Genome-based approaches to understanding phosphorus deprivation responses and PSR1 control in Chlamydomonas reinhardtii

Eukaryotic Cell

Volumn 5, Issue 1, 2006, Pages 26-44

  Moseley, Jeffrey L ^a   Chang, Chiung Wen ^b   Grossman, Arthur R ^a  

^a GEOPHYSICAL LABORATORY   (United States)

^b STANFORD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGAL PROTEIN; ALKALINE PHOSPHATASE; DNA BINDING PROTEIN; MESSENGER RNA; NUCLEAR PROTEIN; PHOSPHATE TRANSPORTER; PHOSPHORUS; PSR1 PROTEIN, CHLAMYDOMONAS; VEGETABLE PROTEIN;

ANIMAL; ARTICLE; CELL SURVIVAL; CHEMISTRY; CHLAMYDOMONAS REINHARDTII; CHLOROPLAST; CYTOLOGY; DNA MICROARRAY; GENE EXPRESSION REGULATION; GENETICS; GENOME; GENOMICS; LIGHT; METABOLISM; MITOCHONDRION; MOLECULAR GENETICS; MUTATION; PROTEIN TRANSPORT; RADIATION EXPOSURE; SEQUENCE HOMOLOGY;

ALGAL PROTEINS; ALKALINE PHOSPHATASE; ANIMALS; CELL SURVIVAL; CHLAMYDOMONAS REINHARDTII; CHLOROPLASTS; DNA-BINDING PROTEINS; GENE EXPRESSION REGULATION; GENOME; GENOMICS; LIGHT; MITOCHONDRIA; MOLECULAR SEQUENCE DATA; MUTATION; NUCLEAR PROTEINS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PHOSPHATE TRANSPORT PROTEINS; PHOSPHORUS; PLANT PROTEINS; PROTEIN TRANSPORT; RNA, MESSENGER; SEQUENCE HOMOLOGY, AMINO ACID;

CHLAMYDOMONAS REINHARDTII;

EID: 30944450584     PISSN: 15359778     EISSN: None     Source Type: Journal    
DOI: 10.1128/EC.5.1.26-44.2006     Document Type: Article

References (56)

