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Using rice to understand the origin and amplification of miniature inverted repeat transposable elements (MITEs)

Jiang, Ning, Feschotte, Cédric, Zhang, Xiaoyu, Wessler, Susan R·2004·Current Opinion in Plant Biology

Abstract

Recent studies of rice miniature inverted repeat transposable elements (MITEs), largely fueled by the availability of genomic sequence, have provided answers to many of the outstanding questions regarding the existence of active MITEs, their source of transposases (TPases) and their chromosomal distribution. Although many questions remain about MITE origins and mode of amplification, data accumulated over the past two years have led to the formulation of testable models.

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Crossref · 10.1016/j.pbi.2004.01.004

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Research works printed but not linked: 47

  1. McClintock, 1951, Chromosome organization and genic expression, Cold Spring Harbour Sym. Quant Biol, 16, 13, 10.1101/SQB.1951.016.01.004 · DOI
  2. Tu, 2000, Molecular and evolutionary analysis of two divergent subfamilies of a novel miniature inverted repeat transposable element in the yellow fever mosquito, Aedes aegypti, Mol. Biol. Evol, 17, 1313, 10.1093/oxfordjournals.molbev.a026415 · DOI
  3. Feschotte C, Zhang X, Wessler SR: Miniature inverted-repeat transposable elements (MITEs) and their relationship with established DNA transposons. In Mobile DNA II. Edited by Craig NL, Craigie R, Gellert M, Lambowitz AM. Washington DC: American Society for Microbiology Press; 2002:1147-1158. · DOI · Paper page
  4. Feschotte, 2002, Plant transposable elements: where genetics meets genomics, Nat. Rev. Genet, 3, 329, 10.1038/nrg793 · DOI
  5. Santiago, 2002, Genome-wide analysis of the Emigrant family of MITEs of Arabidopsis thaliana, Mol. Biol. Evol, 19, 2285, 10.1093/oxfordjournals.molbev.a004052 · DOI
  6. Bureau, 1994, Stowaway: a new family of inverted-repeat elements associated with genes of both monocotyledonous and dicotyledonous plants, Plant Cell, 6, 907, 10.1105/tpc.6.6.907 · DOI
  7. Bureau, 1992, Tourist: a large family of inverted-repeat element frequently associated with maize genes, Plant Cell, 4, 1283, 10.1105/tpc.4.10.1283 · DOI · Paper page
  8. Akagi, 2001, Micron, a microsatellite-targeting transposable element in the rice genome, Mol. Genet Genomics, 266, 471, 10.1007/s004380100563 · DOI
  9. Turcotte, 2001, Survey of transposable elements from rice genomic sequences, Plant J, 25, 169, 10.1046/j.1365-313x.2001.00945.x · DOI
  10. Nagano, 2002, Characterization of the repetitive sequences in a 200-kb region around the rice waxy locus: diversity of transposable elements and presence of veiled repetitive sequences, Genes Genet Syst, 77, 69, 10.1266/ggs.77.69 · DOI
  11. Yang, 2003, MDM-1 and MDM-2: two Mutator-derived MITE families in rice, J. Mol. Evol, 56, 255, 10.1007/s00239-002-2397-y · DOI
  12. Wicker, 2003, CACTA transposons in Triticeae. A diverse family of high-copy repetitive elements, Plant Physiol, 132, 52, 10.1104/pp.102.015743 · DOI
  13. Charrier, 1999, Bigfoot, a new family of MITE elements characterized from the Medicago genus, Plant J, 18, 431
  14. Bureau, 1996, A computer-based systematic survey reveals the predominance of small inverted-repeat elements in wild-type rice genes, Proc. Natl. Acad. Sci. USA, 93, 8524, 10.1073/pnas.93.16.8524 · DOI
  15. Normile, 2002, The rice genome. Rice: boiled down to bare essentials, Science, 296, 32, 10.1126/science.296.5565.32 · DOI
  16. Mao, 2000, Rice transposable elements: a survey of 73,000 sequence-tagged-connectors, Genome Res, 10, 982, 10.1101/gr.10.7.982 · DOI · Paper page
  17. Tarchini, 2000, The complete sequence of 340kb of DNA around the rice adh1–adh2 region reveals interrupted colinearity with maize chromosome 4, Plant Cell, 12, 381, 10.1105/tpc.12.3.381 · DOI
  18. Goff, 2002, A draft sequence of the rice genome (Oryza sativa L. ssp. japonica), Science, 296, 92, 10.1126/science.1068275 · DOI
  19. Yu, 2002, A draft sequence of the rice genome (Oryza sativa L. ssp. indica), Science, 296, 79, 10.1126/science.1068037 · DOI
  20. Bao, 2002, Automated de novo identification of repeat sequence families in sequenced genomes, Genome Res, 12, 1269, 10.1101/gr.88502 · DOI
  21. Tu, 2001, Eight novel families of miniature inverted repeat transposable elements in the African malaria mosquito, Anopheles gambiae, Proc. Natl. Acad. Sci. USA, 98, 1699, 10.1073/pnas.041593198 · DOI
