Structural analysis of the rDNA intergenic spacer of Brassica nigra: Evolutionary divergence of the spacers of the three diploid Brassica species

Journal of Molecular Evolution

Volumn 43, Issue 5, 1996, Pages 460-468

  Bhatia, Sabhyata ^a   Negi, Madan Singh ^a   Lakshmikumaran, Malathi ^a  

^a THE ENERGY AND RESOURCES INSTITUTE   (India)

Author keywords

Brassica; Crucifers; Intergenic spacer; Molecular evolution; rDNA; Repeated DNA sequences

Indexed keywords

RIBOSOME DNA; SPACER DNA;

ARTICLE; BRASSICA; CONTROLLED STUDY; DNA SEQUENCE; DNA STRUCTURE; EVOLUTION; GENE AMPLIFICATION; GENE DELETION; NONHUMAN; PLANT LEAF; SEQUENCE HOMOLOGY; SPECIES DIFFERENTIATION; TRANSCRIPTION INITIATION;

BRASSICA; BRASSICA NIGRA;

EID: 0029956782     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/BF02337518     Document Type: Article

References (49)

1. Appels R, Moran LB, Gustafson JP (1986) The structure of DNA from the rye (Secale cereale) NOR R1 locus and its behaviour in wheat backgrounds. Can J Genet Cytol 28:673-685
2. Barker RF, Harberd NP, Jarvis MG, Flavell RB (1988) Structure and evolution of the intergenic region of a ribosomal DNA repeat unit of wheat. J Mol Biol 201:1-17
3. Bennett RI, Smith AG (1991) The complete nucleotide sequence of the intergenic spacer regions of an rDNA operon from Brassica oleracea and its comparison with other crucifers. Plant Mol Biol 16: 1095-1098
4. Borisjuk N, Hemleben V (1993) Nucleotide sequence of the potato rDNA intergenic spacer. Plant Mol Biol 21:381-384
5. Chisholm D (1989) A convenient moderate-scale procedure for obtaining DNA from bacteriophage lambda. Biotechniques 7:21-23
6. Cordesse F, Cooke R, Tremousaygue D, Grellet F, Delseny M (1993) Fine structure and evolution of the rDNA intergenic spacer in rice and other cereals. J Mol Evol 36:369-379
7. Da Rocha PSCF, Bertrand H (1995) Structure and comparative analysis of the rDNA intergenic spacer of Brassica rapa: implications for the function and evolution of the Cruciferae spacer. Eur J Biochem 229:550-557
8. Delcasso-Tremousaygue D, Grellet F, Panabieres F, Ananiev ED, Delseny M (1988) Structural and transcriptional characterization of the external spacer of a ribosomal RNA nuclear gene from a higher plant. Eur J Biochem 172:767-776
9. Dellaporta SL, Wood J, Hicks JB (1984) Maize DNA mini-prep. In: Molecular biology of plants: a laboratory course manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, pp 36-37
10. Delseny M, McGrath JM, This P, Chevre AM, Quiros CF (1990) Ribosomal RNA genes in diploid and amphidiploid Brassica and related species: organization, polymorphism and evolution. Genome 33:733-744
11. Dover G (1982) Molecular drive: a cohesive mode of species evolution. Nature 299:111-117
12. Doelling JH, Pikaard CS (1995) The minimal ribosomal RNA gene promoter of Arabidopsis thaliana includes a critical element at the transcription initiation site. Plant J 8:683-692
13. Doelling JH, Gaudino RJ, Pikaard CS (1993) Functional analysis of Arabidopsis thaliana rRNA gene and spacer promoters in vivo and by transient expression. Proc Natl Acad Sci USA 90:7528-7532
14. Doyle JJ, Beachy RN (1985) Ribosomal RNA gene variation in soybean (Glycine) and its relatives. Theor Appl Genet 70:369-376
15. Echeverria M, Delcasso-Tremousaygue D, Delseny M (1992) A nuclear protein fraction binding to dA/dT-rich sequences upstream from the radish DNA promoter. Plant J 2:211-219
16. Echeverria M, Penon P, Delseny M (1994) Plant ribosomal DNA external spacer binding factors: a novel protein binds specifically to a sequence close to the primary pre-rRNA processing site. Mol Gen Genet 243:442-452
17. Ganal M, Hemleben V (1986) Comparison of the ribosomal RNA genes in four closely related Cucurbitaceae. Plant Syst Evol 154: 63-77
18. Gerlach WL, Bedbrook JR (1979) Cloning and characterization of ribosomal RNA genes from wheat barley. Nucleic Acids Res 7: 1869-1885
19. Gerstner J, Schiebel K, Von Waldburg G, Hemleben V (1988) Complex organization of the length heterogenous 5′ external spacer of mung bean (Vigna radiata) ribosomal DNA. Genome 30:723-733
20. Grellet F, Delcasso-Tremousaygue D, Delseny M (1989) Isolation and characterization of an unusual repeated sequence from the ribosomal intergenic spacer of the crucifer Sisymbrium irio. Plant Mol Biol 12:695-706
21. Gruendler P, Unfried I, Pointner R, Schweizer C (1989) Nucleotide sequence of the 25S-18S ribosomal gene spacer from Arabidopsis thaliana. Nucleic Acids Res 17:6395-6396
