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From the Department of Ophthalmology and Visual Science, Yale University School of Medicine, New Haven, Connecticut.
| Abstract |
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METHODS. A series of cDNA fragments encoding Crx protein with deleted C termini were generated from mouse Crx cDNA by polymerase chain reaction (PCR). Point mutations were introduced into Crx coding sequence through PCR-based, site-directed mutagenesis. These mutated Crx fragments and the wild-type Crx were fused to cDNA encoding the jellyfish green fluorescent protein (GFP) and were transiently expressed in human embryonic kidney (HEK) 293T cells. Twelve to 48 hours after transfection, the living cells were counterstained with the red fluorescent nucleic acid dye SYTO 59 and examined with epifluorescence and confocal microscopy to determine the subcellular localization of Crx fusion proteins.
RESULTS. GFP expressed without a fusion partner was distributed evenly throughout the cells, whereas the wild-type Crx protein fused to GFP was localized only in the nucleus. GFP-tagged Crx proteins truncated at residues 107 or 165, demonstrated exclusive nuclear localization. In contrast, Crx fusion proteins truncated at residues 88, 79, 44, and 36, were located equally in both the cytoplasm and the nucleus. These results demonstrate that the nuclear localization signal (NLS) of Crx appears to reside in the amino acids between residue 88 and 107, which is surprising because the putative NLSs identified by prosite search are at residues 36 to 43 and 116 to 122. Further, a Crx fusion protein truncated at residue 99 was localized within the nucleus in the majority of the transfected cells, and two point mutations at residues 88 (K88T) and 98 (R98L) disrupted the nuclear localization, which indicates that the sequence between 88 and 98 in the C terminus of the Crx homeodomain contains a NLS that is essential for targeting Crx to the nucleus. However, the fusion protein truncated at residue 99 did not produce a complete nuclear localization in every transfected cell, suggesting that the Gln-rich domain at residues 99 to 106 is also required for the full accumulation of Crx protein in the nucleus. Two point mutations of Crx, R41W and E80A, that cause conerod dystrophy in humans and lie within the homeodomain but outside the NLS did not disrupt the nuclear localization of Crx protein, but a R90W mutation of Crx that causes human Leber congenital amaurosis (LCA) and resides within the NLS resulted in the fusion protein localized in both nuclei and cytoplasm in majority (51% to 69%) of the transfected cells.
CONCLUSIONS. The wild-type Crx protein is localized within the nucleus. The putative NLSs of Crx at residues 36 to 43 and 116 to 122 are not essential. The minimal NLS necessary for the nuclear transport of Crx protein is located at residues 88 to 98 in the C terminus of the homeodomain. The R90W mutation of Crx found in LCA disrupts the nuclear transport of the mutant protein. The defective nuclear trafficking of Crx protein may be a part of the molecular mechanism of this early-onset retinal degeneration.
| Introduction |
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The conerod homeobox (Crx) protein is a highly conserved, photoreceptor-specific homeodomain transcription factor that plays a crucial role in photoreceptor differentiation and development.4 5 6 Crx is capable of transactivating some photoreceptor genes both in transfected cultured cells4 5 7 8 and in transgenic8 and knockout9 mice. Because nuclear localization is a key feature of transcription factors, the nuclear trafficking and localization of Crx protein would be crucial for Crx to function as a transcription factor. Although Crx mRNA has been localized to the photoreceptor cells of developing and adult mammalian retinas by in situ hybridization,4 5 6 the subcellular localization of the Crx protein is unknown but presumed to be within the nucleus. Mutations in Crx gene have been identified to be the cause of several forms of human retinal degenerations.6 10 11 12 13 Targeted disruption of the Crx gene in mice produces a retinopathy.9 However, the molecular mechanism by which the Crx mutations lead to retinal degenerations remains largely unclear. Because the trafficking of Crx protein from the cytoplasm to the nuclei of the photoreceptor cells represents a critical step for activating its biological function, we hypothesized that Crx is a nuclear protein that has a NLS responsible for its nuclear transport and that mutations occurring in the NLS sequence could disrupt the nuclear transportation of Crx protein and thus cause retinal degenerations.