1. Baurain, D., M. Dinant, N. Coosemans, and R. F. Matagne. 2003. Regulation of the alternative oxidase Aox1 gene in Chlamydomonas reinhardtii. Role of the nitrogen source on the expression of a reporter gene under the control of the Aox1 promoter. Plant Physiol. 131:1418-1430.
2. Benjamini, Y., and Y. Hochberg. 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B 57:289-300.
3. Berhe, A., U. Fristedt, and B. L. Persson. 1995. Expression and purification of the high-affinity phosphate transporter of Saccharomyces cerevisiae. Eur. J. Biochem. 227:566-572.
4. Bieleski, R. L. 1973. Phosphate pools, phosphate transport, and phosphorus availability. Annu. Rev. Plant Physiol. Plant Mol. Biol. 24:225-252.
5. Brooks, A.. 1996. Effects of phosphorus nutrition on ribulose-1,5- bisphosphate carboxylase activation, photosynthetic quantum yield and amounts of some Calvin cycle metabolites in spinach leaves. Aust. J. Plant Physiol. 13:221-237.
6. Bun-ya, M., M. Nishimura, S. Harashima, and Y. Oshima. 1991. The PHO84 gene of Saccharomyces cerevisiae encodes an inorganic phosphate transporter. Mol. Cell, Biol. 11:3229-3238.
7. Carol, P., and M. Kuntz. 2001. A plastid terminal oxidase comes to light: implications for carotenoid biosynthesis and chlororespiration. Trends Plant Sci. 6:31-36.
8. Cournac, L., G. Latouche, Z. Cerovic, K. Redding, J. Ravenel, and G. Peltier. 2002. In vivo interactions between photosynthesis, mitorespiration, and chlororespiration in Chlamydomonas reinhardtii. Plant Physiol. 129:1921-1928.
9. Craig, E. A., H. C. Eisenman, and H. A. Hundley. 2003. Ribosome-tethered molecular chaperones: the first line of defense against protein misfolding? Curr. Opin. Microbiol. 6:157-162.
10. Davies, J. P., F. H. Yildiz, and A. Grossman. 1996. Sac1, a putative regulator that is critical for survival of Chlamydomonas reinhardtii during sulfur deprivation. EMBO J. 15:2150-2159.
11. Duff, S. M. G., G. B. G. Moorhead, D. D. Lefebvre, and W. C. Plaxton. 1989. Phosphate starvation inducible "bypasses" of adenylate and phosphate dependent glycolytic enzymes in Brassica nigra suspension cells. Plant Physiol. 90:1275-1278.
12. Emanuelsson, O., H. Nielsen, S. Brunak, and G. von Heijne. 2000. Predicting subcellular localization of proteins based on their N-terminal amino acid sequence. J. Mol. Biol. 300:1005-1016.
13. Fink, A. L. 1999. Chaperone-mediated protein folding. Physiol. Rev. 79:425-449.
14. Forestier, M., P. King, L. Zhang, M. Posewitz, S. Schwarzer, T. Happe, M. L. Ghirardi, and M. Seibert. 2003. Expression of two [Fe]-hydrogenases in Chlamydomonas reinhardtii under anaerobic conditions. Eur. J. Biochem. 270:2750-2758.
15. Fujiwara, S., I. Kobayashi, S. Hoshino, T. Kaise, K. Shimogawara, H. Usuda, and M. Tsuzuki. 2000. Isolation and characterization of arsenate-sensitive and resistant mutants of Chlamydomonas reinhardtii. Plant Cell Physiol. 41:77-83.
16. 2. Trends Biotechnol. 18:506-511.
17. Habenicht, A., U. Hellman, and R. Cerff. 1994. Non-phosphorylating GAPDH of higher plants is a member of the aldehyde dehydrogenase superfamily with no sequence homology to phosphorylating GAPDH. J. Mol. Biol. 237:165-171.
18. Hallmann, A. 1999. Enzymes in the extracellular matrix of Volvox: an inducible, calcium-dependent phosphatase with a modular composition. J. Biol. Chem. 274:1691-1697.
19. Hammond, J. P., M. J. Bennett, H. C. Bowen, M. R. Broadley, D. C. Eastwood, S. T. May, C. Rahn, R. Swarup, K. E. Woolaway, and P. J. White. 2003. Changes in gene expression in Arabidopsis shoots during phosphate starvation and the potential for developing smart plants. Plant Physiol. 132:578-596.
20. Happe, T., and A. Kaminski. 2002. Differential regulation of the Fe-hydrogenase during anaerobic adaptation in the green alga Chlamydomonas reinhardtii. Eur. J. Biochem. 269:1022-1032.
21. 2 regulation in Chlamydomonas reinhardtii using genome-wide approaches. Photosyn. Res. 75:111-125.
22. Jacob, J., and D. W. Lawlor. 1993. In vivo photosynthetic electron transport does not limit photosynthetic capacity in phosphate-deficient sunflower and maize leaves. Plant Cell Environ. 16:785-795.
23. Josse, E. M., A. J. Simkin, J. Gaffe, A. M. Laboure, M. Kuntz, and P. Carol. 2000. A plastid terminal oxidase associated with carotenoid desaturation during chromoplast differentiation. Plant Physiol. 123:1427-1436.
24. Kobayashi, I., S. Fujiwara, K. Shimogawara, T. Kaise, H. Usuda, and M. Tsuzuki. 2003. Insertional mutagenesis in a homologue of a Pi transporter gene confers arsenate resistance on Chlamydomonas. Plant Cell Physiol. 44:597-606.
25. Kuntz, M. 2004. Plastid terminal oxidase and its biological significance. Planta 218:896-899.
26. Lenburg, M. E., and E. K. O'Shea. 1996. Signaling phosphate starvation. Trends Biochem. Sci. 21:383-387.
27. Li, A. D., and L. E. Anderson. 1997. Expression and characterization of pea chloroplastic glyceraldehyde-3-phosphate dehydrogenase composed of only the B-subunit. Plant Physiol. 115:1201-1209.