22. Gruendler P, Unfried I, Pascher K, Schweizer D (1991) The rDNA intergenic region from Arabidopsis thaliana: structural analysis, intraspecific variation and functional implications. J Mol Biol 221: 1209-1222
23. Harbinder S, Lakshmikumaran M (1990) A repetitive sequence from Diplotaxis erucoidea is highly homologous to that of Brassica campestris and B. oleracea. Plant Mol Biol 15:155-156
24. Jackson SD, Flavell RB (1992) Protein-binding to reiterated motifs within the wheat rRNA gene promoter and upstream repeats. Plant Mol Biol 20:911-919
25. Katayama S, Hirano Y, Tsukaya H, Naito S, Komeda Y (1992) Analysis of intergenic spacer regions in the nuclear rDNA of Pharbitis nil. Genome 35:92-97
26. Lakshmikumaran M, Negi MS (1994) Structural analysis of two length variants of the rDNA intergenic spacer from Eruca saliva. Plant Mol Biol 24:915-927
27. Lakshmikumaran M, Ranade SA (1990) Isolation and characterization of a highly repetitive DNA of Brassica campestris. Plant Mol Biol 14:447-448
28. Long EO, Dawid IB (1980) Repeated genes in eukaryotes. Annu Rev Biochem 49:727-764
29. Maggini F, Carmona MJ (1981) Sequence heterogeneity of the ribosomal DNA in Allium cepa (Liliaceae). Protoplasma 108:163-171
30. Malmberg R, Messing J, Sussex I (1985) Molecular biology of plants: a laboratory course manual. Cold Spring Harbor Laboratory, Cold Spring Harbor. NY
31. McMullen MD, Hunter B, Philips RL, Rubenstein I (1986) The structure of the maize ribosomal DNA spacer region. Nucleic Acids Res 14:4953-4969
32. Olmedilla A, Delcasso D, Delseny M, Cawet-Marc A-M (1985) Variability in giant fennel (Ferula communis, Umbelliferae): ribosomal RNA nuclear genes. Plant Syst Evol 150:263-274
33. Piller KJ, Baerson S, Polans NO, Kaufman LS (1990) Structural analysis of the short length ribosomal DNA variant from Pisum sativum L cv alaska. Nucleic Acids Res 18:3135-3145
34. Prakash S, Hinata K (1980) Taxonomy, cytogenetics and origin of crop Brassica (a review). Opera Bot 55:1-57
35. Rathgeber J, Capesius I (1990) Nucleotide sequence of the intergenic spacer and the 18S ribosomal RNA gene from mustard (Sinapis alba). Nucleic Acids Res 18:1288
36. Saghai-Maroof MA, Soliman KM, Jorgenson RA, Allard RW (1984) Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location and population dynamics. Proc Natl Acad Sci USA 81:8014-8018
37. Sanger F, Nicklen S, Coulson AR (1977) DNA sequencing with chain terminating inhibitors. Proc Natl Acad Sci USA 74:5463-5467
38. Sano Y, Sano T (1990) Variation in the intergenic spacer region of ribosomal DNA in cultivated and wild rice species. Genome 33: 209-218
39. Schmidt-Puchta W, Guenther I, Saenger HL (1989) Nucleotide sequence of the intergenic spacer (IGS) of the tomato ribosomal DNA. Plant Mol Biol 13:251-253
40. Schmitz ML, Maier UG, Brown JWS, Feix G (1989) Specific binding of nuclear proteins to the promoter region of a maize nuclear rRNA gene unit. J Biochem 264:1467-1472
41. Song KM, Obsorn TC, Williams PH (1988) Brassica taxonomy based on nuclear restriction fragment length polymorphism (RFLPs). 1. Genome evolution of diploid and amphidiploid species. Theor Appl Genet 75:784-794
42. Song KM, Obsorn TC, Williams PH (1990) Brassica taxonomy based on nuclear restriction fragment length polymorphism (RFLPs). 3. Genome relationship in Brassica and related genera and the origin of B. oleracea and B. rapa (syn. campestris). Theor Appl Genet 79:497-506
43. Taira T, Kato A, Tanifuji S (1988) Difference between two major size classes of carrot rDNA repeating units is due to reiteration of sequences of about 460 bp in the large spacer. Mol Gen Genet 213: 170-174
44. Toloczyki Ch, Feix G (1986) Occurrence of nine homologous repeat units in the external spacer region of a nuclear maize rRNA gene unit. Nucleic Acids Res 14:4969-4986
45. Tremousaygue D, Laudie M, Grellet F, Delseny M (1992) The Brassica oleracea rDNA spacer revisited. Plant Mol Biol 18:1013-1018
46. Warwick SI, Black LD (1991) Molecular systematics of Brassica and allied genera (subtribe Brassicinae, Brassiceae) - chloroplast genome and cytodeme congruence. Theor Appl Genet 82:81-92
47. Yakura K, Kato A, Tanifuji S (1984) Length heterogeneity in the large spacer of Vicia faba rDNA is due to the differing number of a 325 bp repetitive sequence element. Mol Gen Genet 193:400-405
48. Yanagino T, Takahata Y, Hinata K (1987) Chloroplast DNA variations among diploid species in Brassica and allied genera. Jpn J Genet 62:119-125
49. Zentgraf U, Ganal M, Hemleben V (1990) Length heterogeneity of the rRNA precursor in cucumber (Cucumis sativus). Plant Mol Biol 15:465-474