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Copyright © 2008 by The American Society for Cell Biology CENP-O Class Proteins Form a Stable Complex and Are Required for Proper Kinetochore Function *Department of Molecular Genetics, National Institute of Genetics and The Graduate University for Advanced Studies, Mishima 411-8540, Japan; and †Division of Structural Biology, Medical Institute of Bioregulation, Kyushu University, 3-1-1 Maidashi, Fukuoka 812-8582, Japan Ted Salmon, Monitoring Editor Corresponding author.Address correspondence to: Tatsuo Fukagawa (Email: tfukagaw/at/lab.nig.ac.jp) Received June 12, 2007; Revised November 21, 2007; Accepted December 10, 2007. This article has been cited by other articles in PMC.Abstract We previously identified a multisubunit complex (CENP-H/I complex) in kinetochores from human and chicken cells. We showed that the CENP-H/I complex is divided into three functional classes. In the present study, we investigated CENP-O class proteins, which include CENP-O, -P, -Q, -R, and -50 (U). We created chicken DT40 cell knockouts of each of these proteins, and we found that all knockout lines were viable, but that they showed slow proliferation and mitotic defects. Kinetochore localization of CENP-O, -P, -Q, and -50 was interdependent, but kinetochore localization of these proteins was observed in CENP-R–deficient cells. A coexpression assay in bacteria showed that CENP-O, -P, -Q, and -50 proteins form a stable complex that can associate with CENP-R. Phenotype analysis of knockout cells showed that all proteins except for CENP-R were required for recovery from spindle damage, and phosphorylation of CENP-50 was essential for recovery from spindle damage. We also found that treatment with the proteasome inhibitor MG132 partially rescued the severe mitotic phenotype observed in response to release from nocodazole block in CENP-50–deficient cells. This suggests that CENP-O class proteins are involved in the prevention of premature sister chromatid separation during recovery from spindle damage. INTRODUCTION Accurate chromosome segregation during mitosis is essential for the correct transmission of genetic material. A kinetochore is assembled at the centromere of each chromatid of a replicated chromosome, and it forms a dynamic interface with microtubules of the mitotic spindle (Cleveland et al., 2003 ; Fukagawa, 2004 ). Although chromosome segregation errors cause genetic diseases, including some cancers (Yuen et al., 2005 ), the mechanism by which kinetochores interact with microtubules of the spindle apparatus during cell division is not fully understood.New insight regarding the mechanism of chromosome segregation has come from the discovery and characterization of kinetochore proteins (Chan et al., 2005 ). In recent years, many kinetochore proteins have been identified in vertebrate cells by various approaches (Cheeseman et al., 2004 ; Obuse et al., 2004a ,b ; Minoshima et al., 2005 ; Foltz et al., 2006 ; Izuta et al., 2006 ; McAinsh et al., 2006 ; Meraldi et al., 2006 ; Okada et al., 2006 ). Characterization of the cellular functions of each of these proteins and the protein–protein network within cells will lead to an understanding of how kinetochores assemble and function.We previously isolated a large protein complex (CENP-H/I complex), which contains at least 11 components, including CENP-H and CENP-I, and we found that this complex can be divided into three functional classes, based on phenotype analyses (Okada et al., 2006 ). Initial studies of the CENP-H/I complex in chicken and human cells suggested that it is required for proper chromosome alignment and segregation (Okada et al., 2006 ). To further understand the function of the CENP-H/I complex, it is necessary to characterize each class in detail. Here, we present results of functional analyses of CENP-O class proteins, which include CENP-O, -P, -Q, -R, and -50 (U). We created chicken DT40 cell knockouts (KOs) of each of these proteins, and we expressed the proteins in Escherichia coli. The results suggest that these proteins form a stable complex that is required for proper chromosome segregation. We previously showed that CENP-50 is essential for recovery from spindle damage (Minoshima et al., 2005 ). In the present study, we found that all CENP-O class proteins except for CENP-R were required for recovery from spindle damage. Furthermore, we found that treatment with the proteasome inhibitor MG132 