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1 Department of Biology (Area 10), University of York, Heslington, York YO10 5YW, UK
2 Department of Microbiology, Faculty of Medicine, Chiangmai University, Chiangmai 50200, Thailand
3 Department of Molecular Biosciences, Centre for Molecular Biology and Neuroscience, University of Oslo, 0316 Oslo, Norway
Correspondence
James W. B. Moir
jm46{at}york.ac.uk
| ABSTRACT |
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| INTRODUCTION |
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We have proposed an organization for the respiratory chain of N. meningitidis, based on genome sequence analysis and experimental analysis with specific inhibitors (Deeudom et al., 2006
). The nitric oxide reductase of N. meningitidis appears more similar to the quinol-oxidizing nitric oxide reductase (qNOR) than the cytochrome c-oxidizing NOR (cNOR) (de Vries & Schröder, 2002
), and hence it was proposed that the nitric oxide reductase receives its electrons directly from the ubiquinone pool. This was confirmed experimentally by showing that nitric oxide reduction is insensitive to the cytochrome bc1 complex inhibitor myxothiazol. Contrastingly, the reduction of the other two electron acceptors (oxygen and nitrite) is very sensitive to myxothiazol. The enzymes responsible for these reductase reactions typically receive their electrons from c-type cytochromes in other micro-organisms, and hence it was proposed that these two enzymes terminate the electron-transport chain downstream of the cytochrome bc1 complex and c-type cytochromes (Deeudom et al., 2006
). The genome of N. meningitidis MC58 reveals the presence of genes encoding three putative c-type cytochromes that might mediate the transfer of electrons between the cytochrome bc1 complex and the reductases for oxygen and nitrite. These three c-type cytochromes are conserved within the genomes of other N. meningitidis strains and in Neisseria gonorrhoeae.
Gene NMB0717 (from N. meningitidis MC58) is predicted to encode a periplasmic mono-haem cytochrome with a molecular mass of 12.5 kDa. We call the putative product of this gene cytochrome cx. A homologue of NMB0717, cytochrome c552 from Thermus thermophilus, has been proposed to transfer electrons between the cytochrome bc1 complex and ba3 oxidase in that organism (Muresanu et al., 2006
). BLAST searching reveals that the predicted protein sequences with closest similarity to NMB0717, outside of the Neisseria homologues, are predicted copper-type nitrite reductases in Bdellovibrio bacteriovorus, Pseudoalteromonas haloplanktis and several Burkholderia species. In these organisms, the gene for the copper nitrite reductase (homologous to the nitrite reductase gene, aniA, of N. meningitidis) is fused to a cytochrome domain homologous to NMB0717. This suggests a possible role for cytochrome cx in transfer of electrons to nitrite reductase in N. meningitidis.
Gene NMB1805 is predicted to encode a periplasmic di-haem cytochrome with a molecular mass of 21.5 kDa. We call the putative product of this gene cytochrome c4, consistent with the nomenclature for the homologous gene (also known as cycA) from N. gonorrhoeae (Turner et al., 2005
). Cytochrome c4 homologues are found in many other proteobacteria and a crystal structure has been found for the protein from Pseudomonas stutzeri (Kadziola & Larsen, 1997
). Both haem groups are hexacoordinated, consistent with a role in electron transfer, rather than enzyme catalysis.
Gene NMB1677 is predicted to encode a membrane-associated di-haem cytochrome with a molecular mass of 30 kDa. We call the putative product of this gene cytochrome c5, consistent with the nomenclature for the homologous gene (also known as cycB) from N. gonorrhoeae (Turner et al., 2005
). The protein contains a predicted N-terminal membrane span, followed by two soluble domains containing two covalently bound haems located within the periplasm. The second haem-containing domain of cytochrome c5 bears a striking similarity (74 % identity) to a region of the cytochrome cbb3 oxidase subunit III (encoded by ccoP) from N. gonorrhoeae. CcoP from N. gonorrhoeae is predicted to contain three haem groups, whereas CcoPs from other organisms that have been characterized contain just two haem domains (Pitcher & Watmough, 2004
). Indeed, the predicted CcoP from N. meningitidis contains two haems. The similarity of cytochrome c5 to a domain of the oxidase immediately suggests a role for cytochrome c5 in the electron transfer from cytochrome bc1 to the cytochrome cbb3 oxidase.
