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Journal of Bacteriology, June 2001, p. 3721-3728, Vol. 183, No. 12
0021-9193/01/$04.00+0 DOI: 10.1128/JB.183.12.3721-3728.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.
Unusual Methyl-Branched
,
-Unsaturated Acyl
Chain Substitutions in the Nod Factors of an Arctic Rhizobium,
Mesorhizobium sp. Strain N33 (Oxytropis
arctobia)
Véréna
Poinsot,1
Elaine
Bélanger,2
Serge
Laberge,2
Guo-Ping
Yang,3
Hani
Antoun,4
Jean
Cloutier,2
Michel
Treilhou,1
Jean
Dénarié,3
Jean-Claude
Promé,1 and
Frédéric
Debellé3,*
Laboratoire des Interactions
Moléculaires-Réactivité Chimique et Photochimique,
UPS-CNRS, 31062 Toulouse Cedex,1 and
Laboratoire de Biologie Moléculaire des Relations
Plantes-Microorganismes, INRA-CNRS, 31326 Castanet-Tolosan
Cedex,3 France, and Centre de Recherches
et de Développement sur les Sols et les Grandes Cultures,
Agriculture et Agroalimentaire Canada, Sainte-Foy, Québec,
Canada G1V2J3,2 and Département
des Sols et de Génie Agroalimentaire, Faculté des
Sciences de l'Agriculture et de l'Alimentation, Université
Laval, Sainte-Foy, Québec, Canada G1K7P44
Received 7 December 2000/Accepted 27 March 2001
 |
ABSTRACT |
Mesorhizobium sp. strain N33 (Oxytropis
arctobia), a rhizobial strain isolated in arctic Canada, is able
to fix nitrogen at very low temperatures in association with a few
arctic legume species belonging to the genera Astragalus,
Onobrychis, and Oxytropis. Using mass spectrometry
and nuclear magnetic resonance spectroscopy, we have determined the
structure of N33 Nod factors, which are major determinants of
nodulation. They are pentameric lipochito-oligosaccharides 6-O sulfated
at the reducing end and exhibit other original substitutions: 6-O
acetylation of the glucosamine residue next to the nonreducing terminal
glucosamine and N acylation of the nonreducing terminal glucosamine by
methyl-branched acyl chains of the iso series, some of which are
,
unsaturated. These unusual substitutions may contribute to the
peculiar host range of N33. Analysis of N33 whole-cell fatty acids
indicated that synthesis of the methyl-branched fatty acids depended on
the induction of bacteria by plant flavonoids, suggesting a specific
role for these fatty acids in the signaling process between the plant
and the bacteria. Synthesis of the methyl-branched
,
-unsaturated
fatty acids required a functional nodE gene.
 |
INTRODUCTION |
Rhizobia are soil bacteria, now
classified in several genera (e.g., Rhizobium, Sinorhizobium,
Mesorhizobium, Bradyrhizobium, Azorhizobium), which form a
symbiotic association with legume plants. The interaction between
bacteria and plants results in the formation of nodules on the host
plant roots, in which rhizobia fix atmospheric nitrogen. The
association between rhizobia and legumes is specific: each rhizobial
strain has a defined host range. For example, Mesorhizobium
sp. strain N33, isolated from Oxytropis arctobia, also
nodulates Astragalus alpinus and Onobrychis viciifolia (19, 26). In contrast, Sinorhizobium
meliloti efficiently nodulates alfalfa (Medicago
sativa) as well as Melilotus and Trigonella species. Mesorhizobium sp. strain N33 was isolated in the
Canadian high arctic and is able to grow and fix nitrogen at
temperatures as low as 5°C. In addition, it was shown that arctic
rhizobia promoted better growth of O. viciifolia at low
temperatures than did temperate strains (27). Thus, it
might be valuable to extend the host range of arctic rhizobia to
agronomically important legumes, in order to improve nitrogen fixation
by these plants at low temperatures. It is therefore important to
understand the molecular mechanisms controlling the nodulation
specificity of arctic rhizobia.
Earlier work has shown that nodulation and host specificity in
rhizobium-legume symbiosis are determined by signal exchanges between
the bacteria and the host plant (21). Flavonoids excreted by the plant roots induce the expression of rhizobial nodulation (nod) genes. Most of these genes are involved in the
biosynthesis and secretion of bacterial signals, the Nod factors, that
can specifically induce symbiotic responses of the host plants. These responses include root hair deformation, division of root cortical cells and, in some instances, nodule formation (8, 32).
