| Literature DB >> 19139073 |
Elizaveta Vinogradova1, Thalia Salinas, Valérie Cognat, Claire Remacle, Laurence Maréchal-Drouard.
Abstract
The mitochondrial genome of Chlamydomonas reinhardtii only encodes three expressed tRNA genes, thus most mitochondrial tRNAs are likely imported. The sharing of tRNAs between chloroplasts and mitochondria has been speculated in this organism. We first demonstrate that no plastidial tRNA is present in mitochondria and that the mitochondrial translation mainly relies on the import of nucleus-encoded tRNA species. Then, using northern analysis, we show that the extent of mitochondrial localization for the 49 tRNA isoacceptor families encoded by the C. reinhardtii nuclear genome is highly variable. Until now the reasons for such variability were unknown. By comparing cytosolic and mitochondrial codon usage with the sub-cellular distribution of tRNAs, we provide unprecedented evidence that the steady-state level of a mitochondrial tRNA is linked not only to the frequency of the cognate codon in mitochondria but also to its frequency in the cytosol, then allowing optimal mitochondrial translation.Entities:
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Year: 2009 PMID: 19139073 PMCID: PMC2655685 DOI: 10.1093/nar/gkn1073
Source DB: PubMed Journal: Nucleic Acids Res ISSN: 0305-1048 Impact factor: 16.971
Figure 1.Histograms for codon frequency in C. reinhardtii. (A) Cytosolic codon usage. (B) Mitochondrial codon usage. For (A) and (B) codons have been grouped according to classical wobble rules and aminoacids are represented with the one-letter code. White (high frequency in the cytosol but weak in the mitochondria) and grey (low frequency in the cytosol but high in the mitochondria) arrow heads indicate some codons differentially used in the cytosol and mitochondria.
Figure 2.Mitochondria of C. reinhardtii do not import plastidial tRNAs. (A) Whole-cell (T), mitochondrial (M) and plastidial (P) RNA fractions separated on polyacrylamide gel and stained with ethidium bromide. Regions corresponding to tRNAs (a), rRNAs (b) and plastidial 3S rRNA (c) are indicated. (B) Hybridization of probes specific to mitochondria-encoded tRNAMet (Mm), tRNAGln (Qm) and tRNATrp (Wm) and to mitochondrial 3a rRNA (3am), cytosolic 5.8S rRNA (5.8S), plastidial 5S rRNA (5Sp) to northern blots of whole-cell (T), mitochondrial (M) or plastidial (P) RNAs. (C) Hybridization of probes specific to plastidial tRNA genes to northern blots of mitochondrial (M) and plastidial (P) RNAs. Name of probes is given below each northern experiment (see Supplementary data Table S1 online).
Steady-state levels of imported tRNAs in mitochondria relative to their abundance in the cytosol in Chlamydomonas reinhardtii
Nuclear tRNA gene content (identified by anticodons), minimal potential codon recognition pattern (codons), cytosolic codon usage (% cyto) and name of probes are given as in (9), (see also supplementary data, Table S1 online).
aMitochondrial codon usage (% mito) is according to (6).
bRatio codon frequency (mito/cyto).
cThe steady-state levels of imported tRNAs relative to their abundance in the cytosol are given in percentage.
Mean values are given (see legend of Figure 3 for detailed explanations).
Figure 3.Expression and sub-localization of the nucleus-encoded tRNAs of C. reinhardtii. (A) Whole-cell RNA fraction (T) and mitochondrial RNA fraction (M) separated on polyacrylamide gel and hybridized against probes specific to cytosolic tRNA genes (Table 1 and Supplementary data, Table S1). Name of probes is given below each northern experiment. (B) Extent of mitochondrial import for each cytosolic tRNA in percentage. For each tRNA, two to four independent northern blot experiments were performed. Three and four independent total and mitochondrial RNA preparations were used for the whole set of northern experiments. For each probe, a typical experiment is presented in (A) but the percentages of extent of mitochondrial import given in (B) are the mean values obtained with two to four independent northern blot experiments. Error bars are not presented on the histogram because, at this scale, they will not be visible for most tRNAs. The standard deviations observed are usually less than 5%. Only for two probes, Y and Me, a higher deviation of around 10% was observed.
Figure 4.Link between codon usages and the steady-state levels of imported tRNAs. Histograms (in grey) showing the ratios mitochondrial codon frequency/cytosolic codon frequency (mito/cyto) for five aminoacids (Gly, Val, Lys, Leu, Thr) and histograms (in black) showing the percentages of the steady-state levels of imported tRNA isoacceptors into mitochondria relative to their abundance in the whole-cell fraction. Name of tRNAs is as in Figure 3.