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Current Genetics

, Volume 46, Issue 6, pp 366–373 | Cite as

Structural features and transcript-editing analysis of sugarcane (Saccharum officinarum L.) chloroplast genome

  • Tercilio Calsa Júnior
  • Dirce Maria Carraro
  • Matheus Romanos Benatti
  • Alexandre Corrêa Barbosa
  • João Paulo Kitajima
  • Helaine CarrerEmail author
Research Article

Abstract

The complete nucleotide sequence of the chloroplast genome of sugarcane (Saccharum officinarum) was determined. It consists of 141,182 base-pairs (bp), containing a pair of inverted repeat regions (IRA, IRB) of 22,794 bp each. The IRA and IRB sequences separate a small single copy region (12,546 bp) and a large single copy (83,048 bp) region. The gene content and relative arrangement of the 116 identified genes (82 peptide-encoding genes, four ribosomal RNA genes, 30 tRNA genes), with the 16 ycf genes, are highly similar to maize. Editing events, defined as C-to-U transitions in the mRNA sequences, were comparable with those observed in maize, rice and wheat. The conservation of gene organization and mRNA editing suggests a common ancestor for the sugarcane and maize plastomes. These data provide the basis for functional analysis of plastid genes and plastid metabolism within the Poaceae. The sugarcane chloroplast DNA sequence is available at GenBank under accession NC005878.

Keywords

Sugarcane Chloroplast genome Grass plastome mRNA editing Genome comparative analysis 

Notes

Acknowledgements

The authors gratefully acknowledge Eugênio Cesar Ulian and William Lee Burnquist (Copersucar Technology Center, Piracicaba, São Paulo, Brazil) for supplying the sugarcane commercial hybrid SP 80-3280, Ralph Bock, Stephanie Ruf and Martin Hager for suggestions on sugarcane plastid DNA isolation, the Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) for project grant 99/02860-8 and for fellowships granted to T.C.J. (99/02973-7) and D.M.C. (98/06206-8) and the Conselho Nacional de Pesquisa e Desenvolvimento (CNPq/PIBIC) for a fellowship granted to M.R.B. The authors declare that this work was carried out in compliance with the current laws governing genetic experimentation in Brazil.

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Copyright information

© Springer-Verlag 2004

Authors and Affiliations

  • Tercilio Calsa Júnior
    • 1
    • 2
  • Dirce Maria Carraro
    • 1
    • 3
  • Matheus Romanos Benatti
    • 1
    • 4
  • Alexandre Corrêa Barbosa
    • 5
  • João Paulo Kitajima
    • 6
  • Helaine Carrer
    • 1
    Email author
  1. 1.ESALQ/Universidade de São PauloPiracicabaBrazil
  2. 2.CENA/Universidade de São PauloPiracicabaBrazil
  3. 3.Instituto Ludwig de Pesquisa sobre CâncerSão PauloBrazil
  4. 4.Horticulture DepartmentPurdue UniversityWest LafayetteUSA
  5. 5.Scylla BioinformaticsCampinasBrazil
  6. 6.Alellyx Applied GenomicsCampinasBrazil

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