Advertisement

Journal of Plant Research

, Volume 118, Issue 3, pp 223–227 | Cite as

Analysis of expressed sequence tags in prothallia of Adiantum capillus-veneris

  • Daisuke YamauchiEmail author
  • Keita Sutoh
  • Hiromi Kanegae
  • Tatsuya Horiguchi
  • Ken Matsuoka
  • Hiroo Fukuda
  • Masamitsu Wada
Short Communication

Abstract

The analysis of expressed sequences from a diverse set of plant species has fueled the increase in understanding of the complex molecular mechanisms underlying plant growth regulation. While representative data sets can be found for the major branches of plant evolution, fern species data are lacking. To further the availability of genetic information in pteridophytes, a normalized cDNA library of Adiantum capillus-veneris was constructed from prothallia grown under white light. A total of 10,420 expressed sequence tags (ESTs) were obtained and clustering of these sequences resulted in 7,100 nonredundant clusters. Of these, 1,608 EST clusters were found to be similar to sequences of known function and 1,092 EST clusters showed similarity to sequences of unknown function. Given the usefulness of Adiantum for developmental studies, the sequence data represented in this report stand to make a significant contribution to the understanding of plant growth regulation, particularly for pteridophytes.

Keywords

Adiantum capillus-veneris cDNA EST Fern Prothallia 

Notes

Acknowledgements

We are grateful to Dr. T. Demura at RIKEN Plant Science Center for construction of the cDNA library and to E. Sugiyama and T. Yasuki for collecting spores of Adiantum capillus-veneris. We thank Dr. Steen Christensen for critical reading of the manuscript. This work was partly supported by BRAIN (Program for Promotion of Basic Research Activities for Innovative Biosciences) and Grant-in-Aid for Scientific Research (on Priority Areas, no. 13139203, and A, no. 13304061) from the Ministry of Education, Sports, Science and Technology (MEXT) of Japan to MW.