The structures of Nod factors produced by several rhizobial
species have been characterized. They are all
lipochito-oligosaccharides (LCOs) consisting of
-1,4-linked
oligomers of three to five N-acetylglucosamine residues with
an amide-linked acyl chain on the nonreducing terminal residue
(8, 10, 25). In addition, the glucosamine residues can
carry various substitutions. Nod factor specificity is determined by
the nature of these substitutions and of the N-acyl chain.
A number of nodulation genes have been identified in
Mesorhizobium sp. strain N33 (2, 3, 4). The
nodABC genes, which are found in all rhizobial species, are
responsible for the synthesis of the lipo-oligosaccharide core common
to all Nod factors. In contrast to most rhizobial species, where
nodABC belong to one operon, in Mesorhizobium sp.
strain N33 nodA and nodBC belong to two different
operons (2, 4). In addition to nodABC, several
nod genes likely to be involved in Nod factor substitutions have been characterized (3, 4). The nodHPQ
genes, which are also found in S. meliloti and
Rhizobium tropici, have been shown to specify O sulfation of
the Nod factor reducing end in these two species (11, 18,
29). The nodFE genes, which are also present in
S. meliloti and R. leguminosarum, determine in these two species the synthesis of various polyunsaturated fatty acids
with one or several double bounds conjugated to the carbonyl group
(7, 34, 39). Therefore, one might expect the
Mesorhizobium sp. strain N33 Nod factors to be sulfated and
substituted by a fatty acid with conjugated double bonds. However,
given the peculiar host range of this species, the
Mesorhizobium sp. strain N33 Nod factors are likely to carry
novel substitutions. In this paper, we describe the structure of the
Mesorhizobium sp. strain N33 Nod factors. We show that they
have original structures with substitutions never described before, and
we study several features of their biosynthesis.
 |
MATERIALS AND METHODS |
Microbiological techniques.
Bacterial strains and plasmids
are described in Table 1.
Mesorhizobium sp. strain N33 was grown in TY medium
(33). The transfer of IncP and IncQ plasmids to
Mesorhizobium sp. strain N33 was performed by triparental
mating as described previously (1). Large-scale cultures
were grown in Vincent medium (33) supplemented with 0.2%
sodium glutamate and 0.1% sodium succinate as nitrogen and carbon
sources, biotin at 0.5 µg ml
1, and other vitamins
(Sigma MS vitamins) at 0.1 g liter
1. Formononetin
(50 µM) or p-coumaric acid (100 µM) was used for the
induction of nod gene expression.
DNA techniques.
Plasmid pJC372 was constructed as follows. A
lambda EMBL3 genomic bank from strain N33 (2) was screened
using a N33 nodAFEG probe (4), allowing the
isolation of phage 235-1. From this phage, we isolated a 4.8-kb
BamHI-BglII fragment containing
nodAFEG with 1.3 and 0.9 kb of 5'- and 3'-flanking
sequences, respectively, including the nod box. This
fragment was cloned in BamHI-BglII-digested LITMUS 28, amplified, and cloned in BamHI-digested pRK7813.
In order to construct a plasmid carrying
Rhizobium NGR234
nodD1 compatible with IncP plasmid pJC372, a 4-kb
SalI fragment
from pA28 (
28) containing NGR234
nodD1 was cloned in
SalI-digested
IncQ plasmid
pML122 (
17), yielding pNGRD.
S. meliloti
GMI3202
with a deletion of the
nodAFEG genes was constructed
as described
earlier (
6) by introducing a deletion in
nodA nonpolar on
nodBC into
S. meliloti GMI5886, which has a deletion of the
nodFEG genes.
Nod factor purification.
Nod factors were extracted from
filtered culture supernatants by butanol extraction (30).
Purification was initially performed by high-performance liquid
chromatography (HPLC) with a semipreparative C18
reverse-phase column (7.5 by 250 mm; Spherisorb ODS2; 5 µm) for 10 min in isocratic solvent A (water-acetonitrile, 80:20 [vol/vol]), followed by a linear gradient from solvent A to solvent B (100% acetonitrile) for 40 min at a flow rate of 1 ml min
1; the
UV absorption at 206 and 220 nm was monitored. The fraction eluting
between 36 and 62% acetonitrile was collected. More accurate purification was achieved with the same column and the same flow rate
but with a 20-min linear gradient running from water-acetonitrile (70:30 [vol/vol]) containing 50 mM ammonium acetate (solvent A) to
water-acetonitrile (50:50 [vol/vol]) containing 50 mM ammonium acetate (solvent B). Ammonium acetate and solvents from the collected fractions were removed by two successive lyophilizations.
