Advertisement
JBC

HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
QUICK SEARCH:   [advanced]


     

Originally published In Press as doi:10.1074/jbc.M606566200 on August 16, 2006

J. Biol. Chem., Vol. 281, Issue 41, 30941-30946, October 13, 2006
This Article
Right arrow Abstract Freely available
Right arrow Full Text (PDF)
Right arrow All Versions of this Article:
281/41/30941    most recent
M606566200v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Right arrow Citation Map
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowRequest Permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Nagashima, K.
Right arrow Articles by Hishida, T.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Nagashima, K.
Right arrow Articles by Hishida, T.
Social Bookmarking
Add to CiteULike   Add to Complore   Add to Connotea   Add to Del.icio.us   Add to Digg   Add to Reddit   Add to Technorati  
What's this?

Degradation of Escherichia coli RecN Aggregates by ClpXP Protease and Its Implications for DNA Damage Tolerance*

Kohji Nagashima{ddagger}, Yoshino Kubota{ddagger}, Tatsuya Shibata{ddagger}, Chikako Sakaguchi{ddagger}, Hideo Shinagawa{ddagger}§, and Takashi Hishida{ddagger}1

From the {ddagger}Laboratory of Genome Dynamics, Research Institute for Microbial Diseases, Osaka University, Osaka 565-0871 and §BioAcademia, Inc., Osaka 565-0085, Japan

Received for publication, July 11, 2006 , and in revised form, August 16, 2006.


   ABSTRACT
TOP
 ABSTRACT
INTRODUCTION
 EXPERIMENTAL PROCEDURES
 RESULTS AND DISCUSSION
 REFERENCES
 
Protein degradation in bacteria plays a dynamic and critical role in the cellular response to environmental stimuli such as heat shock and DNA damage and in removing damaged proteins or protein aggregates. Escherichia coli recN is a member of the structural maintenance of chromosomes family and is required for DNA double strand break (DSB) repair. This study shows that RecN protein has a short half-life and its degradation is dependent on the cytoplasmic protease ClpXP and a degradation signal at the C terminus of RecN. In cells with DNA DSBs, green fluorescent protein-RecN localized in discrete foci on nucleoids and formed visible aggregates in the cytoplasm, both of which disappeared rapidly in wild-type cells when DSBs were repaired. In contrast, in {Delta}clpX cells, RecN aggregates persisted in the cytoplasm after release from DNA damage. Furthermore, analysis of cells experiencing chronic DNA damage revealed that proteolytic removal of RecN aggregates by ClpXP was important for cell viability. These data demonstrate that ClpXP is a critical factor in the cellular clearance of cytoplasmic RecN aggregates from the cell and therefore plays an important role in DNA damage tolerance.


   INTRODUCTION
TOP
 ABSTRACT
 INTRODUCTION
EXPERIMENTAL PROCEDURES
 RESULTS AND DISCUSSION
 REFERENCES
 
DNA double strand breaks (DSBs)2 are major threats to the genomic integrity of cells. DSBs can be caused by exogenous and endogenous agents such as ionizing radiation and chemical mutagens and by endogenously produced radicals or as a result of replication arrest and/or collapse of the replication fork (1, 2). DSBs are lethal if unrepaired and if repaired improperly may result in genome instability such as mutations, genomic rearrangements, and chromosome loss. Therefore, the repair of DSBs is crucial for cell survival and for maintaining the integrity of the genome.

In Escherichia coli, the RecBCD pathway of homologous recombination is responsible for the repair of DSBs. RecBCD initially processes broken ends into 3' single-stranded DNA tails by its helicase nuclease activities (2). These single-stranded DNA tails then invade homologous duplex DNA via a RecA-mediated mechanism. However, the RecF pathway, which is another RecA-dependent recombination pathway, can also promote DSB repair when the RecBCD pathway is inactivated by mutations (e.g. recBC sbcBC). E. coli recN has two SOS boxes in the promoter region of recN that confer inducibility on recN in response to SOS signaling (3, 4). Mutation of recN reduces conjugational recombination in recBC sbcBC strains (3, 5), suggesting that RecN is part of the RecF pathway of recombination. However, in contrast to the other genes of the RecF pathway, mutations in recN do not restore resistance to thymineless death (6), and there is evidence suggesting that the RecN protein is also required for RecBCD-dependent repair of DSBs (6, 7). Recently, it was shown that RecN is required to repair chromosomal breaks at a specific location by I-SceI endonuclease (8). Furthermore, recN mutants are sensitive to ionizing radiation and mitomycin C but not to UV irradiation (5). Thus, RecN does not fall clearly into either pathway of recombination, but rather it may be involved in the repair of DNA DSBs by homologous recombination.

