Possible ancient origin of heterochromatic JNK sequences in chromosomes 2R of Secale vavilovii Grossh.

• Autorzy: Achrem M , Rogalska S M , Kalinka A
• Języki publikacji: EN

Abstrakty

EN

Employing FISH analysis as well as BLAST and CUSTAL W (1.82) programs, we investigated types of DNA nucleotide sequences building an additional heterochromatic band in 2R chromosomes of 3 lines of Secale vavilovii Grossh. The probes used in FISH analysis were designed based on the reverse transcriptase sequence of Ty 1-copia and Ту 3-gypsy retrotransposons and the 5S rRNA gene sequence. No hybridization signals from the reverse transcriptase probes were observed in the chromosome region where the additional band occurs. On the other hand, signals were observed after hybridization with the 5S rDNA probe, clearly suggesting the presence of that type of sequences in the analyzed heterochromatin band. Using BLAST and CUSTAL W programs, we revealed high similarity of the JNK1 sequence to the 5S rRNA gene from Hordeum chilense (HCH1016, HCH1018, 88%) and to a fragment of the 5S rRNA sequence of H. marinum (HMAR003, 97%). In addition, the same fragment of JNK1 was shown to be very similar to the part of the Angela retrotransposon (92%) as well as to the SNAC 426K20-1 transposon (89%) belonging to CACTA family, both from Triticum monococcum, and to Zingeria biebersteiniana pericentromeric sequences (78%). The similarity of JNK1 to those sequences may be accidental or the JNK1 may represent an ancient mobile genetic element that caught the 5S rRNA sequence. During the evolution those sequences might have been accumulated in the particular region on the 2R chromosome. Our results suggest that the additional heterochromatin band in chromosomes 2R of S. vavilovii is a collection of defective genes and/or mobile genetic elements.

Słowa kluczowe

PL

Secale vavilovii; FISH analysis; chromosome; DNA nucleotide sequence; heterochromatin; JNK sequence; plant genetics

• Wydawca: -
• Czasopismo: Journal of Applied Genetics
• Rocznik: 2010
• Tom: 51
• Numer: 1
• Opis fizyczny: p.1-8,fig.,ref.

Twórcy

autor

Achrem M

• Chair of Cell Biology, Faculty of Natural Sciences, University of Szczecin, Waska 13, 71-415 Szczecin, Poland

autor

Rogalska S M

• Chair of Cell Biology, Faculty of Natural Sciences, University of Szczecin, Waska 13, 71-415 Szczecin, Poland

autor

Kalinka A

• Chair of Cell Biology, Faculty of Natural Sciences, University of Szczecin, Waska 13, 71-415 Szczecin, Poland

