A Kovarik

Summary

Affiliation: Institute of Biophysics
Country: Czech Republic

Publications

  1. pmc Epigenetic switches of tobacco transgenes associate with transient redistribution of histone marks in callus culture
    Katerina Krizova
    Institute of Biophysics, Academy of Sciences Královopolská, Brno, Czech Republic
    Epigenetics 8:666-76. 2013
  2. pmc Paramutation of tobacco transgenes by small RNA-mediated transcriptional gene silencing
    Lucie Crhák Khaitová
    Institute of Biophysics, Academy of Sciences of Czech Republic, Brno, Czech Republic
    Epigenetics 6:650-60. 2011
  3. pmc The trans-silencing capacity of invertedly repeated transgenes depends on their epigenetic state in tobacco
    Miloslava Fojtova
    Institute of Biophysics, Academy of Sciences of the Czech Republic, CZ 612 65 Brno, Czech Republic
    Nucleic Acids Res 34:2280-93. 2006
  4. pmc Dancing together and separate again: gymnosperms exhibit frequent changes of fundamental 5S and 35S rRNA gene (rDNA) organisation
    S Garcia
    Laboratori de Botànica, Facultat de Farmacia, Universitat de Barcelona, Barcelona, Catalonia, Spain
    Heredity (Edinb) 111:23-33. 2013
  5. pmc Next generation sequencing analysis reveals a relationship between rDNA unit diversity and locus number in Nicotiana diploids
    Roman Matyasek
    Institute of Biophysics, Academy of Sciences of the Czech Republic, v v i, Kralovopolska 135, Brno CZ 612 65, Czech Republic
    BMC Genomics 13:722. 2012
  6. pmc Expression of 5 S rRNA genes linked to 35 S rDNA in plants, their epigenetic modification and regulatory element divergence
    Sonia Garcia
    Laboratori de Botànica, Facultat de Farmacia, Universitat de Barcelona, Barcelona, Catalonia, Spain
    BMC Plant Biol 12:95. 2012
  7. pmc Repeated reunions and splits feature the highly dynamic evolution of 5S and 35S ribosomal RNA genes (rDNA) in the Asteraceae family
    Sonia Garcia
    Institut Botànic de Barcelona CSIC ICU, Passeig del Migdia, Parc de Montjuïc, 08038 Barcelona, Catalonia, Spain
    BMC Plant Biol 10:176. 2010
  8. pmc Similar patterns of rDNA evolution in synthetic and recently formed natural populations of Tragopogon (Asteraceae) allotetraploids
    Hana Malinska
    Institute of Biophysics, Academy of Sciences of the Czech Republic, vvi Laboratory of Molecular Epigenetics, Kralovopolska 135, CZ 61265 Brno, Czech Republic
    BMC Evol Biol 10:291. 2010
  9. pmc Rapid concerted evolution of nuclear ribosomal DNA in two Tragopogon allopolyploids of recent and recurrent origin
    A Kovarik
    Institute of Biophysics, Academy of Sciences of the Czech Republic, CS 61265 Brno, Czech Republic
    Genetics 169:931-44. 2005
  10. doi request reprint The asymmetric meiosis in pentaploid dogroses (Rosa sect. Caninae) is associated with a skewed distribution of rRNA gene families in the gametes
    A Kovarik
    Laboratory of Molecular Epigenetics, Academy of Sciences of the Czech Republic, v v i, Institute of Biophysics, Brno, Czech Republic
    Heredity (Edinb) 101:359-67. 2008