| Materials and Methods |
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Cell Culture and Transfection
Human HEK293 T cells15
were cultured in Dulbeccos
modified Eagles medium (DMEM) supplemented with 10% fetal bovine
serum, 100 units/ml penicillin, and 100 µg/ml streptomycin. Cultured
cells were transfected with TransFast transfection reagent (Promega)
according to the manufacturers protocol. Briefly, HEK 293T cells
grown in 60-mm culture dishes were replated onto 35-mm microwell
culture dishes (MatTek, Ashland, MA) at a density of 2 x
105 cells/dish the day before the transfection.
For transfection, 5 µg of each DNA construct was mixed with 2 ml of
culture medium, and then 15 µl TransFast reagent at a 1:1 charge
ratio of lipid:DNA was added to each DNA/medium mixture and mixed by
vortexing. After incubating at room temperature for 15 minutes, the
medium in each culture dish was replaced with the DNA/medium/lipid
mixture and incubated in the 37°C CO2 incubator
for 2 hours. Then, 1 ml complete DMEM was added. Each fusion construct
was tested at least three times.
Epifluorescence Microscopy
Twelve to 48 hours posttransfection, living cells were
counterstained with SYTO 59 (Molecular Probes, Eugene, OR) at a final
concentration of 5 µm for 30 minutes and examined with an
epifluorescence microscope using a 40x lens. GFP green fluorescence
was detected with standard fluorescein optics (FITC HQ filter set;
Chroma, Brattelboro, VT), whereas the SYTO 59 red fluorescence was
detected with a Texas red filter set (Chroma). The GFP-tagged proteins
were quite bright and easily imaged, but a counterstain was necessary
to clearly identify the boundaries of the nuclei and cells. A variety
of SYTO dyes were tested (SYTO Red Fluorescent Stain Sampler Kit;
Molecular Probes), and SYTO 59 was identified as a live-cell
counterstain that was quite bright in Texas red optics and that did not
produce a signal within FITC optics. A cooled CCD camera (Princeton
Instruments, Trenton, NJ) was used to acquire images of the transfected
cells. The GFP fluorescence signal of the transfected cells was defined
as the signal that exceeded the background, or dark noise, seen in
parts of the images that contained no cells. Images were acquired and
analyzed with IPLab software (Scanalytics Inc., Fairfax, VA).
Scanning Laser Confocal Microscopy
Similar procedures described previously16
were used.
Briefly, transfected living cells with or without the SYTO 59
counterstaining were viewed on a BioRad MRC 600 (Hercules, CA) scanning
laser confocal microscope 12 to 48 hours posttransfection. For
quantification of GFP fluorescence intensity, the 488-nm laser line was
used to examine the transfected cells without the SYTO dye
counterstaining, and the emission was collected with a 510-nm bandpass
filter. For determining the subcellular localization of the Crx fusion
proteins, the SYTO dyecounterstained cells were examined in the same
way, except the use of dual excitations with both FITC and rhodamine
filters. Images were collected with a 100 x 1.4-na or 60 x
1.4-na objective lens and 10% laser. All images were acquired using a
Kalman average of three scans and analyzed with IPLab and IGOR Pro
software (WaveMetrics, Lake Oswego, OR). Image manipulations involved
converting the digital images of GFP and SYTO 59 into 24-bit color
images in which the GFP was represented as green and the SYTO59 red. In
addition, the files were merged to create overlays for comparison. None
of the values in the image files were manipulated except for where
scale bars and boxes were added.
| Results |
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Construct D164 exhibited nuclear localization of the Crx fusion protein (Fig. 2-1) , indicating that the NLS of Crx protein lies within the first 164 amino acids. Construct D106 also produced an exclusive nuclear localization of the fusion protein (Fig. 2-1) . This construct was truncated such that the C-terminal 193 amino acids of Crx were missing, which included one of the putative nuclear localization signals (residues 116122). The strong nuclear signal produced by this construct indicates that residues 116 to 122 do not appear to contain an essential NLS. Two other constructs, D35 and D43 (Fig. 1) , were then constructed to test whether the putative proximal NLS (residues 3643) would serve as a NLS. As shown in Figure 2-1 , the D35 construct with the putative proximal NLS deleted resulted in the fusion protein localized throughout the transfected cells. Surprisingly, the same pattern of localization was also observed in cells transfected with the construct D43 (Fig. 2-1) , carrying the putative proximal NLS, which demonstrates that this NLS is not essential, and that the real NLS is located somewhere between the residue 43 and residue 106.