partially rescued the severe mitotic phenotype that occurs in response to release from nocodazole block in CENP-50–deficient cells. These results suggest that CENP-O class proteins are involved in the prevention of premature sister chromatid separation during the recovery from spindle damage.MATERIALS AND METHODS Molecular Biology, Cell Culture, and Transfection All plasmids were constructed by standard methods. Disruption constructs for each gene were generated such that genomic fragments encoding several exons were replaced with a histidinol-, neomycine-, or puromycin-resistance cassette under control of the β-actin promoter. Target constructs were transfected with a Gene Pulser II electroporator (Bio-Rad, Hercules, CA). All molecular biological experiments, including Southern blot analysis and Western blot analysis, were followed by standard methods. DT40 cells were cultured and transfected as described previously (Fukagawa et al., 2004 ). All DT40 cells were cultured at 38°C in Dulbecco's modified medium supplemented with 10% fetal calf serum, 1% chicken serum, 2-mercaptoethanol, penicillin, and streptomycin.Immunofluorescence and Image Acquisition Immunofluorescent staining of whole cells was performed as described previously (Okada et al., 2006 ). Cells were collected onto slides with a cytocentrifuge, and then they were fixed in 3% paraformaldehyde in phosphate-buffered saline (PBS) for 15 min at room temperature and permeabilized in 0.5% NP-40 in PBS for 10 min at room temperature or 100% methanol for 15 min at −20°C, rinsed three times in 0.5% bovine serum albumin (BSA) in PBS, and incubated for 1 h at 37°C with primary antibody. Binding of primary antibody was then detected with fluorescein isothiocyanate (FITC)-conjugated goat anti-rabbit immunoglobulin (Ig)G (Jackson ImmunoResearch Laboratories, West Grove, PA) diluted to an appropriate concentration in 0.5% BSA in PBS. Affinity-purified rabbit polyclonal antibodies were generated against recombinant chicken CENP-Q and chicken CENP-R as described previously (Fukagawa et al., 1999 ). Other antibodies used in this study were described previously (Nishihashi et al., 2002 ; Hori et al., 2003 ; Minoshima et al., 2005 ; Okada et al., 2006 ). Chromosomes and nuclei were counterstained with 4,6-diamidino-2-phenylindole (DAPI) at 0.2 μg/ml in Vectashield Antifade (Vector Laboratories, Burlingame, CA). All immunofluorescence images were collected with a cooled charge-coupled device camera (CoolSNAP HQ, Photometrics Image Point; Photometrics, Tucson, AZ) mounted on an IX71 inverted microscope (Olympus, Tokyo, Japan) with a 60× objective lens (PlanApo 60×, numerical aperture [NA] 1.40) together with a filter wheel. All subsequent analysis and processing of images were performed using IPLab software (Signal Analytics, Vienna, VA).Live-Cell Observations For live-cell imaging, a histone H2B-red fluorescent protein (RFP) plasmid is transfected into CENP-Q–deficient cells to visualize chromosomes. Fluorescently stained living cells were observed with an IX71 inverted microscope with an oil immersion objective lens (PlanApo 60×, NA 1.40) in temperature-controlled box to keep temperature at 38°C. Time-lapse images were recorded at 3-min intervals with an exposure time of 0.2–0.3 s. Spindle Damage Recovery Assay Cells were treated with 1.7 μM nocodazole for 10–12 h, and cells were washed with fresh medium several times. Cells were put into fresh medium in the presence or absence of 10 μM MG132, and they were cultured at 38°C. At the indicated time points, cells were collected and examined by Hoechst33342 staining. Morphology of chromosomes and nuclei of the cells were observed and scored. More than 1000 cells were scored for each time point. Protein Expression and Analysis Coexpression of CENP-O class proteins was performed by cloning the cDNAs for each protein into pST39 (a gift from S. Tan, The Pennsylvania State University, University Park, PA; Tan, 2001 ). The cDNA for CENP-R was cloned into pCOLADuet-1 (Novagen, Madison, WI). Protein expression in BL21-codon Plus (DE3)-RIL E. coli was induced with 0.5 mM isopropyl β-d-thiogalactoside for 2 h at 37°C, and the proteins were purified using nickel-nitrilotriacetic acid (Ni-NTA) beads (QIAGEN, Valencia, CA). The eluted protein from the Ni-NTA beads with elution buffer (50 mM Na phosphate, pH 8.0, 0.3 M NaCl, 0.3 M imidazole, 0.1% NP-40, and 1 mM β-mercaptoethanol) was fractionated on a Superose 6 gel filtration