Characterization of chromosome ends on the basis of the structure of TrsA subtelomeric repeats in rice (Oryza sativa L.)

Molecular Genetics and Genomics

Volumn 280, Issue 1, 2008, Pages 19-24

  Mizuno, Hiroshi ^a   Wu, Jianzhong ^a   Katayose, Yuichi ^a   Kanamori, Hiroyuki ^b   Sasaki, Takuji ^a   Matsumoto, Takashi ^a  

^a NATIONAL INSTITUTE OF AGROBIOLOGICAL SCIENCES   (Japan)

^b Institute of the Society for Techno innovation of Agriculture   (Japan)

Author keywords

Rice genome; Subtelomeric repeats; Telomere

Indexed keywords

ARTICLE; CHROMOSOME ARM; CHROMOSOME DUPLICATION; CHROMOSOME STRUCTURE; EXPRESSED SEQUENCE TAG; GENE CLUSTER; GENE SEQUENCE; GENETIC VARIABILITY; GENOME; NUCLEOTIDE REPEAT; PRIORITY JOURNAL; RICE; TELOMERE; TRANSCRIPTION INITIATION;

CHROMOSOMES, PLANT; DNA, PLANT; GENE DUPLICATION; GENES, PLANT; GENOME, PLANT; ORYZA SATIVA; REPETITIVE SEQUENCES, NUCLEIC ACID; SEQUENCE ANALYSIS, DNA; TELOMERE;

ORYZA SATIVA;

EID: 45849107228     PISSN: 16174615     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00438-008-0341-6     Document Type: Article

References (25)

1. Baur JA, Zou Y, Shay JW, Wright WE (2001) Telomere position effect in human cells. Science 292:2075-2077
2. Devos KM (2005) Updating the 'crop circle'. Curr Opin Plant Biol 8:155-162
3. Fajkus J, Kralovics R, Kovarik A, Fajkusova L (1995) The telomeric sequence is directly attached to the HRS60 subtelomeric tandem repeat in tobacco chromosomes. FEBS Lett 364:33-35
4. Ganal MW, Lapitan NL, Tanksley SD (1991) Macrostructure of the tomato telomeres. Plant Cell 3:87-94
5. Gaut BS, Wright SI, Rizzon C, Dvorak J, Anderson LK (2007) Recombination: an underappreciated factor in the evolution of plant genomes. Nat Rev Genet 8:77-84
6. Gottschling DE, Aparicio OM, Billington BL, Zakian VA (1990) Position effect at S cerevisiae telomeres: reversible repression of Pol II transcription. Cell 63:751-762
7. Heacock M, Spangler E, Riha K, Puizina J, Shippen DE (2004) Molecular analysis of telomere fusions in Arabidopsis: multiple pathways for chromosome end-joining. The EMBO Journal 23:2304-2313
8. International Rice Genome Sequencing Project (IRGSP) (2005) The map-based sequence of the rice genome. Nature 436:793-800
9. Itoh T, Tanaka T, Barrero RA, Yamasaki C, Fujii Y, Hilton PB, Antonio BA, Aono H, Apweiler R, Bruskiewich R et al (2007) Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana. Genome Res 17:175-183
10. Kilian A, Kleinhofs A (1992) Cloning and mapping of telomere-associated sequences from Hordeum vulgare L. Mol Gen Genet 235:153-156
11. Mao L, Devos KM, Zhu L, Gale MD (1997) Cloning and genetic mapping of wheat telomere-associated sequences. Mol Gen Genet 254:584-591
12. Mefford HC, Trask BJ (2002) The complex structure and dynamic evolution of human subtelomeres. Nat Rev Genet 3:91-102
13. Mizuno H, Wu J, Kanamori H, Fujisawa M, Namiki N, Saji S, Katagiri S, Katayose Y, Sasaki T, Matsumoto T (2006) Sequencing and characterization of telomere and subtelomere regions on rice chromosomes 1S, 2S, 2L, 6L, 7S, 7L and 8S. Plant J 46:206-217
14. Mizuno H, Wu J, Katayose Y, Kanamori H, Sasaki T, Matsumoto T (2008) Chromosome-specific distribution of nucleotide substitutions in telomeric repeats of rice (Oryza sativa L.). Mol Biol Evol 25:62-68
15. Ohmido N, Fukui K (1997) Visual verification of close disposition between a rice genome-specific DNA sequence (TrsA) and the telomere sequence. Plant Mol Biol 35:963-968
16. Ohmido N, Kijima K, Akiyama Y, de Jong JH, Fukui K (2000) Quantification of total genomic DNA and selected repetitive sequences reveals concurrent changes in different DNA families in indica and japonica rice. Mol Gen Genet 263:388-394
17. Ohmido N, Kijima K, Ashikawa I, de Jong JH, Fukui K (2001) Visualization of the terminal structure of rice chromosomes 6 and 12 with multicolor FISH to chromosomes and extended DNA fibers. Plant Mol Biol 47:413-421
18. Ohtsubo H, Ohtsubo E (1994) Involvement of transposition in dispersion of tandem repeat sequences (TrsA) in rice genomes. Mol Gen Genet 245:449-455
19. Ohtsubo H, Umeda M, Ohtsubo E (1991) Organization of DNA sequences highly repeated in tandem in rice genomes. Jpn J Genet 66:241-254
20. Rice Annotation Project (2008) The Rice Annotation Project Database (RAP-DB): 2008 update. Nucleic Acids Res 36 (Database issue):D1028-33
21. Röder MS, Lapitan NL, Sorrells ME, Tanksley SD (1993) Genetic and physical mapping of barley telomeres. Mol Gen Genet 238:294-303
22. Sasaki T, Antonio B (2005) Where does the accurate rice genome sequence lead us? Plant Mol Biol 59:27-32
23. Wing RA, Ammiraju JS, Luo M, Kim H, Yu Y, Kudrna D, Goicoechea JL, Wang W, Nelson W, Rao K et al (2005) The Oryza map alignment project: the golden path to unlocking the genetic potential of wild rice species. Plant Mol Biol 59:53-62
24. Wu J, Mizuno H, Hayashi-Tsugane M, Ito Y, Chiden Y, Fujisawa M, Katagiri S, Saji S, Yoshiki S, Karasawa W et al (2003) Physical maps and recombination frequency of six rice chromosomes. Plant J 36:720-730
25. Zhong XB, Fransz PF, Wennekes-Eden J, Ramanna MS, van Kammen A, Zabel P, Hans de Jong J (1998) FISH studies reveal the molecular and chromosomal organization of individual telomere domains in tomato. Plant J 13:507-517