To further define the region containing the NLS required for nuclear trafficking of the Crx protein, additional deleted Crx fusion constructs (D98, D87, and D78 in Fig. 1 ) were generated. As shown in Figure 2-1 , both D87 and D78 constructs extending to amino acids 87 and 78 resulted in the fusion proteins being localized evenly throughout the cells. In contrast, the majority of cells transfected with the construct D98, which carries the Crx N-terminal 98 residues, including the intact homeodomain, exhibited strong nuclear-predominant fluorescence. These data indicate that there is a NLS located between residues 88 and 98 in the C-terminal end of the Crx homeodomain. However, the D98 construct did not produce exclusive nuclear localization in every cell, and comparing this partial effect with the one produced by the D106 construct (Fig. 3) suggests that the glutamine-rich domain between residues 99 and 106 is also required for the complete nuclear transport of the Crx protein. To confirm that the residues 88 to 98 of the Crx homeodomain is the minimal functional NLS, two mutations were placed at residues 88 and 98 (K88T and R98L, Fig. 4 ) of Crx in the D164 construct. Cells transfected with these constructs exhibited a heterogeneous pattern of fusion protein localization, where cytoplasmic and nuclear localization was detected in 42% to 60% transfected cells and exclusive nuclear localization in the remaining cells (Fig. 2-2) . This indicates that the lysine at position 88 and the arginine at position 98 are important for complete nuclear transport of Crx protein and that the residues 88 to 98 in the homeodomain is the minimal functional NLS of the Crx protein.
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| Discussion |
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Previous studies revealed that Crx can bind to and activate several photoreceptor genes, supporting the idea that Crx functions as a transcription factor.4 5 7 8 Although Crx mRNA has been localized to the photoreceptor cells,4 5 6 the subcellular localization of the Crx protein is unknown but is presumed to be in the nucleus. The data presented here demonstrated that the Crx protein is indeed a nuclear protein, which provides a direct evidence supporting the proposal of Crxs function as a transcription factor.
A Novel NLS in the Crx Protein
The NLS is responsible for targeting proteins to the
nucleus.2
Although sequence analysis indicates residues 36
to 43 and 116 to 122 could be the NLSs of Crx protein, our data show
that they are not functionally essential and that the nuclear
trafficking of Crx protein is mediated by a minimal NLS located at
residues 88 to 98 in the C terminus of the Crx homeodomain. This novel
NLS bears no homology to either the monopartite NLS of the SV40 large T
antigen25
or the bipartite NLS of
nucleoplasmin.26
However, this is not surprising because
many NLS sequences are more complex28
and do not fit these
two classical NLS models.26
29
Contrary to conventional
views, even neutral and acidic amino acids can play crucial roles in
NLSs.30
Could the function of Crx be regulated at the level of posttranslational nuclear trafficking? Crx is critical for photoreceptor differentiation and morphogenesis.4 Cell fate determination is achieved through interactions between both extrinsic and intrinsic factors. One mechanism by which extracellular signals might control pattern is by directing the graded nuclear localization of homeodomain proteins such as extradenticle.31 It is not clear by what extracellular signals and through which pathways of signal transduction, the Crx gene expression is activated during photoreceptor development, nor whether and how the regulatory function of Crx protein on other photoreceptor genes is itself regulated. Crx has a high percentage of serine and threonine residues in the C-terminal half,6 which are potential phosphorylation sites. Perhaps the Crx function could be modulated at the posttranslational level through a regulated nuclear transport by phosphorylation or dephosphorylation.
