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Journal of Bacteriology, October 2001, p. 5668-5674, Vol. 183, No. 19
0021-9193/01/$04.00+0 DOI: 10.1128/JB.183.19.5668-5674.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.
Localization of c-di-GMP-Binding Protein with the
Linear Terminal Complexes of Acetobacter xylinum
Satoshi
Kimura,1
He Ping
Chen,2
Inder M.
Saxena,2
R. Malcolm
Brown Jr.,2 and
Takao
Itoh1,*
Wood Research Institute, Kyoto University,
Uji, Kyoto 611-0011, Japan,1 and Section
of Molecular Genetics and Microbiology, School of Biological Sciences,
The University of Texas at Austin, Austin, Texas
787122
Received 5 April 2001/Accepted 29 June 2001
 |
ABSTRACT |
Specific labeling of a single row of cellulose-synthesizing
complexes (terminal complexes, TC subunits, TCs, or TC arrays) in
Acetobacter xylinum by antibodies raised against a 93-kDa
protein (the cyclic dignanylic acid-binding protein) has been
demonstrated by using the sodium dodecyl sulfate (SDS)-freeze-fracture
labeling (FRL) technique. The antibodies to the 93-kDa protein
specifically recognized the TC subunits on the protoplasmic fracture
(PF) face of the outer membrane in A. xylinum; however,
nonlabeled TCs were also observed. Two types of TC subunits (particles
or pits) are observed on the PF face of the outer membrane: (i)
immunogold-labeled TCs showing a line of depressions (pits) with an
indistinct particle array and (ii) nonlabeled TC subunits with a
distinct single row of particle arrays. The evidence indicates that the
labeling patterns differ with respect to the presence or absence of
certain TC subunits remaining attached to the replica after SDS
treatment. This suggests the presence of at least two TC components,
one in the outer membrane and the other in the cytoplasmic membrane. If
the TC component in the outer membrane is preferentially fractured and
remains attached to the ectoplasmic fracture face (or outer leaflet) of the outer membrane, subsequent replica formation reveals a pit or
depression with positive antibody labeling on the PF face of the outer
membrane. If the TC component in the outer membrane remains with the PF
face (or inner leaflet) of the outer membrane, the innermost TC
component is removed during SDS treatment and labeling does not occur.
SDS-FRL of TCs in A. xylinum has enabled us to provide the
first topological molecular analysis of component proteins in a
cellulose-synthesizing TC structure in a prokaryotic organism.
 |
INTRODUCTION |
Cellulose is the most abundant
biological polymer on earth and is the major component of cell walls in
higher plants, as well as in some algae. Cellulose-synthesizing
organisms are widely distributed in all biological kingdoms, including
not only higher plants and algae but also bacteria, protists, fungi,
and tunicates (28). It is generally recognized that native
cellulose is synthesized and crystallized by a multimeric enzyme
complex located in the cytoplasmic membrane (CM) (6).
Terminal complexes (TCs) have been found in most cellulose-synthesizing
organisms (4) and are classified into two types:
linear TCs and rosette TCs. Linear TCs have been observed among various
algae (6, 7, 20), Dictyostelium sp. (a social
amoeba) (5, 17), ascidians (primitive chordate animals)
(21), and Acetobacter xylinum (a bacterium) (8). TCs of A. xylinum consist of a single row
of particles on the outer membrane (OM), and a flat cellulose
microfibril is produced from at least three of these TC subunits
(8). Each subunit of the TCs is a transmembrane protein
complex that spans both the OM and the CM. Rosette TCs have been found
in land plants (26) and freshwater algae
(15), including solitary rosette TCs virtually identical
to those in land plants (18, 19), as well as primitive
land plants (13).
Investigations of A. xylinum as a model organism for
cellulose biosynthesis (for reviews, see references 28, 29, and
35) have led to the following: (i) in vitro cellulose
biosynthesis (1, 2, 9, 16, 34), (ii)
discovery of cyclic diguanylic acid (c-di-GMP) as a specific activator
of cellulose biosynthesis in A. xylinum in vitro
(30), (iii) purification and identification of cellulose
synthase (23, 24, 25), and (iv) the first isolation of the
cellulose synthase gene (31, 36).
In spite of numerous efforts using biochemical and molecular biological
approaches, there is no direct evidence for the participation of a TC
structure in cellulose biosynthesis in A. xylinum. Because freeze-fracture replication is the only method known for visualization of a TC, it has been impossible to obtain information relating this
structure directly to the underlying chemistry and/or identity of a
component of cellulose biosynthesis.