RecN contains an extensive centrally located coiled-coil domain and globular N- and C-terminal domains containing nucleotide binding Walker A and Walker B motifs, respectively, which are characteristic of the SMC (structural maintenance of chromosomes) family (9, 10). SMC proteins play fundamental roles in DNA replication and/or chromosomal segregation by maintaining and modulating chromosome structure in prokaryotic and eukaryotic cells. Recent studies show that SMC proteins also play roles in global gene regulation, cell cycle checkpoints, and DNA repair and that the functions of SMC proteins and their non-SMC subunits are regulated by post-translational modification (11-15).

In this study, we show that RecN protein is degraded by the cytoplasmic energy-dependent protease ClpXP in a manner dependent upon the signal residues at the C terminus of RecN. Furthermore, we also show that in {Delta}clpX cells, DNA damage-inducible RecN formed visible aggregates in the cytoplasm that persisted after release from DNA damage and were deleterious to cell survival. These data demonstrate that proteolytic removal of toxic RecN aggregates plays an important role in efficient recovery after release from DNA damage and is therefore crucial for cell homeostasis.


   EXPERIMENTAL PROCEDURES
TOP
 ABSTRACT
 INTRODUCTION
 EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
 REFERENCES
 
Media and General Methods—Standard methods for E. coli genetics and recombinant DNA techniques were as described by Miller (16) and Sambrook et al. (17). Ampicillin (50 µg/ml), tetracycline (10 µg/ml), chloramphenicol (100 µg/ml), and kanamycin (30 µg/ml) were used where indicated. The source of ionizing radiation was 60Co with an output of 20 grays/min.


Figure 1
View larger version (55K):
[in this window]
[in a new window]
  		FIGURE 1.
RecN is a substrate for ClpXP protease. A, Western blot of RecN from cells taken at the indicated times after irradiation with {gamma}-rays (200 grays). The asterisk indicates a nonspecific band. B, cells were incubated in the presence of MMC (0.5 µg/ml) at 37 °C for 60 min, and then chloramphenicol (100 µg/ml) was added at time zero. The half-life was examined by Western blotting with anti-RecN antibody. C, the RecN levels of whole cell extracts from lon, hslV, ftsH, clpP, clpX, and clpA deletion cells after addition of chloramphenicol. D, the C terminus of RecN is required for its degradation. Wild-type cells were transformed with low copy plasmids carrying truncated recN down-stream of its native SOS-inducible promoter. Cells were analyzed as in panel B. E, the C-terminal sequence of RecN is similar to the ssrA degradation tag. Alignment between C-terminal RecN residues (544-553) and the SsrA tag is shown. Bold letters indicate hydrophilic residues. F, the proteolytic stability of RecN and RecNDD. {Delta}recN cells containing SOS-inducible recN (pRecN) or rec-NDD (pRecNDD) plasmids were analyzed as in panel B.

 
Bacterial Strains and Plasmids—The strains that we used in this study were isogenic with BW25141 (18) except for ftsH null mutants. Wild-type and deletion mutants were provided by National BioResource Project (39). The ftsH sfhC mutant was a gift from T. Ogura (19). A fragment containing the SOS promoter and open reading frame of recN was cloned into the low copy plasmid pSCH19 (20), giving pRecN. RecN was tagged with an enhanced green fluorescent protein cassette at its N terminus, giving pSG101. Arabinose-inducible recN (pTF270) or GFP-recN (pTF271) was constructed by cloning the recN or GFP-recN gene into pTF200 (21). All recN mutants were generated by PCR and replaced with the wild-type recN gene of pRecN. The structure of recombinant plasmids was confirmed by DNA sequencing.

Sensitivity to Mitomycin C (MMC)—For quantitative assays, cells were grown to early log phase in Luria Bertani (LB) (or LB containing ampicillin where appropriate) at 37 °C. MMC (1 µg/ml) was added, and aliquots were taken at the indicated times. The percent survival was determined by plating dilutions of the culture on LB or LB containing ampicillin. Colonies were counted after 20 h. The results are the mean of at least five independent experiments.