Bibliografia

• Achrem M, Kalinka A, Rogalska SM, 2005. Localization of the gene coding the transposase of maize Ac/Ds system on rye chromosomes (Secale vavilovii Grossh. and S. cereale L.) by FISH. In: Variability and evolution: new perspectives, W. Prus-Głowacki, E. Pawlaczyk, eds. 499-505; Adam Mickiewicz University Press, Poznań.
• Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD, et al. 2000. The genome sequence of Drosophila melanogaster. Science 287: 2185-2195.
• Almeida K, Allshire RC, 2005. RNA silencing and genome regulation. Trends Cell Biol 15: 251-258.
• Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ, 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
• Appels R, Driscoll C, Peacock WJ, 1978. Heterochromatin and highly repeated DNA sequences in rye (Secale cereale). Chromosoma 70: 67-89.
• Bedbrook JR, Jones J, O’Dell M, Thompson RD, Flavell RB, 1980. A molecular description telomeric heterochromatin in Secale species. Cell 19: 545-560.
• Bennett MD, Gustafson JP, Smith JB, 1977. Variation in nuclear DNA in the genus Secale. Chromosoma 61: 149-176.
• Bennetzen JL, 2000. Transposable element contributions to plant gene and genome evolution. Plant Molecular Biology 42: 251-269.
• Chopra S, Brendel V, Zhang J, Axtell JD, Peterson T, 1999. Molecular characterization of a mutable pigmentation phenotype and isolation of the first active transposable element from Sorghum bicolor. Proc Natl Acad Sci USA 96: 15330-15335.
• Csink K, Henikoff S, 1998. Something from nothing: the evolution and utility of satellite repeats. Trends Genet. 14: 200-204.
• Dimitri P, Junakovic N, 1999. Revising the selfish DNA hypothesis: new evidence on accumulation of transposable elements in heterochromatin. Trends Genet. 15: 123-124.
• Douet J, Tourmente S, 2007. Transcription of the 5S rRNA heterochromatic genes is epigenetically controlled in Arabidopsis thaliana and Xenopus laevis. Heredity 99: 5-13.
• Dover GA, 1986. Molecular drive in multigene families: how biological novelties arise, spread and are assimilated. Trends Genet 2: 159-165.
• Feuillet C, Penger A, Gellner K, Mast A, Keller B, 2001. Molecular evolution of receptor-like kinase genes in hexaploid wheat: independent evolution of orthologs after polyploidization and mechanisms of local rearrangements at paralogous loci. Plant Physiol 125: 1304-1313.
• Flavell RB, 1986. Repetitive DNA and chromosome evolution in plants. Philos. Trans. R. Soc. Lond. В Biol. Sci. 312: 227-242.
• Flavell AJ, Smith DB, Kumar A, 1992. Extreme heterogeneity of Tyl-copia group retrotransposons in plants. Mol Gen Genet. 231: 233-242.
• Friesen N, Brandes A, Heslop-Harrison J, 2001. Diversity, origin and distribution of retrotransposons in conifers. Mol Biol Evol 18: 1176-1188.
• Fukui KN, Suzuki G, Lagudah ES, Rahman S, Appels R, Yamamoto M, Mukai Y, 2001. Physical arrangement of retrotransposon-related repeats in centromeric regions of wheat. Plant Cell Physiol 42: 189-196.
• Gill B, Kimber G, 1974. The Giemsa-C-banded karyotype of rye. Proc Nat Acad Sci USA 71: 1247-1249.
• Hancock JM, 1996. Simple sequences and the expanding genome. BioEssays 18: 421-425.
• Heslop-Harrison JS, Brandes A, Taketa S, 1997. The chromosomal distribution of Tyl-copia group retrotransposable elements in higher plants and their implications for genome evolution. Genetica 100: 197-204.
• Jiang N, Bao Z, Zhang X, Eddy SR, Wessler SR, 2004. Pack-MULE transposable elements mediate gene evolution in plants. Nature 431: 569-573.
• Kalendar R, Tanskanen J, Chang W, Antonius K, Sela H, Peleg О, Schulman АН, 2008. Cassandra retrotransposons carry independently transcribed 5S RNA. Proc Natl Acad Sci USA 105: 5833-5838.
• Lee JK, Kwon SJ, Park KС, Kim NS, 2005. Isaac-CACTA transposons: new genetic markers in maize and sorghum. Genome 48: 455-460.
• Lewin В, 1997. Transposons. In: Genes VI. Oxford University Press, Inc., New York В. Lewin, ed. 563-595.
• Martienssen R, Moazed D, 2006. RNAi and heterochromatin assembly. CSHL Epigenetics textbook. D. Allis, T. Jenuwein, D. Reinberg, eds. Cold Spring Harbor Laboratory Press, NY, USA.
• Miura A, Yonebayashi S, Watanabe K, Toyama T, Shimada H, Kakutani T, 2001. Mobilization of transposons by a mutation abolishing full DNA methylation in Arabidopsis. Nature 411: 212-214.