What is the functional significance of the conserved domains in the Crx protein? The homeodomain is functionally the most characterized region of the Crx protein, whereas the functional significance of other Crx domains have not been characterized.4 Crx and other Otx/otd family members share the conserved polyglutamine domain of residues 99 to 105.5 Our results indicated that this domain appears to be required for complete nuclear transport of the Crx protein. The lysine residue at position nine of the third recognition helix of Crx is highly conserved among the OTX/Otd homeodomain proteins family.4 5 This lysine residue seems to be important for the nuclear transport of these transcription factors. Our results reveal that the Crx homeodomain also plays a critical role in the nuclear trafficking of Crx protein, in addition to its function in DNA recognition and binding.
Disruption of Nuclear Transport of Crx Protein and the Molecular
Pathogenesis of Leber Congenital Amaurosis
Impaired nuclear transport of mutant proteins has been identified
as a contributing factor in the molecular pathology of inherited human
diseases such as Bloom syndrome22
and Werners
syndrome.23
Crx mutations are associated with several
forms of retinal degenerations with a wide range of
phenotypes.6
10
11
12
13
The molecular pathogenesis of how
mutant Crx lead to retinal degeneration has yet to be elucidated. It is
also poorly understood why similar mutations of the Crx gene cause
different clinical phenotypes.6
The R41W and E80A
mutations causing conerod dystrophy6
10
12
reside in the
homeodomain but outside the NLS of Crx, and our data showed that they
did not affect the nuclear localization of the Crx protein. The Crx
R90W mutation was recently found to cause Leber congenital
amaurosis.13
The mutant protein decreased but did not
abolish its binding to rhodopsin promoter in vitro. In transient
transfection, this mutant alone was unable to transactivate the
rhodopsin promoter, although it did not appear to abolish its
transactivating activity in the presence of cotransfected transcription
factor NRL.13
We found that this mutation impairs, but
does not prevent, the nuclear transport of the Crx protein. It seems
possible that the defective nuclear trafficking of the mutant protein
results in less amount of the Crx protein available in the cell nucleus
for transactivating its targeting genes. This may, at least in part,
explain why the mutant protein totally loses transactivating function
without cotransfection of NRL, but still partially retains its DNA
binding activity. Thus, the defective nuclear transport of Crx protein
may contribute to the molecular mechanism of Leber congenital
amaurosis.
NLSs are usually defined by systematic deletion analysis.2 Nevertheless, there can be multiple, redundant NLSs. Although deletions of the putative NLSs did not produce an effect on the nuclear localization of Crx fusion proteins in our study, we cannot formally eliminate the possibility that the putative NLSs are redundant or have an addictive effect on the NLS identified in this study. In addition, nuclear targeting sequences can be of different strengths.28 It will be of interest to test whether this minimal NLS of Crx protein is sufficient to target a nonnuclear protein to the nucleus. Recently, renal epithelial cells have been used successfully to identify a novel apical sorting signal of rod photoreceptorspecific rhodopsin.36 In the present study, we used human embryonic kidney cells to map the NLS of the Crx protein. Although these cells do not normally express Crx, it seems reasonable to expect that they can be used to map NLSs. This speculation is based on the idea that the basic mechanisms of nuclear transport have been highly conserved during evolution.2 Indeed, the nuclear localization signals as well as the nuclear transport machinery are generally conserved between cell types, as exemplified in nucleoplasmin.37 Nevertheless, variations of the efficiency of a NLS can be present among different cell lines,38 so it is possible that photoreceptor cells may use additional cell-specific molecular information to regulate the nuclear transport of the native Crx protein. Further studies in photoreceptor cells will be important to test the findings of the present study and to establish the intracellular localization of the native Crx protein in vivo.
| Acknowledgements |
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| Footnotes |
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Submitted for publication February 3, 2000; revised April 25, 2000; accepted May 12, 2000.
Commercial relationships policy: N.
Corresponding author: Thomas R. Hughes, Department of Ophthalmology and Visual Science, Yale University School of Medicine, BML 232, New Haven, CT 06520. thomas.hughes{at}yale.edu
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