Skip to main content
SpringerLink
Log in

Phytochrome A as a functional marker of phyletic relationships in Nicotiana genus

  • Original Papers
  • Published:
Biologia Plantarum

Abstract

Nicotiana is a small and well characterized genus of Solanaceae and in this study we have used polymorphisms in phytochrome A coding sequence (phyA) and promoter to asses the phylogenetic relationships among species representative of all the sections of the genus. Allopolyploid species kept the two copies of the gene derived from each of the progenitors as resulted from the analyses of the coding region and promoter. Moreover, both copies of phyA present in tetraploids are transcribed, indicating that are properly regulated and do not undergo silencing.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

Abbreviations

AFLP:

amplified fragment length polymorphism

ITS:

internal transcribed spacer

PCR:

polymerase chain reaction

Phy A:

phytochrome A

RAPD:

random amplified polymorphic DNA

RFLP:

restriction fragment length polymorphism

References

  • Adam, E., Deak, M., Kay, S., Chua, N.H., Nagy, F.: Sequence of a tobacco (Nicotiana tabacum) gene coding for type A phytochrome.-Plant Physiol. 101: 1407–1408, 1993.

    Article  PubMed  CAS  Google Scholar 

  • Adam, E., Kozma-Bognar, L., Dallmann, G., Nagy, F.: Transcription of tobacco phytochrome A genes initiates at multiple start sites and requires multiple cis-acting regulatory elements.-Plant mol. Biol. 29: 983–993, 1995.

    Article  PubMed  CAS  Google Scholar 

  • Adams, K.L., Wendel, J.F.: Polyploidy and genome evolution in plants.-Curr. Opin. Plant Biol. 8: 135–141, 2005.

    Article  PubMed  CAS  Google Scholar 

  • Alba, R., Kelmenson, P.M., Cordonnier-Pratt, M.M., Pratt, L.H.: The phytochrome gene family in tomato and the rapid differential evolution of this family in angiosperms.-Mol. Biol. Evol. 17: 362–373, 2000.

    PubMed  CAS  Google Scholar 

  • Aoki, S., Ito, M.: Molecular phylogeny of Nicotiana (Solanaceae) based on the nucleotide sequence of the matK gene.-Plant Biol. 2: 316–324, 2000.

    Article  CAS  Google Scholar 

  • Bogani, P., Buiatti, M., Tegli, S., Pellegrini, M.G., Bettini, P., Scala, A.: Interspecific differences in differentiantion and dedifferentiation patterns in the Genus Nicotiana.-Plant Syst. Evol. 151: 19–29, 1985.

    Article  Google Scholar 

  • Bogani, P., Liò, P., Intrieri, M.C., Buiatti, M.: A physiological and molecular analysis of the Genus Nicotiana.-Mol. Phylogen. Evol. 1: 62–69, 1997.

    Article  Google Scholar 

  • Borisjuk, N., Borisjuk, L., Petjuch, G., Hemleben, V.: Comparison of nuclear ribosomal RNA genes among Solanum species and other Solonaceae.-Genome 37: 271–279, 1994.

    PubMed  CAS  Google Scholar 

  • Chase, M.W., Knapp, S., Cox, A.V., Clarkson, J.J., Butsko, Y., Joseph, J., Savolainen, V., Parokonny, A.: Molecular systematics, GISH and the origin of hybrid taxa in Nicotiana (Solanaceae).-Ann. Bot. 92: 107–112, 2003.

    Article  PubMed  CAS  Google Scholar 

  • Clarkson, J.J., Knapp, S., Garcia, V.F., Olmstead, R.G., Leitch, A.R., Chase M.W.: Phylogenetic relationships in Nicotiana (Solanaceae) inferred from multiple plastid DNA regions-Mol. Phylogen. Evol. 33: 75–90, 2004.

    Article  CAS  Google Scholar 

  • Comai, L.: The advantages and disadvantages of being polyploid.-Nat Rev. Genet. 6: 836–846, 2005.

    Article  PubMed  CAS  Google Scholar 

  • Goodspeed, T.H.: The Genus Nicotiana.-Chronica Botanica, Walthum 1954.

    Google Scholar 

  • Gregor, W., Mette, M.F., Staginnus, C., Matzke, M.A., Matzke, A.J.: A distinct endogenous pararetrovirus family in Nicotiana tomentosiformis, a diploid progenitor of polyploid tobacco.-Plant Physiol. 134: 1191–1199, 2004.

    Article  PubMed  CAS  Google Scholar 

  • Hua, S., Dube, S., Kung, S.: Molecular evolutionary analysis of the psbP gene family of the photosystem II oxygen-evolving complex in Nicotiana.-Genome 36: 483–488, 1993.

    CAS  Google Scholar 

  • Intrieri, M.C., Buiatti, M.: The horizontal transfer of Agrobacterium rhizogenes genes and the evolution of the genus Nicotiana.-Mol. Phylogen. Evol. 20: 100–110, 2001.

    Article  CAS  Google Scholar 

  • Intrieri, M.C., Muleo, R., Buiatti, M.: Effect of radiation spectral composition on Nicotiana spp. seedlings grown in vitro.-Biol. Plant. 48: 167–172, 2004.