References

  1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410CrossRefPubMedGoogle Scholar
  2. Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796–815Google Scholar
  3. Asamizu E, Nakamura Y, Sato S, Tabata S (2000) Generation of 7,137 non-redundant expressed sequence tags from a legume, Lotus japonicus. DNA Res 7:127–130PubMedGoogle Scholar
  4. Cartinhour SW (1997) Public informatics resources for rice and other grasses. Plant Mol Biol 35:241–251CrossRefPubMedGoogle Scholar
  5. Chatterjee A, Roux SJ (2000) Ceratopteris richardii: a productive model for revealing secrets of signaling and development. J Plant Growth Regul 19:284–289CrossRefPubMedGoogle Scholar
  6. Di Laurenzio L, Wysocka-Diller J, Malamy JE, Pysh L, Helariutta Y, Freshour G, Hahn MG, Feldmann KA, Benfey PN (1996) The SCARECROW gene regulates an asymmetric cell division that is essential for generating the radial organization of the Arabidopsis root. Cell 86:423–433CrossRefPubMedGoogle Scholar
  7. Furuya M, Kanno M, Okamoto H, Fukuda S, Wada M (1997) Control of mitosis by phytochrome and a blue-light receptor in fern spores. Plant Physiol 113:677–683PubMedGoogle Scholar
  8. Goff SA, Ricke D, Lan TH, Presting G, Wang R, Dunn M, Glazebrook J, Sessions A, Oeller P, Varma H, Hadley D, Hutchison D, Martin C, Katagiri F, Lange BM, Moughamer T, Xia Y, Budworth P, Zhong J, Miguel T, Paszkowski U, Zhang S, Colbert M, Sun W-L, Chen L, Cooper B, Park S, Wood TC, Mao L, Quail P, Wing R, Dean R, Yu Y, Zharkikh A, Shen R, Sahasrabudhe S, Thomas A, Cannings R, Gutin A, Pruss D, Reid J, Tavtigian S, Mitchell J, Eldredge G, Scholl T, Miller RM, Bhatnagar S, Adey N, Rubano T, Tusneem N, Robinson R, Feldhaus J, Macalma T, Oliphant A, Briggs S (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science 296:92–100CrossRefPubMedGoogle Scholar
  9. Hasebe M, Wolf PG, Pryer KM, Ueda K, Ito M, Sano R, Gastony GJ, Yokoyama J, Manhart JR, Murakami N, Crane EH, Haufler CH, Hauk WD (1995) Fern phylogeny based on rbcL nucleotide sequences. Am Fern J 85:134–181Google Scholar
  10. Hasebe M, Wen C-K, Kato M, Banks JA (1998) Characterization of MADS homeotic genes in the fern Ceratopteris richardii. Proc Natl Acad Sci USA 95:6222–6227CrossRefPubMedGoogle Scholar
  11. Henschel K, Kofuji R, Hasebe M, Saedler H, Münster T, Theißen G (2002) Two ancient classes of MIKC-type MADS-box genes are present in the moss Physcomitrella patens. Mol Biol Evol 19:801–814PubMedGoogle Scholar
  12. Himi S, Sano R, Nishiyama T, Tanahashi T, Kato M, Ueda K, Hasebe M (2001) Evolution of MADS-box gene induction by FLO/LFY genes. J Mol Evol 53:387–393CrossRefPubMedGoogle Scholar
  13. Hiratsuka K, Wu X, Fukuzawa H, Chua N-H (1994) Molecular dissection of GT-1 from Arabidopsis. Plant Cell 6:1805–1813CrossRefPubMedGoogle Scholar
  14. Imaizumi T, Kanegae T, Wada M (2000) Cryptochrome nucleocytoplasmic distribution and gene expression are regulated by light quality in the fern Adiantum capillus-veneris. Plant Cell 12:81–95CrossRefPubMedGoogle Scholar
  15. Jarillo JA, Capel J, Tang RH, Yang H-Q, Alonso JM, Ecker JR, Cashmore AR (2001) An Arabidopsis circadian clock component interacts with both CRY1 and phyB. Nature 410:487–490CrossRefPubMedGoogle Scholar
  16. Kagawa T, Kasahara M, Abe T, Yoshida S, Wada M (2004) Function analysis of phototropin2 using fern mutants deficient in blue light-induced chloroplast avoidance movement. Plant Cell Physiol 45:416–426CrossRefPubMedGoogle Scholar
  17. Kanegae T, Wada M (1998) Isolation and characterization of homologues of plant blue-light photoreceptor (cryptochrome) genes from the fern Adiantum capillus-veneris. Mol Gen Genet 259:345–353CrossRefPubMedGoogle Scholar
  18. Kawai H, Kanegae T, Christensen S, Kiyosue T, Sato Y, Imaizumi T, Kadota A, Wada M (2003) Responses of ferns to red light are mediated by an unconventional photoreceptor. Nature 421:287–290CrossRefPubMedGoogle Scholar
  19. Kawai-Toyooka H, Kuramoto C, Orui K, Motoyama K, Kikuchi K, Kanegae T, Wada M (2004) DNA interference: a simple and efficient gene-silencing system for high-throughput functional analysis in the fern Adiantum. Plant Cell Physiol 45:1648–1657CrossRefPubMedGoogle Scholar
  20. Klein J, Saedler H, Huijser P (1996) A new family of DNA binding proteins includes putative transcriptional regulators of the Antirrhinum majus floral meristem identity gene SQUAMOSA. Mol Gen Genet 250:7–16CrossRefPubMedGoogle Scholar
  21. Klink VP, Wolniak SM (2000) The efficacy of RNAi in the study of the plant cytoskeleton. J Plant Growth Regul 19:371–384PubMedGoogle Scholar
  22. Kohchi T, Fujishige K, Ohyama K (1995) Construction of an equalized cDNA library from Arabidopsis thaliana. Plant J 8:771–776CrossRefPubMedGoogle Scholar
  23. Kumar A, Bennetzen JL (1999) Plant retrotransposons. Annu Rev Genet 33:479–532CrossRefPubMedGoogle Scholar
  24. Motchoulski A, Liscum E (1999) Arabidopsis NPH3: a NPH1 photoreceptor-interacting protein essential for phototropism. Science 286:961–964CrossRefPubMedGoogle Scholar
