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Vol. 17, Issue 1, 336-344, January 2006
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* Laboratory for Molecular Biology, University of Wisconsin, Madison, WI 53706;
Department of Genetics, University of Wisconsin, Madison, WI 53706; and
Department of Anatomy, University of Wisconsin, Madison, WI 53706
Submitted September 20, 2005;
Accepted October 20, 2005
Monitoring Editor: Martin Chalfie
| ABSTRACT |
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| INTRODUCTION |
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car-1 encodes a predicted protein of 340 amino acids with a glycine-rich region near the C-terminus that includes several clustered RGG (and similar) motifs suggestive of an RGG box (Burd and Dreyfuss, 1994
). RGG boxes are found in numerous RNA-binding proteins, although usually in combinations with other RNA-binding motifs. CAR-1 belongs to a family of novel Sm-like proteins (Albrecht and Lengauer, 2004
) and homologues of CAR-1 in other species, including the amphibian RAP55 (RNA-associated protein of 55 kDa; Lieb et al., 1998
; 46% identical over 337 aa), yeast Scd6p/Lsm13p (suppressor of clathrin deficiency 6-like Sm protein; Nelson and Lemmon, 1993
; 31% identical over 316 aa), fly Trailer Hitch (51% identical over 336 aa), and human C19orf13 (34% identical over 319 aa). The similarity of CAR-1 to RAP55 and Scd6p/Lsm13p suggests an association of this protein with RNA metabolism and/or membrane trafficking. The homology of CAR-1 to Scd6p/LSM13p, in the context of the late cytokinesis failure in C. elegans, suggests that CAR-1 may provide a link between membrane trafficking pathways and the final stages of cytokinesis worthy of investigation.
| MATERIALS AND METHODS |
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tubulin (C. Malone, strain shared before publication), GFP::ZEN-4 (Kaitna et al., 2000
RNAi Treatment
car-1 RNAi was performed using the feeding method (Timmons et al., 2001
) and embryonic lethality approached 100% after 36 h. L4 animals were fed for 30-48 h at 20°C on bacteria expressing dsRNA for the Y18D10A.17 gene (Zipperlen et al., 2001
), with the exception of ZEN4::GFP worms which were fed for 24-30 h at 25°C. RNAi of zen-4 was also performed via the feeding method, with L4 animals fed for 24-30 h at 20°C before examination. RNAi of dcap-1 (Y55F3AM.12) performed either via the ingestion method (Kamath et al., 2003
) or by injection of dsRNA into the hermaphrodite gonad (Fire et al., 1998
) at a concentration of
1.25 µg/µl. Embryos were examined 48 h after treatment. Both methods yielded the same results.
mCAR-1::GFP Construction and Localization
STO cells (ATCC, Manassas, VA) are an established cell line derived from mouse embryonic fibroblasts. These cells were cultured in 10% calf serum and DMEM (Invitrogen, Carlsbad, CA). The mouse embryonic stem (ES) cell line used was HM1 (Magin et al., 1992
). These ES cells were grown in 15% fetal calf serum and DMEM. The mCAR-1::GFP fusion expression vector was made by generating a PCR product using ES cell cDNA (from ES cell total mRNA) as a template and primers designed from the sequence of the predicted CAR-1 homologue in mice (2700023B17Rik, Accession number NM_025948
[GenBank]
). The full-length PCR product was cloned into the pEGFP-N1 expression vector (Clontech, Palo Alto, CA). This plasmid was used to transiently transfect mouse ES cells, mouse fibroblasts (STO cells), normal murine mammary (NMuMG) (ATCC) cells, and NIH Swiss 3T3 (ATCC) cells using Lipofectamine-mediated gene transfer (Invitrogen). The pEGFP vector only transfection served as a control. Twenty-four hours after transfection, cells were fixed for 15 min in 4% paraformaldehyde (Fisher Scientific, Fair Lawn, NJ), rinsed, and mounted in Vectashield (Vector Laboratories, Burlingame CA). Cells were viewed with a confocal microscope (MRC600; Bio-Rad, Hercules CA).