Collaborators

Detail Information

Publications26

  1. pmc Epigenetic switches of tobacco transgenes associate with transient redistribution of histone marks in callus culture
    Katerina Krizova
    Institute of Biophysics, Academy of Sciences Královopolská, Brno, Czech Republic
    Epigenetics 8:666-76. 2013
    ..Compilation of available data on epigenetic modification of inactivated P35S in different systems is provided...
  2. pmc Paramutation of tobacco transgenes by small RNA-mediated transcriptional gene silencing
    Lucie Crhák Khaitová
    Institute of Biophysics, Academy of Sciences of Czech Republic, Brno, Czech Republic
    Epigenetics 6:650-60. 2011
    ..These features contrast with a non-methylated single copy transgenic locus that required several generations of contact with RNA silencing molecules to become imprinted in a stable epiallele...
  3. pmc The trans-silencing capacity of invertedly repeated transgenes depends on their epigenetic state in tobacco
    Miloslava Fojtova
    Institute of Biophysics, Academy of Sciences of the Czech Republic, CZ 612 65 Brno, Czech Republic
    Nucleic Acids Res 34:2280-93. 2006
    ....
  4. pmc Dancing together and separate again: gymnosperms exhibit frequent changes of fundamental 5S and 35S rRNA gene (rDNA) organisation
    S Garcia
    Laboratori de Botànica, Facultat de Farmacia, Universitat de Barcelona, Barcelona, Catalonia, Spain
    Heredity (Edinb) 111:23-33. 2013
    ..Frequent transpositions and rearrangements of basic units indicate relatively relaxed selection pressures imposed on genomic organisation of 5S genes in plants...
  5. pmc Next generation sequencing analysis reveals a relationship between rDNA unit diversity and locus number in Nicotiana diploids
    Roman Matyasek
    Institute of Biophysics, Academy of Sciences of the Czech Republic, v v i, Kralovopolska 135, Brno CZ 612 65, Czech Republic
    BMC Genomics 13:722. 2012
    ..Here we study rDNA complexity in species with arrays consisting of thousands of units...
  6. pmc Expression of 5 S rRNA genes linked to 35 S rDNA in plants, their epigenetic modification and regulatory element divergence
    Sonia Garcia
    Laboratori de Botànica, Facultat de Farmacia, Universitat de Barcelona, Barcelona, Catalonia, Spain
    BMC Plant Biol 12:95. 2012
    ..Additionally, their methylation status was determined using bisulfite sequencing. Fluorescence in situ hybridization was applied to reveal the sub-nuclear positions of rDNA arrays...
  7. pmc Repeated reunions and splits feature the highly dynamic evolution of 5S and 35S ribosomal RNA genes (rDNA) in the Asteraceae family
    Sonia Garcia
    Institut Botànic de Barcelona CSIC ICU, Passeig del Migdia, Parc de Montjuïc, 08038 Barcelona, Catalonia, Spain
    BMC Plant Biol 10:176. 2010
    ....
  8. pmc Similar patterns of rDNA evolution in synthetic and recently formed natural populations of Tragopogon (Asteraceae) allotetraploids
    Hana Malinska
    Institute of Biophysics, Academy of Sciences of the Czech Republic, vvi Laboratory of Molecular Epigenetics, Kralovopolska 135, CZ 61265 Brno, Czech Republic
    BMC Evol Biol 10:291. 2010
    ..We investigate the dynamics and directionality of these rDNA losses, as well as the contribution of gene copy number variation in the parental diploids to rDNA variation in the derived tetraploids...
  9. pmc Rapid concerted evolution of nuclear ribosomal DNA in two Tragopogon allopolyploids of recent and recurrent origin
    A Kovarik
    Institute of Biophysics, Academy of Sciences of the Czech Republic, CS 61265 Brno, Czech Republic
    Genetics 169:931-44. 2005
    ..dubius, the rDNA of T. dubius was nonetheless expressed. We have apparently caught homogenization of rDNA repeats (concerted evolution) in the act, although it has not proceeded to completion in any allopolyploid population yet examined...
  10. doi request reprint The asymmetric meiosis in pentaploid dogroses (Rosa sect. Caninae) is associated with a skewed distribution of rRNA gene families in the gametes
    A Kovarik
    Laboratory of Molecular Epigenetics, Academy of Sciences of the Czech Republic, v v i, Institute of Biophysics, Brno, Czech Republic
    Heredity (Edinb) 101:359-67. 2008
    ..Allopolyploidy with distantly related species is likely to have driven evolution of Rosa section Caninae...
  11. ncbi request reprint Chromatin fragmentation associated with apoptotic changes in tobacco cells exposed to cold stress
    B Koukalova
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Brno
    FEBS Lett 414:289-92. 1997
    ..The results support the view that PCD was activated by the cold stress. We suggest that cold-stressed tobacco BY-2 culture might be a useful system for investigation of PCD in plant cells...
  12. ncbi request reprint Variability in CpNpG methylation in higher plant genomes
    A Kovarik
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Brno
    Gene 204:25-33. 1997
    ..The methylation of trinucleotides was abundant in large A+T-rich genomes and it is proposed that the CpA(T)pG trinucleotides may help to maintain a high density of methylatable targets in plant repeated sequences...
  13. ncbi request reprint Comparative analysis of DNA methylation in tobacco heterochromatic sequences
    A Kovarik
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Brno
    Chromosome Res 8:527-41. 2000
    ..Variable decondensation patterns within and between loci were also observed for GRS and HRS60. Cytosine methylation of the tobacco repeats is discussed with respect to transcription, overall levels of condensation and overall structure...