column in elution buffer. DT40 cells (1 × 109 cells) that express CENP-50-FLAG or CENP-P-FLAG were lysed in 5 ml of lysis buffer (50 mM Na phosphate, pH 8.0, 0.3 M NaCl, 0.1% NP-40, 5 mM β-mercaptoethanol, complete protease inhibitor [Roche Diagnostics, Mannheim, Germany], and 20 U/ml DNase I [Takara, Kyoto, Japan]), centrifuged at 20,000 × g for 10 min at 4°C, and then a supernatant fraction was collected. Anti-FLAG M2-beads (Sigma, Tokyo, Japan) was incubated with the supernatant fraction for 2 h at 4°C and washed with lysis buffer and eluted with lysis buffer in the presence of 3× FLAG peptide (Sigma). The eluted protein complex was fractionated on a Superose 6 gel filtration column in 50 mM Na phosphate, pH 8.0, 0.3 M NaCl, 0.3 M imidazole, 0.1% NP-40, and 1 mM β-mercaptoethanol at 4°C.RESULTS KO Cell Lines of CENP-O Class Proteins Are Viable but Show Slow Proliferation Rates We previously proposed the CENP-O class of proteins containing CENP-O, -P, -Q, -R, and -50, and we reported the creation of DT40 cell line KOs for CENP-O, CENP-P, and CENP-50 (Minoshima et al., 2005 ; Okada et al., 2006 ). To further elucidate the function of CENP-O class proteins, we generated DT40 cell line KOs of the other two proteins in the class (CENP-Q and CENP-R), and we compared the phenotypes of all of these KO cell lines. CENP-Q- or CENP-R-KO constructs were generated such that genomic fragments encoding several exons were replaced with drug-resistance cassettes (Supplemental Figure S1, A and B). We then transfected each construct into DT40 cells, and we isolated homozygous CENP-Q−/− or CENP-R−/−/− clones. We confirmed that CENP-Q or CENP-R protein was not expressed by Western blot analysis with anti-CENP-Q or anti-CENP-R antibody (Supplemental Figure S1, Ac and Bc). All KO cell lines of CENP-O class were viable. We then compared the proliferation rates of these KO cell lines with that of wild-type (WT) DT40 cells (Figure 1
To determine relations between CENP-O class proteins, we created a double-KO cell line (4-46), in which both CENP-P and CENP-50 proteins were not expressed by Western blot analysis (Supplemental Figure S1C). Cells from the 4-46 line were viable, and the proliferation rate (11.8 h) was slower than that of WT cells (Figure 1 To determine the mechanism for the slow proliferation of CENP-O–, -P–, -Q–, or -50–deficient cells and cells deficient in both CENP-P and CENP-50, we performed cell-cycle analysis of CENP-O class KO cells and WT cells. We measured cellular DNA content and DNA synthesis by fluorescence-activated cell sorting (FACS) after pulse labeling with bromodeoxyuridine (BrdU) (Figure 1 We previously showed that a slight accumulation of the G2/M phase fraction in CENP-50–deficient cells is due to a defect in normal mitotic progression (Minoshima et al., 2005 ). The doubling time of DT40 cells is ~8–12 h. Therefore, differences in population of G2/M phase between CENP-O class KO cells and WT cells of several percentages points correspond to approximately a 1-h difference on the growth curve. We then measured numbers of mitotic and apoptotic cells in cells with KOs of CENP-O class proteins (Figure 1To analyze mitotic defects in individual cells, we transfected the histone H2B-RFP plasmid into CENP-Q–deficient cells to visualize nuclei and chromosomes and observed the behavior of individual cells by microscopy at 38°C. Microscopic images were typically obtained at 3-min intervals, and chromosomes within individual cells were observed through an entire mitotic cycle. Time-lapse observations of WT and CENP-Q–deficient cells are shown in Figure 1 ). Thus, cells with KOs of CENP-O class proteins went through the cell cycle, and kinetochore-microtubule interaction and chromosome movements occurred. However, it took longer for KO cells to complete mitosis, and we observed increased numbers of apoptotic cells in KO cells cultures. Considering these data, we concluded that CENP-O class proteins are required for proper kinetochore function, although cells with KOs of CENP-O class proteins are viable.Role of CENP-O Class Proteins in Kinetochore Assembly CENP-O class proteins localize constitutively to the kinetochore throughout the cell cycle, and we are interested in how each CENP-O class protein is involved in kinetochore assembly. We generated antibodies against each CENP-O class protein, and we assessed the localization of these proteins in each KO cell line. We observed typical kinetochore staining with each CENP-O class antibody in WT cells, whereas kinetochore staining was abolished in CENP-O–, -P–, -Q–, or -50–deficient cells (Figure 2
