Skip to main content
SpringerLink
Log in

Genetically directed differential subtraction chain products related to in vitro response of immature embryos of rye (Secale cereale L.): isolation, characterization, and expression analysis

  • Original Paper
  • Published:
Plant Cell, Tissue and Organ Culture (PCTOC) Aims and scope Submit manuscript

Abstract

Winter rye (Secale cereale L.) is known to be recalcitrant to tissue culture response (TCR). Moreover, the mechanisms controlling TCR are poorly recognized. In the present study, a Genetically Directed Differential Subtraction Chain (GDDSC) strategy was used to isolate genomic regions associated with TCR. Two pairs of bulks, R-NR and E > 90–E < 25, were prepared, and for each pair, the bulk was used both as a tester and as a driver. After eight rounds of subtraction, 45 unique GDDSC products were obtained. To verify the connection between GDDSCs and TCR two approaches were applied: Real-Time RT-PCR analysis and genetic mapping. The expression profiles of four out of six investigated products agrees with the phenotype and subtraction direction. Two from the developed GDDSC-SCAR markers showed polymorphism in lines L9 and L318, the parental components of a mapping population. The polymorphic SCAR GDDSC markers were mapped on the rye chromosome 4R (SCAR-GDDSC NR 440BamHI) and 6R (SCAR-GDDSC E < 25 340BamHI). The marker E < 25_340B9 was localized in the border region of QTL for embryogenic callus production.

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

Fig. 1
Fig. 2
Fig. 3
Fig. 4
Fig. 5

Similar content being viewed by others

References

  • Bolibok H (2004) Molecular analysis of the tissue culture response of rye (Secale cereale L.) immature embryos and immature inflorescences with the use of microsatellite markers. Dissertation, Warsaw University of Life Sciences

  • Bolibok H, Gruszczyńska A, Hromada-Judycka A, Rakoczy-Trojanowska M (2007) The identification of QTLs associated with the in vitro response of rye (Secale cereale L.). Cell Mol Biol Lett 12:523–535. doi:10.2478/s11658-007-0023-0

    Article  CAS  PubMed  Google Scholar 

  • Cassells AC, Joyce SM, O’Herlihy EA, Perez-Sanz MJ, Walsh C (2003) Stress and quality in in vitro culture. ISHS Acta Hortic 625:153–164

    Google Scholar 

  • Chang Y, Cesarman E, Pessin MS, Lee F, Culpepper J, Knowles DM, Moore PS (1994) Identification of herpesvirus-like DNA sequences in AIDS-associated Kaposi’s sarcoma. Science 266:1865–1869. doi:10.1126/science.7997879

    Article  CAS  PubMed  Google Scholar 

  • Chen LR, Chen YJ, Lee CY, Lin TY (2007) MeJA-induced transcriptional changes in adventitious roots of Bupleurum kaoi. Plant Sci 173:12–24. doi:10.1016/j.plantsci.2007.03.013

    Article  CAS  Google Scholar 

  • Chomczyński P, Sacchi N (1987) Single-step method of isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal Biochem 162(1):156–159

    Article  PubMed  Google Scholar 

  • Higo K, Ushijima T, Oyabu A, Ye C, Yagyu S, Takahashi H, Matsuyama M (2000) Generation of a polymorphic marker linked to thymoma susceptibility gene of rat 1 by genetically-directed representational difference analysis. Exp Anim 49:189–195

    Article  CAS  PubMed  Google Scholar 

  • Jianyong W, Junru S, Xizeng M, Kede L, Liping W, Pingwu L, Guangsheng Y (2007) Isolation and analysis of differentially expressed genes in dominant genic male sterility (DGMS) Brassica napus L. using subtractive PCR and cDNA microarray. Plant Sci 172:204–211. doi:10.1016/j.plantsci.2006.08.010

    Article  Google Scholar 

  • Kamb A, Gruis NA, Weaver-Feldhaus J, Liu Q, Harshman K, Tavtigian SV, Stockert E, Day RS, Johnson BE, Skolnick MH (1994) A cell cycle regulator potentially involved in genesis of many tumor types. Science 264:436–440. doi:10.1126/science.8153634

    Article  CAS  PubMed  Google Scholar 

  • Kasuga M, Liu Q, Miura S, Yamaguchi-Shinozaki K, Shinozaki K (1999) Improving plant drought, salt and freezing tolerance by gene transfer of a single stress-inducible transcriptional factor. Nat Biotechnol 17:287–291. doi:10.1038/7036

    Article  CAS  PubMed  Google Scholar 

  • Lisitsyn N, Lisitsina N, Wigle M (1993) Cloning the differences between two complex genomes. Science 259:946–951. doi:10.1126/science.8438152

    Article  CAS  PubMed  Google Scholar 

  • Lisitsyn NA, Segre JA, Kusumi K, Lisitsyn NM, Nadeau JH, Frankel WN, Wigler MH, Lander ES (1994) Direct isolation of polymorphic markers linked to a trait by genetically directed representational difference analysis. Nat Genet 6:57–63. doi:10.1038/ng0194-57

    Article  CAS  PubMed  Google Scholar 

  • Lisitsyn NA, Lisitsina NM, Dalbagni G, Barker P, Sanchez CA, Gnarra J, Linehan WM, Reid BJ, Wigler MH (1995) Comparative genomic analysis of tumors: detection of DNA losses and amplification. Proc Natl Acad Sci USA 92:151–155