In Vivo Degradation and Western Blot Analysis—In vivo degradation assays were carried out as described previously (22). Exponentially growing cultures (A600 ~ 0.3) were treated with 0.5 µg/ml MMC for 1 h at 37 °C. Then, 100 µg/ml of chloramphenicol was added to stop protein synthesis. Aliquots (1 x 108 cells) were taken at the indicated times and centrifuged. Cells were rapidly frozen in liquid nitrogen, resuspended in SDS loading buffer (50 mM Tris-HCl at pH 6.8, 7 M urea, 2 M thiourea, 0.1 M NaCl, 2% SDS, 0.1% bromphenol blue, 10% glycerol, and 2% 2-mercaptoethanol), and lysed by boiling. Samples were analyzed by SDS-PAGE as described previously (23). Western blotting was performed with the ECL Advance Western blotting kit (GE Healthcare) using anti-RecN antibody. Antibody against RecN was raised against purified His-tagged full-length RecN.

Fluorescence Microscopy—Cells were fixed with methanol and then stained with 1 µg/ml DAPI (4',6'-diamidino-2-phenylindole). The results of GFP fluorescence analysis were not affected by fixation. Fluorescence microscopy was performed on a Zeiss Axioplan2 (23). Scale bars of 5 or 10 µm are shown in the figures.


   RESULTS AND DISCUSSION
TOP
 ABSTRACT
 INTRODUCTION
 EXPERIMENTAL PROCEDURES
 RESULTS AND DISCUSSION
REFERENCES
 
RecN Is Unstable in Vivo—We examined the translational and post-translational regulation of RecN in stressed and unstressed cells. Cells were transiently exposed to {gamma}-irradiation to generate DNA DSBs, and RecN stability was monitored using anti-RecN antibody. In wild-type cells exposed to ionizing radiation, RecN protein was dramatically induced within 20 min (Fig. 1A), which is consistent with the fact that E. coli recN is a member of the SOS regulon (3, 4). Notably, RecN rapidly declined to near basal levels within 160 min after exposure to ionizing radiation (Fig. 1A). The fact that RecN is transiently induced in irradiated cells suggests that RecN is unstable or that its stability is regulated in stressed cells. To directly examine the stability of RecN in vivo, we quantified its level in cells exposed to MMC followed by protein synthesis inhibitor chloramphenicol. The level of RecN protein increased rapidly for 60 min in the presence of 0.5 µg/ml MMC at 37 °C; however, after addition of chloramphenicol, RecN was rapidly degraded with a half-life of ~8 min (Fig. 1B). Thus, RecN is unstable and has a short half-life under these conditions.

RecN Is a Substrate for ClpXP Protease—In E. coli, targeted intracellular proteolysis is largely carried out by energy-dependent proteases encoded by lon, hslV, clpP, and ftsH (24, 25). Because RecN might be a substrate for one or more of these proteases, RecN stability was examined in lon, hslV, clpP, and ftsH mutant strains. FtsH is essential for viability (26), so the ftsH null strain also carried the suppressor mutation sfhC. The results indicated that the stability of RecN was significantly greater in the clpP deletion strain, but not in other protease-deficient strains (Fig. 1C), suggesting that RecN is a substrate for a ClpP-dependent protease. ClpP protein associates with either of two ATPases, ClpA or ClpX, to form two distinct proteolytic complexes, ClpAP and ClpXP, that are remarkably similar to the 26S proteasome in eukaryotic cells (27-29). To determine whether RecN is degraded by ClpXP, ClpAP, or both, the stability of RecN was measured in clpX and clpA mutants. The experiments showed that RecN was rapidly degraded in the {Delta}clpA strain, but not in the {Delta}clpX strain (Fig. 1C). Recently, Neher et al. (30) reported that proteomic profiling of ClpXPtrap substrates after DNA damage revealed extensive instability within the SOS regulon and identified RecN as one of the proteins targeted for ClpXP degradation. Thus, our results, taken together with those of previous studies, support the conclusion that RecN is a substrate for ClpXP protease.


