH, DEVELOPMENT AND AGING; INTRACELLULAR SPACE; KINETICS; METABOLISM; TIME;

CELL WALL; DIATOMS; DIFFUSION; GERMANIUM; INTRACELLULAR SPACE; KINETICS; MEMBRANE TRANSPORT PROTEINS; MODELS, BIOLOGICAL; RADIOISOTOPES; SILICIC ACID; TIME FACTORS;

EID: 48949120202     PISSN: 00320889     EISSN: 15322548     Source Type: Journal    
DOI: 10.1104/pp.107.107094     Document Type: Article

References (59)

1. 68Ge]germanic acid as a tracer. Planta 121: 205-212
2. Azam F, Hemmsingsen BB, Volcani BE (1974) Role of silicon in diatom metabolism. V. Silicic acid transport and metabolism in the heterotrophic diatom Nitzschia alba. Arch Microbiol 97: 103-114
3. Azam F, Volcani B (1974) Role of silicon in diatom metabolism. VI. Active transport of germanic acid in the heterotrophic diatom Nitzschia alba. Arch Microbiol 101: 1-8
4. Bhattacharyya P, Volcani BE (1983) Isolation of silicate ionophores from the apochlorotic diatom Nitzschia alba. Biochem Biophys Res Commun 114: 365-372
5. Binder BJ, Chisholm SW (1980) Changes in the soluble silicon pool size in the marine diatom Thalassiosira fluviatilis. Marine Biology Letters 1: 205-212
6. Brzezinski MA (1992) Cell-cycle effects on the kinetics of silicic acid uptake and resource competition among diatoms. J Plankton Res 14: 1511-1539
7. Brzezinski MA, Conley DJ (1994) Silicon deposition during the cell cycle of Thalassiosira weissflogii (Bacillariophyceae) determined using dual rhodamine 123 and propidium iodide staining. J Phycol 30: 45-55
8. Brzezinski MA, Olson RJ, Chisholm SW(1990) Silicon availability and cell cycle progression in marine diatoms. Mar Ecol Prog Ser 67: 83-96
9. 13N. J Exp Mar Biol Ecol 163: 251-260
10. Collos Y, Vaquer A, Bibent B, Slawyk G, Garcia N, Souchu P (1997) Variability in nitrate uptake kinetics of phytoplankton communities in a Mediterranean coastal lagoon. Estuar Coast Shelf Sci 44: 369-375
11. Conway HL, Harrison PJ (1977) Marine diatoms grown in chemostats under silicate or ammonium limitations IV. Transient response of Chaetoceros debilis, Skeletonema costatum, and Thalassiosira gravida to a single addition of the limiting nutrient. Mar Biol 43: 33-43
12. Conway HL, Harrison PJ, Davis CO (1976) Marine diatoms grown in chemostats under silicate or ammonium limitation. II. Transient response of Skeletonema costatum to a single addition of the limiting nutrient. Mar Biol 35: 187-199
13. Darley WM, Volcani BE (1969) Role of silicon in diatom metabolism: a silicon requirement for deoxyribonucleic acid synthesis in the diatom Cylindrotheca fusiformis Reimann and Lewin. Exp Cell Res 58: 334-342
14. Del Amo Y, Brzezinski MA (1999) The chemical form of dissolved Si taken up by marine diatoms. J Phycol 35: 1162-1170
15. Eppley RW, Rogers JN, McCarthy JJ (1969) Half-saturation constants for uptake of nitrate and ammonium by marine phytoplankton. Limnol Oceanogr 14: 912-920
16. Grachev MA, Denikina NN, Belikov SI, Likhoshvai EV, Usol'tseva MV, Tikhonova IV, Adel'shin RV, Kler SA, Sherbakova TA (2002) Elements of the active center of silicon transporters in diatoms. Mol Biol (Mosk) 36: 534-536
17. Guillard RR, Ryther JH (1962) Studies of marine planktonic diatoms. I. Cyclotella nana Hustedt and Detonula confervacea Cleve. Can J Microbiol 8: 229-239
18. Guillard RRL (1975) Culture of phytoplankton for feed marine invertebrates. In WL Smith, MH Chanley, eds, Culture of Marine Invertebrate Animals. Plenum Press, New York, pp 29-60