Analytical methods. (i) Alkali hydrolysis of Nod factors and of
bacteria.
Nod factors were hydrolyzed with a 5 N KOH solution at
100°C for 2 h. The solution was acidified with 6 N HCl, and
fatty acids were extracted with diethyl ether. Lyophilized bacteria
were suspended in a 5 N KOH solution and stirred at 110°C for 4 h. After acidification, the solution was extracted with diethyl ether.
The acidic components were extracted from the ether layer with a 2 N
KOH solution. The aqueous phase was acidified, and the fatty acids were
extracted with diethyl ether.
(ii) Derivatization of fatty acids. (a) Pentafluorobenzyl ester
derivatives.
Free fatty acids (less than 100 µg) were dissolved
in a solution of 10 µl of anhydrous methanol and 50 µl of anhydrous
acetonitrile. Two microliters of diisopropylamine and 2 µl of
pentafluorobenzyl bromide were added. The reaction was complete after
1 h at room temperature. After total evaporation under nitrogen
flux, the fatty acid derivatives were redissolved in dichloromethane.
(b) Methyl ester derivatives.
Fatty acids dissolved in
dichloromethane were methylated in situ by coinjecting them with 1 µl
of trimethylsulfonium hydroxide (Macherey-Nagel, Hoerdt, Germany) into
the gas chromatograph injector kept at 250°C.
(iii) Mass spectrometry (MS).
An AUTOSPEC 6F sector
instrument (Micromass, Altrincham, United Kingdom) with the EBE-EBE
configuration was fitted with a cesium ion gun and a liquid
secondary-ion MS (LSIMS) ion source. For sensitivity reasons, only the
first half of the instrument was used. The energy of the
Cs+ ions was 25 keV, and the accelerating voltage of the
instrument was set to 8 kV. The 1:1 metanitrobenzyl alcohol-glycerol
matrix was acidified with 1% trichloroacetic acid in water. Product
ions resulting from decompositions in the first field free region were recorded in the constant B/E-linked scan mode.
The same instrument fitted with a chemical ionization or electron
impact (EI) ion sources was used for gas chromatography
(GC)-MS and
GC-MS-MS studies. In the EI positive-ion mode, the
electron energy was
70 eV. In the negative-ion electron capture
mode, the reactant gas was
ammonia bombarded by electrons at 70
eV. Carboxylate anions were
dissociated by collision with helium
gas in the cell located just after
the magnet, and product ions
were collected by scanning the second
electrostatic analyzer monitored
ion kinetic energy spectrometry. As
soon as the different fatty
acids were eluted from the GC column, the
magnet field was adjusted
manually to transmit the mass of the
corresponding carboxylate.
The helium pressure in the collision cell
was adjusted to reduce
the intensity of the ion beam by 50% of its
original
value.
(iv) NMR.
Nuclear magnetic resonance (NMR) experiments were
done with a Brüker AMX 500 spectrometer operating at an
observation frequency of 500 MHz for 1H. Data were recorded
at 303 K. Samples were dissolved in a 3:7 D2O-CD3OD mixture. Methanol was used as an
internal reference for chemical shift (
) determinations.
Phase-sensitive 1H-1H-correlated spectroscopy
(COSY) (2J, 3J, and long-range
coupling) was recorded.
 |
RESULTS |
Mesorhizobium sp. strain N33 Nod factors are pentameric
LCOs 6-O sulfated at the reducing end.
Previous work had shown
that the Mesorhizobium sp. strain N33 nodulation genes were
induced by compounds such as formononetin, an isoflavanone, and
p-coumaric acid, a phenylpropane derivative (2). In order to prepare Nod factors, 5 liters of
Mesorhizobium sp. strain N33 was grown in the presence of
formononetin. The culture supernatant was extracted with
n-butanol, and the LCOs in the extract were purified as
described in Materials and Methods. Final purification was performed by
HPLC on a C18 column with a water-acetonitrile gradient in
the presence of ammonium acetate (Fig.
