Phylogenetic analysis of complete 5′ external transcribed spacers of the 18S ribosomal RNA genes of diploid Aegilops and related species (Triticeae, Poaceae)

Genetic Resources and Crop Evolution

Volumn 51, Issue 7, 2004, Pages 701-712

  Sallares, Robert ^a   Brown, Terence A ^a  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

Aegilops; Evolution; External transcribed spacer; Nor loci; Triticum; Wheat

Indexed keywords

DOMESTIC SPECIES; EVOLUTION; PHYLOGENETICS; POLYMERASE CHAIN REACTION; WHEAT;

AEGILOPS; AEGILOPS SPELTOIDES; EMBRYOPHYTA; POACEAE; SECALE; TRITICEAE; TRITICUM; TRITICUM AESTIVUM;

EID: 3242682513     PISSN: 09259864     EISSN: None     Source Type: Journal    
DOI: 10.1023/B:GRES.0000034576.34036.a1     Document Type: Article

References (50)

1. Akhunov E.A., Chemeris A.V. and Vakhitov V.A. 1997. Uncommon motives of nucleotide sequence adjacent to the putative transcription initiation site in the rDNA intergenic spacer of diploid wheat Triticum urartu Thum. ex Gandil, T. beoticum Boiss L., and T. monococcum L. Russ. J. Genet. 33: 1365-1367.
2. Appels R., Moran L.B. and Gustafson J.P. 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.
3. Badaeva E.D., Friebe B. and Gill B.S. 1996. Genome differentiation in Aegilops. Distribution of highly repetitive DNA sequences on chromosomes of diploid species. Genome 39: 293-306.
4. Baldwin B.G. and Markos S. 1998. Phylogenetic utility of the external transcribed spacer (ETS) of 18S-26S rDNA: congruence of ETS and ITS trees of Calycadenia (Compositae). Mol. Phylogen. Evol. 10: 449-463.
5. Barker R.F., Harberd N.P., Jarvis M.G. and Flavell R.B. 1988. Structure and evolution of the intergenic region in a ribosomal DNA repeat unit of wheat. J. Mol. Biol. 201: 1-17.
6. Barkworth M.E. 1992. Taxonomy of the Triticeae: A historical perspective. Hereditas 116: 1-14.
7. Blake N.K., Lehfeldt B.R., Lavin M. and Talbert L.E. 1999. Phylogenetic reconstruction based on low copy DNA sequence data in an allopolyploid: the B genome of wheat. Genome 42: 351-360.
8. Buckler E.S. and Holtsford T.P. 1996a. Zea ribosomal repeat evolution and substitution patterns. Mol. Biol. Evol. 13: 623-632.
9. Buckler E.S. and Holtsford T.P. 1996b. Zea systematics: ribosomal ITS evidence. Mol. Biol. Evol. 13: 612-622.
10. Buckler E.S., Ippolito A. and Holtsford T.P. 1997. The evolution of ribosomal DNA: paralogues and phylogenetic implications. Genetics 145: 821-832.
11. Denduangboripant J. and Cronk Q.C.B. 2000. High intraindividual variation in internal transcribed spacer sequences in Aeschynanthus (Gesneriaceae): Implications for phylogenetics. Proc. R. Soc. Lond. ser. B 267: 1407-1415.
12. Dubcovsky J. and Dvorák J. 1995. Ribosomal RNA multigene loci: nomads of the Triticeae genomes. Genetics 140: 1367-1377.
13. Dvorák J. and Zhang H.-B. 1990. Variation on repeated nucleotide sequences sheds light on the phylogeny of the wheat B and G genomes. Proc. Natl. Acad. Sci. 87: 9640-9644.
14. Dvorák J. and Zhang H.-B. 1992a. Application of molecular tools for study of the phylogeny of diploid and polyploid taxa in Triticeae. Hereditas 116: 37-42.
15. Dvorák J. and Zhang H.-B. 1992b. Reconstruction of the phylogeny of the genus Triticum from variation in repeated nucleotide sequences. Theor. Appl. Genet. 84: 419-429.
16. Felsenstein J. 1997. PHYLIP - Phylogeny Inference Package. University of Washington, Seattle, (version 3.5c).
17. Hall T.J. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl. Acids. Symp. Ser. 41: 95-98.
18. Hsiao C., Chatterton N.J., Asay K.H. and Jensen K.B. 1995. Phylogenetic relationships of the monogenomic species of the wheat tribe, Triticeae (Poaceae), inferred from nuclear rDNA (internal transcribed spacer) sequences. Genome 38: 211-223.
19. Jiang J. and Gill B.S. 1994. Different species-specific chromosome translocations in Triticum timopheevii and T. turgidum support the diphyletic origin of polyploid wheats. Chromosome Res. 2: 59-64.
20. Kellogg E.A., Appels R. and Mason-gamer R.J. 1996. When genes tell different stories: the diploid genera of Triticeae (gramineae). System. Bot. 21: 321-347.
21. Kerby K. and Kuspira J. 1987. The phylogeny of the polyploid wheats Triticum aestivum (bread wheat) and Triticum turgidum (macaroni wheat). Genome 29: 722-737.
22. Khlestkina E.K. and Salina E.A. 2001. Genome-specific markers of tetraploid wheats and putative diploid progenitor species. Plant Breeding 120: 227-232.
23. Kim N.-S., Kuspira J., Armstrong K. and Bhambhani R. 1993. Genetic and cytogenetic analyses of the A genome of Triticum monococcum. VIII. Localization of rDNAs and characterization of 5S rRNA genes. Genome 36: 77-86.
