Phylogenetic analysis of the rDNA intergenic spacer subrepeats and its implication for the domestication history of foxtail millet, Setaria italica

Theoretical and Applied Genetics

Volumn 113, Issue 2, 2006, Pages 261-269

  Fukunaga, Kenji ^a,b   Ichitani, Katsuyuki ^c   Kawase, Makoto ^d  

^a National Institutes for the Humanities International Research Center for Japanese Studies   (Japan)

^b RESEARCH INSTITUTE FOR HUMANITY AND NATURE   (Japan)

^c KAGOSHIMA UNIVERSITY   (Japan)

^d NATIONAL INSTITUTE OF AGROBIOLOGICAL SCIENCES   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

DNA SEQUENCES; GENES; GENETIC ENGINEERING; GRAIN (AGRICULTURAL PRODUCT); MORPHOLOGY;

DOMESTICATION; PHYLOGENETIC ANALYSIS; POLYMORPHISM; SETARIA ITALICA;

DNA;

PRIMER DNA; RIBOSOME DNA;

ARTICLE; GENETICS; MILLET; MOLECULAR GENETICS; NUCLEOTIDE REPEAT; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION;

BASE SEQUENCE; DNA PRIMERS; DNA, RIBOSOMAL; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYMERASE CHAIN REACTION; REPETITIVE SEQUENCES, NUCLEIC ACID; SETARIA PLANT;

GENETIC ENGINEERING; MILLET; NUCLEIC ACIDS; SPACERS;

SETARIA ITALICA;

EID: 33745514285     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-006-0291-5     Document Type: Article

References (33)

