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Increased accumulation of intron-containing transcripts in rice mitochondria caused by low temperature: is cold-sensitive RNA editing implicated?

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Abstract

An increase in the unspliced cox2 transcript and accompanying decrease in the frequency of RNA editing near the exon/intron junction (intron binding site 1, IBS1) have been reported in cold-treated wheat. Here, an attempt was made to clarify whether a similar phenomenon occurs in rice. Levels of unspliced cox2 transcript increased and its editing at the IBS was abolished after cold treatment. The accumulation of COXII protein remained unaffected. The accumulation of intron-containing transcripts of another eight mitochondrial genes, 23 introns in total, was analyzed by Northern blotting and semi-quantitative RT-PCR. An increase in 14 of the 23 intron-adjoining cDNA after cold treatment was observed. Six RNA editing sites in the IBS of four genes were tested as to their status by sequencing cDNA. One of these sites in the nad7 transcript showed a close association with splicing, with editing and splicing occurring simultaneously, irrespective of cold treatment. Two other sites in the intron-containing cox2 and rps3 transcripts were sensitive to cold, where editing frequency began to decrease 1 day after cold treatment, and finally exhibited a tight association with splicing 14 days later. The other sites were efficiently edited. The intron-spliced transcripts were fully edited at all six sites.

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Abbreviations

IBS:

Intron binding site

EBS:

Exon binding site

CBB:

Coomassie brilliant blue

UTR:

Untranslated region

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Acknowledgments

We would like to thank Drs. T. Mikami, H. Handa, S. Matsuba and T. Akiyama for their helpful comments and discussion.

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Authors and Affiliations

  1. National Agricultural Research Center for Hokkaido Region, Sapporo, 062-8555, Japan

    Shiho Kurihara-Yonemoto

  2. Research Faculty of Agriculture, Hokkaido University, Sapporo, 060-8589, Japan

    Tomohiko Kubo

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  1. Shiho Kurihara-Yonemoto
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  2. Tomohiko Kubo
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Correspondence to Shiho Kurihara-Yonemoto.

Additional information

Communicated by R. Bock.

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294_2010_320_MOESM1_ESM.ppt

Semi-quantitative RT-PCR of rice nad1, nad2, nad4, nad5, nad7, rps3, rpl2, and ccmF C . Complementary DNA derived from cold-treated (12°C) and control (25°C) rice plantlets was subjected to PCR, as described in Materials and methods and Table S1. Amplicons were electrophoresed on 2% agarose gels after the number of amplification cycles shown above the images, along with a negative control, in which the reverse transcriptase was omitted (−RT) (PPT 741 kb)

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Kurihara-Yonemoto, S., Kubo, T. Increased accumulation of intron-containing transcripts in rice mitochondria caused by low temperature: is cold-sensitive RNA editing implicated?. Curr Genet 56, 529–541 (2010). https://doi.org/10.1007/s00294-010-0320-4

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