Figure 2
View larger version (35K):
[in this window]
[in a new window]
  		FIGURE 2.
RecN foci in cells with or without DNA damage. A, GFP-RecN functions in vivo. Three serial dilutions of the indicated strains were spotted on LB plates with or without MMC (0.5 µg/ml) and incubated at 37 °C for 16 h. B, GFP-RecN foci formed in response to MMC-induced DNA damage. Cells containing SOS-inducible GFP-recN (pSG101) were treated with 0.5 mg/ml MMC for the indicated times at 37 °C. The upper and lower panels show DAPI and GFP images, respectively. C, subcellular localization of a GFP-RecN focus formed in response to MMC-induced DNA damage. The panels show GFP, DAPI, and GFP/DAPI-merged images of cells at 60 min after incubation in the presence of MMC. D, RecN focus formation in anucleate cells. clpX cells containing pSG101 were treated with MMC for 60 min, released into fresh MMC-free LB medium, and further incubated at 37 °C for 120 min. Cells were observed with fluorescent microscopy. An anucleate cell containing a RecN focus is indicated by a white arrow. E, localization of the GFP-RecN focus in the absence or presence of DNA damage. Cells containing an arabinose-inducible GFP-recN gene (pTF271) were exposed to {gamma}-rays (200 grays) followed by the addition of arabinose (0.04%) to induce GFP-recN. The panels show GFP, DAPI, and GFP/DAPI-merged images of cells at 30 min after incubation in the presence of arabinose. Glucose control is shown at the right. F, quantitative analysis of GFP-RecN foci. For cells with or without {gamma}-rays, ~300 cells were examined.

 
The C Terminus of RecN Is Required for Its Degradation—The stability of RecN was also measured in strains expressing truncated forms of RecN composed of N-terminal (DI or DI-II), C-terminal (DII-III), or central (DII) fragments of RecN. Cells were treated with MMC to induce the truncated forms of RecN and then treated with chloramphenicol, and the level of RecN was measured by Western blotting. The C-terminal fragment (DII-III) was rapidly degraded after addition of chloramphenicol (Fig. 1D). In contrast, the N-terminal or central fragments (DI, DII, or DI-II) were much more stable (Fig. 1D). These results indicate that the C-terminal fragment of RecN is essential for ClpXP-mediated degradation of RecN.

Previous studies showed that ClpX recognizes short signals called degradation tags near the N or C terminus of its protein substrates (31-33). One of the better characterized degradation tags is SsrA, an 11-amino acid peptide (AANDENYALAA) that is attached co-translationally to the C terminus of nascent polypeptides when ribosomes stall (34). Notably, the C-terminal sequence of RecN is very similar to the SsrA degradation tag (Fig. 1E), suggesting that the C-terminal residues of RecN might be a signal for ClpXP-mediated degradation. This idea was tested by carrying out site-directed mutagenesis on alanine residues in the C-terminal sequence of RecN. Thus, both alanines 552 and 553 in RecN were substituted with aspartic acid, generating RecND552A-D553A (RecNDD). Wild-type RecN and RecNDD were cloned into a low copy plasmid and expressed from its native promoter. As shown in Fig. 1F, RecNDD was induced by MMC and was extremely stable in the presence of chloramphenicol, indicating that the C-terminal sequence of RecN is essential for ClpXP-mediated degradation of RecN.

Intracellular Localization of RecN in Cells with DNA Damage—The expression and stability of RecN were examined in vivo using an SOS-regulated N-terminal fusion between GFP and RecN. GFP-RecN was expressed from a low copy plasmid under its native promoter, and its localization was monitored using fluorescence microscopy. Control experiments established that GFP-RecN fully complemented the repair deficiency of a recN deletion strain (Fig. 2A) and that the level of GFP-RecN was comparable with that of RecN expressed from its native promoter on the chromosome (data not shown). Thus, wild-type RecN and GFP-RecN appear to function similarly in vivo.


Figure 3
View larger version (37K):
[in this window]
[in a new window]
  		FIGURE 3.
ClpXP degraded cytoplasmic RecN aggregates after release from MMC treatment. A, cells containing pSG101 (SOS-inducible GFP-recN) were treated with 0.5 mg/ml MMC for 60 min, released into fresh LB medium without MMC, and further incubated at 37 °C. At the indicated times after release from MMC treatment, cells were observed by fluorescent microscopy. At the same time points, aliquots of whole cell extracts were analyzed by Western blotting with anti-RecN antibody. B, quantitative analysis of GFP-RecN after release from MMC treatment. Filled squares and filled circles indicate the percentage of cells with RecN foci and cytoplasmic RecN foci, respectively. For each of the strains, ~300 cells were examined. C, accumulation of RecNDD after release from DNA damage. Cells containing SOS-inducible GFP-recN or GFP-recNDD plasmids were treated as in panel A. The panel shows DAPI and GFP images of cells 100 min after removal of MMC.

