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      Complex group-I introns in nuclear SSU rDNA of red and green algae: evidence of homing-endonuclease pseudogenes in the Bangiophyceae.

      Current genetics
      Amino Acid Motifs, Amino Acid Sequence, Base Sequence, Cell Nucleus, genetics, Chlorophyta, DNA, Ribosomal, Endonucleases, Introns, Molecular Sequence Data, Proteins, metabolism, Pseudogenes, RNA Splicing, RNA, Catalytic, RNA, Ribosomal, Rhodophyta, Sequence Analysis, methods, Sequence Homology, Amino Acid

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          Abstract

          The green alga Scenedesmus pupukensis and the red alga Porphyra spiralis contain large group-IC1 introns in their nuclear small subunit ribosomal RNA genes due to the presence of open reading frames at the 5' end of the introns. The putative 555 amino-acid Scenedesmus-encoded protein harbors a sequence motif resembling the bacterial S9 ribosomal proteins. The Porphyra intron self-splices in vitro, and generates both ligated exons and a full-length intron RNA circle. The Porphyra intron has an unusual structural organization by encoding a potential 149 amino-acid homing-endonuclease-like protein on the complementary strand. A comparison between related group-I introns in the Bangiophyceae revealed homing-endonuclease-like pseudogenes due to frame-shifts and deletions in Porphyra and Bangia. The Scenedesmus and Porphyra introns provide new insights into the evolution and possible novel functions of nuclear group-I intron proteins.

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