Copia-like retrotransposons in rice: Sequence heterogeneity, species distribution and chromosomal locations

Plant Molecular Biology

Volumn 33, Issue 6, 1997, Pages 1051-1058

  Wang, Shiping ^a   Zhang, Qifa ^a   Maughan, P J ^b   Maroof, M A Saghai ^b  

^a HUAZHONG AGRICULTURAL UNIVERSITY   (China)

^b VIRGINIA POLYTECHNIC INSTITUTE AND STATE UNIVERSITY   (United States)

Author keywords

genetic diversity; indica; japonica; mapping; reverse transcriptase

Indexed keywords

MESSENGER RNA; PLANT RNA;

AMINO ACID SEQUENCE; ARTICLE; CHROMOSOME MAP; GENETIC VARIABILITY; GENETICS; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RETROPOSON; RICE; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY; SOUTHERN BLOTTING; SPECIES DIFFERENCE;

AMINO ACID SEQUENCE; BLOTTING, SOUTHERN; CHROMOSOME MAPPING; MOLECULAR SEQUENCE DATA; ORYZA SATIVA; PHYLOGENY; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RETROELEMENTS; RNA, MESSENGER; RNA, PLANT; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID; SPECIES SPECIFICITY; VARIATION (GENETICS);

EID: 0031127313     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1005715118851     Document Type: Article

References (27)

1. Boeke JD, Garfinkel DJ, Styles CA, Fink GR: Ty elements transpose through an RNA intermediate. Cell 40: 491-500 (1985).
2. Causse MA, Fulton TM, Cho YG, Ahn SN, Chunwongse J, Wu K, Xiao J, Yu Z, Ronald PC, Harrington SE, Second G, McCouch SR, Tanksley SD: Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics 138: 1251-1274 (1994).
3. DNASTAR Inc.: Lasergene. Biocomputing Software for the Macintosh User's Guide. A Manual for the Lasergene System, 2nd ed. (1994).
4. Doolittle RF, Feng D-F, Johnson MS, McClure MA: Origins and evolutionary relationships of retroviruses. Quart Rev Biol 64: 1-30 (1989).
5. Flavell AJ, Dunbar E, Anderson R, Pearce SR, Hartley R, Kumar A: Tyl-copia group retrotransposons are ubiquitous and heterogeneous in higher plants. Nucl Acids Res 20: 3639-3644 (1992).
6. Flavell AJ, Smith DB, Kumar A: Extreme heterogeneity of Tyl-copia group retrotransposons in plants. Mol Gen Genet 231: 233-242 (1992).
7. Feinberg AP, Vogelstein B: A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity. Anal Biochem 132: 6-13 (1983).
8. Gish W, States DJ: Identification of protein coding regions by database similarity search. Nature Genet 3: 266-272 (1993).
9. Grandbastien M-A, Spielmann A, Caboche M: Tntl, a mobile retroviral-like transposable element of tobacco isolated by plant cell genetics. Nature 337: 376-380 (1989).
10. Hirochika H: Activation of tobacco retrotransposons during tissue culture. EMBO J 12: 2521-2528 (1993).
11. Hirochika H, Fukuchi A, Kikuchi F: Retrotransposon families in rice. Mol Gen Genet 233: 209-216 (1992).
12. Hirochika H, Hirochika R: Tyl-copia group retrotransposons as ubiquitous components of plant genomes. Jpn J Genet 68: 35-46 (1993).
13. Hirochika H, Sugimoto K, Otsuki Y, Tsugawa H, Kanda M: Retrotransposons of rice involved in mutations induced by tissue culture. Proc Nalt Acad Sci USA 93: 7783-7788 (1996).
14. Konieczny A, Voytas DF, Cummings MP, Ausubel FM: A superfamily of Arabidopsis thaliana retrotransposons. Genetics 127: 801-809 (1991).
15. Kurata N, Nagamura Y, Yamamoto K, Harushima Y, Sue N, Wu J, Antonio BA, Shomura A, Shimizu T, Lin S-Y, Inoue T, Fukuda A, Shimano T, Kuboki Y, Toyama T, Miyamoto Y, Kirihara T, Hayasaka K, Miyao A, Monna L, Zhong HS, Tamura Y, Wang Z-X, Momma T, Umehara Y, Yano M, Sasaki T, Minobe Y: A 300 kilobase interval genetic map of rice including 883 expressed sequence. Nature Genet 8: 365-372 (1994).
16. Lin S, Min S: Rice Cultivars and Their Genealogy in China (in Chinese). Shanghai Science and Technology Press, Shanghai (1991).
17. Lincoln S, Daly M, Lander E: Constructing genetic maps with Mapmaker/Exp 3.0, 3rd ed. Whitehead Institute Technical Report (1992).
18. Mount SM, Rubin GM: Complete nucleotide sequence of the Drosophila transposable element copia: homology between copia and retroviral proteins. Mol Cell Biol 5: 1630-1638 (1985).
19. Pearce SR, Harrison G, Li D, Heslop-Harrison JS, Kumar A, Flavell AJ: The Tyl-copia group of retrotransposons in Vicia species: copy number, sequence heterogeneity and chromosomal location. Moll Gen Genet 250: 305-315 (1996).
20. Puissant C, Houdebine L-M: An improvement of the single step method of RNA isolation by acid guanidinium thiocyanatephenol-chloroform extraction. Bio/technology 8: 148-149 (1990).
21. Saghai Maroof MA, Soliman KM, Jorgensen RA, Allard RW: Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics. Proc Natl Acad Sci USA 81: 8014-8018 (1984).
22. Sambrook J, Fritsch EF, Maniatis T: Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY (1989).
23. Sanger F, Nicklen S, Coulson AR: DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 74: 5463-5467 (1977).
24. Voytas DF, Cummings MP, Konieczny A, Ausubel FM, Rodermel SR: copia-like retrotransposons are ubiquitous among plants. Proc Natl Acad Sci USA 89: 7124-7128 (1992).
25. Wessler SR: Plant retrotransposons: turned on by stress. Curr Biol 6: 959-961 (1996).
26. Xiong Y, Eickbush TH: Origin and evolution of retroelements based upon their reverse transcriptase sequences. EMBO J 9: 3353-3362 (1990).
27. Zhang Q, Saghai Maroof MA, Lu TY, Shen BZ: Genetic diversity and differentiation of indica andjaponica rice detected by RFLP analysis. Theor Appl Genet 83: 495-499 (1992).