NTRS, a new family of highly repetitive DNAs specific for the T1 chromosome of tobacco

Chromosoma

Volumn 106, Issue 6, 1997, Pages 369-379

  Matyášek, Roman ^a   Gazdová, Blanka ^a   Fajkus, Jiří ^a   Bezděk, Milan ^a  

^a INSTITUTE OF BIOPHYSICS   (Czech Republic)

Author keywords

[No Author keywords available]

Indexed keywords

CURVED DNA; CYTOSINE; OSMIUM TETRAOXIDE; PERMANGANATE POTASSIUM; REPETITIVE DNA;

ARTICLE; CHROMOSOME; DNA SEQUENCE; GENE ISOLATION; GENE SEQUENCE; GENOME; NONHUMAN; NUCLEOSOME; NUCLEOTIDE SEQUENCE; SPECIES DIFFERENCE; TOBACCO;

BASE COMPOSITION; BASE SEQUENCE; CHROMOSOMES; CLONING, MOLECULAR; DNA METHYLATION; DNA, PLANT; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; NUCLEOSOMES; PLANTS, TOXIC; REPETITIVE SEQUENCES, NUCLEIC ACID; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY; TOBACCO; VARIATION (GENETICS);

EID: 0343683287     PISSN: 00095915     EISSN: None     Source Type: Journal    
DOI: 10.1007/s004120050258     Document Type: Article

References (48)

