The ancient subclasses of Arabidopsis ACTIN DEPOLYMERIZING FACTOR genes exhibit novel and differential expression

Plant Journal

Volumn 52, Issue 3, 2007, Pages 460-472

  Ruzicka, Daniel R ^a   Kandasamy, Muthugapatti K ^a   McKinney, Elizabeth C ^a   Burgos Rivera, Brunilis ^a   Meagher, Richard B ^a  

^a University of Georgia ^*  (United States)

Author keywords

Actin cytoskeleton; Actin depolymerizing factor; GUS; Isovariant dynamics; Subfunctionalization

Indexed keywords

CELL GROWTH; CHARACTERIZATION; IMMUNOLOGY; MONOCLONAL ANTIBODIES; PLANTS (BOTANY); TISSUE;

ACTIN CYTOSKELETON; ACTIN DEPOLYMERIZING FACTORS; GUS; ISOVARIANT DYNAMICS; SUBFUNCTIONALIZATION;

GENE EXPRESSION;

ACTIN DEPOLYMERIZING FACTOR; ARABIDOPSIS PROTEIN;

ARABIDOPSIS; ARTICLE; CELL NUCLEUS; CHEMISTRY; CLASSIFICATION; CYTOLOGY; CYTOPLASM; GENE EXPRESSION REGULATION; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; PHYLOGENY; PLANT LEAF; POLLEN; SEQUENCE ALIGNMENT;

ARABIDOPSIS; ARABIDOPSIS PROTEINS; CELL NUCLEUS; CYTOPLASM; DESTRIN; GENE EXPRESSION REGULATION, PLANT; PHYLOGENY; PLANT LEAVES; POLLEN; SEQUENCE ALIGNMENT;

ARABIDOPSIS; ARABIDOPSIS THALIANA; ORYZA SATIVA;

EID: 35448952651     PISSN: 09607412     EISSN: 1365313X     Source Type: Journal    
DOI: 10.1111/j.1365-313X.2007.03257.x     Document Type: Article

References (60)