 
During the exponential phase of growth, no GFP-RecN focus formation was observed. After exposure to MMC for 60 min, ~85% of treated cells contained GFP-RecN foci (Fig. 2B). This result is consistent with previous results indicating that Bacillus subtilis RecN-YFP forms foci in cells with DNA DSBs (35). Notably, the merged image between the DAPI and GFP images revealed that GFP-RecN was localized not only as a discrete focus on the nucleoid but also at the cell poles in the cytoplasm (Fig. 2C). These foci are not detected in cells expressing GFP as a control (data not shown). In addition, RecN foci were also observed in anucleoid cells (Fig. 2D), suggesting that cytoplasmic GFP-RecN foci represent nonspecific RecN aggregates. This is also supported by the facts that E. coli RecN protein readily forms large protein aggregates (8) and protein aggregates are generally likely to accumulate at cell poles in the cytoplasm in bacteria.

The results described above indicate that the expression of recN is temporally restricted and tightly regulated in cells with DNA damage. The subcellular localization of RecN foci in vivo was examined in greater detail using cells expressing GFP-RecN from the inducible araC promoter. Cells were grown to mid-log phase, exposed to {gamma}-rays, and immediately transferred to arabinose-containing medium to induce GFP-RecN. Control cells were not irradiated and/or not exposed to arabinose. The results showed that cytoplasmic (95% of total cells), but not nucleoid-associated (<5%), GFP-RecN foci formed in unirradiated cells exposed to arabinose, whereas both cytoplasmic (91%) and nucleoid-associated (83%) GFP-RecN foci formed in irradiated cells exposed to arabinose (Fig. 2, E and F). GFP foci were not observed in glucose-containing medium (Fig. 2E). Similar results were obtained in cells with MMC-induced DNA damage (data not shown). These results suggest that DNA DSBs trigger formation of nucleoid-associated GFP-RecN foci.

ClpXP-degraded Cytoplasmic RecN Aggregates after Release from MMC Treatment—GFP-RecN foci were also characterized in {Delta}clpX cells. Wild-type and mutant cells expressing SOS-inducible GFP-RecN were treated with MMC (0.5 µg/ml) for 60 min, transferred to medium lacking MMC, and allowed to recover for 2 h at 37 °C. After treatment with MMC for 60 min, cells were filamented and >80% of cells contained GFP-RecN foci (Fig. 3A, at time zero). Western analysis revealed that MMC-induced GFP-RecN is degraded after transfer to medium lacking MMC in wild-type cells, but not in {Delta}clpX cells (Fig. 3A). Consistently, in wild-type cells, nucleoid-associated and cytoplasmic GFP-RecN foci disappeared rapidly (Fig. 3, A and B). In contrast, in {Delta}clpX cells, whereas nucleoid-associated GFP-RecN foci disappeared after transfer to medium lacking MMC, cytoplasmic GFP-RecN foci persisted for 2 h and were transmitted to daughter cells when cell division resumed in MMC-free medium (Fig. 3, A and B). Furthermore, GFP-Rec-NDD also persisted in the form of cytoplasmic RecN aggregates after release from DNA damage (Fig. 3C). These data indicate that ClpXP degrades cytoplasmic RecN foci in cells with DNA damage.

