biologia plantarum

International journal on Plant Life established by Bohumil Němec in 1959

Biologia plantarum 52:149-152, 2008 | DOI: 10.1007/s10535-008-0031-6

Limited variability of CTG/CAG repeats in Lycopersicon nuclear DNA

D. Dimitrova1, O. Georgiev2, C. Valkova3, B. Atanassova4,*, L. Karagyozov5
1 Institute of Biophysics, Bulgarian Academy of Sciences, Sofia, Bulgaria
2 Institut für Molekularbiologie II, Universität Zurich, Zurich, Switzerland
3 Fritz Liepmann Institut für Altersforschung, Jena, Germany
4 Institute of Genetics, Bulgarian Academy of Sciences, Sofia, Bulgaria
5 Friedrich-Schiller Universität Jena, Jena, Germany

Seven clones containing (CTG)n/(CAG)n repeats (n ≥ 4) were isolated by screening Lycopersicon esculentum genomic DNA. Four of the clones contained more than one simple sequence repeat (SSR). The SSRs were analyzed in several L. esculentum cultivars after polymerase chain reaction (PCR) amplification. No length variations were observed, suggesting considerable locus stability. Five clones are from transcribed regions, which might explain the lack of cultivar variations. However the conservation of CTG repeats was limited as differences in some transcribed loci were registered between L. pennellii and other Lycopersicon species. It is noted that in Lycopersicon trinucleotide repeat variation might be used for species identification.

Keywords: tomato; transcribed DNA; trinucleotide simple sequence repeats
Subjects: Lycopersicon esculentum; polymerase chain reaction (PCR); tomato; trinucleotide simple sequence repeats

Received: December 12, 2006; Accepted: June 15, 2007; Published: March 1, 2008  Show citation

ACS AIP APA ASA Harvard Chicago Chicago Notes IEEE ISO690 MLA NLM Turabian Vancouver
Dimitrova, D., Georgiev, O., Valkova, C., Atanassova, B., & Karagyozov, L. (2008). Limited variability of CTG/CAG repeats in Lycopersicon nuclear DNA. Biologia plantarum, 52(1), 149-152. doi: 10.1007/s10535-008-0031-6
Share...
Download citation
  • BibTeX (.bib)
  • Bookends (.ris)
  • EasyBib (.ris)
  • EndNote (.enw)
  • EndNote 8 (.xml)
  • ISI WoS (.isi)
  • Medlars (.medlars)
  • Mendeley (.ris)
  • MODS (.xml)
  • Papers (.ris)
  • RefWorks (.txt)
  • RefManager (.ris)
  • RIS (.ris)
  • MS Word (.xml)
  • Zotero (.ris)
    • Open full article

    References

    1. Areshchenkova, T., Ganal, M.W.: Long tomato microsatellites are predominantly associated with centromeric regions.-Genome 42: 536-544, 1999. Go to original source...
    2. Areshchenkova, T., Ganal, M.W.: Comparative analysis of polymorphism and chromosomal location of tomato microsatellite markers isolated from different sources.-Theor. appl. Genet. 104: 229-235, 2002. Go to original source...
    3. Bichara, M., Wagner, J., Lambert, I.B.: Mechanisms of tandem repeat instability in bacteria.-Mutat. Res. 598: 144-163, 2006. Go to original source...
    4. Broun, P., Tanksley, S.D.: Characterization and genetic mapping of simple repeat sequences in the tomato genome.-Mol. Gen. Genet. 250: 39-49, 1996. Go to original source...
    5. Cardle, L., Ramsay, L., Milbourne, D., Macaulay, M., Marshall, D., Waugh, R.: Computational and experimental characterization of physically clustered simple sequence repeats in plants.-Genetics 156: 847-854, 2000. Go to original source...
    6. Chomczynski, P., Sacchi, N.: Single-step method of RNA isolation by acid guanidinium thiocyanate-phenolchloroform extraction.-Anal. Biochem. 162: 156-159, 1987. Go to original source...
    7. Dikshit, H.K., Jhang, T., Singh N.K., Koundal, K.R., Bansal, K.C., Chandra, N., Tickoo, J.L., Sharma, T.R.: Genetic differentiation of Vigna species by RAPD, URP and SSR markers.-Biol. Plant. 51: 451-457, 2007. Go to original source...
    8. Frary, A., Xu, Y., Liu, J., Mitchell, S., Tedeschi, E., Tanksley, S.: Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments.-Theor. appl. Genet. 111: 291-312, 2005. Go to original source...
    9. He, C., Poisa, V., Yu, K.: Development and characterization of simple sequence repeat (SSR) markers and their use in determining relationships among Lycopersicon esculentum cultivars.-Theor. appl. Genet. 106: 363-373, 2003. Go to original source...
    10. Hewish, D.R., Burgoyne, L.A.: The digestion of chromatin DNA at regularly spaced sites by a nuclear deoxyribonuclease.-Biochem. biophys. Res. Commun. 52: 504-510, 1973. Go to original source...
    11. Karagyozov, L., Kalcheva, I.D., Chapman, V.: Construction of random small-insert genomic libraries highly enriched for simple sequence repeats.-Nucl. Acids Res. 21: 3911-3912, 1993. Go to original source...
    12. Katti, M.V., Sami-Subbu, R., Ranjekar, P.K., Gupta, V.: Amino acid repeat patterns in protein sequences: their diversity and structural-functional implications.-Protein Sci. 9: 1203-1209, 2000. Go to original source...
    13. O'Donovan, M.C., Guy, C.: Bias in the genomic distribution of CAG and CTG trinucleotide repeats.-Amer. J. Med. Genet. 74: 62-64, 1997.
    14. Pearson, C.E., Edamura K.N., Cleary J.D.: Repeat instability: mechanisms of dynamic mutations.-Nat. Rev. Genet. 6: 729-742, 2005. Go to original source...
    15. Požárková, D., Koblížková, A., Román, B., Torres, A.M., Lucretti, S., Lysák, M., Doležel, J., Macas, J.: Development and characterization of microsatellite markers from chromosome 1-specific DNA libraries of Vicia faba.-Biol. Plant. 45: 337-345, 2002. Go to original source...
    16. Rakoczy-Trojanowska, M., Bolibok, H.: Characteristics and a comparison of three classes of microsatellite-based markers and their application in plants.-Cell mol. Biol. Lett. 9: 221-238, 2004.
    17. Schweitzer, J.K., Reinke, S.S., Livingston, D.M.: Meiotic alterations in CAG repeat tracts.-Genetics 159: 1861-1865, 2001. Go to original source...
    18. Smulders, M.J.M., Bredemeijer, G., Rus-Kortekaas, W., Arens, P., Vosman, B.: Use of short SSR from database sequences to generate polymorphisms among Lycopersicon esculentum cultivars and accessions of other Lycopersicon species.-Theor. appl. Genet. 97: 264-272, 1997. Go to original source...
    19. Toth, G., Gaspari, Z., Jurka, J.: SSR in different eukaryotic genomes: survey and an analysis.-Genome Res 10: 967-981, 2000. Go to original source...
    20. Yang, T.-J., Lee, S., Chang, S.-B., Yu, Y., De Jong, H., Wing, R.A.: In-depth sequence analysis of the tomato chromosome 12 centromeric region: identification of a large CAA block and characterization of pericentromere retrotranposons.-Chromosoma 114: 103-117, 2005. Go to original source...

    Return to the content