1), which allows better purification of
sulfated species by reverse-phase HPLC. A total of 2.5 mg of Nod
factors was obtained from a 5-liter culture. Nod factors were also
extracted from a culture of Mesorhizobium sp. strain N33
induced by p-coumaric acid. Compounds identical to those
obtained after induction by formononetin were obtained, as judged by
the HPLC profile and MS analysis (data not shown).

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FIG. 1.
HPLC profile of a Nod factor-enriched extract from a
formononetin-induced N33 culture supernatant. Separation was performed
in the presence of ammonium acetate as described in Materials and
Methods, with monitoring of the absorption at 206 nm. See Table 2 for a
description of the compounds found in fractions 1 to 4. No Nod factors
were found in fraction 5.
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Five HPLC fractions from a formononetin-induced culture were collected
(Fig.
1) and analyzed by LSIMS. The positive-ion spectra
of compounds
in fractions 1 to 4 exhibited a complex series of
protonated and alkali
ion-attached molecules assigned to [M +
Na]
+,
[M + K]
+, [M

H + 2Na]
+,
[M

H + Na + K]
+, and [M

H + 2K]
+ (Fig.
2a).
Confirmation of the molecular weights of the various
molecules was
performed by negative-ion spectrometry, which showed
only [M

H]

ions. Ions appearing 80 mass units (u) lower than
each MH
+ ion in the positive-ion spectra suggested the
presence of a sulfate
substituent at the Nod factor reducing end. This
suggestion was
confirmed by product ion scanning of each
MH
+ ion after collision with helium, which showed an
extensive loss
of 80 units together with fragments of the
chito-oligosaccharide
backbone (Fig.
2b). Two-dimensional NMR (COSY)
analysis of the
Nod factor mixture indicated that the sulfate was
located at position
6. The resonances of protons linked to the
O-sulfated glucosaminyl
residue were similar to those
observed previously for synthetic
Nod factors 6-O sulfated at the
reducing end (
36): H
6',

4.24
ppm, dd,
J = 9 and 3.5 Hz; H
6
4.16 ppm, dd,
J = 9 and 2 Hz; and
H
5
4.05 ppm, m.

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FIG. 2.
LSIMS analysis of N33 Nod factors. (a) Spectrum of HPLC
fraction 4, showing an MH+ ion at m/z
1,364.7 for the Nod factor identified as NodMN33 V
(iso-C17:1, Ac, S). See Table 2 for Nod factor
nomenclature. Sodium and potassium salt adducts are indicated by
asterisks. (b) Product ion spectrum from dissociation of the ion at
m/z 1,364 (constant B/E-linked scans). Intervals
of 203 u between the fragment ions indicate
N-acetylglucosamine residues, while the interval of 245 u
indicates additional O acetylation of the glucosamine residue next to
the nonreducing end. The section of panel b that was magnified
(magnification of ×5) is indicated.
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Collision-induced decomposition of MH
+ ions also induces
the cleavage of each interglycosidic bond. Analysis of the
collision-induced
dissociation (CID)-MS patterns obtained for the
different HPLC
fractions showed that two types of Nod factors were
present. The
first one possessed a chitopentameric backbone substituted
on
both ends, with a sulfate on the reducing end and various
N-acyl
groups on the nonreducing end. The second one had a
molecular
weight 42 u higher, suggesting the presence of an additional
acetyl
group (see
below).
Mesorhizobium sp. strain N33 Nod factors are partly 6-O
acetylated on the glucosamine residue next to the non reducing terminal
glucosamine.
The position of the acetyl group on the
chito-oligosaccharide backbone was determined by measuring the mass
intervals between consecutive ions of the B series (oxonium ions);
these intervals corresponded to 203 u (N-acetylglucosamine
residues), except for that between B1 and B2,
which was equal to 245 u (Fig. 2). These results indicated that the
acetyl group is located on the glucosamine residue next to the
nonreducing terminal glucosamine. Location of the O-acetyl
group on this residue was attempted by measuring the spontaneous
decomposition of the B2 ion. Either O-3 or O-6 acetylation
is possible on an internal 1,4-linked N-acetylglucosamine residue. Studies performed previously on model compounds showed that an
O-acetyl substitution at position 6 leads mostly to the elimination of water, whereas an O-acetyl substitution at
position 3 is characterized by the loss of acetic acid (Fig.