19. Hamill S, Cloherty EK, Carruthers A (1999) The human erythrocyte sugar transporter presents two sugar import sites. Biochemistry 38: 16974-16983
20. Harrison PJ, Parslow JS, Conway HL (1989) Determination of nutrient uptake kinetic parameters: a comparison of methods. Mar Ecol Prog Ser 52: 301-312
21. Higgins CF, Linton KJ (2004) The ATP switch model for ABC transporters. Nat Struct Mol Biol 11: 918-926
22. Hildebrand M (2000) Silicic acid transport and its control during cell wall silicification in diatoms. In E Bäuerlein, ed, Biomineralization: From Biology to Biotechnology and Medical Applications. Wiley-VCH, Weinheim, Germany, pp 171-188
23. 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: 480-486
24. Hildebrand M, Frigeri LG, Davis AK (2007) Synchronized growth of Thalassiosira pseudonana (Bacillariophyceae) provides novel insights into cell wall synthesis processes in relation to the cell cycle. J Phycol 43: 730-740
25. Hildebrand M, Volcani BE, Gassmann W, Schroeder JI (1997) A gene family of silicon transporters. Nature 385: 688-689
26. Hildebrand M, Wetherbee R (2003) Components and control of silicification in diatoms. In WEG Muller, ed, Progress in Molecular and Subcellular Biology, Vol 33. Springer-Verlag, Berlin, pp 11-57
27. Hitomi Y, Outten CE, O'Halloran TV (2001) Extreme zinc-binding thermodynamics of the metal sensor/regulator protein, ZntR. J Am Chem Soc 123: 8614-8615
28. Holland HD (1984) The Chemical Evolution of the Atmosphere and Oceans. Princeton University Press, Princeton
29. Iler RK (1979) The Chemistry of Silica: Solubility, Polymerization, Colloid and Surface Properties, and Biochemistry. John Wiley & Sons, New York
30. Johnson RN, Volcani BE (1978) The uptake of silicic acid by rat liver mitochondria. Biochem J 172: 557-568
31. Koshland DE Jr, Németh G, Filmer D (1966) Comparison of experimental binding data and theoretical models in proteins containing subunits. Biochemistry 5: 365-385
32. Leynaert A, Bucciarelli E, Claquin P, Dugdale RC, Martin- Jézéquel V, Pondaven P, Ragueneau O (2004) Effect of iron deficiency on diatom cell size and silicic acid uptake kinetics. Limnol Oceanogr 49: 1134-1143
33. Likoshway YV, Masyukova YA, Sherbakova TA, Petrova DP, Grachev MA (2006) Detection of the gene responsible for silicic acid transport in chrysophycean algae. Dokl Akad Nauk SSSR 408: 845-849
34. Lomas MW, Glibert PM (1999) Temperature regulation of nitrate uptake: a novel hypothesis about nitrate uptake and reduction in cool-water diatoms. Limnol Oceanogr 44: 556-572
35. Ma JF, Mitani N, Nagao S, Konishi S, Tamai K, Iwashita T, Yano M (2004) Characterization of the silicon uptake system and molecular mapping of the silicon transporter gene in rice. Plant Physiol 136: 3284-3289
36. Ma JF, Yamaji N, Mitani N, Tamai K, Konishi S, Fujiwara T, Katsuhara M, Yano M (2007) An efflux transporter of silicon in rice. Nature 448: 209-212
37. Martin-Jézéquel V, Hildebrand M, Brzezinski MA (2000) Silicon metabolism in diatoms: implications for growth. J Phycol 36: 821-840
38. McCarthy JJ (1981) The kinetics of nutrient utilization. Can Bull Fish Aquat Sci 210: 211-233
39. Milligan A, Varela DE, Brzezinski MA, Morel FMM (2004) Dynamics of silicon metabolism and silicon isotopic discrimination in a marine diatom as a function of pCO2. Limnol Oceanogr 49: 322-329
40. Nelson DM, Goering JJ, Kilham SS, Guillard RRL (1976) Kinetics of silicic acid uptake and rates of silica dissolution in the marine diatom Thalassiosira pseudonana. J Phycol 12: 246-252