Antibody Production
Rabbit polyclonal antibodies were generated against bacterial-expressed full-length CAR-1::GST. Protein production, antibody production, and affinity purification were performed by Proteintech Group (Chicago, IL). Rabbit polyclonal antibodies for DCAP-1 were generated against a GST-fusion protein (amino acids 1-333) of DCAP-1 (sequence name Y55F3AM.12, GenBank AC024826
[GenBank]
), which is 22, 27, and 28% identical to Saccharomyces cerevisiae Dcp1p, human DCP1A, and human DCP1B, respectively, in the region comprising the Pfam Dcp-1-like decapping family group. Animal inoculations and serum collection were performed by Cocalico Biologicals (Reamstown, PA).
Labeling
Antibody Labeling. Embryos were labeled with antibodies using the freeze/crack method (Sulston and Hodgkin, 1988
) and fixation in 100% methanol (Fisher Scientific). Primary antibody incubation was overnight at 4°C, in 0.5% BSA (Sigma, St. Louis, MO) in PBST (phosphate-buffered saline [PBS] + 0.25% Tween 20; Sigma). Secondary antibody incubation (1:200) was 2 h at room temperature in PBST. Primary antibodies used were rabbit
CAR-1 (1:10 or 1:50); rabbit
DCAP-1 (1:1000 or 1:5000); rabbit
PGL-1 (1:10,000 provided by Susan Strome's lab; Kawasaki et al., 1998
); and mouse
tubulin (1:100 DM1
from Sigma). Secondary antibodies used were conjugated with either Alexa488 or Alexa568 (Molecular Probes, Eugene, OR). For propidium iodide (PI) labeling, methanol-fixed embryos were incubated for 20 min in PI (0.1 µg/ml in PBS; Sigma).
Membrane Labeling. Labeling of membrane of living embryos was achieved by puncturing the eggshell using a laser microbeam (Mohler et al., 1998
; Wokosin et al., 2003
), permitting the ingression of the bath medium: egg buffer (118 mM NaCl, 48 mM KCl, 3 mM CaCl2, 3 mM MgCl2, 5 mM HEPES, pH 7.2; Sigma) containing 100 µM FM 2-10 (Molecular Probes).
Microscopy
4D recording of live embryos using Nomarski optics were performed as previously described (Thomas et al., 1996
; Skop et al., 2001
). Time-lapse recordings of fluorescently labeled living embryos were collected as previously described (Mohler and Squirrell, 2000
; White et al., 2001
) using multiphoton microscopy (Wokosin et al., 2003
). Fluorescently labeled fixed tissue (GFP or antibody) were mounted in Vectashield (Vector Laboratories) and examined with either confocal microscopy (MRC 600; Bio-Rad) or multiphoton microscopy using 890-nm wavelength (effective excitation
445 nm) and a 480- to 550-nm bandpass filter for the green emission and a 580-nm long pass filter for the red emission. Data were viewed and analyzed with ImageJ (Wayne Rasband, http://rsb.info.nih.gov/ij/).
Quantitation
To determine the change in the population of puncta with development, the number of small GFP::CAR-1 puncta were counted in a single optical plane at different developmental stages in living embryos imaged with multiphoton microscopy. The area of the embryo in which the puncta were counted was used to generate the puncta/µ2 value. To determine the number of CAR-1 puncta containing DCAP-1, puncta were counted in fixed embryos (4-16 cell stage) expressing GFP::CAR-1 and labeled with
DCAP-1 antibody. A single optical plane was analyzed per embryo, with the P-cell being eliminated from the analysis to prevent confusion with P-granule labeling.
| RESULTS |
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To determine the effect of CAR-1 depletion on spindle function, we examined GFP::tubulin dynamics in car-1(RNAi) embryos using time-lapse multiphoton microscopy and observed a conspicuous lack of the tightly bundled microtubules that form the midbody (Powers et al., 1998
), although astral microtubules appeared normal (Figure 2B and Supplementary Movies 3 and 4). The spindle poles of these car-1(RNAi) embryos separated further in anaphase than in wild type (Figure 2E), a phenotype consistent with the lack of a spindle midzone holding the centrosomes together during anaphase B (Grill et al., 2001
; Verbrugghe and White, 2004
).