3b) (38). The major
decomposition product of the B2 ion at
m/z 657 was the B1 ion at
m/z 412, but the spectrum also showed the ion at
m/z 639 resulting from the loss of water, whereas
the elimination of acetic acid was undetectable (Fig. 3). Therefore,
the acetyl group in N33 Nod factors is located at position 6. This
assessment was confirmed by two-dimensional NMR (COSY) analysis (data
not shown). The proton resonances were close to those observed
previously for S. meliloti and R. leguminosarum
bv. viciae Nod factors, which are both 6-O acetylated, although on
another glucosaminyl residue (15, 26):
H6'
4.43 ppm, dd, J = 12 and 2.5 Hz;
H6
4.36 ppm, dd, J = 12 and 1.5 Hz;
H5
4.16 ppm, m.

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FIG. 3.
Location on O-6 (and not O-3) of the acetyl substituent
in N33 Nod factors. (a) LSIMS of products from spontaneous dissociation
(constant B/E-linked scans) of the B2 ion at
m/z 657, generated in the LSIMS spectrum of the
Nod factor shown in Fig. 2. Note the presence of an ion at
m/z 639 resulting from the loss of water and the
absence of an ion at m/z 597. The section of
panel a that was magnified (magnification of ×10) is indicated. (b)
Decomposition of oxonium ions (B ions) at m/z 246 from synthetic 3-O- and
6-O-acetyl-N-acetylglucosamine isomers, shown for
comparison. Arrows indicate characteristic fragmentations.
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A putative gene, called
orfZ, encoding a protein homologous
to microbial
O-acetyltransferases, was previously found
upstream
of the N33
nodA gene (
4). In order to
test whether this gene
is involved in the
O acetylation of
N33 Nod factors, LCOs were
purified from the culture supernatant of an
N33 derivative carrying
a Tn
5 insertion in
orfZ.
LSIMS analysis of HPLC-purified fractions
indicated that compounds with
m/
z values corresponding to those
of O-acetylated
Nod factors were still present (data not
shown).
Original saturated and
,
-unsaturated methyl-branched acyl
chain substitutions in N33 Nod factors.
Calculations based on the
masses of the B1 fragment ions suggested that the terminal
nonreducing glucosamine of N33 Nod factors was substituted either by an
acyl chain with an uneven number of carbons (C15 or
C17) or by a methyl group and an acyl chain with an uneven
number of carbons (C14 and C16). To identify
the acyl substituents, the Nod factor mixture was submitted to alkali hydrolysis. The liberated fatty acids were derivatized as
perfluorobenzyl esters and analyzed by capillary GC-MS in the
dissociative electron capture ionization mode associated with
high-energy CID of the carboxylate anions (20) (Fig.
4). The major components were identified
as saturated and
,
-unsaturated methyl-branched fatty acids of the
iso series. The presence of a methyl branch on the carbon atom next to
the methyl end, characteristic of the iso series, was deduced from the
greatly reduced loss of the C-2 neutral fragment (Fig. 4). The main
saturated methyl-branched fatty acids were characterized as
13-methyl-tetradecanoic (iso-C15:0) and 15-methyl-hexadecanoic (iso-C17:0) acids. Monounsaturated
methyl-branched fatty acids were also identified, the most abundant
being
,
-unsaturated 15-methyl-2-hexadecenoic acid (iso-
C17:1
2). The position of the double bond in
this compound was deduced from enhanced cleavage of the allylic bond,
giving the ion at m/z 83 but not lower-mass
fragments (20, 29). This main component was accompanied by
two 15-methyl-3-hexadecenoic acids (assigned to the E and
Z isomers), which probably resulted from alkali-induced isomerization of 15-methyl-2-hexadecenoic acid. Indeed, 1H
NMR studies of the whole mixture of Nod factors confirmed the above
assumption, as no signal due to a double bond at position 3 could be
detected. The iso-methyl group appeared as a doublet at 0.87 ppm, with
J = 6.7 Hz, correlating with a CH proton at 1.53 ppm.
The conjugated double bond in the E configuration induced three characteristic resonances: H2 at 5.99 ppm, dt,
J = 15 and 1.5 Hz; H3 at 6.85 ppm, dt,
J = 15 and 7 Hz; and H4 at 2.12 ppm, m.

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FIG. 4.