CENP-O class proteins were originally identified as members of the CENP-H/I complex, and we previously showed that some members of CENP-O class do not localize to kinetochores in CENP-H- or CENP-I–deficient cells (Minoshima et al., 2005 ; Okada et al., 2006 ), suggesting that localization of CENP-O class proteins occurs downstream of that of CENP-H and CENP-I. To test this idea, we assessed the localization of CENP-Q and CENP-R in CENP-H–deficient cells (Figure 2 ; Okada et al., 2006 ; unpublished results). These results support the idea that CENP-O class proteins are required for proper kinetochore function.We also found that the amounts of both CENP-P and CENP-O were decreased in cells deficient in either CENP-O or CENP-P and that the amounts of both CENP-50 and CENP-Q were decreased in cells deficient in either CENP-50 or CENP-Q (Figure 2 CENP-O Class Proteins Form a Discrete Complex KO cells of CENP-O class proteins, with the exception of CENP-R, show similar phenotypes. Our present results in KO cells also suggest that CENP-O class proteins form a discrete complex (Figure 2 ; Kline et al., 2006 ) (Figure 3
To confirm that the stable complex forms in DT40 cells, we created a cell line (3xFLAG-CENP-50) in which expression of CENP-50 was replaced with that of CENP-50-FLAG. Whole-cell extract was prepared from 3xFLAG-CENP-50 cells, and immunoprecipitation was performed with anti-FLAG antibody. Immunoprecipitates were subjected to gel filtration chromatography, and each fraction was analyzed by Western blot analysis with several antibodies against CENP-O class proteins. CENP-O class proteins cofractionated with one peak nearly coincident with that observed for the recombinant protein complex purified from bacterial cells (Figure 3 CENP-O Class Proteins Are Required for Recovery from Spindle Damage Although we propose that CENP-O class proteins are required for proper kinetochore function, mutant cells lacking expression of CENP-O class proteins are viable. However, we found that some KO cells of CENP-O class proteins died after chromosome missegregation (Figure 1 ), WT cells progressed to G1 phase immediately, and <10% were mitotic at 6 h after release from nocodazole block (Figure 4
The observed phenotype indicates that CENP-O, -P, -Q, and -50 are required for recovery from spindle damage. We propose that CENP-50 functions cooperatively with CENP-O, -P, and -Q (and in part with CENP-R). An important question is how CENP-50 and other CENP-O class proteins are involved in the recovery from spindle damage. We previously reported that the distance between sister kinetochores in CENP-50–deficient cells is increased after long nocodazole treatment (Minoshima et al., 2005 ). To gain further information regarding the function of CENP-O class proteins, we added the proteasome inhibitor MG132 in the culture of cells released from nocodazole block. In the absence of MG132, we observed severe mitotic defects 4 h after release from nocodazole block in CENP-50-KO cells (Figure 4Phosphorylation of CENP-50 Is Essential for Recovery from Spindle Damage Our data suggested that CENP-50 is involved in the prevention of premature sister chromatid separation and for recovery from spindle damage. We found that CENP-50 is highly phosphorylated in cells treated with nocodazole (Figure 5 reported that human CENP-50 (referred as PBIP1) is a target of polo-like kinase 1 (PLK1) in human HeLa cells. We also found that CENP-O class proteins copurified with PLK1 by a proteomics approach (Hori, Cheeseman, and Fukagawa, unpublished observations). Kang et al. (2006) also reported that S77 and T78 in human CENP-50 are critical sites for association or phosphorylation by PLK1. We found that S77 and T78 in human CENP-50 are highly conserved sites, corresponding to S62 and T63 in chicken CENP-50 (Figure 5