24. Lassner M., Anderson O. and Dvorák J. 1986. Hypervariation associated with a 12-nucleotide direct repeat and inferences on intergenomic homogenization of ribosomal RNA gene spacers based on the DNA sequence of a clone from the wheat Nor-D3 locus. Genome 29: 770-781.
25. Linder C.R., Goertzen L.R., Heuvel B.V., Francisco-Ortega J. and Jansen R.K. 2000. The complete external transcribed spacer of 18S-26S rDNA: amplification and phylogenetic utility at low taxonomic levels in Asteraceae and closely allied families. Mol. Phylogen. Evol. 14: 285-303.
26. Maestra B. and Naranjo T. 1998. Homoeologous relationships of Aegilops speltoides chromosomes to bread wheat. Theor. Appl. Genet. 97: 181-186.
27. McIntyre C.L., Clarke B.C. and Appels R. 1988. DNA sequence analyses of the ribosomal spacer regions in the Triticeae. Plant Syst. Evol. 160: 91-104.
28. Mori N., Miyashita N.T., Terachi T. and Nakamura C. 1997. Variation in coxII intron in the wild ancestral species of wheat. Hereditas 126: 281-288.
29. Ohta S. 1991. Phylogenetic relationships of Aegilops mutica Boiss. with the diploid species of congeneric Aegilops-Triticum complex, based on the new method of genome analysis using its B-chromosomes. Mem. Coll. Agric. Kyoto Univ. 137: 1-116.
30. Petersen G. and Seberg O. 1997. Phylogenetic analysis of the Triticeae (Poaceae) based on rpoA sequence data. Mol. Phylogen. Evol. 7: 217-230.
31. Qualset C.O., Zhong G.-Y., De Pace C. and Mcguire P.E. 1993. Population biology and genetic resources of Dasypyrum villosum. In: Damania A.B. (ed.), Biodiversity and Wheat Improvement. John Wiley, Chichester, pp. 227-233.
32. Rieseberg L.H., Whitton J. and Linder C.R. 1996. Molecular marker incongruence in plant hybrid zones and phylogenetic trees. Acta Bot. Neerland. 45: 243-262.
33. Riley R., Kimber G. and Chapman V. 1961. Origin of genetic control of diploid-like behaviour of polyploid wheat. J. Hered. 52: 22-25.
34. Rodriguez S., Maestra B., Perera E., Díez M. and Naranjo T. 2000. Pairing affinities of the B- and G-genome chromosomes of polyploid wheats with those of Aegilops speltoides. Genome 43: 814-819.
35. Sallares R., Allaby R.G. and Brown T.A. 1995. PCR-based identification of wheat genomes. Mol. Ecol. 4: 509-514.
36. Sallares R. and Brown T.A. 1999. PCR-based analysis of the intergenic spacers of the Nor loci on the A genomes of Triticum diploids and polyploids. Genome 42: 116-128.
37. Sanderson M.J. and Doyle J.J. 1992. Reconstruction of organismal and gene phylogenies from data on multigene families: concerted evolution, homoplasy, and confidence. System. Biol. 41: 4-17.
38. Sasanuma T., Miyashita N.T. and Tsunewaki K. 1996. Wheat phylogeny determined by RFLP analysis of nuclear DNA. Intra- and interspecific variations of five Aegilops Sitopsis species. Theor. Appl. Genet. 92: 928-934.
39. Singh R.J. and Röbbelen G. 1977. Identification by Giemsa technique of the translocations separating cultivated rye from three wild species of Secale. Chromosoma 59: 217-225.
40. Thiellement H., Seguin M., Bahrman N. and Zivy M. 1989. Homoeology and phylogeny of the A, S, and D genomes of the Triticinae. J. Mol. Evol. 29: 89-94.
41. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F. and Higgins D.G. 1997. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl. Acids Res. 24: 4876-4882.
42. Tremousaygue D., Laudie M., Grellet F. and Delseny M. 1992. The Brassica oleracea rDNA spacer revisited. Plant Mol. Biol. 18: 1013-1018.
43. Vakhitov V.A., Chemeris A.V. and Akhmetzyanov A.A. 1989. Nucleotide sequence of intergenic and external transcribed spacers of rDNA of diploid wheat Triticum urartu Thum. ex Gandil. Molek. Biol. 23: 441-448.
44. Van de Peer Y. and De Wachter R. 1994. TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comp. Appl. Biosci. 10: 569-570.
45. von Büren M. 2001. Polymorphisms in two homeologous γ-gliadin genes and the evolution of cultivated wheat. Genet. Resour. Crop Evol. 48: 205-220.
46. van Slageren M. 1993. Taxonomy and distribution of Aegilops. In: Damania A.B. (ed.), Biodiversity and Wheat Improvement. John Wiley, Chichester, pp. 67-79.
47. Waines J.G. and Bamhart D. 1992. Biosystematic research in Aegilops and Triticum. Hereditas 116: 207-212.
48. Wang J-B., Wang C., Shi S-H. and Zhong Y. 2000. ITS regions in diploids of Aegilops (Poaceae) and their phylogenetic implications. Hereditas 132: 209-213.
49. Wendel J.F., Schnabel A. and Seelanan T. 1995. An unusual ribosomal DNA sequence from Gossypium gossypioides reveals ancient, cryptic, intergenomic introgression. Mol. Phylogen. Evol. 4: 298-313.
50. Xia X. and Xie Z. 2001. DAMBE: Data analysis in molecular biology and evolution. J. Hered. 92: 371-373.