• Morgante M, Brunner S, Pea G, Fengler K, Zuccolo A, Rafalski A, 2005. Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize. Nat Genet 37: 997-1002.
• Murray M, Thompson WF, 1980. Rapid isolation of molecular Wright plant DNA. Nucleic Acids Research 8: 4321-4325.
• Nacken WKF, Piotrowiak R, Saedler H, Sommer H, 1991. The transposable element TAM-1 of Antirrhinum majus shows structural homology to the maize transposon En/Spm and has no sequence specificity of insertion. Mol Gen Genet 228: 201-208.
• Nagaki K, Tsujimoto H, SaskumaT, 1999. Anovel repetitive sequence, termed the JNK repeat family, located on an extra heterochromatic region of chromosome 2R of Japanese rye. Chromosome Research 6: 95-101.
• Ozeki Y, Davies E, Takeda J, 1997. Somatic variation during long term subculturing of plant cells caused by insertion of a transposable element in a phenylalanine ammonia-lyase (PAL) gene. Mol Gen Genet 254: 407-416.
• Reddy P, Appels R, 1989. A second locus for the 5S multigene family in Secale cereale L. sequence divergence in two lineages of the family. Genome 32: 457-467.
• Redi CA, Garagna S, Zacharias H, Zuccotti M, Capanna E, 2001. The other chromatin. Chromosoma 110: 136-147.
• Rogalska SM, 1978. Rozmieszczenie heterochromatyny w chromosomach kilku odmian diploidalnego żyta Secale cereale L. [Distribution of heterochromatin in chromosomes of several cultivars rye Secale cereale L.]. Hodowla Roślin 5: 7-10 (in Polish).
• Rogalska SM, 1992. Charakterystyka molekularna i cytogenetyczna heterochromatyny w chromosomach żyta (Secale cereale L.). [Molecular characteristics and cytogenetic role of heterochromatin in chromosomes of rye (Secale cereale L.)]. Post Biol Kom 19: 107-116 (in Polish).
• Rogalska S, Apolinarska B, 1998. Mobility of C-band on chromosomes of rye Secale vavilovii. Cytogenetics and Cell Genetics, Proceedings 13th International Chromosome Conference Ancona (Italy): 145.
• Rogalska SM, Achrem M, Stróżycki P, 2001. The pScJNKl repeated sequences identified on an extra heterochromatin band on chromosome 2R of Secale vavilovii Grossh. lines. Biological Bulletin 38: 15-19.
• Rogalska SM, Achrem M, Słomińska-Walkowiak R, Filip E, Skuza L, Pawłowska J, Apolinarska B, 2002. Polymorphism of heterochromatin bands on chromosomes of rye Secale vavilovii Grossh. lines. Acta Biol Crac ser. Botanica 44: 111-117.
• Rogalska S, Achrem M, Kalinka A, 2007. Occurrence of JNK sequences in the species of the genus Secale. Vorträge für Pflanzenzüchtung 71: 181-188.
• Rogers SO, Bendich AJ, 1987. Ribosomal RNA genes in plants: variability in copy number and in the intergenic spacer. Plant Molecular Biology 9: 509-520.
• Saunders VA, Houben A, 2001. The pericentromeric heterochromatin of the grass Zingeria biebersteiniana (2n = 4) is composed of Zbcenl-type tandem repeats that are intermingled with accumulated dispersedly organized sequences. Genome 44: 955-961.
• Shang HY, Baum B, Wei YM, Zheng YL, 2007. The 5SrRNA gene diversity in the genus Secale and determination of its closest haplomes. Genet Res Crop Evol 54: 793-806.
• Snowden KС, Napoli CA, 1998. PsI: a novel Spm-like transposable element from Petunia hybrida. Plant J 14: 43-54.
• Strand M, Prolla TA, Liskay RM, Petes TD, 1993. Destabilization of tracts of simple repetitive DNA in yeast by mutations affecting DNA mismatch repair. Nature 365: 274-276.
• Tessadori F, Chupeau M-C, Chupeau Y, Knip M, Germann S, Driel R, et al. 2007. Large-scale dissociation and sequential reassembly of pericentric heterochromatin in dedifferentiated Arabidopsis cells. Journal of Cell Science 120: 1200-1208.
• Thompson J, Higgiin D, Gibson T, 1994. CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nuc Acids Res, 22: 4673-4680.
• Turner BM, 2001. Chromatin and gene regulation: molecular mechanisms in epigenetics. Blackwell Science, Oxford.
• Vershinin AV, Schwarzacher T, Heslop-Harrison JS, 1995. The large-scale genomic organization of repetitive DNA families at the telomeres of rye chromosomes. Plant Cell 7: 1823-1833.
• Wicker T, Gujot R, Yahiaoui N, Keller B, 20003. CACTA transposons in Triticeae: diverse family of high-сору repetitive elements. Plant Physiol 132: 52-63.