Sodium dodecyl sulfate (SDS)-solubilized, freeze-fracture replica
labeling, which was initially developed for animal cells by Fujimoto
(14), has allowed immunocytochemical labeling of freeze-fracture replicas by antibodies. The application of this novel
technique has revealed a direct correlation between the structure
(rosette TC) and its biochemical component (cellulose synthase) in a
vascular plant cell (22).
Purification of cellulose synthase from A. xylinum by the
product entrapment technique allowed the identification of two
polypeptides with molecular masses of 83 and 93 kDa (23, 24,
25). Specific antibodies were raised against these proteins
(10, 25), and several immunochemical studies have been
done with these antibodies (10, 11, 12). More
specifically, we have used the anti-93-kDa antibody to study the
thermal stability of the cellulose synthase complex from A. xylinum.
The present study examined immunogold labeling of the linear TC in
A. xylinum by using an antibody prepared against the 93-kDa protein. The 93-kDa protein is part of the cellulose synthase and is
proposed to bind c-di-GMP, which is known to be a specific activator of
cellulose biosynthesis in A. xylinum (25, 30). Based on this evidence, we anticipated that the 93-kDa proteins should
be localized near the cellulose synthase of A. xylinum in
the TC.
 |
MATERIALS AND METHODS |
Culture and isolation of cells.
A. xylinum NQ5
(ATCC 53582) was grown statically in SH medium (33)
at 27°C. The flasks used, which contained an active cellulose pellicle, were shaken vigorously by hand in order to separate the
cellulose-synthesizing cells. The medium and squeezed medium from
pellicles were filtered using a 50-µm nylon mesh and centrifuged at
2,000 × g for 5 min. The bacterial pellet was
resuspended in half of the volume of fresh medium and incubated at
27°C for 1 h.
Antibody production.
Polyclonal antibody against the 93-kDa
polypeptide from A. xylinum NQ5 (ATCC 53582) was prepared as
described by Chen and Brown (10).
Freeze-fracture and immunogold labeling.
The cell
suspensions described above were placed onto gold specimen carriers and
immediately quick-frozen by liquid propane in a Reichert KF80
quick-freezing unit (Leica). The frozen samples were fractured in a
Balzers BAF400D freeze-etch unit (Baltec, Liechtenstein) at
110°C,
replicated by evaporation of platinum-carbon from an electron gun
positioned at a 45° angle, and carbon coated. The replicated sample
with the specimen carrier was transferred to a solution containing
lysozyme (Sigma) at 1 mg/ml, 10 mM EDTA, and 25 mM Tris-HCl (pH 8.0).
Digestion of the peptidoglycan was performed for 2 h at room
temperature with continuous shaking on a rotary shaker at 100 to 200 rpm.
After peptidoglycan digestion, the replica pieces were transferred to
2.5% SDS containing 10 mM Tris-HCl (pH 8.3). SDS solubilization was
conducted for 2 h at room temperature with continuous shaking on a
rotary shaker at 100 to 200 rpm. After treatment with SDS, replicas
were washed four or more times with phosphate-buffered saline (PBS) and
placed on drops of 1% bovine serum albumin in PBS for 30 min at room
temperature. The replicas were then labeled with anti-93-kDa protein
antibody (diluted 1:100 in PBS) for 2 h at room temperature or
overnight at 4°C. After labeling, the replicas were washed three
times with PBS containing 0.05% Tween 20 and incubated for 2 h at
room temperature with anti rabbit immunoglobulin G antibody conjugated
to 10-nm colloidal gold (Zymed Laboratories, San Francisco, Calif.)
diluted 1:50 in PBS. After immunogold labeling, the replicas were
washed three times with PBS-0.05% Tween 20, fixed with 0.5%
glutaraldehyde in PBS for 10 min at room temperature, washed twice with
distilled water, and placed onto Formvar-coated grids. The replicas
were observed with a transmission electron microscope (model 2000EXII;
JEOL, Akishima, Japan).
 |
RESULTS |
In addition to a CM, gram-negative bacteria, including
A. xylinum, have an OM. Sandwiched between the OM
and the CM is a concentrated, gel-like matrix (the periplasm) found in
the periplasmic space (3). The peptidoglycan in the
periplasm forms an envelope around the CM. Since the freeze-fracture
plane follows regions of weakly bonded components within a bacterial
cell, membranes are most frequently cleaved through their hydrophobic
domains and intrinsic membrane proteins are exposed. Fortuitous
freeze-fractures through gram-negative bacteria can reveal the inner
and outer faces of membranes by exposing concave and convex surfaces.
