Molecular characterization and distribution of a 145-bp tandem repeat family in the genus Populus

Genome

Volumn 42, Issue 5, 1999, Pages 909-918

  Rajagopal, J ^a   Das, S ^a   Khurana, D K ^a,b   Srivastava, P S ^a,c   Lakshmikumaran, M ^a  

^a THE ENERGY AND RESOURCES INSTITUTE   (India)

^b DR Y S PARMAR UNIVERSITY OF HORTICULTURE AND FORESTRY   (India)

^c HAMDARD UNIVERSITY   (India)

Author keywords

Centromeric DNA; Genome organization; Phylogeny; Satellite DNA

Indexed keywords

CENTROMERE; CLONED GENE; DNA METHYLATION; DOT HYBRIDIZATION; GENE PROBE; GENETIC HETEROGENEITY; GENOME ANALYSIS; MOLECULAR GENETICS; PHYLOGENY; PLANT GENOME; POINT MUTATION; POPULUS; POPULUS EUPHRATICA; REPETITIVE DNA; SEQUENCE HOMOLOGY; SOUTHERN BLOTTING;

CHIRONOMUS PLUMOSUS; EMBRYOPHYTA; POPULUS; POPULUS CILIATA; POPULUS DELTOIDES; POPULUS EUPHRATICA;

EID: 0033209573     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/g99-013     Document Type: Article

References (61)