  22. Yang, 2003, MAK, a computational tool kit for automated MITE analysis, Nucleic Acids Res, 31, 3659, 10.1093/nar/gkg531 · DOI
  23. Jiang, 2001, Insertion preference of maize and rice miniature inverted repeat transposable elements as revealed by the analysis of nested elements, Plant Cell, 13, 2553, 10.1105/tpc.13.11.2553 · DOI
  24. Bennetzen, 1997, Do plants have a one-way ticket to genomic obesity?, Plant Cell, 9, 1509, 10.1105/tpc.9.9.1509 · DOI
  25. Feng, 2002, Sequence and analysis of rice chromosome 4, Nature, 420, 316, 10.1038/nature01183 · DOI
  26. The Rice Chromosome 10 Sequencing Consortium: In-depth view of structure, activity, and evolution of rice chromosome 10. Science 2003, 300:1566-1569. · DOI
  27. Arabidopsis Genome Initiative: Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 2000, 408:796-815. · DOI · Paper page
  28. Wright, 2003, Effects of recombination rate and gene density on transposable element distributions in Arabidopsis thaliana, Genome Res, 13, 1897, 10.1101/gr.1281503 · DOI
  29. Nakazaki, 2003, Mobilization of a transposon in the rice genome, Nature, 421, 170, 10.1038/nature01219 · DOI
  30. Kikuchi, 2003, The plant MITE mPing is mobilized in anther culture, Nature, 421, 167, 10.1038/nature01218 · DOI
  31. Jiang, 2003, An active DNA transposon in rice, Nature, 421, 163, 10.1038/nature01214 · DOI
  32. Hirochika, 1996, Retrotransposons of rice involved in mutations induced by tissue culture, Proc. Natl. Acad. Sci. USA, 93, 7783, 10.1073/pnas.93.15.7783 · DOI
  33. Zhang, 2001, P Instability factor: an active maize transposon system associated with the amplification of Tourist-like MITEs and a new superfamily of transposases, Proc. Natl. Acad. Sci. USA, 98, 12572, 10.1073/pnas.211442198 · DOI
  34. Zhang X, Jiang N, Feschotte C, Wessler SR: Distribution and evolution of PIF- and Pong-like transposons and their relationships with Tourist-like MITEs. Genetics 2004, in press. · DOI
  35. Kapitonov, 1999, Molecular paleontology of transposable elements from Arabidopsis thaliana, Genetica, 107, 27, 10.1023/A:1004030922447 · DOI
  36. Le, 2001, Tc8, a Tourist-like transposon in Caenorhabditis elegans, Genetics, 158, 1081, 10.1093/genetics/158.3.1081 · DOI
  37. Aparicio, 2002, Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes, Science, 297, 1301, 10.1126/science.1072104 · DOI · Paper page
  38. Holt, 2002, The genome sequence of the malaria mosquito Anopheles gambiae, Science, 298, 129, 10.1126/science.1076181 · DOI
  39. Robertson, 1993, The mariner transposable element is widespread in insects, Nature, 362, 241, 10.1038/362241a0 · DOI
  40. Robertson, 1995, The Tc1-mariner superfamily of transposons in animals, J. Insect. Physiol, 41, 99, 10.1016/0022-1910(94)00082-R · DOI
  41. Smit, 1996, Tiggers and DNA transposon fossils in the human genome, Proc. Natl. Acad. Sci. USA, 93, 1443, 10.1073/pnas.93.4.1443 · DOI · Paper page
  42. Capy P, Bazin C, Higuet D, Langin T: Dynamics and evolution of transposable elements. Edited by Bioscience L. Austin, Texas: Springer-Verlag; 1998.
  43. Feschotte, 2000, Evidence that a family of miniature inverted-repeat transposable elements (MITEs) from the Arabidopsis thaliana genome has arisen from a pogo-like DNA transposon, Mol. Biol. Evol, 17, 730, 10.1093/oxfordjournals.molbev.a026351 · DOI
  44. Feschotte, 2002, Mariner-like transposases are widespread and diverse in flowering plants, Proc. Natl. Acad. Sci. USA, 99, 280, 10.1073/pnas.022626699 · DOI
  45. Casacuberta, 1998, Presence of miniature inverted-repeat transposable elements (MITEs) in the genome of Arabidopsis thaliana: characterisation of the Emigrant family of elements, Plant J, 16, 79, 10.1046/j.1365-313x.1998.00267.x · DOI
  46. Robertson, 1996, Members of the pogo superfamily of DNA-mediated transposons in the human genome, Mol. Gen. Genet, 252, 761, 10.1007/BF02173985 · DOI
  47. Feschotte, 2003, Genome-wide analysis of mariner-like transposable elements in rice reveals complex relationships with Stowaway MITEs, Genetics, 163, 747, 10.1093/genetics/163.2.747 · DOI

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Metadata

Authors
Jiang, N., Feschotte, C., Zhang, X., & Wessler, S. R.
Venue
Current Opinion in Plant Biology
Publisher
Elsevier BV
Published
2004-04
Volume
7
Issue
2
Pages
115-119
ISSN
1369-5266
Cited by
173
References
0
Language
en

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