Characterization of fatty acids from a crude preparation
of N33 Nod factors by negative-ion GC-MS of their perfluorobenzyl
derivatives. (a) Total ion current (GC-MS profile). Peaks labeled by
asterisks corresponded to fatty acids not characterized as Nod factor
substituents by examination of the LSIMS mass spectra. This profile was
recorded in the negative-ion electron capture mode. i, iso. (b) MS-MS
profile (CID monitored ion kinetic energy spectrometry) of the
carboxylate ion at m/z 267 from
15-methyl-2-hexadecenoic acid (iso-C17:1 2).
The low abundance of the ion at m/z 237 (loss of
ethane) demonstrated the presence of a methyl group on C15.
The higher abundance of the ion at m/z 83 (allylic cleavage), associated with a lack of ions at lower
m/z values, was characteristic of
2 unsaturations.
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Synthesis of methyl-branched fatty acids by N33 is flavonoid
dependent.
Fatty acids of the iso series have never been described
as components of Nod factors. However, they are important components of
lipids in many bacteria (15, 16). We wondered whether the presence of such fatty acids in N33 Nod factors reflected the general
fatty acid composition of lipids in this bacterium or whether the iso
fatty acids were specific for the symbiosis signals. To address this
question, we first characterized the fatty acid composition of N33
cells grown in the presence or in the absence of a flavonoid inducer.
Whole N33 cell pellets were therefore submitted to alkaline hydrolysis,
and the liberated fatty acids were identified by capillary GC coupled
with electron impact MS (Fig. 5). For N33
cells grown in the presence of a flavonoid, vaccenic acid
(C18:1) was identified as the most abundant component by
far, and palmitic (C16:0) and stearic (C18:0)
acids were also found (Fig. 5a). These are the fatty acids most
commonly found in rhizobial lipids (37). In addition,
small peaks attributed to iso-C15 and iso-C17
fatty acids were seen.

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FIG. 5.
Characterization of fatty acids released by alkali
hydrolysis of N33 cells grown in the presence or in the absence of
flavonoids. The GC-MS profile of methyl esters was recorded in the
electron impact ionization mode. Asterisks indicate nonacidic
contamination. (a) Total ion current (TIC) from formononetin-induced
cells. (b) Reconstructed chromatogram of the ion at
m/z 74 from the same sample. This ion is the base
peak in the spectra of methyl esters of saturated fatty acids. This
profile was used to improve the signal-over-noise detection of
saturated fatty acids, indicating the presence of iso-C15
and iso-C17 saturated fatty acids. (c) Reconstructed
chromatogram of the ion at m/z 74 ion from a
similar preparation from noninduced N33 cells. (d) Reconstructed
chromatogram of the ion at m/z 74 from a similar
preparation of formononetin-induced cells from the N33
nodC::Tn5 mutant. i, iso.
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For better detection of the iso-C
15 and iso-C
17
fatty acids relative to the major fatty acid, vaccenic acid
(C
18:1), enhancement
of the detection of saturated fatty
acids versus unsaturated ones
was performed by reconstructing the
chromatogram of the ion at
m/
z 74, which is the
base peak in the spectra of saturated fatty
acids of the straight-chain
or iso series. Fatty acids of the
iso series, both saturated
(iso-C
15:0 and iso-C
17:0) and

,

unsaturated
(iso-C
17:1), were clearly identified in
flavonoid-induced cells
(Fig.
5b) by this method. In contrast, they
were not detected
in the chromatogram obtained for noninduced cells
(Fig.
5c). It
is noteworthy that palmitic acid (C
16:0),
although not detected
as a component of secreted Nod factors, also
seemed more abundant
in lipids of flavonoid-induced cells. The
observation that iso-series
fatty acids are found only in
flavonoid-induced cells suggests
that these compounds are specifically
involved in the signaling
process between plants and
bacteria.
It was shown for
R. leguminosarum that once synthesized, a
portion of the Nod factors is secreted in the external medium,
while
another portion of them remains in the cells (
22,
24).
Thus, a portion of the iso-series fatty acids that we found in
N33 cell
pellets are probably substituents of Nod factors. In
order to establish
whether iso-series fatty acids might be components
of other lipids, we
studied the fatty acid composition of a
nodC mutant of N33.
nodC encodes the oligochitin synthase responsible
for the
synthesis of the Nod factor oligosaccharide backbone.
nodC
mutants are therefore unable to produce chitin oligomers.