  25. Münster T, Pahnke J, Di Rosa A, Kim JT, Martin W, Saedler H, Theissen G (1997) Floral homeotic genes were recruited from homologous MADS-box genes preexisting in the common ancestor of ferns and seed plants. Proc Natl Acad Sci USA 94:2415–2420CrossRefPubMedGoogle Scholar
  26. Nishiyama T, Fujita T, Shin-I T, Seki M, Nishide H, Uchiyama I, Kamiya A, Carninci P, Hayashizaki Y, Shinozaki K, Kohara Y, Hasebe M (2003) Comparative genomics of Physcomitrella patens gametophytic transcriptome and Arabidopsis thaliana: implication for land plant evolution. Proc Natl Acad Sci USA 100:8007–8012CrossRefPubMedGoogle Scholar
  27. Nozue K, Kanegae T, Wada M (1997) A full length Ty3/gypsy-type retrotransposon in the fern Adiantum. J Plant Res 110:495–499Google Scholar
  28. Nozue K, Fukuda S, Kanegae T, Wada M (1998a) Isolation of a second phytochrome cDNA from Adiantum capillus-veneris (accession no. AB016232). Plant Physiol 118:712Google Scholar
  29. Nozue K, Kanegae T, Imaizumi T, Fukuda S, Okamoto H, Yeh K-C, Lagarias JC, Wada M (1998b) A phytochrome from the fern Adiantum with features of the putative photoreceptor NPH1. Proc Natl Acad Sci USA 95:15826–15830CrossRefGoogle Scholar
  30. Nozue K, Christie JM, Kiyosue T, Briggs WR, Wada M (2000) Isolation and characterization of a fern phototropin (accession no. AB037188). A putative blue-light photoreceptor for phototropism. Plant Physiol 122:1458Google Scholar
  31. Okamoto H, Hirano Y, Abe H, Tomizawa K, Furuya M, Wada M (1993) The deduced amino acid sequence of phytochrome from Adiantum includes consensus motifs present in phytochrome B from seed plants. Plant Cell Physiol 34:1329–1334Google Scholar
  32. Putterill J, Robson F, Lee K, Simon R, Coupland G (1995) The CONSTANS gene of Arabidopsis promotes flowering and encodes a protein showing similarities to zinc finger transcription factors. Cell 80:847–857CrossRefPubMedGoogle Scholar
  33. Rensing SA, Rombauts S, van de Peer Y, Reski R (2002) Moss transcriptome and beyond. Trends Plant Sci 7:535–538CrossRefPubMedGoogle Scholar
  34. Schaefer DG, Zrÿd J-P (1997) Efficient gene targeting in the moss Physcomitrella patens. Plant J 11:1195–1206CrossRefPubMedGoogle Scholar
  35. Staut SC, Clark GB, Archer-Evans SA, Roux SJ (2003) Rapid and efficient suppression of gene expression in a single-cell model system, Ceratopteris richardii. Plant Physiol 131:1165–1168CrossRefPubMedGoogle Scholar
  36. Unte US, Sorensen A-M, Pesaresi P, Gandikota M, Leister D, Saedler H, Huijser P (2003) SPL8, an SBP-box gene that affects pollen sac development in Arabidopsis. Plant Cell 15:1009–1019CrossRefPubMedGoogle Scholar
  37. Wada M, Furuya M (1978) Effects of narrow-beam irradiations with blue and far-red light on the timing of cell division in Adiantum gametophytes. Planta 138:85–90CrossRefGoogle Scholar
  38. Wada M, Kadota A (1989) Photomorphogenesis in lower green plants. Annu Rev Plant Physiol Plant Mol Biol 40:169–191CrossRefGoogle Scholar
  39. Wada M, Sugai M (1994) Photobiology of ferns. In: Kendrick RE, Kronenberg GHM (eds) Photomorphogenesis in plants, 2nd edn. Kluwer Academic, Dordrecht, pp 783–802Google Scholar
  40. Wada M, Kagawa T, Sato Y (2003) Chloroplast movement. Annu Rev Plant Biol 54:455–468CrossRefPubMedGoogle Scholar
  41. Wolf PG, Rowe CA, Sinclair RB, Hasebe M (2003) Complete nucleotide sequence of the chloroplast genome from a leptosporangiate fern, Adiantum capillus-veneris L. DNA Res 10:59–65PubMedGoogle Scholar
  42. Yamamoto YY, Matsui M, Ang L-H, Deng X-W (1998) Role of a COP1 interactive protein in mediating light-regulated gene expression in Arabidopsis. Plant Cell 10:1083–1094CrossRefPubMedGoogle Scholar
  43. Yu J, Hu S, Wang J, Wong GK, Li S, Liu B, Deng Y, Dai L, Zhou Y, Zhang X, Cao M, Liu J, Sun J, Tang J, Chen Y, Huang X, Lin W, Ye C, Tong W, Cong L, Geng J, Han Y, Li L, Li W, Hu G, Huang X, Li W, Li J, Liu Z, Li L, Liu J, Qi Q, Liu J, Li L, Li T, Wang X, Lu H, Wu T, Zhu M, Ni P, Han H, Dong W, Ren X, Feng X, Cui P, Li X, Wang H, Xu X, Zhai W, Xu Z, Zhang J, He S, Zhang J, Xu J, Zhang K, Zheng X, Dong J, Zeng W, Tao L, Ye J, Tan J, Ren X, Chen X, He J, Liu D, Tian W, Tian C, Xia H, Bao Q, Li G, Gao H, Cao T, Wang J, Zhao W, Li P, Chen W, Wang X, Zhang Y, Hu J, Wang J, Liu S, Yang J, Zhang G, Xiong Y, Li Z, Mao L, Zhou C, Zhu Z, Chen R, Hao B, Zheng W, Chen S, Guo W, Li G, Liu S, Tao M, Wang J, Zhu L, Yuan L, Yang H (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296:79–92CrossRefPubMedGoogle Scholar

Copyright information

© The Botanical Society of Japan and Springer-Verlag 2005

Authors and Affiliations

  • Daisuke Yamauchi
    • 1
    • 2
    Email author
  • Keita Sutoh
    • 3
  • Hiromi Kanegae
    • 3
  • Tatsuya Horiguchi
    • 4
  • Ken Matsuoka
    • 4
  • Hiroo Fukuda
    • 4
  • Masamitsu Wada
    • 2
    • 3
  1. 1.Department of Life ScienceUniversity of HyogoHyogoJapan
  2. 2.Department of Regulatory BiologyNational Institute for Basic BiologyAichiJapan
  3. 3.Department of Biological SciencesTokyo Metropolitan UniversityTokyoJapan
  4. 4.Plant Science Center, RIKENKanagawaJapan

Personalised recommendations