1. Benabdelmouna A, Abirached-Darmency M, Darmency H (2001) Phylogenetic and genomic relationships in Setaria italica and its close relatives based on the molecular diversity and chromosomal organization of 5S and 18S-5.8S-25S rDNA genes. Theor Appl Genet 103:668-677
2. Buckler IV ES, Holtsford TP (1996) Zea systematics: ribosomal ITS evidence. Mol Biol Evol 13:612-622
3. Chou CH, Chiang Y-H,Chiang T-Y (1999) Within- and between-individual length heterogeneity of rDNA-IGS in Miscanthus sinensis var. glaber (Poaceae): Phylogenetic analyses. Genome 42:1088-1093
4. De Wet JMJ, Oestry-Stidd LL, Cubero JI (1979) Origins and evolution of foxtail millet (Setaria italica), Journ d'Agric et de Bot 26:53-64
5. Fukunaga K, Domon E, Kawase M (1997) Ribosomal DNA variation in foxtail millet, Setaria italica (L.) P.Beauv. and a survey of variation from Europe and Asia. Theor Appl Genet 97:751-756
6. Fukunaga K, Wang ZM, Kato K, Kawase M (2002) Geographical variation of nuclear genome RFLPs and genetic differentiation in foxtail millet, Setaria italica (L.) P. Beauv. Genet Res Crop Evol 49:95-101
7. Fukunaga K, Ichitani K, Taura S, Sato M, Kawase M (2005) Ribosomal DNA intergenic spacer sequence in foxtail millet, Setaria italica (L.) P. Beauv. and its characterization and application to typing of foxtail millet landraces. Hereditas 142:38-44
8. Harlan JR (1975) Crops and Man. Soc Amer Agron Crop Sci Soc America, Madison, WI
9. Jusuf M, Pernes J (1985) Genetic variability of foxtail millet (Setaria italica (L.) P. Beauv): Electrophoretic study of five isoenzyme systems. Theor Appl Genet 71:385-391
10. Kawase M, Sakamoto S (1982) Geographical distribution and genetic analysis of phenol color reaction in foxtail millet, Setaria italica (L.) P. Beauv. Theor Appl Genet 63:117-119
11. Kawase M, Sakamoto S (1984) Variation, geographical distribution and genetic analysis of esterase isozymes in foxtail millet, Setaria italica (L.) P. Beauv. Theor Appl Genet 67:529-533
12. Kawase M, Sakamoto S (1987) Geographical distribution of landrace groups classified intraspecific pollen sterility in foxtail millet, Setaria italica (L.) P.Beauv. Jpn J Breed 37:1-9
13. Kawase M, Fukunaga K, Kato K (2005) Diverse origins of waxy foxtail millet crops in East and Southeast Asia mediated by multiple transposable element insertions. Mol Genet Genomics 274:131-140
14. Kihara H, Kishimoto E (1942) Bastarde zwischen Setaria italica und S. viridis (in Japanese with German summary). Bot Mag 20:63-67
15. Küster H (1984) Neolithic plant remains from Eberdingenhochdorf, southern Germany. In: Van Zeist WV, Casparoe WA (eds) Plants and ancient man (studies in palaeoethnobotany). AA Bakame, Rotterdam, Boston, pp 307-311
16. Le Thierry d'Ennequin M, Panaud O, Toupance B, Sarr A (2000) Assessment of genetic relationships between Setaria italica and its wild relatives S. viridis using AFLP marker. Theor Appl Genet 100:1061-1066
17. Li Y, Wu SZ (1996) Traditional maintenance and multiplication of foxtail millet (Setaria italica (L.) P. Beauv) landraces in China. Euphytica 87:33-38
18. Li HW, Li CH, Pao WK (1945) Cytological and genetic studies of interspecific cross of the cultivated foxtail millet, Setaria italica P. Beauv. and the green foxtail millet, S. viridis L. J Amer Soc Agron 37:32-54
19. Li Y, Cao YS, Wu SZ, Zhang XZ (1995a) A diversity analysis of foxtail millet (Setaria italica (L.) P.Beauv.) landraces of Chinese origin. Genet Res Crop Evol 45:279-285
20. Li Y, Wu SZ, Cao YS (1995b) Cluster analysis of an international collection of foxtail millet (Setaria italica (L.) P. Beauv). Genet Res Crop Evol 45:279-285
21. Li Y, Jia J, Wang W, Wu S (1998) Intraspecific and interspecific variation in Setaria revealed by RAPD analysis. Genet Res Crop Evol 45:279-285
22. Lisitsina A (1976) Main types of ancient farming on the Caucasus on the basis of palaeo-ethnobotanical research. Ber Deut Bot Ges 91:47-57
23. Nakayama H, Namai H, Okuno K (1999) Geographical variation of the alleles at the two prolamin loci, Pro1 and Pro2, in foxtail millet, Setaria italica (L.) P. Beauv. Genes Genet Syst 74:293-297
24. Ochiai Y (1996) Variation in tillering and geographical distribution of foxtail millet (Setaria italica P. Beauv.) Breed Sci 46:143-146
25. Ochiai Y, Kawase M, Sakamoto S (1994) Variation and distribution of foxtail millet (Setaria italica P. Beauv.) in the mountainous areas of northern Pakistan. Breed Sci 44:413-418
26. Rogers BO, Bendich AJ (1987) Ribosomal RNA genes in plants: variability in copy number and in the intergenic spacer. Plant Mol Biol 9:509-520
27. Saghai-Maroof MA, Soliman KM, Jorgensen 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
28. Sallares R, Brown TA (2004) Phylogenetic analysis of complete 5 external transcribed spacers of the 18S ribosomal RNA genes of diploid Aegilops and related species (Triticeae, Poaceae). Genet Res Crop Evol 51:701-712
29. Sakamoto S (1987) Origin and dispersal of common millet and foxtail millet. Japan Agric Res Quart 21:84-89
30. Sano Y, Sano R (1990) Variation of the intergenic spacer region of ribosomal DNA in cultivated and wild rice species. Genome 33:209-218
31. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
32. Vavilov NI (1926) Studies on the origin of cultivated plants. Inst Appl Bot Plant Breed, Leningrad
33. Wang RL, Wendell J,Dekker J (1995) Weedy adaptation in Setaria spp.: I. Isozyme analysis of the genetic diversity and population genetic structure in S. viridis. Am J Bot 82:308-317