To further investigate this apparent lack of spindle midzone, we assessed the localization of two spindle midzone components, ZEN-4 (Mishima et al., 2002
) and SPD-1 (Verbrugghe and White, 2004
) in car-1(RNAi) embryos. GFP::ZEN-4 localized to metaphase chromosomes, as previously reported for the wild-type embryo (Verbrugghe and White, 2004
). After the metaphase to anaphase transition, GFP::ZEN-4 dissociated from the chromosomes and associated with some of the microtubules in the midzone region (Figure 2C) but was less focused than in wild type. Although car-1(RNAi) embryos did not exhibit the wild-type accumulation of GFP::ZEN-4 in the spindle midbody at late telophase (Powers et al., 1998
; Raich et al., 1998
), GFP::ZEN-4 did associate with the cleavage furrow (Figure 2C) as also occurs in the wild type (Verbrugghe and White, 2004
). GFP::SPD-1 behaved similar to GFP::ZEN-4. It rapidly associated with microtubules at the metaphase to anaphase transition, as in the wild type, but did not accumulate at the spindle midbody. However, GFP::SPD-1 did localize normally to cytoplasmic microtubules (Figure 2D). Thus the cell-cycle-regulated association of ZEN-4 and SPD-1 to microtubules at anaphase onset occurred normally in car-1(RNAi) embryos but the dense association of these proteins usually seen at the midbody at telophase was absent. These observations suggest that the defects caused by CAR-1 depletion are not general microtubule defects but rather are specific to the spindle midzone.
CAR-1 Localizes to Cytoplasmic Puncta
We localized CAR-1 in embryos using both an antibody prepared against bacterially expressed CAR-1 as well as a reporter expressing GFP::CAR-1. Fluorescence signals of both GFP::CAR-1 and the antibody labeling were extinguished in car-1(RNAi) embryos, thereby demonstrating the specificity of the reagents (Supplementary Figure 1, A and B). CAR-1 localized diffusely throughout the cytoplasm, weakly to the mitotic spindle in the GFP::CAR-1 strain and strongly to large and small puncta (mean large = 1.0 ± 0.3 µm; mean small = 0.5 ± 0.1 µm; N = 8 embryos and 40 puncta of each category; Figure 3A).
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In addition to the strongly labeled puncta, labeled CAR-1 could be found in the spindle region during mitosis (Figure 3C, Supplementary Movie 6) in live C. elegans embryos. The intensity of this signal increased as mitosis progressed and, as the chromosomes separated, the signal extended along the elongating spindle to include the pericentriolar region, resembling the organization of the ER (Poteryaev et al., 2005
; Figure 3C).
Large CAR-1 Puncta Are P-Granules and the Small Puncta Are Putative Cytoplasmic RNA-processing Sites
The large CAR-1 puncta were confined to the germplasm and colocalized with PGL-1 (Figure 4A), a component of P-granules (Kawasaki et al., 1998
). P-granules are ribonuclear protein (RNP) particles that segregate asymmetrically in the embryo, accumulate in the germplasm, and are essential for germline development (Strome and Wood, 1983
). Although car-1(RNAi) embryos were abnormal because of the cytokinesis defect, and PGL-1 labeling was somewhat more diffuse, suggestive of some effect of CAR-1 depletion on PGL-1 localization, PGL-1 was still found in large, posteriorly localized granules (Figure 4B). Similarly, GFP::CAR-1 localized properly in pgl-1(ct131) mutants (Figure 4B). Thus, PGL-1 and CAR-1 localization to P-granules are not codependent. Other P-granule components have been found to localize independently of each other, even when they coimmunoprecipitate or interact in a yeast two-hybrid assay (Kawasaki et al., 2004
).
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PGL-1 antibody (Figure 4B). The similarity of CAR-1 to the Xenopus RNP protein Rap55, along with its localization to P-granules, suggest that these small puncta may be sites of RNA storage and/or processing. We found that CAR-1-positive particles also labeled with the nucleic acid label PI (Figure 4C), indicating that these small puncta, as well as the P-granules, contain RNA. This pattern of cytoplasmic PI labeling was clearly distinct from the published pattern of mitochondria organization (Badrinath and White, 2003
The presence of RNA in the small CAR-1 puncta imply a resemblance to the cytoplasmic "processing bodies" (P-bodies) of yeast (Sheth and Parker, 2003
) and cytoplasmic foci of human cells involved in mRNA turnover and include the decapping complex component, DCP1 (van Dijk et al., 2002
; Cougot et al., 2004
). To investigate the possibility that the small CAR-1-containing puncta are analogous to P-bodies, we labeled embryos with an antibody to C. elegans homologue of DCP1, DCAP-1. DCAP-1 localized diffusely throughout the cytoplasm, with prominent concentrations of signal in discrete cytoplasmic foci (Figure 4D), which was absent in dcap-1(RNAi) embryos (Supplementary Figure 1). DCAP-1 puncta were numerous during pronuclear migration, when CAR-1 foci were few in number (see above). After pronuclear centration two populations of DCAP-1 foci were evident: large particles that segregated to the posterior cell and smaller puncta scattered in the cytoplasm of both cells. The large foci contained PGL-1 (unpublished data), identifying them as P-granules. The small DCAP-1-containing foci colocalized with CAR-1 (Figure 4E). Not all DCAP-1 puncta label with GFP::CAR-1 although most small CAR-1 puncta labeled with
DCAP-1 (DCAP-1 only = 67%; CAR-1 only = 2%; both DCAP-1 and CAR-1 = 31%; N = 1014 puncta in 12 embryos). DCAP-1 localization was unaltered in car-1(RNAi) embryos and CAR-1 localization was unaltered in dcap-1(RNAi) embryos (Figure 4F), indicating that each does not require the presence of the other for localization. RNAi depletion of DCAP-1 did not result in cytokinesis defects (unpublished data), suggesting that the role of CAR-1 in cytokinesis may not directly involve this decapping protein. However, the presence of DCAP-1 in CAR-1 puncta suggests that the puncta are, indeed, similar to RNA decay particles described in yeast and human cells.