Figures 1A and B show freeze-fractured
images of two A. xylinum cells in which the fracture
planes have passed through the cell envelope. The cell in Fig. 1A shows
a concave fracture plane through the OM and pieces of the CM, whereas
the cell in Fig. 1B shows a convex fracture plane through the OM and
part of the CM. Due to their characteristic features, four fracture
planes can be recognized in A. xylinum, (i) the outer
leaflet of the OM (the exoplasmic fracture [EF] face of the OM), (ii)
the EF face of the CM, (iii) the inner leaflet of the OM (the
protoplasmic fracture [PF] face of the OM), and (iv) the PF face of
the CM. The EF face of the OM appears concave and shows the presence of
a large number of membrane particles. The EF face of the CM appears
concave, with a relatively smooth structure. The PF face of the OM
appears to have a rough surface and is convex, with membrane particles
and depressions or pits that are randomly arrayed with low density. The
PF face of the CM appears convex, with membrane particles of uniform
size present at a high density. In the PF faces of both the OM and the
CM, the difference between individual membranes is clearly identifiable
(Fig. 1B). The identification of the type of membrane is important for
discussing the topology of cellulose-synthesizing complexes, as well as
the localization with antibody labeling visualized by freeze-fracture
electron microscopy.

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FIG. 1.
Freeze-fracture images showing various fractured
membrane faces. Panel A shows the EF faces of both the OM and the CM. A
large number of particles can be seen on the concave plane of the OM.
The EF face of the CM has a smooth appearance. Panel B shows the PF
faces of both the OM and the CM. The PF face of the OM has a rough
appearance, with a low density of variable-sized particles, while the
PF face of the CM shows uniform-sized particles, with a high density.
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|
The digestion of the peptidoglycan by lysozyme prior to SDS
solubilization was found to be a prerequisite for observing
freeze-fracture labeling of membrane proteins in A. xylinum.
The lysozyme digests the peptidoglycan and therefore allows the cell
debris to be removed, which in conventional freeze-fracture techniques
is done by harsh acid treatments. The replicas obtained by
SDS-freeze-fracture replica labeling (Fig. 2A) appear similar to those
obtained by conventional freeze-fracture
techniques. The linear
TCs of A. xylinum exhibit ordered particle arrays with a
single row or double rows. The bacterial cell in Fig. 2A shows the PF
face of the OM and a typical single row of TC subunits with a cellulose
ribbon attached at its terminus (arrow). Upon closer examination, the gold particles were observed to be attached along a single row of TCs
(arrowheads). In the case of A. xylinum, almost all of the
fracture planes occurred through the OM. In other words, the fractured
CM was rarely observed in A. xylinum although it is more
commonly observed in other gram-negative bacteria (3). The
frequency of CM fractures was less than 5% based on the observation of
more than 100 cells. Even in the case in which we successfully visualized the fractured plane of the CM, only part of this membrane was exposed (Fig. 1B). Furthermore, TC structures were never observed on the CM of A. xylinum because of the very low frequency of
CM fractures. Figure 2B shows a fracture plane occurring mostly in the
OM and occasionally in the CM. Note the antibody-labeled TC components
(arrowheads) in the vicinity of the pits.

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FIG. 2.
Fracture-labeled images (PF face, panels A to D;
EF face, panel E) showing reaction with the c-di-GMP-binding protein
(93-kDa protein) antibody. Panel A shows a typical fracture-labeled
image of A. xylinum. The TC appears to be a single row along
the longitudinal axis of the bacterial cell. A ribbon of cellulose
microfibrils is attached to the end of the TC row (A, arrow). The
93-kDa protein antibody is distributed along the TC row on the PF face
of the OM (A, arrowheads). Panel B also shows labeled TCs on the PF
face of the OM but not on the PF face of the CM, which is seen as a
window through the OM. The labeled TCs are visible as a row of
slight depressions with indistinct particles and small holes that may
be due to particle displacement (C, arrowheads). The TCs showing a
distinct particle row on the PF face of the OM are not labeled with
antibodies (D). Panel E shows TCs with double rows on the EF face of
the OM. The TCs on the EF face of the OM are never labeled by the
antibodies.
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|
Antibody labeling of TCs on the PF face of the OM is shown in Fig. 2A
to C. The labeling is not strictly coincident with the TCs arranged in
a linear row. Two different features associated with the linear rows on
the PF face of the OM are notable: (i) a pit or depressed region with
indistinct particles (Fig. 2B and C) and (ii) a distinct single row of
particles (Fig. 2D). The gold particles were localized only in the
former and not in the latter. In addition, these same TC particles can
be found associated with the outer leaflet of the OM in all cases;
however, TCs on the EF face are never labeled (Fig. 2E). These membrane
particles often appear to be complementary to the pit-like
formations or depressions in the PF face of the OM (not shown). A very
rare case of freeze-fracture showed a distinct row of TC particles and
pits in a single line on the same PF face of the OM (Fig. 3). The TCs in the region of the pits
were exclusively labeled by antibodies.

