Abstract
A cDNA (PyARP4) containing an open reading frame for a protein of 573 amino acids was identified in the marine red alga Porphyra yezoensis. The conceptual PyARP4 protein exhibits significant similarity to actin-related protein (ARP) 4 in the terrestrial plant Arabidopsis. Comparison of the deduced amino acid sequence showed moderate sequence identity (30%) to a conventional actin in P. yezoensis, as seen in comparisons between ARP and conventional actins of other organisms. A putative bipartite nuclear localization signal and an actin motif were found within the PyARP4 amino acid sequence. In a phylogenetic analysis, the PyARP4 was found to cluster with the ARP4 of other organisms. The expression level of PyARP4 did not change significantly among four developmental stages of life cycle and was lower than that of a conventional actin. This cDNA therefore may serve as a useful internal standard in gene expression analyses of differentially expressed genes in P. yezoensis.
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Saga N, Kitade Y. Porphyra: a model plant in marine sciences. Fish. Sci. 2002; 68 (Suppl.): 1075–1078.
Waaland JR, Stiller JW, Cheney DP. Macroalgal candidates for genomics. J. Phycol. 2004; 40: 26–33.
Fukuda S, Kitade Y, Miyamoto H, Nagashima S, Takahashi S, Ohba T, Asaka K, Kato I, Saga N. Isolation and characterization of an elongation factor-1α gene in Porphyra yezoensis (Rhodophyta). J. Appl. Phycol. 2003; 15: 81–86.
Kitade Y, Taguchi G, Shin J-A, Saga N. Porphyra monospore system (Bangiales, Rhodophyta): A model for the developmental biology of marine plants. Phycol. Res. 1998; 46: 17–20.
Fukuda S, Nagata N, Ootsuka S, Endo H, Kitade Y, Kuwano K, Saga N. Research on the drug susceptibility in the gemetophytes of Porphyra yezoensis (Bangiales, Rhodophyta). Fish. Genet. Breed. Sci. 2005; 34: 129–141 (in Japanese with English abstract).
Asamizu E, Nakajima M, Kitade Y, Saga N, Nakamura Y, Tabata S. Comparison of RNA expression profiles between the two generations of Porphyra yezoensis (Rhodophyta), based on expressed sequence tag frequency analysis. J. Physcol. 2003; 39: 923–930.
Schafer DA, Schroer TA. Actin-related proteins. Annu. Rev. Cell Dev. Biol. 1999; 15: 341–363.
Poch O, Winsor B. Who’s who among the Saccharomyces cerevisiae actin-related proteins? A classification and nomenclature proposal for a large family. Yeast 1997; 13: 1053–1058.
Blessing CA, Ugrinova GT, Goodson HV. Actin and ARPs: action in the nucleus. Trends Cell Biol. 2004; 14: 435–442.
Kandasamy MK, Deal RB, McKinney EC, Meagher RB. Plant actin-related proteins. Trends Plant Sci. 2004; 9: 196–202.
McKinney EC, Kandasamy MK, Meagher RB. Arabidopsis contains ancient classes of differentially expressed actinrelated protein genes. Plant Physiol. 2002; 128: 997–1007.
Kandasamy MK, McKinney EC, Meagher RB. Cell cycle-dependent association of Arabidopsis actin-related proteins AtARP4 and AtARP7 with the nucleus. Plant J. 2003; 33: 939–948.
Kandasamy MK, Deal RB, McKinney EC, Meagher RB. Silencing the nuclear actin-related protein AtARP4 in Arabidopsis has multiple effects on plant development, including early flowering and delayed floral senescence. Plant J. 2005; 41: 845–858.
Kuwano K, Aruga Y, Saga N. Cryopreservation of clonal gametophytic thalli of Porphyra (Rhodophyta). Plant Sci. 1996; 116: 117–124.
Kitade Y, Fukuda S, Nakajima M, Watanabe T, Saga N. Isolation of a cDNA encoding a homologue of actin from Porphyra yezoensis (Rhodophyta). J. Appl. Phycol. 2002; 14: 135–141.
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BIAST and PSI-BIAST: a new generation of protein database search programs. Nucleic Acids Res. 1997; 25: 3389–3402.
Thompson JD, Higgins DG, Gibson TJ. CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994; 22: 4673–4680.
Joshi CP. Putative polyadenylation signals in nuclear genes of higher plants: a compilation and analysis. Nucleic Acids Res. 1987; 15: 9627–9640.
Kitade Y, Yamazaki S, Watanabe T, Saga N. Structural features of a gene encoding the vacuolar H+-ATPase c subunit from a marine red alga. Porphyra yezoensis. DNA Res. 1999; 6: 307–312.
Dingwall C, Laskey RA. Nuclear targeting sequences — a consensus? Trends Biochem. Sci. 1991; 16: 478–481.
Weber V, Harata M, Hauser H, Wintersberger U. The actin-related protein Act3p of Saccharomyces cerevisiae is located in the nucelus. Mol. Biol. Cell 1995; 6: 1263–1270.
Stefanov SA. Further characterization of the actin-related protein Act3p/Arp4 of S. cerevisiae through mutational analysis. Mol. Biol. Rep. 2000; 27: 35–43.
Fontes MRM, Teh T, Kobe B. Structural basis of recognition of monopartite and bipartite nuclear localization sequences by mammalian importin-α. J. Mol. Biol. 2000; 297: 1183–1194.
Ragan MA, Bird CJ, Rice EL, Gutell RR, Murphy CA, Singh RK. A molecular phylogeny of the marine red algae (Rhodophyta) based on the nuclear small-subunit rRNA gene. Proc. Natl Acad. Sci. USA 1994; 91: 7276–7280.
Freshwater DW, Fredericq S, Butler BS, Hommersand MH, Chase MW. A gene phylogeny of the red algae (Rhodophyta) based on plastid rbcL. Proc. Natl. Acad. Sci. USA 1994; 91: 7281–7285.
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Kitade, Y., Nakamura, M., Endo, H. et al. Characterization of a cDNA encoding a homolog of actin-related protein 4 from a marine red alga Porphyra yezoensis . Fish Sci 72, 639–645 (2006). https://doi.org/10.1111/j.1444-2906.2006.01194.x
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DOI: https://doi.org/10.1111/j.1444-2906.2006.01194.x