1. Allwood, E.G., Anthony, R.G., Smertenko, A.P., Reichelt, S., Drobak, B.K., Doonan, J.H., Weeds, A.G. Hussey, P.J. (2002) Regulation of the pollen-specific actin-depolymerizing factor LlADF1. Plant Cell, 14, 2915 2927.
2. Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W. Lipman, D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389 3402.
3. An, Y.Q., McDowell, J.M., Huang, S., McKinney, E.C., Chambliss, S. Meagher, R.B. (1996) Strong, constitutive expression of the Arabidopsis ACT2/ACT8 actin subclass in vegetative tissues. Plant J. 10, 107 121.
4. Bamburg, J.R. (1999) Proteins of the ADF/cofilin family: essential regulators of actin dynamics. Annu. Rev. Cell Dev. Biol. 15, 185 230.
5. Baskin, T.I., Miller, D.D., Vos, J.W., Wilson, J.E. Hepler, P.K. (1996) Cryofixing single cells and multicellular specimens enhances structure and immunocytochemistry for light microscopy. J. Microsc. 182, 149 161.
6. Blair Hedges, S. Kumar, S. (2003) Genomic clocks and evolutionary timescales. Trends Genet. 19, 200 206.
7. Borisy, G.G. Svitkina, T.M. (2000) Actin machinery: pushing the envelope. Curr. Opin. Cell Biol. 12, 104 112.
8. Chan, A.Y., Bailly, M., Zebda, N., Segall, J.E. Condeelis, J.S. (2000) Role of cofilin in epidermal growth factor-stimulated actin polymerization and lamellipod protrusion. J. Cell Biol. 148, 531 542.
9. Chaw, S.M., Chang, C.C., Chen, H.L. Li, W.H. (2004) Dating the monocot-dicot divergence and the origin of core eudicots using whole chloroplast genomes. J. Mol. Evol. 58, 424 441.
10. Chen, C.Y., Wong, E.I., Vidali, L., Estavillo, A., Hepler, P.K., Wu, H.M. Cheung, A.Y. (2002) The regulation of actin organization by actin-depolymerizing factor in elongating pollen tubes. Plant Cell, 14, 2175 2190.
11. Chen, C.Y., Cheung, A.Y. Wu, H.M. (2003) Actin-depolymerizing factor mediates Rac/Rop GTPase-regulated pollen tube growth. Plant Cell, 15, 237 249.
12. Clough, S.J. (2005) Floral dip: agrobacterium-mediated germ line transformation. Methods Mol. Biol. 286, 91 102.
13. Cvrckova, F., Novotny, M., Pickova, D. Zarsky, V. (2004) Formin homology 2 domains occur in multiple contexts in angiosperms. BMC Genomics, 5, 44.
14. Deeks, M.J., Hussey, P.J. Davies, B. (2002) Formins: intermediates in signal-transduction cascades that affect cytoskeletal reorganization. Trends Plant Sci. 7, 492 498.
15. Dong, C.H., Kost, B., Xia, G. Chua, N.H. (2001) Molecular identification and characterization of the Arabidopsis AtADF1, AtADFS and AtADF6 genes. Plant Mol. Biol. 45, 517 527.
16. Feng, Y., Liu, Q. Xue, Q. (2006) Comparative study of rice and Arabidopsis actin-depolymerizing factors gene families. J. Plant Physiol. 163, 69 79.
17. Ghosh, M., Song, X., Mouneimne, G., Sidani, M., Lawrence, D.S. Condeelis, J.S. (2004) Cofilin promotes actin polymerization and defines the direction of cell motility. Science, 304, 743 746.
18. Gilliland, L.U., Kandasamy, M.K., Pawloski, L.C. Meagher, R.B. (2002) Both vegetative and reproductive actin isovariants complement the stunted root hair phenotype of the Arabidopsis act2-1 mutation. Plant Physiol. 130, 2199 2209.
19. Hajdukiewicz, P., Svab, Z. Maliga, P. (1994) The small, versatile pPZP family of Agrobacterium binary vectors for plant transformation. Plant Mol. Biol. 25, 989 994.
20. Hepler, P.K., Vidali, L. Cheung, A.Y. (2001) Polarized cell growth in higher plants. Annu. Rev. Cell Dev. Biol. 17, 159 187.
21. Heslop-Harrison, J. Heslop-Harrison, Y. (1989) Conformation and movement of the vegetative nucleus of the angiosperm pollen tube: association with the actin cytoskeleton. J. Cell Sci. 93, 299 308.
22. Higgins, D.G. Sharp, P.M. (1988) CLUSTAL: a package for performing multiple sequence alignment on a microcomputer. Gene, 73, 237 244.
23. Hussey, P.J., Allwood, E.G. Smertenko, A.P. (2002) Actin-binding proteins in the Arabidopsis genome database: properties of functionally distinct plant actin-depolymerizing factors/cofilins. Philos. Trans. R. Soc. Lond. B Biol. Sci. 357, 791 798.
24. Jefferson, R.A., Kavanagh, T.A. Bevan, M.W. (1987) GUS fusions: beta-glucuronidase as a sensitive and versatile gene fusion marker in higher plants. EMBO J. 6, 3901 3907.
25. Jeong, Y.M., Mun, J.H., Kim, H., Lee, S.Y. Kim, S.G. (2007) An upstream region in the first intron of petunia actin-depolymerizing factor 1 affects tissue-specific expression in transgenic Arabidopsis (Arabidopsis thaliana). Plant J. 50, 230 239.
26. Jiang, C.J., Weeds, A.G. Hussey, P.J. (1997) The maize actin-depolymerizing factor, ZmADF3, redistributes to the growing tip of elongating root hairs and can be induced to translocate into the nucleus with actin. Plant J. 12, 1035 1043.
27. Jockusch, B.M., Schoenenberger, C.A., Stetefeld, J. Aebi, U. (2006) Tracking down the different forms of nuclear actin. Trends Cell Biol. 16, 391 396.
28. Kandasamy, M.K. Meagher, R.B. (1999) Actin-organelle interaction: association with chloroplast in Arabidopsis leaf mesophyll cells. Cell Motil. Cytoskeleton, 44, 110 118.
29. Kandasamy, M.K., McKinney, E.C. Meagher, R.B. (1999) The late pollen-specific actins in angiosperms. Plant J. 18, 681 691.