The possession of multiple c-type cytochromes as part of multiply branched respiratory chains is characteristic of many bacterial species. The unambiguous assignment of function to these cytochromes is often difficult due to their large number and apparent redundancy of function. The aim of the work presented in this paper was to investigate the roles of the three putative electron-carrier proteins of N. meningitidis in respiration in this organism, which is an important pathogen but which may also be viewed as a good model for analysis of branched respiratory metabolism due to its relatively small number of respiratory electron-acceptor reductases.
| METHODS |
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(Prentki & Krisch, 1984
The recombinant plasmids containing disrupted copies of the genes encoding cytochromes were transformed into N. meningitidis MC58 using the method of Bogdan et al. (2002)
, selecting for recombinant strains using the appropriate antibiotic selection on plates, and verifying the correct chromosomal rearrangement by PCR.
Gels and blotting.
Whole-cell extracts of N. meningitidis were prepared by harvesting 1 ml samples of cultures in late exponential phase by centrifugation, resuspending the pellets in 500 µl 30 mM Tris/HCl (pH 8)+1 % (w/v) n-dodecyl β-D-maltoside+1 mg lysozyme ml–1+1 mg DNase I ml–1, and subjecting the suspension to 8–10 cycles of freezing and thawing. Samples were separated by SDS-PAGE and blotted onto nitrocellulose membranes. Membranes were stained with Ponceau S to check for efficient protein transfer and destained with water. The expression of c-type cytochromes was assessed using a chemiluminescence method (Vargas et al., 1993
) to measure the peroxidase activity of haem groups covalently attached to protein. Five hundred microlitres of chemiluminescence detection reagents (SuperSignal West Dura substrate, Pierce) were mixed and pipetted onto the membrane, which was incubated, sandwiched between two acetate sheets, for 5 min. The membrane was subsequently exposed to X-ray film (for 5 s to 5 min) to achieve an optimum chemiluminescence signal. Bands due to c-type cytochromes were clearly visualized upon developing the film. Western blotting was used to detect expression of nitrite reductase AniA, as previously described (Rock et al., 2007
).
Activity assays.
Oxygen and nitric oxide were measured using electrode-based methods and nitrite was assayed colorimetrically as described previously (Rock et al., 2005
). Nitrite reductase activity was assayed in whole-cell extracts using methyl viologen as electron donor as described previously (Moir et al., 1993
).
Spectroscopy.
The spectra of cytochromes in intact cells were measured using a Jasco V550 UV–visible spectrophotometer fitted with Integrating Reflective Sphere (ISV-469) in order to compensate for the light scattering by very high-density bacterial suspensions. Bacterial cultures grown in MHB+5 mM glucose were harvested and resuspended in 25 mM HEPES+5 mM glucose (pH 7) to an OD600 of 1.0–1.2 (in this spectrophotometer, equivalent to approx. 5–10 mg protein ml–1). Spectral measurements were carried out in 1 ml cell suspensions in 1.4 ml quartz cuvettes with sealed caps (117.100F-QS, Hellma). Each spectral measurement was taken five times to allow averaging of multiple spectra to reduce noise. Reduction of respiratory components was achieved using the physiological electron donor glucose and leaving the cell suspension to exhaust the available oxygen over the course of 10 min. Oxygen-oxidized spectra were taken following vigorous shaking of the cell suspension. Oxidation of the suspension by nitrite was achieved by addition of 5 mM nitrite (in a total volume of 5 µl to minimize dilution effect).
| RESULTS |
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band located near 550 nm) and b-type (
band shoulder near 560 nm) cytochromes in this organism (Fig. 2
bands in these difference spectra are shifted compared to the wild-type. For N. meningitidis MC58, the
band is positioned at 553 nm, whilst the
peak at 552 nm and the
band at 555 nm. The
band of the
band as well as a decrease in spectral intensity (for MC58 versus
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N. meningitidis
failed to utilize nitrite during incubation under microaerobic conditions with nitrite. To determine whether this was due to an inability to respire nitrite or nitric oxide we grew strains MC58 and
microaerobically in the absence of nitrite and then followed the accumulation of nitric oxide using an NO electrode after the addition of nitrite (Fig. 4
). No nitric oxide accumulated from the
strain, whereas, as expected, it accumulated immediately on adding nitrite to the wild-type. This indicates that the lesion in the c5 mutant relates to nitrite reduction, not nitric oxide reduction. To assess whether the defect in nitrite reduction in N. meningitidis
might be due to low nitrite reductase expression and/or activity rather than to a break in the electron-transport chain to the nitrite reductase we measured nitrite reductase expression and activity. Expression of nitrite reductase was assessed by Western blotting (Fig. 1b
), which showed that AniA is expressed at similar levels in all strains. Using a methyl viologen-linked nitrite reductase assay in total cell extracts we found that N. meningitidis MC58 and
had similar overall rates of nitrite reductase activity (data not shown). In the absence of cytochrome c5 the electron-transport chain to nitrite reductase is disabled, presumably because cytochrome c5 is an electron carrier between the cytochrome bc1 complex and AniA nitrite reductase.