CAR-1 Puncta Associate with ER Structures and Depletion of CAR-1 Disrupts ER Organization
The homology of CAR-1 to Scd6/Lsm13 in yeast suggests a possible link between CAR-1 and membrane dynamics. This connection is supported by our observation that CAR-1 depletion prevented the accumulation of membrane at the scission site after cytokinesis (Figure 1B). The ER undergoes distinct cell cycle-dependent organizational changes in the C. elegans embryo that correlate with cytokinesis and are independent of microtubules (Poteryaev et al., 2005
). When embryos expressing GFP::SP12, an ER protein (Poteryaev et al., 2005
), were labeled with the CAR-1 antibody, an association of CAR-1 puncta with ER structures was observed. We found that the small CAR-1 puncta were generally situated on or next to ER structures (Supplementary Figure 2). More compelling is the functional link between CAR-1 and ER dynamics. In wild-type embryos, the organization of the ER cycles in a distinct, cell cycle-dependent manner between a "dispersed" state during interphase to a highly ordered "reticulate" state during mitosis, which rapidly disassembles as the cleavage furrow ingresses (Poteryaev et al., 2005
; Figure 5, Supplementary Movie 7). This organization was disrupted in car-1(RNAi) embryos, even before the onset of cytokinesis. Although some indications of the reticulate organization could be identified in mitotic car-1(RNAi) embryos (Figure 5, Supplementary Movie 8), the reticulation was not as well formed as in nontreated embryos, with much of the ER existing as abnormal diffuse patches or thick strands. The spindle and midzone associated ER was sparse in car-1(RNAi) embryos (Figure 5). Abnormal patches and strands of ER were also present after mitosis, when the ER returned to a dispersed state.
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| DISCUSSION |
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Several proteins involved in RNA metabolism have unexpected roles in cytokinesis (Liu et al., 2002
; Makarov et al., 2002
; Oeffinger and Tollervey, 2003
; Kittler et al., 2004
). Recently, work in Xenopus egg extracts indicates that RNA may play a translation-independent role in the mitotic spindle, possibly providing stability to the mitotic apparatus (Blower et al., 2005
). The authors demonstrate that an mRNA export factor, Rae1, a member of an RNP complex, is important for spindle assembly and can associate with Rap55, the Xenopus homologue of CAR-1. This observation supports the possibility that the presence of CAR-1 in the anaphase spindle could regulate the integrity of the spindle midbody.
We demonstrate that reduced expression of CAR-1 in the C. elegans early embryo leads to highly penetrant defects in scission. The failure of these embryos to form a spindle midbody may, at least in part, explain the cytokinesis failures. However, a spindle midbody may not be strictly required for successful cytokinesis in the early C. elegans embryo (Bringmann and Hyman, 2005
) provided midzone components are present on the advancing furrow (Verbrugghe and White, 2004
). ZEN-4 was present on the cleavage furrow of car-1(RNAi) embryos, suggesting that the lack of the spindle midzone alone may not be a sufficient explanation for the scission failures in car-1(RNAi) embryos. The absence of membrane accumulation at the scission site, along with alterations in ER organization, show that the lack of CAR-1 perturbs membrane dynamics. Because a role for membrane trafficking in scission has been identified (Skop et al., 2001
; Low et al., 2003
), the lack of membrane traffic to the apex of the late cleavage furrow in CAR-1 depleted embryos could explain the cytokinesis defect. The scission failures and ER organization of car-1(RNAi) embryos are reminiscent of those induced by BFA, which inhibits Golgi-derived membrane traffic (Skop et al., 2001
, Poteryaev et al., 2005
). In both car-1(RNAi) and BFA-treated embryos the striking accumulation of membrane that normally occurs at the scission site is absent and the ER does not undergo its proper structural changes.