Degradation of Cytoplasmic RecN Aggregates by ClpXP Is Important for Cell Viability—Non-native polypeptides that tend to form protein aggregates can have toxic effects and ultimately cause human disease (36, 37). Therefore, the role of RecN aggregates in promoting survival and/or DNA repair in cells with DNA damage was examined by measuring cell survival in wild-type, {Delta}recN, and {Delta}clpX cells treated with MMC. When cells were treated with MMC for 1 h, cell survival was lower in {Delta}recN cells than in wild-type cells, but similar in {Delta}clpX and wild-type cells (Fig. 4A). However, when cells were treated with MMC for relatively long periods of time (~10 h), cell survival was lower in {Delta}clpX cells than in wild-type cells (Fig. 4B). To determine whether excess levels of cytoplasmic RecN aggregates are responsible for low cell viability, we examined the MMC sensitivity of {Delta}recN cells harboring a low copy number plasmid that expresses RecN or RecNDD. The cell survival of {Delta}recN cells expressing RecNDD was similar to the survival of those expressing wild-type RecN after 1 h of exposure to MMC (Fig. 4C) but was lower than the survival of those expressing wild-type RecN after 10 h of exposure to MMC (Fig. 4D). These results suggest that cytoplasmic RecN aggregates may negatively affect cell survival in stressed cells with chronic DNA damage, thus confirming the functional roles of the targeting of RecN for degradation by ClpXP. One possible explanation for these results is that the accumulated RecN aggregates in {Delta}clpX or recNDD cells might lead to sequestration of de novo RecN protein and/or other DNA repair proteins and specifically interfere with DNA repair pathways. Indeed, this toxic effect caused by RecN aggregates is specific to cells with DNA damage, because wild-type and {Delta}clpX cells had similar viability (>90%) in the absence of DNA damage even if RecN aggregates were induced in wild-type or {Delta}clpX cells harboring the arabinose-inducible recN plasmid (data not shown). It should be noted that MMC-treated {Delta}clpX cells had lower survival than MMC-treated recNDD cells (Fig. 4, B and D). This probably reflects the fact that ClpXP carries out targeted degradation of multiple cellular proteins (22, 30, 38), and therefore the accumulation of these proteins might also affect the survival of {Delta}clpX cells exposed to MMC.


Figure 4
View larger version (30K):
[in this window]
[in a new window]
  		FIGURE 4.
Degradation of cytoplasmic RecN aggregates by ClpXP is important for cell viability. MMC sensitivity of clpX and recN cells. The symbols represent the percentage of surviving wild-type (circles), {Delta}clpX (squares), and {Delta}recN (triangles) cells after 1 (A) or 10 (B) h of exposure to MMC. Survival of {Delta}recN/pSCH19 (triangles), {Delta}recN/pRecN (circles), and {Delta}recN/pRecNDD (squares) cells after 1 (C) or 10 (D) h of exposure to MMC. In A-D, MMC sensitivity was determined as described under "Experimental Procedures." Results are means of at least three independent determinations.

 
Because cells are frequently exposed to various environmental stimuli such as heat shock or DNA damage, adaptation to changing conditions or efficient recovery after their release is crucial for cell homeostasis. Targeted intracellular proteolysis by energy-dependent proteases is an essential component of many response pathways. This study showed that RecN protein is degraded by the ClpXP protease in a manner dependent upon the signaling residues at the C terminus of RecN. In addition, DNA damage-induced RecN forms both nucleoid-associated and cytoplasmic foci. Formation of the former is triggered specifically by DNA damage, and degradation of the latter requires ClpXP after DNA damage. In {Delta}clpX cells, cytoplasmic RecN aggregates persist after the release from DNA damage and are deleterious to cell survival when they accumulate to deleterious levels in stressed cells with chronic DNA damage. These data suggest that ClpXP is involved in efficient recovery after the release from DNA damage by promoting the turnover of DNA damage-inducible RecN protein and is therefore crucial for cell homeostasis in stressed cells with DNA damage. Thus, the present findings provide evidence that intracellular proteolysis is an essential component of DNA damage tolerance that allows cells to survive repeated cycles of DNA breakage and repair. Further studies will advance our understanding of the complex interplay between protein quality control and DNA damage tolerance.


   FOOTNOTES
 
* This work was supported by the Yamada Science Foundation, by a grant-in-aid from the Ministry of Education, Science, Sport, and Culture, and by Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology Agency. The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact. Back

1 To whom correspondence should be addressed: Laboratory of Genome Dynamics, Research Inst. for Microbial Diseases, Osaka University, 3-1 Yamadaoka, Suita, Osaka 565-0871, Japan. Tel.: 81-6-6879-8318; Fax: 81-6-6879-8320; E-mail: hishida{at}biken.osaka-u.ac.jp.

2 The abbreviations used are: DSB, DNA double strand break; SMC, structural maintenance of chromosome; GFP, green fluorescent protein; LB, Luria Bertani; DAPI, 4',6-diamidino-2-phenylindole; MMC, mitomycin C. Back


   ACKNOWLEDGMENTS
 
We thank Teru Ogura for strains. We also thank Hironori Niki and Hiroshi Iwasaki for valuable suggestions.



