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. 2006 Dec;12(12):2057-62.
doi: 10.1261/rna.249306. Epub 2006 Oct 24.

Dynamic association and localization of human H/ACA RNP proteins

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Dynamic association and localization of human H/ACA RNP proteins

Nupur Kittur et al. RNA. 2006 Dec.

Abstract

Mammalian H/ACA RNPs are essential for ribosome biogenesis, pre-mRNA splicing, and telomere maintenance. To form mature RNA-protein complexes, one H/ACA RNA associates with four core proteins. In the cell, this process is assisted by at least one nuclear assembly factor, NAF1. Here we report several unanticipated dynamic aspects of H/ACA RNP proteins. First, when overexpressed, NAF1 delocalizes to the cytoplasm. However, its nucleocytoplasmic shuttling properties remain unaffected. These observations demonstrate a subtle equilibrium between NAF1 expression levels and the availability of NAF1 nuclear binding sites. Second, although NAF1 is excluded from mature RNPs in nucleoli and Cajal bodies, NAF1 associates with mature H/ACA RNA in cell lysates. This association occurs post-lysis because it is observed even when NAF1 and the H/ACA RNA are expressed in separate cells. This documents a protein-RNP association in cell lysates that is absent from intact cells. Third, in similar experiments, all H/ACA core proteins, except NAP57, exchange with their exogenous counterparts, portraying an unexpected dynamic picture of H/ACA RNPs. Finally, the irreversible association of only NAP57 with H/ACA RNA and the conundrum that only NAP57 is mutated in X-linked dyskeratosis congenita (even though most core proteins are required for maintaining H/ACA RNAs) may be more than a coincidence.

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Figures

FIGURE 1.
FIGURE 1.
Localization and shuttling of transiently expressed NAF1. (A) Direct fluorescence of COS cells transiently transfected with GFP-NAF1 (panel 1) and corresponding phase contrast image (panel 2). (B) Same as A but 1 h after leptomycin B (LMB) addition. (C) Direct double fluorescence of cotransfected wild-type RFP-NAF1 and GFP-NAF1 containing a mutated NLS. (D) Same as in C but 3 h after LMB addition. Note the nuclear accumulation of the tagged NAF1 containing a wild-type (panel 1) compared with a mutated NLS (panel 2). (E) Indirect immunofluorescence of U2OS cells transfected with untagged NAF1 and probed with affinity purified NAF1 peptide antibodies (panel 1), a longer exposure of the same image (panel 2, note the nuclear localization of the endogenous NAF1), and the corresponding phase contrast image (panel 3). (F) Western blot of extracts from U2OS cells untransfected (lane 1) or transfected (lane 2) with GFP-NAF1, probed with NAF1 antibodies, and developed by enhanced chemiluminescence. The migrating positions of endogenous NAF1, the transfected GFP-NAF1, and the molecular weight markers in kilodaltons are indicated. (G) Double fluorescence of GFP-NAF1 (panel 1) transfected COS cells probed with nucleolin antibodies (panel 2) 3 h after LMB addition. Note the exclusion of GFP-NAF1 from nucleoli. (H) Same as G but probed with coilin antibodies. Note the lack of enrichment of GFP-NAF1 in Cajal bodies identified by coilin. Bars, 10 μm.
FIGURE 2.
FIGURE 2.
Association of GFP-tagged proteins with H/ACA RNAs in cell lysates. (A) Autoradiograph of induced rat (upper panel) and endogeous human E3 snoRNA (lower panel) detected by RNase A/T1 protection assay in total U2OS cell RNA 24 h after induction of the rat E3 transgene (lane 1) and, as a negative control, in yeast tRNA (lane 2). Lanes 38 show the same as lane 1, but the RNA was isolated from immunoprecipitates with GFP antibodies from E3 cell lysates transfected with the indicated GFP constructs and induced for rat E3 expression. One-tenth cell equivalent was used in lane 1 compared to lanes 38. (B) Schematic of the two GFP-construct transfection and rat E3 snoRNA induction approaches (I,II) used in C for immunoprecipitation with GFP antibodies followed by snoRNA analysis. Briefly, I was a repetition of the experiment in A, but in II the GFP-tagged constructs were transfected into parent U2OS cells lacking the rat E3 snoRNA transgene. In both cases the transfected cells were mixed with an equal number of untransfected U2OS cells (but induced for transgene expression) and lysed for immunoprecipitation with anti-GFP antibodies. (C) RNase protection analysis of the H/ACA snoRNAs in the immunoprecipitates of the GFP-tagged constructs (indicated on top) following the experimental approach (I, odd lanes) and (II, even lanes) in B. Note that in the cell lysates, only GFP-NAP57 failed to associate with the rat E3 snoRNA expressed in separate cells (lane 4). (D) Graph of the ratios between odd and even lanes from the center panel (rat E3 snoRNA) of C corrected for human E3 snoRNA. The values represent the average from two independent RNase protection assays.

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