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Distinctive architecture of the chloroplast genome in the chlorophycean green alga Stigeoclonium helveticum

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Abstract

The chloroplast genome has experienced many architectural changes during the evolution of chlorophyte green algae, with the class Chlorophyceae displaying the lowest degree of ancestral traits. We have previously shown that the completely sequenced chloroplast DNAs (cpDNAs) of Chamydomonas reinhardtii (Chlamydomonadales) and Scenedesmus obliquus (Sphaeropleales) are highly scrambled in gene order relative to one another. Here, we report the complete cpDNA sequence of Stigeoclonium helveticum (Chaetophorales), a member of a third chlorophycean lineage. This genome, which encodes 97 genes and contains 21 introns (including four putatively trans-spliced group II introns inserted at novel sites), is remarkably rich in derived features and extremely rearranged relative to its chlorophycean counterparts. At 223,902 bp, Stigeoclonium cpDNA is the largest chloroplast genome sequenced thus far, and in contrast to those of Chlamydomonas and Scenedesmus, features no large inverted repeat. Interestingly, the pattern of gene distribution between the DNA strands and the bias in base composition along each strand suggest that the Stigeoclonium genome replicates bidirectionally from a single origin. Unlike most known trans-spliced group II introns, those of Stigeoclonium exhibit breaks in domains I and II. By placing our comparative genome analyses in a phylogenetic framework, we inferred an evolutionary scenario of the mutational events that led to changes in genome architecture in the Chlorophyceae.

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Acknowledgments

We thank Jean-François Pombert and Jean-Charles de Cambiaire for their help with the sequence analyses and for critical reading of the manuscript. This work was supported by a grant from the Natural Sciences and Engineering Research Council of Canada (to C.L. and M.T.).

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Authors and Affiliations

  1. Département de biochimie et de microbiologie, Pavillon Charles-Eugène Marchand, Université Laval, Quebec City, QC, Canada, G1K 7P4

    Anne-Sophie Bélanger, Jean-Simon Brouard, Patrick Charlebois, Christian Otis, Claude Lemieux & Monique Turmel

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  1. Anne-Sophie Bélanger
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  2. Jean-Simon Brouard
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  3. Patrick Charlebois
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  4. Christian Otis
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  5. Claude Lemieux
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  6. Monique Turmel
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Correspondence to Monique Turmel.

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Communicated by R. Herrmann.

Nucleotide sequence data reported are available in the GenBank database under the accession number DQ630521.

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Bélanger, AS., Brouard, JS., Charlebois, P. et al. Distinctive architecture of the chloroplast genome in the chlorophycean green alga Stigeoclonium helveticum . Mol Genet Genomics 276, 464–477 (2006). https://doi.org/10.1007/s00438-006-0156-2

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