   REFERENCES
TOP
 ABSTRACT
 INTRODUCTION
 EXPERIMENTAL PROCEDURES
 RESULTS AND DISCUSSION
 REFERENCES
 

  1. Cox, M. M., Goodman, M. F., Kreuzer, K. N., Sherratt, D. J., Sandler, S. J., and Marians, K. J. (2000) Nature 404, 37-41[CrossRef][Medline] [Order article via Infotrieve]
  2. Kowalczykowski, S. C. (2000) Trends Biochem. Sci. 25, 156-165[CrossRef][Medline] [Order article via Infotrieve]
  3. Lloyd, R. G., Picksley, S. M., and Prescott, C. (1983) Mol. Gen. Genet. 190, 162-167[CrossRef][Medline] [Order article via Infotrieve]
  4. Finch, P. W., Chambers, P., and Emmerson, P. T. (1985) J. Bacteriol. 164, 653-658[Abstract/Free Full Text]
  5. Sargentini, N. J., and Smith, K. C. (1983) Radiat. Res. 93, 461-478[Medline] [Order article via Infotrieve]
  6. Picksley, S. M., Attfield, P. V., and Lloyd, R. G. (1984) Mol. Gen. Genet. 195, 267-274[CrossRef][Medline] [Order article via Infotrieve]
  7. Wang, T. C., and Smith, K. C. (1988) J. Bacteriol. 170, 2555-2559[Abstract/Free Full Text]
  8. Meddows, T. R., Savory, A. P., Grove, J. I., Moore, T., and Lloyd, R. G. (2005) Mol. Microbiol. 57, 97-110[CrossRef][Medline] [Order article via Infotrieve]
  9. Haering, C. H., Lowe, J., Hochwagen, A., and Nasmyth, K. (2002) Mol. Cell 9, 773-788[CrossRef][Medline] [Order article via Infotrieve]
  10. Hirano, T. (2005) Philos. Trans. R. Soc. Lond. B Biol. Sci. 360, 507-514[CrossRef][Medline] [Order article via Infotrieve]
  11. Nasmyth, K. (2001) Annu. Rev. Genet. 35, 673-745[CrossRef][Medline] [Order article via Infotrieve]
  12. Yazdi, P. T., Wang, Y., Zhao, S., Patel, N., Lee, E. Y., and Qin, J. (2002) Genes Dev. 16, 571-582[Abstract/Free Full Text]
  13. Losada, A., and Hirano, T. (2005) Genes Dev. 19, 1269-1287[Abstract/Free Full Text]
  14. Lehmann, A. R. (2005) DNA Repair (Amst.) 4, 309-314[CrossRef][Medline] [Order article via Infotrieve]
  15. Haering, C. H., and Nasmyth, K. (2003) BioEssays 25, 1178-1191[CrossRef][Medline] [Order article via Infotrieve]
  16. Miller, J. H. (1992) A Laboratory Manual and Handbook for Escherichia coli and Related Bacteria, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
  17. Sambrook, J., Fritsch, E. F., and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual, 2nd Ed., Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
  18. Datsenko, K. A., and Wanner, B. L. (2000) Proc. Natl. Acad. Sci. U. S. A. 97, 6640-6645[Abstract/Free Full Text]
  19. Tatsuta, T., Tomoyasu, T., Bukau, B., Kitagawa, M., Mori, H., Karata, K., and Ogura, T. (1998) Mol. Microbiol. 30, 583-593[CrossRef][Medline] [Order article via Infotrieve]
  20. Iwasaki, H., Shiba, T., Nakata, A., and Shinagawa, H. (1989) Mol. Gen. Genet. 219, 328-331[CrossRef][Medline] [Order article via Infotrieve]
  21. Shibata, T., Hishida, T., Kubota, Y., Han, Y. W., Iwasaki, H., and Shinagawa, H. (2005) Genes Cells 10, 181-191[Abstract/Free Full Text]
  22. Neher, S. B., Flynn, J. M., Sauer, R. T., and Baker, T. A. (2003) Genes Dev. 17, 1084-1089[Abstract/Free Full Text]
  23. Hishida, T., Han, Y. W., Shibata, T., Kubota, Y., Ishino, Y., Iwasaki, H., and Shinagawa, H. (2004) Genes Dev. 18, 1886-1897[Abstract/Free Full Text]
  24. Porankiewicz, J., Wang, J., and Clarke, A. K. (1999) Mol. Microbiol. 32, 449-458[CrossRef][Medline] [Order article via Infotrieve]
  25. Gottesman, S. (1999) Curr. Opin. Microbiol. 2, 142-147[CrossRef][Medline] [Order article via Infotrieve]