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FIG. 3.
Fracture-labeled image showing two types of TC
structures revealed on the PF face of the OM. The distinct TC particles
(upper half) and depressions with particles (lower half) are visible as
a single row on the same PF face of the OM. Moreover, the labeling of
gold particles can be seen only in the region with depressions.
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|
The distribution of gold particles associated with TCs is shown in Fig.
4. The distance between the TCs and gold
particles was calculated by measuring the vertical distance between the edge of gold particles and a linear row of TC particles (Fig. 4A,
double arrowheads). For frequency analysis, 277 gold particles were
randomly sampled from 30 different cells that have a single row of TCs.
Measurement of the distance is difficult where the bacterium has double
rows of TCs. In this case, 75% of the 277 gold particles were found
within 20 nm of the linear row (shown as a dashed line in Fig. 4A. Most
gold particles were found within 10 to 14 nm, with a median distance of
9.3 nm from the linear row (Fig. 4B).

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FIG. 4.
Frequency distribution of 93-kDa protein
antibody-labeled particles. (A) Schematic diagram for measurement of
the distance between gold particles and linear TCs. The distance
(double arrowheads) between the edge of gold particles and the linear
TCs is indicated by the dotted line. (B) Frequency distribution of the
number of gold particles associated with the 93-kDa protein antibody
shown as a function of the measured distance (nanometers) to the linear
TC. The total number of gold particles measured, taken from 30 different cells, was 277.
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|
 |
DISCUSSION |
Using freeze-fracture replicas of A. xylinum, we have
successfully labeled linear TCs with the antibody against a 93-kDa
protein. This protein is a c-di-GMP-binding protein, and c-di-GMP is
known to be the activator of cellulose synthase in A. xylinum (25). Our experiments provide the first
direct evidence that the linear TCs contain the c-di-GMP-binding
protein. The c-di-GMP-binding protein is associated with the
cytoplasmic membrane, as suggested by biochemical and sequencing data
(9, 32).
Specific labeling of the TCs with antibodies against the 93-kDa protein
is found on the PF face of the OM in A. xylinum. Two different parts of the TCs occur on the same PF face of the OM. Almost
all of the colloidal gold is associated with an arrangement of
depressions that we refer to as pits (Fig. 2A to C). Labeling was never
observed where a single row of TC particles is clearly visible on the
PF face of the OM (Fig. 2D). Very few fractures were observed across
the CM.
These observations are based on interpretations of a large amount of
freeze-fracture data; however, it is difficult to visualize the
complete assembly of TCs in relation to the sites of antibody binding.
Our interpretation is diagrammed in Fig.
5, which shows two possible arrangements
of TC subcomponents and the predicted membrane localization of these
components based on freeze-fracture and antibody labeling. The first
arrangement is schematically illustrated in Fig. 5A. In this model, the
c-di-GMP-binding proteins are proposed to span not only the CM but also
the OM (Fig. 5A-a). This model also implies that a single
protein spans both membranes, including the periplasm. This could be
highly unlikely, but even so, assuming that this is possible during
fracture and labeling, we should observe antibody labeling in both the
pits and the particles, as shown in Fig. 5A-e.

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FIG. 5.
Schematic illustration showing membrane proteins
revealed in freeze-fractured images. A hypothetical illustration is
shown in panel A-a, where the c-di-GMP-binding proteins span both the
CM and the OM of bacterial cells. After freeze-fracturing, three
different views of TCs could be expected (A-b). The first is a distinct
TC particle row on the PF face of the OM (A-b, left [note that the
view is of the flipped replica as a complementary half of the lower
replica]), the second is a depression remaining from the tip fracture
of the TC on the PF face of the OM (A-b, lower right), and the third is
a distinct TC depression area on the EF face of the OM (A-b, upper
left). Pieces of c-di-GMP-binding proteins are fixed after shadowing
(A-c, upper right) and remain attached to the replica after treatment
with lysozyme and SDS (A-d, upper right). Only proteins remaining on
the PF and EF faces of the OM are expected to be labeled by the
antibodies (A-e). No hypothetical case showing the situation
described above was found in the present investigation. The
second hypothetical illustration is shown in Panel B-a, where TC
particles are composed of two types of subunits, a c-di-GMP-binding
protein and an OM protein. After freeze-fracture, OM proteins remain
attached to c-di-GMP-binding proteins (B-b, left) or separate from the
latter (B-b, right). After shadowing (B-c), OM proteins are fixed on
the PF face (B-c, left) or the EF face (B-c, upper right) of the OM. In
the latter case, c-di-GMP-binding proteins are fixed on the PF face of
the OM (B-c, lower right). After lysozyme and SDS treatment, the
c-di-GMP-binding proteins will be removed, as shown in the left half of
panel B-d, or they will not be removed, as shown in the lower right of
panel B-d. Therefore, only the depression in the TC structure in the
latter case will remain on the PF face of the OM and be labeled by the
antibodies (B-e, lower right).