Fatty acids
released by alkaline hydrolysis of the cells of a
nodC
mutant grown with or without a flavonoid were analyzed as
before. Fatty
acids of the methyl-branched iso series were still
detected in cells
grown with the flavonoid, although in smaller
proportions than in the
flavonoid-induced wild-type strain (Fig.
5d). Thus, it is likely that
when an oligochitin acceptor is not
available, methyl-branched fatty
acids can be substituents of
other
lipids.
The Mesorhizobium sp. strain N33 nodE gene
is required for the synthesis of Nod factors with
,
-unsaturated
fatty acids.
The presence of Nod factors with fatty acids bearing
carbonyl-conjugated double bonds was expected, since the strain under study possesses nodFE genes. These genes are required for
the synthesis of Nod factors with
,
-unsaturated acyl substituents in R. leguminosarum and S. meliloti (7,
34). We thus studied Nod factors produced by an N33 strain
carrying a Tn5 insertion in the nodE gene. Nod
factors were purified from the culture medium of the mutant grown in
the presence of flavonoids and were hydrolyzed with alkali. The
released fatty acids were analyzed by capillary GC coupled with MS as
methyl ester derivatives. Unsaturated fatty acids of the iso series
could not be detected, whereas saturated fatty acids of the iso series
were still present, with a high proportion of the iso-C15
component (Fig. 6a). Fatty acids in whole-cell lipids were also characterized by the same method; again, no
unsaturated fatty acids of the iso series were detected (data not
shown).

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FIG. 6.
Role of the nodE gene in the synthesis of N33
, -unsaturated Nod factors. (a) GC-MS profile (electron impact
ionization mode) of methyl ester derivatives of fatty acids released by
hydrolysis of Nod factors secreted by the N33
nodE::Tn5 mutant. Note the absence of
the iso-C17:1 fatty acid. The section of panel a that was
magnified (magnification of ×3) is indicated. i, iso. (b) GC-MS
profile (electron impact ionization mode) of methyl ester derivatives
of fatty acids in Nod factors secreted by the S. meliloti
nodAFEG (pN33nodAFEG) hybrid strain. TIC,
total ion current.
|
|
In order to check that the defect in Nod factor synthesis observed for
the
nodE mutant was not due to a polar effect of the
mutation on downstream genes, we characterized the acyl chain
in Nod
factors produced by a strain with a mutation in
nodG,
located
just downstream of
nodE. Unsaturated fatty acids of
the iso series
(iso-C
17:1) were detected (data not shown).
Therefore,
nodG is
not required for the synthesis of these
fatty acids, whereas
nodE is.
An intriguing observation is that the only fatty acid with a
carbonyl-conjugated double bond is the methyl-branched C
17
fatty
acid of the iso series, while most of the fatty acids produced
by
Mesorhizobium sp. strain N33 are straight-chain fatty acids.
In other rhizobia that produce straight-chain polyunsaturated
Nod
factors, it is hypothesized that NodFE proteins act on the
same
short-chain precursors as for the synthesis of common fatty
acids
(vaccenic and stearic acids). Is the selectivity for branched
chains
observed here due to a strict specificity of N33 NodFE
or NodA
(acyltransferase) for structures of the iso series? To
address this
question, we constructed an
S. meliloti strain in
which the
nodAFEG genes were replaced by those of N33. We first
constructed an
S. meliloti strain carrying two deletions
eliminating
nodA and
nodFEG. A plasmid carrying
the N33
nodAFEG genes under
the control of their
nod box was then transferred to the deletion
strain.
Finally, a plasmid carrying the
Rhizobium sp. strain NGR234
nodD1 gene was introduced into the transconjugant in order
to
overexpress the other
nod genes and produce sufficient
amounts
of Nod factors for characterization. Nod factors were purified
from the culture supernatant, and the Nod factor acyl chains were
analyzed by GC-MS as described above. In the profile of fatty
acids
released from the Nod factors, a variety of straight-chain
fatty acids
with zero, one, and two double bonds were detected.