28. ΔΔCT method. Methods 25:402-408.
29. +-coupled phosphate transporter in Saccharomyces cerevisiae. Mol. Gen. Genet. 258:628-638.
30. 2+ levels in S. cerevisiae. FEBS Lett. 451:132-136.
31. Miura, K., A. Rus, A. Sharkhuu, S. Yokoi, A. S. Karthikeyan, K. G. Raghothama, D. Baek, Y. D. Koo, J. B. Jin, R. A. Bressan, D.-J. Yun, and P. M. Hasegawa. 2005. The Arabidopsis SUMO E3 ligase SIZ1 controls phosphate deficiency responses. Proc. Natl. Acad. Sci. USA 102:7760-7765.
32. Moseley, J. L., T. Allinger, S. Herzog, P. Hoerth, E. Wehinger, S. Merchant, and M. Hippler. 2002. Adaptation to Fe-deficiency requires remodeling of the photosynthetic apparatus. EMBO J. 21:6709-6720.
33. Nicholas, K. B., H. B. Nicholas, Jr., and D. W. Deerfield II. 1997. GeneDoc: analysis and visualization of genetic variation. EMBNEW.NEWS 4:14.
34. Niyogi, K. K. 1999. Photoprotection revisited: genetic and molecular approaches. Annu. Rev. Plant Physiol. Plant Mol. Biol. 50:333-359.
35. Ogawa, N., J. DeRisi, and P. O. Brown. 2000. New components of a system for phosphate accumulation and polyphosphate metabolism in Saccharomyces cerevisiae revealed by genomic expression analysis. Mol. Biol. Cell 11:4309-4321.
36. Oshima, Y. 1997. The phosphatase system in Saccharomyces cerevisiae. Genes Genet. Syst. 72:323-334.
37. Parsons, H. L., J. Y. Yip, and G. C. Vanlerberghe. 1999. Increased respiratory restriction during phosphate-limited growth in transgenic tobacco cells lacking alternative oxidase. Plant Physiol. 121:1309-1320.
38. Peltier, G., and L. Cournac. 2002. Chlororespiration. Annu. Rev. Plant Biol. 53:523-550.
39. Quisel, J. D., D. D. Wykoff, and A. R. Grossman. 1996. Biochemical characterization of the extracellular phosphatases produced by phosphorus-deprived Chlamydomonas reinhardtii. Plant Physiol. 111:839-848.
40. Raghothama, K. G. 1999. Phosphate acquisition. Annu. Rev. Plant Physiol. Plant Mol. Biol. 50:665-693.
41. Richard, C., H. Ouellet, and M. Guertin. 2000. Characterization of the LI818 polypeptide from the green unicellular alga Chlamydomonas reinhardtii. Plant Mol. Biol. 42:303-316.
42. Rubio, V., F. Linhares, R. Solano, A. C. Martin, J. Iglesias, A. Leyva, and J. Paz-Ares. 2001. A conserved MYB transcription factor involved in phosphate starvation signaling both in vascular plants and in unicellular algae. Genes Dev. 15:2122-2133.
43. Ruiz, F. A., N. Marchesini, M. Seufferheld, Govindjee, and R. Docampo. 2001. The polyphosphate bodies of Chlamydomonas reinhardtii possess a proton-pumping pyrophosphatase and are similar to acidocalcisomes. J. Biol. Chem. 276:46196-46203.
44. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
45. Schachtman, D. P., R. J. Reid, and S. M. Ayling. 1998. Phosphorus uptake by plants: from soil to cell. Plant Physiol. 116:447-453.
46. Shimogawara, K., D. D. Wykoff, H. Usuda, and A. R. Grossman. 1999. Chlamydomonas reinhardtii mutants abnormal in their responses to phosphorus deprivation. Plant Physiol. 120:685-694.
47. Shin, H., H. S. Shin, G. R. Dewbre, and M. J. Harrison. 2004. Phosphate transport in Arabidopsis: Pht1;1 and Pht1;4 play a major role in phosphate acquisition from both low- and high-phosphate environments. Plant J. 39:629-642.
48. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
49. Tottey, S., M. A. Block, M. Allen, T. Westergren, C. Albrieux, H. V. Scheller, S. Merchant, and P. E. Jensen. 2003. Arabidopsis CHL27, located in both envelope and thylakoid membranes, is required for the synthesis of protochlorophyllide. Proc. Natl. Acad. Sci. USA 100:16119-16124.
50. Vogel, K., and A. Hinnen. 1990. The yeast phosphatase system. Mol. Microbiol. 4:2013-2018.
51. Weger, H. G., and G. S. Espie. 2000. Ferric reduction by iron-limited Chlamydomonas cells interacts with both photosynthesis and respiration. Planta 210:775-781.
52. Wu, P., L. Ma, X. Hou, M. Wang, Y. Wu, F. Liu, and X. W. Deng. 2003. Phosphate starvation triggers distinct alterations of genome expression in Arabidopsis roots and leaves. Plant Physiol. 132:1260-1271.
53. Wykoff, D. D., J. P. Davies, A. Melis, and A. R. Grossman. 1998. The regulation of photosynthetic electron transport during nutrient deprivation in Chlamydomonas reinhardtii. Plant Physiol. 117:129-139.
54. Wykoff, D. D., A. R. Grossman, D. P. Weeks, H. Usuda, and K. Shimogawara. 1999. Psr1, a nuclear localized protein that regulates phosphorus metabolism in Chlamydomonas. Proc. Natl. Acad. Sci. USA 96:15336-15341.
55. Zer, H., and I. Ohad. 2003. Light, redox state, thylakoid-protein phosphorylation and signaling gene expression. Trends Biochem. Sci. 28:467-470.
56. Zhang, Z., J. Shrager, M. Jain, C. W. Chang, O. Vallon, and A. R. Grossman. 2004. Insights into the survival of Chlamydomonas reinhardtii during sulfur starvation based on microarray analysis of gene expression. Eukaryot. Cell 3:1331-1348.