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|
By assuming that the TC is a multicomponent complex, the interpretation
of labeling shown in Fig. 5B is more likely. In Fig. 5B, only two of
the many proteins in the TC are depicted. One is shown to be an OM
protein which is linked to the CM component of the TC. This interaction
can be either direct or indirect. This is not unlike the multicomponent
flux pumps of gram-negative bacteria (27). The model
proposed in Fig. 5B is useful in understanding not only that at least
two separate components are part of the TC but also where these
components reside and more specifically in which membranes.
After freeze-fracturing, the OM proteins remain either on the PF face
of the OM (Fig. 5B-b, left) or on the EF face of the OM (Fig. 5B-b,
right). After shadowing, the OM proteins are fixed on the replica on
both the PF and the EF of the OM (Fig. 5B-c). When the OM proteins are
fixed on the replica and remain on the PF face of the OM, the
c-di-GMP-binding proteins are never covered by shadowing materials.
Therefore, the c-di-GMP-binding proteins will be washed out after
treatment with both lysozyme and SDS (Fig. 5B-d, left). When the OM
proteins are fixed and remain on the EF face of the OM (Fig. 5B-b,
right), the c-di-GMP-binding proteins are fixed and remain on the
replica on the PF face of the OM even after treatment with lysozyme and
SDS (Fig. 5B-d, right). The antibody recognizes the CM protein stuck to
the pit area after replication (Fig. 5B-e, right). The distinct TC
particles on both the PF and EF faces of the OM are never labeled by
the antibody because those particles are composed of OM proteins (Fig. 5B-e, left and upper right). In summary, these observations help to
formulate the topology and composition of the TC with respect to the
distribution of proteins in the two membranes.
What is the nature of the proteins in the cellulose-synthesizing
complex? It has been suggested that this complex in A. xylinum is made up of three or four different proteins based on
the organization of genes in the cellulose-synthesizing operon
(32, 36). According to our model, the cellulose synthase
catalytic subunit and the c-di-GMP-binding protein (AcsAB) are present
in the CM. These proteins possibly interact with AcsC and AcsD in
forming the transenvelope complex (6). The identities of
the AcsC and AcsD proteins have not been ascertained; however,
mutational analysis indicates that these proteins are required for
normal cellulose ribbon production (32). It is possible
that the AcsC protein is present in the OM and contacts the cellulose
synthase catalytic subunit and c-di-GMP-binding proteins that are
present in the CM (32). Together, these proteins form a
pore complex through which nascent glucan chains emerge to crystallize
into the metastable cellulose I allomorph.
A novel combination of freeze-fracture and SDS treatment coupled with a
specific antibody label has shown that these methods can be used for
topological analysis of large membrane complexes. The
cellulose-synthesizing complex in A. xylinum can be useful in understanding the diverse structures and functions of membrane complexes that traverse both the OM and the inner membrane, including the multidrug efflux pumps of gram-negative bacteria (27).
 |
ACKNOWLEDGMENTS |
We thank Goro Kikuchi for preparing freeze-fractured replicas.
This work was supported by grants-in-aid for the Research for the
Future program from the Japan Society for the Promotion of Science
(JSPS-RFTF 96L00605), a grant-in-aid from the Ministry of Education,
Science, Sports and Culture of Japan (12306009) to T. Itoh, and
grants from the Welch Foundation (F1217) and the Department of Energy
(DE-FG03-94ER20145) to R. M. Brown, Jr.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Wood Research
Institute, Kyoto University, Uji, Kyoto 611-0011, Japan. Phone: 81 (774) 38-3631. Fax: 81 (774) 38-3635. E-mail:
titoh{at}kuwri.kyoto-u.ac.jp.
 |
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Journal of Bacteriology, October 2001, p. 5668-5674, Vol. 183, No. 19
0021-9193/01/$04.00+0 DOI: 10.1128/JB.183.19.5668-5674.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.
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