    Article  Google Scholar 

  • Kendrick, R.E., Kronenberg, G.H.M.: Photomorphogenesis in Plants. 2nd Ed.-Kluwer Academic Publishers, Dordrecht 1994.

    Google Scholar 

  • Kovarik, A., Matyasek, R., Lim, K.Y., Skalická, K., Koukalová, B., Knapp, S., Chase, M., Leitch A.R.: Concerted evolution of 18-5.8-26S rDNA repeats in Nicotiana allotetraploids.-Biol. J. Linnean Soc. 82: 615–625, 2004.

    Article  Google Scholar 

  • Kuittinen, H., Aguadé, M., Charlesworth, D., Haan, A.D.E., Lauga, B., Mitchell-Olds, T., Oikarinen, S., Ramos-Onsins, S., Stranger, B, Van Tienderen, P., Savolainen O.: Primers for 22 candidate genes for ecological adaptations in Brassicaceae.-Mol. Ecol. Notes 2: 258–262, 2002.

    Article  CAS  Google Scholar 

  • Kung, S.D., Zhu, Y.S., Shen, G.F.: Nicotiana chloroplast genome. III Chloroplast DNA evolution.-Theor. appl. Genet. 61: 73–79, 1982.

    Article  CAS  Google Scholar 

  • Lim, K.Y., Matyasek, R., Kovarik, A., Leitch, A.R.: Genome evolution in allotetraploid Nicotiana.-Biol. J. Linnean Soc. 82: 599–606, 2004.

    Article  Google Scholar 

  • Mathews, S., Donoghue, M.J.: The root of angiosperm phylogeny inferred from duplicate phytochrome genes.-Science 286: 947–950, 1999.

    Article  PubMed  CAS  Google Scholar 

  • Mathews, S., Donoghue, M.J.: Basal angiosperm phylogeny inferred from duplicate phytochromes A and C.-Int. J. Plant Sci. 161: S41–S55, 2000.

    Article  Google Scholar 

  • Mathews, S., Sharrock, R.A.: The phytochrome gene family in grasses (Poaceae): a phylogeny and evidence that grasses have a subset of the loci found in dicot angiosperms.-Mol. Biol. Evol. 13: 1141–1150, 1996.

    PubMed  CAS  Google Scholar 

  • Mohapatra, A., Rout, G.R.: Optimization of primer screening for evaluation of genetic relationship in rose cultivars.-Biol. Plant. 50: 295–299, 2006.

    Article  CAS  Google Scholar 

  • Narayan, R.K.J.: Nuclear DNA changes, genome differentiation and evolution in Nicotiana (Solanaceae).-Plant Syst. Evol. 157: 161–180, 1987.

    Article  CAS  Google Scholar 

  • Ren, N., Timko, M.P.: AFLP analysis of genetic polymorphism and evolutionary relationships among cultivated and wild Nicotiana species.-Genome 44: 559–571, 2001.

    Article  PubMed  CAS  Google Scholar 

  • Rout, G.R.: Evaluation of genetic relationship in Typhonium species through random amplified polymorphic DNA markers.-Biol. Plant. 50: 127–130, 2006.

    Article  CAS  Google Scholar 

  • Sambrook, J., Fritsch, E.F., Maniatis, T.: Molecular Cloning: a Laboratory Manual.-Cold Spring Harbor Laboratory Press, Cold Spring Harbor 1989.

    Google Scholar 

  • Skalicka, K., Lim, K.Y., Matyasek, R., Matzke, A.J.M., Leitch, A.R., Kovarik, A.: Preferential elimination of repeated DNA sequences from the paternal, N. tomentosiformis genome donor of a synthetic, allotetraploid tobacco.-New Phytol. 166: 291–303, 2005.

    Article  PubMed  CAS  Google Scholar 

  • Tassopulu, D., Kung, S.D.: Nicotiana chloroplast genome. VI. Deletions and hot spot, a proposed origin of the inverted repeats.-Theor. appl.Genet. 67: 185–193, 1984.

    Article  CAS  Google Scholar 

  • Yu, Y., Lin, T.: Construction of phylogenetic tree for Nicotiana species based on RAPD markers.-J. Plant Res. 110: 187–193, 1997.

    Article  CAS  Google Scholar 

  • Zhang, H.Y., Liu, X.Z., He, C.S., Zheng C.M.: Random amplified DNA polymorphism of Nicotiana tabacum L. cultivars.-Biol. Plant. 49: 605–607, 2005.

    Article  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Dipartimento di Biologia Animale e Genetica, Università degli Studi di Firenze, via Romana 17/19, I-50125, Firenze, Italy

    M. C. Intrieri & M. Buiatti

  2. Dipartimento di Produzione Vegetale, Università degli Studi della Tuscia, via San Camillo de Lellis, I-01100, Viterbo, Italy

    R. Muleo

Authors
  1. M. C. Intrieri
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. R. Muleo
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. M. Buiatti
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to R. Muleo.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Intrieri, M.C., Muleo, R. & Buiatti, M. Phytochrome A as a functional marker of phyletic relationships in Nicotiana genus. Biol Plant 52, 36–41 (2008). https://doi.org/10.1007/s10535-008-0005-8

Download citation

  • Received:

  • Accepted:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10535-008-0005-8

Additional key words

Search

Navigation