30. Kandasamy, M.K., McKinney, E.C. Meagher, R.B. (2002a) Plant profilin isovariants are distinctly regulated in vegetative and reproductive tissues. Cell Motil. Cytoskeleton, 52, 22 32.
31. Kandasamy, M.K., McKinney, E.C. Meagher, R.B. (2002b) Functional nonequivalency of actin isovariants in Arabidopsis. Mol. Biol. Cell, 13, 251 261.
32. Kim, S.R., Kim, Y. An, G. (1993) Molecular cloning and characterization of anther-preferential cDNA encoding a putative actin-depolymerizing factor. Plant Mol. Biol. 21, 39 45.
33. Klahre, U., Friederich, E., Kost, B., Louvard, D. Chua, N.H. (2000) Villin-like actin-binding proteins are expressed ubiquitously in Arabidopsis. Plant Physiol. 122, 35 48.
34. Kovar, D.R., Drobak, B.K. Staiger, C.J. (2000) Maize profilin isoforms are functionally distinct. Plant Cell, 12, 583 598.
35. Livak, K.J. Schmittgen, T.D. (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods, 25, 402 408.
36. Lopez, I., Anthony, R.G., Maciver, S.K., Jiang, C.J., Khan, S., Weeds, A.G. Hussey, P.J. (1996) Pollen specific expression of maize genes encoding actin depolymerizing factor-like proteins. Proc. Natl Acad. Sci. USA, 93, 7415 7420.
37. Lynch (2000) The evolutionary fate and consequences of duplicate genes. Science, 290, 1151 1155.
38. Maciver, S.K. Hussey, P.J. (2002) The ADF/cofilin family: actin-remodeling proteins. Genome Biol. 3, 1 12.
39. McDowell, J.M., Huang, S., McKinney, E.C., An, Y.Q. Meagher, R.B. (1996) Structure and evolution of the actin gene family in Arabidopsis thaliana. Genetics, 142, 587 602.
40. Meagher, R.B. Fechheimer, M. (2003) The cytoskeletal proteome of Arabidopsis. In The Arabidopsis Book (Meyerowitz, E. Somerville, C., eds). Rockville, MD : American Society of Plant Biologists. DOI:.
41. Meagher, R.B. Williamson, R.E. (1994) The plant cytoskeleton. In Arabidopsis, Vol. 38 (Meyerowitz, E. Somerville, C., eds). Cold Spring Harbor : Cold Spring Harbor Laboratory Press, pp. 1049 1084.
42. Meagher, R.B., McKinney, E.C. Kandasamy, M.K. (1999a) Isovariant dynamics expand and buffer the responses of complex systems: the diverse plant actin gene family. Plant Cell, 11, 995 1006.
43. Meagher, R.B., McKinney, E.C. Vitale, A.V. (1999b) The evolution of new structures: clues from plant cytoskeletal genes. Trends Genet. 15, 278 284.
44. Mun, J.H., Yu, H.J., Lee, H.S., Kwon, Y.M., Lee, J.S., Lee, I. Kim, S.G. (2000) Two closely related cDNAs encoding actin-depolymerizing factors of petunia are mainly expressed in vegetative tissues. Gene, 257, 167 176.
45. Mun, J.H., Lee, S.Y., Yu, H.J., Jeong, Y.M., Shin, M.Y., Kim, H., Lee, I. Kim, S.G. (2002) Petunia actin-depolymerizing factor is mainly accumulated in vascular tissue and its gene expression is enhanced by the first intron. Gene, 292, 233 243.
46. Murashige, T. Skoog, F. (1962) A revised medium for rapid growth and bioassays with tobacco tissue culture. Plant Physiol. 15, 473 497.
47. Nebl, G., Meuer, S.C. Samstag, Y. (1996) Dephosphorylation of serine 3 regulates nuclear translocation of cofilin. J. Biol. Chem. 271, 26276 26280.
48. Ouyang, S., Zhu, W., Hamilton, J. et al. (2007) The TIGR Rice Genome Annotation Resource: improvements and new features. Nucleic Acids Res. 35, D883 D887.
49. Paavilainen, V.O., Bertling, E., Falck, S. Lappalainen, P. (2004) Regulation of cytoskeletal dynamics by actin-monomer-binding proteins. Trends Cell Biol. 14, 386 394.
50. Pawloski, L.C., Kandasamy, M.K. Meagher, R.B. (2006) The late pollen actins are essential for normal male and female development in Arabidopsis. Plant Mol. Biol. 62, 881 896.
51. Pollard, T.D., Blanchoin, L. Mullins, R.D. (2000) Molecular mechanisms controlling actin filament dynamics in nonmuscle cells. Annu. Rev. Biophys. Biomol. Struct. 29, 545 576.
52. Rhee, S.Y., Beavis, W., Berardini, T.Z. et al. (2003) The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. Nucleic Acids Res. 31, 224 228.
53. Rogers, J.S. Swofford, D.L. (1999) Multiple local maxima for likelihoods of phylogenetic trees: a simulation study. Mol. Biol. Evol. 16, 1079 1085.
54. Smertenko, A.P., Allwood, E.G., Khan, S., Jiang, C.J., Maciver, S.K., Weeds, A.G. Hussey, P.J. (2001) Interaction of pollen-specific actin-depolymerizing factor with actin. Plant J. 25, 203 212.
55. Staiger, C.J. (2000) Signaling to the actin cytoskeleton in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 51, 257 288.
56. Theriot, J.A. (1997) Accelerating on a treadmill: ADF/cofilin promotes rapid actin filament turnover in the dynamic cytoskeleton. J. Cell Biol. 136, 1165 1168.
57. Tiwari, S.C. Polito, V.S. (1988) Organization of the cytoskeleton in pollen tubes of Pyrus communis: a study employing conventional and freeze substitution electron microscopy, immunofluorescence, and rhodamine-phalloidin. Protoplasma, 147, 100 112.
58. Tuskan, G.A., Difazio, S., Jansson, S. et al. (2006) The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science, 313, 1596 1604.
59. Wasteneys, G.O. Galway, M.E. (2003) Remodeling the cytoskeleton for growth and form: an overview with some new views. Annu. Rev. Plant Biol. 54, 691 722.
60. Zimmermann, P., Hirsch-Hoffmann, M., Hennig, L. Gruissem, W. (2004) GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox. Plant Physiol. 136, 2621 2632.