  26. Qu, J. N., Makino, S. I., Adachi, H., Koyama, Y., Akiyama, Y., Ito, K., Tomoyasu, T., Ogura, T., and Matsuzawa, H. (1996) J. Bacteriol. 178, 3457-3461[Abstract]
  27. Katayama, Y., Gottesman, S., Pumphrey, J., Rudikoff, S., Clark, W. P., and Maurizi, M. R. (1988) J. Biol. Chem. 263, 15226-15236[Abstract/Free Full Text]
  28. Gottesman, S., Clark, W. P., de Crecy-Lagard, V., and Maurizi, M. R. (1993) J. Biol. Chem. 268, 22618-22626[Abstract/Free Full Text]
  29. Wang, J., Hartling, J. A., and Flanagan, J. M. (1998) J. Struct. Biol. 124, 151-163[CrossRef][Medline] [Order article via Infotrieve]
  30. Neher, S. B., Villen, J., Oakes, E. C., Bakalarski, C. E., Sauer, R. T., Gygi, S. P., and Baker, T. A. (2006) Mol. Cell 22, 193-204[CrossRef][Medline] [Order article via Infotrieve]
  31. Levchenko, I., Yamauchi, M., and Baker, T. A. (1997) Genes Dev. 11, 1561-1572[Abstract/Free Full Text]
  32. Gottesman, S., Roche, E., Zhou, Y., and Sauer, R. T. (1998) Genes Dev. 12, 1338-1347[Abstract/Free Full Text]
  33. Flynn, J. M., Neher, S. B., Kim, Y. I., Sauer, R. T., and Baker, T. A. (2003) Mol. Cell 11, 671-683[CrossRef][Medline] [Order article via Infotrieve]
  34. Keiler, K. C., Waller, P. R., and Sauer, R. T. (1996) Science 271, 990-993[Abstract]
  35. Kidane, D., Sanchez, H., Alonso, J. C., and Graumann, P. L. (2004) Mol. Microbiol. 52, 1627-1639[CrossRef][Medline] [Order article via Infotrieve]
  36. Dobson, C. M. (2003) Nature 426, 884-890[CrossRef][Medline] [Order article via Infotrieve]
  37. Muchowski, P. J., and Wacker, J. L. (2005) Nat. Rev. Neurosci. 6, 11-22[CrossRef][Medline] [Order article via Infotrieve]
  38. Gonzalez, M., Rasulova, F., Maurizi, M. R., and Woodgate, R. (2000) EMBO J. 19, 5251-5258[CrossRef][Medline] [Order article via Infotrieve]
  39. Baba, T., Ara, T., Hasegawa, M., Takai, Y., Okumura, Y., Baba, M., Datsenko, K. A., Tomita, M., Wanner, B. L., and Mori, H. (2006) Mol. Syst. Biol. 2, 2006.0008

Add to CiteULike CiteULike   Add to Complore Complore   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us   Add to Digg Digg   Add to Reddit Reddit   Add to Technorati Technorati    What's this?


This article has been cited by other articles:


Home page
 Infect. Immun.Home page
G. Wang and R. J. Maier
A RecB-Like Helicase in Helicobacter pylori Is Important for DNA Repair and Host Colonization
Infect. Immun., January 1, 2009; 77(1): 286 - 291.
[Abstract] [Full Text] [PDF]

This Article
Right arrow Abstract Freely available
Right arrow Full Text (PDF)
Right arrow All Versions of this Article:
281/41/30941    most recent
M606566200v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Right arrow Citation Map
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowRequest Permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Nagashima, K.
Right arrow Articles by Hishida, T.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Nagashima, K.
Right arrow Articles by Hishida, T.
Social Bookmarking
Add to CiteULike   Add to Complore   Add to Connotea   Add to Del.icio.us   Add to Digg   Add to Reddit   Add to Technorati  
What's this?

HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
 All ASBMB Journals   Molecular and Cellular Proteomics 
 Journal of Lipid Research   ASBMB Today 
Copyright © 2006 by the American Society for Biochemistry and Molecular Biology.
Advertisement
spacer
Advertisement
Advertisement