  14. ncbi request reprint Drug-induced hypomethylation of a posttranscriptionally silenced transgene locus of tobacco leads to partial release of silencing
    A Kovarik
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65, Brno, Czech Republic
    FEBS Lett 467:47-51. 2000
    ..Models for the possible role of DNA methylation in PTGS are discussed...
  15. pmc Dynamic changes in the distribution of a satellite homologous to intergenic 26-18S rDNA spacer in the evolution of Nicotiana
    K Y Lim
    Institute of Biophysics, AV CR, 612 65 Brno, Czech Republic
    Genetics 166:1935-46. 2004
    ..Taken together the data indicate a dynamic nature of the A1/A2 repeats in Nicotiana genomes, with evidence for recurrent integration, copy number expansions, and contractions...
  16. doi request reprint Frequent silencing of rDNA loci on the univalent-forming genomes contrasts with their stable expression on the bivalent-forming genomes in polyploid dogroses (Rosa sect. Caninae)
    L Khaitová
    Institute of Biophysics, Academy of Sciences of the Czech Republic, v v i Laboratory of Molecular Epigenetics, Brno, Czech Republic
    Heredity (Edinb) 104:113-20. 2010
    ..Nonetheless, mosaic expression of univalent genomes could contribute to phenotypic variation between the species...
  17. ncbi request reprint Mapping of 5-methylcytosine residues in Nicotiana tabacum 5S rRNA genes by genomic sequencing
    J Fulnecek
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Brno
    Mol Gen Genet 259:133-41. 1998
    ..Methylation of CNG and non-symmetrical sites can be efficiently reduced by treatment with dihydroxypropyladenine, an inhibitor of S-adenosylhomocysteine hydrolase...
  18. ncbi request reprint Evolution and structure of 5S rDNA loci in allotetraploid Nicotiana tabacum and its putative parental species
    J Fulnecek
    Institute of Biophysics, Academy of Sciences of the Czech Republic, CZ 61265 Brno, Czech Republic
    Heredity (Edinb) 88:19-25. 2002
    ..This is therefore substantially different to 18-26S rDNA where interlocus gene conversion has substantially influenced most sequences of S and T genome origin; possible reasons are discussed...
  19. ncbi request reprint Ribosomal DNA evolution and gene conversion in Nicotiana rustica
    R Matyasek
    Institute of Biophysics, Academy of Sciences of the Czech Republic, CZ 61265 Brno, Czech Republic
    Heredity (Edinb) 91:268-75. 2003
    ..As in tobacco, an allotetraploid between N. sylvestris and N. tomentosiformis, the direction of the IGS interlocus conversion is towards the paternal genome donor...
  20. ncbi request reprint Preferential elimination of repeated DNA sequences from the paternal, Nicotiana tomentosiformis genome donor of a synthetic, allotetraploid tobacco
    K Skalicka
    Institute of Biophysics, Academy of Sciences of the Czech Republic, CZ 61265 Brno, Czech Republic
    New Phytol 166:291-303. 2005
    ..tomentosiformis-donated genome, and some of the changes showed concordance with changes that presumably occurred during evolution of natural tobacco...
  21. ncbi request reprint Evolution of 5S rDNA unit arrays in the plant genus Nicotiana (Solanaceae)
    R Matyácek
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Brno
    Genome 45:556-62. 2002
    ..There is no clear relationship between the number of 5S families and the number of 5S rDNA loci. Certainly the replacement of 5S rDNA units, perhaps by gene conversion, has occurred repeatedly in the evolution of genus Nicotiana...
  22. ncbi request reprint Distribution of 5-methylcytosine residues in 5S rRNA genes in Arabidopsis thaliana and Secale cereale
    J Fulnecek
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, CZ 612 65 Brno, Czech Republic
    Mol Genet Genomics 268:510-7. 2002
    ..The differences in methylation levels in different sequence contexts might be of phylogenetic significance, but further species in related and different taxa need to be studied before firm conclusions can be drawn...
  23. ncbi request reprint Transposition of IS10 from the host Escherichia coli genome to a plasmid may lead to cloning artefacts
    A Kovarik
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Brno
    Mol Genet Genomics 266:216-22. 2001
    ..We recommend checking submitted sequences for the presence of IS10 and other IS elements. In addition, DNA databases should be corrected by removing contaminating IS sequences...
  24. ncbi request reprint Telomerase activity in plant cells
    J Fajkus
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Czech Republic
    FEBS Lett 391:307-9. 1996
    ..The elongation was inhibited by RNase A pretreatment of the extract. We conclude that plant cells possess telomerase which is used for maintenance of their telomeres...
  25. pmc The ups and downs of genome size evolution in polyploid species of Nicotiana (Solanaceae)
    I J Leitch
    Jodrell Laboratory, Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3DS, UK
    Ann Bot 101:805-14. 2008
    ..Recent advances in understanding phylogenetic relationships of Nicotiana species and dating polyploid formation enable a temporal dimension to be added to the analysis of genome size evolution in these polyploids...
  26. ncbi request reprint Molecular cytogenetics and tandem repeat sequence evolution in the allopolyploid Nicotiana rustica compared with diploid progenitors N. paniculata and N. undulata
    K Y Lim
    School of Biological Sciences, Queen Mary University of London, London, United Kingdom
    Cytogenet Genome Res 109:298-309. 2005
    ..rustica that may suggest evolution within the P genome. GISH and FISH with the tandem repeat probes failed to reveal intergenomic translocations as might be predicted from the nucleocytoplasmic interaction hypothesis...