1. Altschul, S.F., Gish, W., Miller, W., Myers, E.W., and Lipman, D.J. 1990. Basic local alignment search tool. J. Mol. Biol. 215: 403-410.
2. Appels, R., Dennis, E.S., Smyth, D.R., and Peacock, W.J. 1981. Two repeated sequences from the heterochromatic regions of rye (Secale cereale) chromosomes. Chromosoma, 84: 265-673.
3. Benslimane, A.A, Dron, M., Hartmann, C., and Rode, A. 1986. Small tandemly repeated DNA sequences of higher plants likely originate from a tRNA gene ancestor. Nucleic. Acids. Res. 14: 8111-8119.
4. Bhatia, S., Singh, K., Jagannathan, V., and Lakshmikumaran, M. 1993. Organization and sequence analysis of the 5S rRNA genes in Brassica campestris. Plant Sci. 92: 47-55.
5. Bradshaw, H.D. Jr., Villar, M., Watson, B.D., Otto, K.G., Stewart, S., and Stettler, R.F. 1994. Molecular genetics of growth and development in Populus. III. A genetic linkage map of a hybrid poplar composed of RFLP, STS, and RAPD markers. Theor. Appl. Genet. 89: 167-178.
6. Brennicke, A., and Hemleben, V. 1983. Sequence analysis of the cloned Cucumis melo highly repetitive satellite DNA. Z. Naturforsch. 38: 1062-1065.
7. Capesius, I. 1983. Sequence of the cryptic satellite DNA from the plant Sinapis alba. Biochem. Biophys. Acta. 739: 276-280.
8. Cervera, M.T., Gusmao, J., Steenackers, M., Peleman, J., Storme, V., Broeck, A.V., Van Montagu, M., and Boerjan, W. 1996. Identification of AFLP molecular markers for resistance against Melampsora larici-populina in Populus. Theor. Appl. Genet. 93: 733-737.
9. Charlesworth, B., Sniegowski, P., and Stephan, W. 1994. The evolutionary dynamics of repetitive DNA in Eukaryotes. Nature, 371: 215-220.
10. Crowhurst, R.N., and Gardner, R.C. 1991. A genome-specific repeat sequence from Kiwifruit (Actinida deliciosa var. deliciosa). Theor. Appl. Genet. 81: 71-78.
11. Eckenwalder, J.E. 1977. North-American cottonwoods (Populus Salicaceae) of sections Abaso and Aigeiros. J. Arnold Arbor. 58: 193-208.
12. Eckenwalder, J.E. 1980. Foliar heteromorphism in Populus (Salicaceae) a source of confusion in the taxonomy of tertiary leaf remains. Systematic Botany, 5: 366-383.
13. Feinberg, A.P., and Vogelstein, B. 1983. A technique for radio-labelling DNA restriction endonucleases to high specific activity. Anal. Biochem. 132: 6-13.
14. Ganal, M., and Hemleben, V. 1986. Different AT-rich satellite DNA's in Cucurbita pepo and Cucurbita maxima. Theor. Appl. Genet. 73: 129-135.
15. Ganal, M.W., Lapitan, N.L.V., and Tanksley, S.D. 1988. A molecular and cytogenetic survey of major repeated DNA sequences in tomato (Lycopersicon esculentum). Mol. Gen. Genet. 213: 262-268.
16. Ganal, M.W., Lapitan, N.L.V., and Tanskley, S.D. 1991. Macro-structures of tomato telomeres. Plant Cell, 3: 87-94.
17. Gottlob-McHugh, S.G., Levesque, M., Mackenzie, K., Olson, M., Yarosh, O., and Johnson, D.A. 1990. Organization of the 5S rRNA genes in the soybean Glycine max (L.) Merrill and conservation of the 5S rDNA repeat structure in higher plants. Genome, 33: 486-494.
18. Grellet, F., Delcasso, D., Panabieres, F., and Delseny, M. 1986. Organization and evolution of a higher plant alphoid-like satellite DNA sequence. J. Mol. Biol. 187: 495-507.
19. Gupta, V., Jagannathan, V., and Lakshmikumaran, M. 1990. A novel AT-rich tandem repeat of Brassica nigra. Plant Sci. 68: 223-229.
20. Hallden, C., Bryngelsson, T., Sail, T., and Gustafsson, M. 1987. Distribution and evolution of a tandemly repeated DNA sequence in the family Brassicaceae. J. Mol. Evol. 25: 318-323.
21. Hankeln, T., Fillippova, M.A., Kiknadze, I.I., Aimanova, K.G., and Schmidt, E.R. 1994. Centromeric heterochromatin and satellite DNA in the Chironomus plumosus species group. Genome, 37: 925-934.
22. Harbinder, S., and Lakshmikumaran, M. 1990. A repetitive sequence from Diplotaxis erucoides is highly homologous to that of Brassica campestris and B. oleracea. Plant Mol. Biol. 15: 155-156.
23. Harbinder, S., Gupta, V., and Lakshmikumaran, M. 1992. Fluidity of the 350 bp tandemly repeated DNA family of Brassica nigra. Plant Mol. Biol. 18: 1213-1216.
24. Harrison, G.E., and Heslop-Harrison, J.S. 1995. Centromeric repetitive DNA sequences in the genus Brassica. Theor. Appl. Genet. 90: 157-165.
25. Jones, D.S.C., and Schofield, J.P. 1990. A rapid method for isolating high quality plasmid DNA suitable for DNA sequencing. Nucleic Acids Res. 18: 7463-7464.
26. Kamm, A., Galasso, I., Schmidt, T., and Heslop-Harrison, J.S. 1995. Analysis of a repetitive DNA family from Arabidopsis aernosa and relationships between Arabidopsis species. Plant. Mol. Biol. 27: 853-862.
27. Kapila, R., Das, S., Srivastava, P.S., and Lakshmikumaran, M. 1996. A novel species-specific tandem repeat DNA family from Sinapis arvensis: Detection of telomere-like sequences. Genome, 39: 758-766.
28. Kato, A., Yakura, K., and Tanifuji, S. 1984. Sequence analysis of Vicia faba repeated DNA, the FokI repeat element. Nucleic Acids Res. 12: 6415-6426.
29. Khosla, P.K., and Khurana, D.K. 1982. Evolution of genus Populus Linn., and systematic placement of P. ciliata. Wall. Ex Royle. J. Tree Sci. 1: 81-87.
30. Khurana, D.K., and Thakur, S. 1995. Populus ciliata x maximowiczii: Preliminary report on a potential hybrid for mid west Himalayan zone. Indian For. 121: 802-806.