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band is located at 560 nm), indicating that oxidation by nitrite brings about predominantly the oxidation of b-type cytochromes. The redox difference spectra following oxidation by nitric oxide (provided by treating cells with 1 mM DEA-NONOate) gives similar spectra to those seen on oxidation by nitrite. Redox difference spectra of N. meningitidis
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| DISCUSSION |
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The simplest explanation of the data we have obtained is that cytochrome c5 is a mediator that carries electrons from the cytochrome bc1 complex to the AniA nitrite reductase. Cytochromes cx and c4 are not required for the reduction or oxidation of c5. Is it feasible that cytochrome c5 might be a direct electron donor to AniA nitrite reductase? AniA consists of a trimer of water-soluble subunits (Boulanger & Murphy, 2002
) associated with the outer membrane via covalent attachment of N-terminal cysteine residues to fatty acid moieties (Clark et al., 1987
; Hoehn & Clark, 1992
). It is presumed to be associated with the inner leaflet of the outer membrane, and hence located within the periplasmic compartment. To reduce AniA and drive nitrite reduction, electrons must be transported across the periplasm from the cytochrome bc1 complex (in the inner membrane) to AniA. Can cytochrome c5 span this gap? Analysis of the sequence of cytochrome c5 indicates that it arose by a duplication event from an ancestral gene encoding a monohaem protein. There is no structure available for a dihaem cytochrome c5, but structural information is available for a homologous monohaem cytochrome c5 from Shewanella putrefaciens (Bartalesi et al., 2002
). This globular protein has a diameter of approximately 30 Å (3 nm), indicating that the dimeric cytochrome c5 from N. meningitidis may span approximately 60 Å. N. meningitidis cytochrome c5 is predicted to be attached to the membrane via a transmembrane helix, and thus it is anticipated that it can form a structure which protrudes up to approximately 60 Å into the periplasm from the inner membrane. The ingress of electrons to AniA occurs via a blue copper centre which is accessed from a site on the surface of AniA which is approximately 45 Å from the N-terminal face of the soluble protein structure (Boulanger & Murphy, 2002
). Thus a complex of the globular domains of cytochrome c5 and AniA could span some 105 Å across the periplasm. The width of the Gram-negative periplasm is approximately 170 Å, based on electron microscopy measurements (Matias et al., 2003
) and calculations based on the interaction of inner-membrane protein AcrB with outer-membrane protein TolC (Tamura et al., 2005
). Towards the N terminus of the mature AniA polypeptide there is a 35–40 residue region rich in alanine, proline and glutamate that may form an elongated unstructured linker that will allow AniA to get access to electrons from cytochrome c5. It will be of interest to shorten this linker region to determine whether it is required for allowing AniA to obtain electrons.
Haem staining was used successfully to identify cytochromes c4 and c5 in total extracts of N. meningitidis strains, but cytochrome cx could not be seen by this method. Haem staining relies on the peroxidase activity of the haem group, an activity that is affected by the naturation state of the protein folding around the haem group (Diederix et al., 2002
). This activity varies between cytochromes and presumably is very low for cytochrome cx. Spectroscopic measurements, however, showed a significant loss of c-type cytochrome from the cx mutant (Fig. 2
), confirming that this is a major cytochrome in N. meningitidis. The additive effects of mutations in cx and c4 on oxygen respiration indicate that these two proteins operate as independent parallel pathways of electrons from the cytochrome bc1 complex to the cytochrome cbb3 oxidase (Fig. 6
). Additionally, there is residual oxidase activity in a
.
mutant, indicating that there are alternative pathways to cytochrome cbb3. Cytochrome c5 may act as an alternative electron carrier to the oxidase, and it is noticeable that growth of a
mutant aerobically is slower than that of the wild-type at high optical densities in late exponential phase (Fig. 4a
). We were unable to construct a
.
.
triple mutant, lending support to this proposition. An alternative route might involve the outer-membrane-associated cupredoxin Laz (lipid-modified azurin) (Gotschlich & Seiff, 1987
; Kawula et al., 1987
). Mutants deficient in the gene encoding Laz grew well aerobically (Wu et al., 2005
; our unpublished data) but we were unable to generate a
.
.laz triple mutant (data not shown). The proposed electron-transport chain of N. meningitidis is summarized in Fig. 6
.
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In summary, we have identified the roles of three c-type cytochromes in the respiratory chain of N. meningitidis. Respiration is crucial for survival of N. meningitidis, and these cytochromes are highly conserved and extracytoplasmic, making them potential targets for the development of novel therapeutics against pathogenic neisseriae.
| ACKNOWLEDGEMENTS |
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Edited by: R. J. M. van Spanning
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Received 7 May 2008;
revised 6 June 2008;
accepted 16 June 2008.
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