1. Appels R, Peacock WJ (1978) The arrangement and evolution of highly repeated (satellite) DNA sequences with special reference to Drosophila. Int Rev Cytol Suppl 8:69-126
2. Benfante R, Landsberger N, Maiorano D, Badaracco G (1990) A binding protein (p82 protein) recognizes specifically the curved heterochromatic DNA in Artemia franciscana. Gene 94:214-222
3. Bezděk M, Koukalová B, Brzobohat\'y B, Vyskot B, (1991) 5-azacytidine-induced hypomethylation of tobacco HRS60 tandem DNA repeats in tissue culture. Planta 184:487-490
4. Bezděk M, Koukalová B, Kuhrová V, Vyskot B (1992) Differential sensitivity of CG and CCG DNA sequences to ethionine-induced hypomethylation of the Nicotiana tabacum genome. FEBS Lett 300:268-270
5. Bigot Y, Hamelin MH, Periquet G (1990) Heterochromatin condensation and evolution of unique satellite DNA families in two parasitic wasp species: Diadromus pulchellus and Eupelmus vuilleti (Hymenoptera). Mol Biol Evol 7:351-364
6. Birnboim HC, Doly J (1979) A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res 7:1513-1523
7. Bolshoy A, McNamara P, Harrington RE, Trifonov EN (1991) Curved DNA without A-A: experimental estimation of all 16 DNA wedge angles. Proc Natl Acad Sci USA 88:2312-2316
8. Constanzo G, Di Mauro E, Salina G, Negri R (1990) Attraction, phasing and neighbour effects of histone octamers on curved DNA. J Mol Biol 216:363-374
9. Dellaporta SL, Wood J, Hicks JB (1983) A plant DNA minipreparation: version II. Plant Mol Biol Rep 1:19-21
10. Espinás ML, Carballo M (1993) Pulsed-field gel electrophoresis analysis of higher-order chromatin structures of Zea mays. Highly methylated DNA in the 50 kb chromatin structure. Plant Mol Biol 21:847-857
11. Fajkus J, Vyskot B, Bezděk M (1992) Changes in chromatin structure due to hypomethylation induced with 5-azacytidine or DL-ethionine. FEBS Lett 314:13-17
12. Fanning TG (1987) Origin and evolution of a major feline satellite DNA. J Mol Biol 197:627-634
13. Fanning TG (1989) Molecular evolution of centromere-associated nucleotide sequences in two species of canids. Gene 85:559-563
14. Flavell RB (1983) Repeated sequences and genome architecture. In: Structure and function of plant genomes, vol 63. NATO ASI Series, pp 1-14
15. Flavell RB, Bennett MD, Smith JB, Smith DB (1974) Genome size and the proportion of repeated nucleotide sequence DNA in plants. Biochem Genet 12:257-259
16. Gazdová B, Široký J, Fajkus J, Brzobohatý B, Kenton A, Parokonny A, Heslop-Harrison JS, Palme K, Bezděk M (1995) Characterization of a new family of tobacco highly repetitive DNA, GRS, specific for the Nicotiana tomentosiformis genomic component. Chromosome Res 3:245-254
17. Harshman KD, Dervan PB (1985) Molecular recognition of B-DNA by Hoechst 33258+. Nucleic Acids Res 13:4825-4835
18. Heslop-Harrison JS (1991) The molecular cytogenetics of plants. J Cell Sci 100:15-21
19. Heslop-Harrison JS, Bennett MD (1990) Nuclear architecture in plants. Trends Genet 6:401-405
20. Ingham LD, Hanna WW, Baier JW, Hannah LC (1993) Origin of the main class of repetitive DNA within selected Pennisetum species. Mol Gen Genet 238:350-356
21. Kenton A, Parokonny AS, Gleba YY, Bennett MD (1993) Characterization of the Nicotiana tabacum L. genome by molecular cytogenetics. Mol Gen Genet 240:159-169
22. Koukalová B, Reich J, Matyášek R, Kuhrová V, Bezděk M (1989) A BamHI family of highly repeated DNA sequences of Nicotiana tabacum. Theor Appl Genet 78:77-80
23. Koukalová B, Komarnitsky IK, Kuhrová V (1993) The distribution of tobacco HRS60 DNA repeated sequences in species of the genus Nicotiana. Plant Sci 88:39-40
24. Koukalová B, Kuhrová V, Vyskot B, Široký J, Bezděk M (1994) Maintenance of induced hypomethylated state of tobacco nuclear repetitive DNA sequenes in the course of protoplast and plant regeneration. Planta 194:306-310
25. Kovařík A, Koukalová B, Holý A, Bezděk M (1994) Sequence-specific hypomethylation of the tobacco genome induced with dihydroxypropyladenine, ethionine and 5-azacytidine, FEBS Lett 353:309-311
26. Královics R, Fajkus J, Kovařík A, Bezděk M (1995) DNA curvature of the tobacco GRS repetitive sequence family and its relation to nucleosome positioning. J Biomol Struct Dyn 12:1103-1119
27. Kuhrová V, Bezděk M, Vyskot B, Koukalová B, Fajkus J (1991) Isolation and characterization of two middle repetitive DNA sequences of nuclear tobacco genome. Theor Appl Genet 81:740-744
28. Lapitan NLV (1992) Organization and evolution of higher plant nuclear genomes. Genome 35:171-181
29. Lica LM, Narayanswami S, Hamkalo BA (1986) Mouse satellite DNA, centromere structure, and sister chromatid pairing. J Cell Biol 103:1145-1151
30. Maniatis T, Fritsch EF, Sambrook J (1982) Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
31. Martinez-Balbas A, Rodrigues-Campos A, Garcia-Ramirez M, Sainz J, Carrera P, Aymami J, Azorin F (1990) Satellite DNAs contain sequences that induce curvature. Biochemistry 29:2342-2348
32. Matassi G, Melis R, Macaya G, Bernardi G (1991) Compositional bimodality of the nuclear genome of tobacco. Nucleic Acids Res 19:5561-5567
33. Matyášek R, Fulneček J, Fajkus J, Bezděk M (1996) Evidence for a sequence-directed conformation periodicity in the genomic highly repetitive DNA detectable with single-strand-specific chemical probe potassium permanganate. Chromosome Res 4:340-349
34. Maxam AM, Gilbert W (1980) Methods Enzymol, 65:499-560
35. McCarthy JG, Frederick CA, Nicolas A (1993) A structural analysis of the bent kinetoplast DNA from Crithidia fasciculata by high resolution chemical probing. Nucleic Acids Res 21:3309-3317
36. Okamuro JK, Goldberg RB (1985) Tobacco single-copy DNA is highly monologous to sequences present in the genomes of its diploid progenitors. Mol Gen Genet 198:290-298
37. Parokonny AS, Kenton AY, Meredity L, Owens SJ, Bennet MD (1992) Genomic divergence of allopatric sibling species studied by molecular cytogenetics of their F1 hybrids. Plant J 2:695-704
38. Peacock WJ, Rhoades MM, Pryor AJ (1981) Highly repeated DNA sequence limited to knob heterochromatin in maize. Proc Natl Acad Sci USA 78:4490-4494
39. Plohl M, Ugarković D (1994) Characterization of two abundant satellite DNAs from the mealworm Tenebrio obscurus. J Mol Evol 39:489-495
40. Radic MZ, Lundgren K, Hamkalo BA (1987) Curvature of mouse satellite DNA and condensation of heterochromatin. Cell 50:1101-1108
41. Reed SM (1991) Cytogenetic evolution and aneuploidy in Nicotiana. In: Tsuchiya T, Gupta PK (eds) Chromosome engineering in plants: genetics, breeding, evolution, part B. Elsevier, The Netherlands, pp 483-505
42. Rojas-Rousse D, Bigot Y, Periquet G (1993) DNA insertions as a component of the evolution of unique satellite DNA families in two genera of parasitoid wasps: Diadromus and Eupelmus (Hymenoptera). Mol Biol Evol 10:383-396
43. Saul MW, Potrykus I (1984) Species-specific repetitive DNA used to identify interspecific somatic hybrids. Plant Cell Rep 3:65-67
44. Shorderet DF, Garder SM (1992) Analysis of CpG suppression in methylated and non methylated species. Proc Natl Acad Sci USA 89:957-961
45. Shpigelman ES, Trifonov EN, Bolshoy A (1993) CURVATURE: software for the analysis of curved DNA. CABIOS 9:435-440
46. Strachan T, Webb D, Dover GA (1985) Transition stages of molecular drive in multiple-copy DNA families in Drosophila. EMBO J 4:1701-1708
47. Ugarković D, Plohl M, Lucijanić-Justić V, Borštnik B (1992) Detection of satellite DNA in Palorus ratzeburgii: analysis of curvature profiles and comparison with Tenebrio molitor satellite DNA. Biochimie 74:1075-1082
48. Vogt P (1990) Potential genetic functions of tandem repeated DNA sequence blocks in the human genome are based on a highly conserved "chromatin folding code". Hum Genet 84:301-336