31. Kidwell, K.K., and Osborn, T.C. 1992. Simple plant DNA isolation procedures. In Plant genomes: methods for genetic and physical mapping. Edited by J. Beckmann and T.C. Osborn. Kluwer Academic Publishers, Dordrecht, The Netherlands. pp. 1-13.
32. Kolchinsky, A., and Gresshoff, P.M. 1995. A major satellite DNA of soybean is a 92 base pairs tandem repeat. Theor. Appl. Genet. 90: 621-626.
33. Koukalova, B., Reich, J., Matyasek, R., Kuhrova, V., and Bezdek, M. 1989. A BamHI family of repeated DNA sequences of Nicotiana tabacum. Theor. Appl. Genet. 78: 77-80.
34. Lakshmikumaran, M., and Negi, M.S. 1994. Structural analysis of two length variants of the rDNA intergenic spacer from E. sativa. Plant Mol. Biol. 24: 915-927.
35. Lakshmikumaran, M., and Ranade, S.A. 1990. Isolation and characterization of a highly repetitive DNA of Brassica campestris. Plant Mol. Biol. 14: 447-448.
36. Lapitan, N.L.V. 1992. Organization and evolution of higher plant nuclear genomes. Genome, 35: 171-181.
37. Li, X.B., Liang, C.Z., Wu, H.G., Zhai, W.X., Huang, N., and Zhu, L.H. 1996. Isolation and identification of a non-specific tandemly repeated DNA sequence in Oryza species. Theor. Appl. Genet. 92: 702-708.
38. Malmberg, R., Messing, J., and Sussex, I. 1985. Molecular Biology of Plants: A laboratory course manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, New York.
39. Maluszynska, J., and Heslop-Harrison, J.S. 1991. Localization of tandemly repeated DNA sequences in Arabidopsis thaliana. Plant J. 1: 159-166.
40. Martinez-Zapater, J.M., Estelle, M.A., and Somerville, C.R. 1986. A highly repeated DNA sequences in Arabidopsis thaliana. Mol. Gen. Genet. 204: 417-423.
41. Meunier-Rotival, M., and Bernadi, G. 1984. The Bam repeats of the mouse genome belong in several super families the longest of which is over 9kb in size. Nucleic Acids Res. 12: 1593-1607.
42. Nielen, S., Gerdemann-Knorck, M., and Scheider, O. 1995. Analysis of nuclear DNA in somatic Brassica napus(+) B. nigra hybrids by quantification of chemiluminescent DNA probes. In Proceedings of the 9th International Rapeseed Congress, held at Cambridge, U.K., 4-7 July, 1995. Edited by D. Murphy. The organizing committee of the 9th International Rapeseed Congress; The Dorset Press, Dorchester, U.K. pp. 1163-1165.
43. Peacock, W.J., Dennis, E.S., Rhoades, M.M., and Pryor, A.J. 1981. Highly repeated DNA sequence limited to knob heterochromatin in maize. Proc. Natl. Acad. Sci. U.S.A. 78: 4490-4494.
44. Pehu, E., Thomas, M., Poutala, T., Karp, A., and Jones, M.G.K. 1990. Species-specific sequences in the genus Solanum: Identification, characterization, and application to study somatic hybrids of S. brevidens and S. tuberosum. Theor. Appl. Genet. 80: 693-698.
45. Rao, G.U., Lakshmikumaran, M., and Shivanna, K.R. 1996. Production of hybrids, amphidiploids and backcross progenies between cold-tolerant wild species, Erucastrum abyssinicum and crop brassicas. Theor. Appl. Genet. 92: 786-790.
46. Reddy, A.S., Srivastava, V., and Guha-Mukherjee, S. 1989. A tandemly repeated DNA sequence from Brassica juncea. Nucleic Acids Res. 17: 5849.
47. Rehder, A. 1940. Manual of cultivated trees and shrubs. 2nd ed. The MacMillion Co., New York. 996 pp.
48. Rigby, P.W.J., Dieckman, M., Rhodes, C., and Berg, P. 1977. Labelling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I. J. Mol. Biol. 113: 237-251.
49. Rovira, C., Beermann, W., and Edstorm, J.E. 1993. A repetitive DNA sequence associated with the centromeres of Chironomus pallidivittatus. Nucleic Acids Res. 21: 1775-1781.
50. Saul, M.W., and Potrykus, I. 1984. Species-specific repetitive DNA used to identify interspecific somatic hybrids. Plant Cell Rep. 3: 65-67.
51. Schmidt, T., and Heslop-Harrison, J.S. 1993. Variability and evolution of highly repeated DNA sequences in the genus Beta. Genome, 36: 1074-1079.
52. Schmidt, T., and Kudla, J. 1996. The molecular structure, chromosomal organization, and interspecies distribution of a family of tandemly repeated DNA sequences of Antirrhinum majus L. Genome, 39: 243-248.
53. Shepherd, A.L., Anderson, S., and Smith, S.M. 1990. Species-specific repeated DNA sequences from Petunia. Plant Sci. 67: 57-62.
54. Singh, K., Bhatia, S., and Lakshmikumaran, M. 1994. Novel variants of the 5S rRNA genes in Eruca sativa. Genome, 37: 121-128.
55. Southern, E.M. 1975. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J. Mol. Biol. 98: 503-517.
56. Stadler, M., Stelzer, T., Borisjuk, N., Zanke, C., Schilde-Rentschler, L., and Hemleben, V. 1995. Distribution of novel and known repeated elements of Solanum and application for the identification of somatic hybrids among Solanum species. Theor. Appl. Genet. 91: 1271-1278.
57. Vogt, P. 1992. Code domains in tandem repetitive DNA sequence structure. Chromosoma, 101: 585-589.
58. Wu, T., and Wu, R. 1987. A new rice repetitive DNA shows sequence homology to both 5S RNA and tRNA. Nucleic Acids Res. 15: 5913-5923.
59. Wu, T., and Wu, R. 1992. A novel repetitive DNA sequence in the genus Oryza. Theor. Appl. Genet. 84: 136-144.
60. Zhao, X., Wu, T., Xie, Y., and Wu, R. 1989. Genome-specific repetitive sequences in the genus Oryza. Theor. Appl. Genet. 78: 201-209.
61. Zhao, X., Wing, R.A., and Paterson, A.H. 1995. Cloning and characterization of the majority of repetitive DNA in cotton (Gossypium L.). Genome, 38: 1177-1188.