CENP-50 functions in association with other CENP-O class proteins. Therefore, it is possible that 62.63A mutation of CENP-50 affects kinetochore localization or protein amounts of CENP-O class proteins. Degradation or mislocalization of CENP-O class proteins may affect the ability to recover from spindle damage. Therefore, we performed Western blot analysis to examine the stability of CENP-O class proteins in 62.63A/17-15 cells (Figure 5 As mentioned, there are many potential phosphorylation sites in the CENP-50 sequence (Supplemental Figure S2). Because we found that CENP-50 phosphorylation was reduced by treatment of a cyclin-dependent kinase (CDK) inhibitor, we focused on potential CDK phosphorylation sites (T99, S112, S145, S148, and S151) and predicted additional phosphorylation sites around the CDK sites by using the NetPhos 2.0 software (http://www.cbs.dtu.dk/services/NetPhos/). In total, 16 potential serine/threonine phosphorylation sites in the chicken CENP-50 sequence were predicted (Supplemental Figure S2). We created a mutant cDNA of chicken CENP-50 in which all 16 of these sites were substituted with alanine (16×A cDNA), and we transfected it into tetracycline-repressible 17-15 cells. We isolated a cell line expressing 16×A cDNA(16×A/17-15 cells), and we confirmed that the amount of the phosphorylated band of CENP-50 was reduced (Figure 5 Kinetochore Localization of PLK1 Is Dependent on CENP-O Class Proteins, Especially in the G2 Phase We showed that the amount of phosphorylated CENP-Q was reduced in 62.63A/17-15 cells expressing CENP-50 cDNA with mutated phosphorylation sites (Figure 5
DISCUSSION We previously isolated a CENP-H/I complex containing at least 11 components, and we found that this complex can be divided into three functional classes based on phenotype analysis (Okada et al., 2006 ). We defined CENP-O, -P, -Q, -R, and -50 as CENP-O class proteins. In the present study, we created single KO cell lines for CENP-Q and CENP-R and a double-KO cell line for CENP-P and CENP-50. We analyzed all KO cell lines for CENP-O class proteins. With a combination of genetic and biochemical approaches, we showed that CENP-O class proteins form a stable complex. Protein stability experiments with KO cells indicated that CENP-P is closely associated with CENP-O, CENP-50 is closely associated with CENP-Q, and CENP-R functions downstream of all other CENP-O class proteins (Figure 2CENP-O class proteins are not required for cell proliferation under normal conditions. However, they seem to be required for recovery from spindle damage. We previously reported that CENP-50 is involved in sister chromatid adhesion during spindle checkpoint activation (Minoshima et al., 2005 ). In the present study, we showed that all CENP-O class proteins except for CENP-R are essential for recovery from spindle damage, and that treatment with the proteasome inhibitor MG132 partially rescued the severe mitotic phenotype observed in response to release from nocodazole block in CENP-50–deficient cells. We also showed that phosphorylation of S62 and T63 in CENP-50 is essential for the recovery from spindle damage. We therefore propose a model for the function of CENP-O class proteins in the recovery from spindle damage (Figure 7 ). There are reports in which the pathway of cohesin removal, which requires PLK1, is proteolysis independent (Tang et al., 2004 ; Kitajima et al., 2005 ; Resnick et al., 2006 ). Our findings related to CENP-O class proteins are distinct from the proteolysis-independent pathway of cohesin removal.
We sometimes observed mitotic defects in nonnocodazole treated CENP-Q–deficient cells (Figure 1 ). We have created CENP-50-KO mice, and we observed that these mice die during early embryogenesis (our unpublished data). Cell division early during embryogenesis must be performed under strict conditions for completion of several developmental steps such as differentiation and proliferation. The function of CENP-O class proteins may be essential under these conditions. It will be interesting to determine how the mechanism of chromosome segregation differs between differentiated and undifferentiated cells. We think that CENP-O class proteins are key players in relation to this question. Determination of the molecular and biochemical properties of the CENP-O class complex will be necessary to understand the biological function of this complex.[Supplemental Materials]
ACKNOWLEDGMENTS We thank K. Suzuki, M. Takahashi, and K. Kita for technical assistance. We also thank S. Tan for pST39 plasmid and I. M. Cheeseman for unpublished information about PLK1. This work was supported by grants-in-aid for scientific research from the Ministry of Education, Science, Sports and Culture of Japan. Footnotes This article was published online ahead of print in MBC in Press (http://www.molbiolcell.org/cgi/10.1091/mbc.E07-06-0556) on December 19, 2007. REFERENCES
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