    Article  CAS  PubMed  Google Scholar 

  • Luo JH, Puc JA, Slosberg ED, Yao Y, Bruce JN, Wright TC, Becich MJ, Parsons R (1999) Differential subtraction Chain, a method for identifying differences in genomic DNA mRNA. Nucleic Acids Res 27:e24–e24

    Article  CAS  PubMed  Google Scholar 

  • Matsumoto TK (2006) Genes uniquely expressed in vegetative and potassium chlorate induced floral buds of Dimocarpus longan. Plant Sci 170:500–510. doi:10.1016/j.plantsci.2005.09.016

    Article  CAS  Google Scholar 

  • Murray MG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acid Res 8:4321–4326

    Article  CAS  PubMed  Google Scholar 

  • Park SJ, Huang Y, Ayoubi P (2006) Identification of expression profiles of sorghum genes in response to greenbug phloem-feeding using cDNA subtraction and microarray analysis. Planta 223:932–947. doi:10.1007/s00425-005-0148-1

    Article  CAS  PubMed  Google Scholar 

  • Przybecki Z, Kowalczyk ME, Witkowicz J, Filipecki M, Siedlecka E (2004) Polymorphism of sexually different cucumber (Cucumis sativus L.) NIL lines. Cell Mol Biol Lett 9:919–933

    CAS  PubMed  Google Scholar 

  • Qin Q, Liu J, Zhang Z, Peng R, Xiong A, Yao Q, Chen J (2007) Isolation, optimalization and functional analysis of the cDNA encoding transcription factor OsDREB1B in Oryza sativa L. Mol Breed 19:329–340. doi:10.1007/s11032-006-9065-7

    Article  CAS  Google Scholar 

  • Rakoczy-Trojanowska M, Malepszy S (1993) Genetic factors influencing regeneration ability in rye (Secale cereale L.). I. Immature inflorescences. Theor Appl Genet 86:406–410. doi:10.1007/BF00838554

    Article  Google Scholar 

  • Rakoczy-Trojanowska M, Malepszy S (1995) Genetic factors influencing regeneration ability in rye (Secale cereale L.). II. Immature embryos. Euphytica 83:233–239. doi:10.1007/BF01678135

    Article  Google Scholar 

  • Rakoczy-Trojanowska M, Śmiech M, Malepszy S (1997) The influence of genotype and medium on rye (Secale cereale L.) anther culture. Plant Cell Tissue Organ Cult 48:15–21. doi:10.1023/A:1005792912316

    Article  Google Scholar 

  • Šimkova H, Šafář J, Suchánková P, Kovářová P, Bartoš J, Kubaláková M, Janda J, Číhalíková J, Mago R, Lelley T, Doležel J (2008) A novel resource for genomics of Triticeae: BAC library specific for the short arm of rye (Secale cereale L.) chromosome 1R (1RS). BMC Genomics 9:237. doi:10.1186/1471-2164-9-237

    Article  PubMed  Google Scholar 

  • Uauy C, Distelfeld A, Fahima T, Blechl A, Duncovsky J (2006) A NAC gene regulating sequences improves grain protein, zinc and iron content in wheat. Science 314:1289–1301. doi:10.1126/science.1133649

    Article  Google Scholar 

  • Winicov I (2000) Alfin1 transcription factor overexpression enhances plant root growth under normal and saline conditions and improves salt tolerance in alfalfa. Planta 210:416–422. doi:10.1007/PL00008150

    Article  CAS  PubMed  Google Scholar 

  • Xie Q, Frugis G, Colgan D, Chua NH (2000) Arabidopsis NAC1 transduces auxin signal downstream of TIR1 to promote lateral root development. Genes Dev 14:3024–3036. doi:10.1101/gad.852200

    Article  CAS  PubMed  Google Scholar 

  • Xu ZS, Ni ZY, Liu L, Nie LN, Li LC, Chen M, Ma YZ (2008) Characterization of the TaAIDFa gene encoding a CRT/DRE-binding factor responsive to drought, high-salt, and cold stress in wheat. Mol Genet Genomics 280:497–508. doi:10.1007/s00438-008-0382-x

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

This research project was financially supported by the Ministry of Education and Science project No 2P06A01929.

Author information

Authors and Affiliations

  1. Department of Plant Genetics, Breeding and Biotechnology, Warsaw University of Life Sciences, Nowoursynowska 159, 02-776, Warszawa, Poland

    Aneta Hromada-Judycka, Hanna Bolibok-Brągoszewska & Monika Rakoczy-Trojanowska

Authors
  1. Aneta Hromada-Judycka
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Hanna Bolibok-Brągoszewska
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Monika Rakoczy-Trojanowska
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Monika Rakoczy-Trojanowska.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Hromada-Judycka, A., Bolibok-Brągoszewska, H. & Rakoczy-Trojanowska, M. Genetically directed differential subtraction chain products related to in vitro response of immature embryos of rye (Secale cereale L.): isolation, characterization, and expression analysis. Plant Cell Tiss Organ Cult 100, 131–138 (2010). https://doi.org/10.1007/s11240-009-9626-7

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11240-009-9626-7

Keywords

Search

Navigation