41. Paasche E (1973a) Silicon and the ecology of marine plankton diatoms. I. Thalassiosira pseudonana (Cyclotella nana) grown in a chemostat with silicate as limiting nutrient. Mar Biol 19: 117-126
42. Paasche E (1973b) Silicon and the ecology of marine plankton diatoms. II. Silicate-uptake kinetics in five diatom species. Mar Biol 19: 262-269
43. Reidel GF, Nelson DM (1985) Silicon uptake by algae with no known Si requirement. II. Strong pH dependence of uptake kinetic parameters in Phaeodactylum tricornutum (Bacillariophyceae). J Phycol 21: 168-171
44. Reimann BEF, Lewin JC, Volcani BE (1966) Studies on the biochemistry and fine structure of silica shell formation in diatoms. II. The structure of the cell wall of Navicula pelliculosa (Breb.) Hilse. J Phycol 2: 74-84
45. Rogerson A, DeFreitas ASW, McInnes AG (1986) Growth rates and ultrastructure of siliceous setae of Chaetoceros gracilis (Bacillariophyceae). J Phycol 22: 56-62
46. Rogerson A, DeFreitas ASW, McInnes AG (1987) Cytoplasmic silicon in the centric diatom Thalassiosira pseudonana by electron spectroscopic imaging. Can J Microbiol 33: 128-131
47. Rueter JG Jr, Morel FMM (1981) The interaction between zinc deficiency and copper toxicity as it affects the silicic acid uptake mechanisms in Thalassiosira pseudonana. Limnol Oceanogr 26: 67-73
48. Sherbakova TA, Masyukova Y, Safonova T, Petrova D, Vereshagin A, Minaeva T, Adelshin R, Triboy T, Stonik I, Aizdaitcher N, et al (2005) Conserved motif CMLD in silicic acid transport proteins of diatoms. Mol Biol (Mosk) 39: 269-280
49. Strickland JDH, Parsons TR (1968) A practical handbook of sea water analysis. Bull Fish Res Board Can 167: 1-311
50. Suana ZE, Ambudkar SV (2007) About a switch: how P-glycoprotein (ABCB1) harnesses the energy of ATP binding and hydolysis to do mechanical work. Mol Cancer Ther 6: 13-23
51. Sullivan CW (1976) Diatom mineralization of silicic-acid. I. Si(OH)4 transport characteristics in Navicula pelliculosa. J Phycol 12: 390-396
52. 4 transport rates during the cell cycle of Navicula pelliculosa. J Phycol 13: 86-91
53. Sullivan CW (1979) Diatom mineralization of silicic acid. IV. Kinetics of soluble Si pool formation in exponentially growing synchronized cultures of Navicula pelliculosa. J Phycol 15: 210-216
54. Thamatrakoln K, Alverson AJ, Hildebrand M (2006) Comparative sequence analysis of diatom silicon transporters: towards a mechanistic model of silicon transport. J Phycol 42: 822-834
55. Tréguer P, Nelson DM, Van Bennekom AJ, DeMaster DJ, Leynaert A, Queguiner B (1995) The silica balance in the world ocean: a reestimate. Science 268: 375-379
56. Vrieling EG, Sun Q, Tian M, Kooyman PJ, Gieskes WWC, van Santen RA, Sommerdijk NAJM (2007) Salinity-dependent diatom biosilicification implies an important role of external ionic strength. Proc Natl Acad Sci USA 104: 10441-10446
57. Watt DA, Armory AM, Cresswell CF (1992) Effect of nitrogen supply on the kinetics and regulation of nitrate assimilation in Chlamydomonas reihnardtii Dangeard. J Exp Bot 43: 605-615
58. Wheeler PA, Glibert PM, McCarthy JJ (1982) Ammonium uptake and incorporation by Chesapeake Bay phytoplankton: short-term uptake kinetics. Limnol Oceanogr 27: 1113-1128
59. Zelcer N, Huisman MT, Reid G, Wielinga P, Breedveld P, Kuil A, Knipscheer P, Schellens JHM, Schinkel AH, Borst P (2003) Evidence of two interacting lignad binding sites in human multidrug resistance protein 2 (ATP binding cassette C2). J Biol Chem 276: 23538-23544