A direct role for CAR-1 in membrane trafficking is suggested in budding yeast by the observation that elevated expression of Scd6p/LSM13p, the homologue of CAR-1, suppresses the lethal phenotype associated with clathrin deficiency (Nelson and Lemmon, 1993
). We observed that the distribution of GFP::CAR-1 at anaphase resembled the organization of the ER around the spindle at this time. Time-lapse video recordings suggest that some small puncta may originate from this spindle region (Supplementary Movie 6). The ARF-1 GTPase regulates COPI vesicle budding from the Golgi to the ER. Inhibition of ARF-1 by RNAi or BFA treatment causes changes of ER appearance (Poteryaev et al., 2005
) that are similar, although not identical, to those seen with car-1(RNAi). Additionally, disruption of Axs, a protein that colocalizes with ER ensheathing the spindle in Drosophila, causes spindle assembly defects (Kramer and Hawley, 2003
). Because one of the key functions of the ER is to regulate levels of free cytoplasmic calcium (Putney and Ribeiro, 2000
), the reduction of ER around the spindle in car-1(RNAi) embryos may result in a destabilization of the spindle microtubules through high levels of free calcium (Salmon and Segall, 1980
), due to a lack of ER calcium buffering, leading to the observed lack of spindle midzone, ultimately causing the failure in cytokinesis. CAR-1 may contribute to the stability of the spindle midzone, possibly by facilitating the accumulation of ER around the spindle midzone. The observation that CAR-1 decorates the mitotic spindle along with the ER, together with evidence in Xenopus that RNA and RNPs are important for spindle stability (Blower et al., 2005
), suggests that CAR-1, perhaps in conjunction with associated RNA binding proteins and their bound RNAs, is required for regulating the morphology of the ER in the vicinity of the spindle.
We have shown that CAR-1 is required for scission in the early embryo and is associated with RNA processing complexes. Also we show that CAR-1 depletion disrupts the structure of the ER and the spindle midzone after the metaphase to anaphase transition. Recent observations have shown that Trailer Hitch (a homologue of CAR-1 in Drosophila) is associated with ER exit points and is required for targeted secretion of Gurken (Wilhelm et al., 2005
). Also it has been shown that RNA is important for spindle stability in Xenopus (Blower et al., 2005
) and RNA complexes can bind membranes directly (Vlassov et al., 2001
). We suggest a model as to how CAR-1 may function, probably as part of an RNP complex, to link the three seemingly disparate cellular processes of ER organization, RNA association, and scission site stability. We propose that CAR-1 functions in embryonic cytokineses as part of an RNA-regulated, membrane-associated exit point complex required for spatial differentiation of the ER. In this model, CAR-1 would contribute, at metaphase, to organizing the ER in close association with the mitotic spindle where the ER could regulate the local calcium concentration in the spindle (Parry et al., 2005
), allowing the midzone microtubules to remain stable (Salmon and Segall, 1980
) at a time when cytoplasmic microtubules are being depolymerized. As the cell transitions into anaphase and telophase, the CAR-1 complex forms exit points (Wilhelm et al., 2005
) in the spindle-associated ER where the membrane (Low et al., 2003
; Skop et al., 2004
) and glycoproteins (Wang et al., 2005
) required for completion of cytokinesis can be released at the scission site. At the completion of cytokinesis, specific RNAs required for the cytokinesis exit points are degraded, possibly in a CAR-1-dependent manner, thereby disabling the formation of this ER specialization until the next cell cycle.
| ACKNOWLEDGMENTS |
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| Footnotes |
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Abbreviations used: RNAi, dsRNA interference; RNP, ribonucleoprotein; ER, endoplasmic reticulum.
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The online version of this article contains supplemental material at MBC Online (http://www.molbiolcell.org). ![]()
Address correspondence to: John G. White (jwhite1{at}wisc.edu).
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