Molecular and General Genetics MGG

, Volume 217, Issue 2, pp 185–194

The complete sequence of the rice (Oryza sativa) chloroplast genome: Intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals

Authors

  • Junzou Hiratsuka
    • Center for Gene ResearchNagoya University
  • Hiroaki Shimada
    • Center for Gene ResearchNagoya University
  • Robert Whittier
    • Center for Gene ResearchNagoya University
  • Takashi Ishibashi
    • Center for Gene ResearchNagoya University
  • Masahiro Sakamoto
    • Center for Gene ResearchNagoya University
  • Masao Mori
    • Center for Gene ResearchNagoya University
  • Chihiro Kondo
    • Center for Gene ResearchNagoya University
  • Yasuko Honji
    • Center for Gene ResearchNagoya University
  • Chong-Rong Sun
    • Department of BiochemistryFudan University
  • Bing-Yuan Meng
    • Center for Gene ResearchNagoya University
  • Yu-Qing Li
    • Center for Gene ResearchNagoya University
  • Akira Kanno
    • Faculty of AgricultureNagoya University
  • Yoko Nishizawa
    • Faculty of AgricultureNagoya University
  • Atsushi Hirai
    • Faculty of AgricultureNagoya University
  • Kazuo Shinozaki
    • Center for Gene ResearchNagoya University
  • Masahiro Sugiura
    • Center for Gene ResearchNagoya University
Article

DOI: 10.1007/BF02464880

Cite this article as:
Hiratsuka, J., Shimada, H., Whittier, R. et al. Molec. Gen. Genet. (1989) 217: 185. doi:10.1007/BF02464880

Summary

The entire chloroplast genome of the monocot rice (Oryza sativa) has been sequenced and comprises 134525 bp. Predicted genes have been identified along with open reading frames (ORFs) conserved between rice and the previously sequenced chloroplast genomes, a dicot, tobacco (Nicotiana tabacum), and a liverwort (Marchantia polymorpha). The same complement of 30 tRNA and 4 rRNA genes has been conserved between rice and tobacco. Most ORFs extensively conserved betweenN. tabacum andM. polymorpha are also conserved intact in rice. However, several such ORFs are entirely absent in rice, or present only in severely truncated form. Structural changes are also apparent in the genome relative to tobacco. The inverted repeats, characteristic of chloroplast genome structure, have expanded outward to include several genes present only once per genome in tobacco and liverwort and the large single copy region has undergone a series of inversions which predate the divergence of the cereals. A chimeric tRNA pseudogene overlaps an apparent endpoint of the largest inversion, and a model invoking illegitimate recombination between tRNA genes is proposed which accounts simultaneously for the origin of this pseudogene, the large inversion and the creation of repeated sequences near the inversion endpoints.

Key words

Conserved open reading framesMonocotsChloroplast DNASequence duplicationMultimer formation

Abbreviations

PSII

photosystem II

PSI

photosystem I

RuBisCo

ribulose 1,5-bisphosphate carboxylase

IRA and IRB

denote the inverted repeat regions distal and proximal tondhF respectively

Copyright information

© Springer-Verlag 1989