Their structures
were similar to those already identified for
Nod factors from wild-type
S. meliloti strains. Thus, the NodFE
and NodA proteins from
N33 are able to use straight-chain precursors
as
substrates.
 |
DISCUSSION |
The Nod factors of Mesorhizobium sp strain N33
(O. arctobia) are chitopentamers of
N-acetylglucosamine, 6-O sulfated at the reducing end,
partially 6-O acetylated at the glucosamine residue proximal to the
nonreducing terminal glucosamine, and N acylated at the nonreducing end
by saturated and
,
-monounsaturated methyl-branched fatty acids
(Fig. 7 and Table
2). In comparison with the previously described Nod factor structures, these molecules have novel features. These molecules are 6-O acetylated at the glucosamine residue proximal
to the nonreducing terminal glucosamine. Recently, substitution of this
residue was described for Mesorhizobium loti NZP2213, where
a fucose substituent was present on O-3 (23), and for R. galegae, where an acetyl substitution was found on O-3
(40). The biological importance of these substituents is
currently unknown, as are the genes encoding the substitutions. O
acetylation of Nod factors on the terminal nonreducing and reducing
glucosamine residues was described previously, and two different genes
encoding the corresponding O-acetyltransferases were found
in rhizobia: nodL and nodX, which encode
6-O-acetyltransferases specific for the nonreducing and
reducing glucosaminyl ends, respectively (10, 25).
Sequencing of the N33 DNA upstream of nodA revealed the presence of orfZ (4), which is homologous to
bacterial O-acetyl transferase genes. However, a strain
mutated in orfZ still produced acetylated Nod factors,
suggesting that either this gene is not involved in the acetylation of
N33 Nod factors or other N33 genes can replace it in this function.
The other substitution peculiar to N33 Nod factors is the fatty acyl
chain. Methyl-branched fatty acids of the iso series, one of them
,
unsaturated, are substituents of N33 Nod factors. All of the
Nod factor acyl chains described so far in other rhizobia are
unbranched, as are the major fatty acid components of rhizobial lipids.
However, in many bacteria, methyl-branched fatty acids are important
components of cellular lipids. They play a role in the adaptation to
cold temperatures, since they decrease the phase transition temperature
of the lipids in which they are incorporated (16). We
therefore wondered whether methyl-branched fatty acids could be major
components of lipids in arctic strain N33 and thus could replace linear
fatty acids in Nod factors. We found that in bacteria grown at 20°C
in the absence of flavonoids, methyl-branched fatty acids could not be
detected; in addition, they were quantitatively minor components of
lipids in bacteria cultivated in the presence of flavonoids. Synthesis
of methyl-branched fatty acids thus seems specific for the signal
exchange between N33 and its host plant, and as such, it could
contribute to the specificity of this symbiotic interaction. However,
we cannot exclude the possibility that synthesis of the methyl-branched
fatty acids is also induced when Mesorhizobium sp. strain
N33 is grown at low temperatures. If this were the case then
methyl-branched fatty acids could also be involved in a general
adaptation of N33 to life at low temperatures.
In addition to LCOs, methyl-branched fatty acids could be substituents
of other N33 lipids. This idea is suggested by our observation that an
N33 strain mutated in nodC and therefore unable to
synthesize the chito-oligosaccharide backbone of Nod factors still
contained methyl-branched fatty acids. Such a substitution of lipids
different from LCOs by symbiosis-specific fatty acids was described
previously by Geiger et al. (12, 13). These authors showed
that nodFE-dependent polyunsaturated fatty acids could be
substituents of R. leguminosarum bv. viciae phospholipids. However, it is not known whether these nodFE-dependent
phospholipids play a role in the symbiotic process.
The presence of methyl-branched fatty acyl chains in N33 LCOs raises
the question of the biosynthesis of the corresponding fatty acids in
N33. These fatty acids are important components of membrane lipids in
bacteria such as Bacillus, where their biosynthetic pathways
have been studied. Differences in the biosynthesis of methyl-branched
fatty acids and straight-chain fatty acids lie in the primers that are
used in the initial condensation reaction catalyzed by the fatty acid
synthase (16). For branched-chain fatty acids of the iso
series, such as iso-C15:0 or iso-C17:0, the
primers are derivatives of the methyl-branched amino acid leucine, most
likely
-ketoisocaproyl- or isovaleryl-coenzyme A. Synthesis of such
primers or their conversion to acyl carrier protein derivatives by a
fatty acid synthase complex might be flavonoid dependent in N33. This
idea would explain why flavonoids are required for the production of
lipids with branched-chain fatty acids.
In addition to being methyl branched, one of the fatty acyl components
of N33 Nod factors is
,
unsaturated. In N33, acyl groups with
more than one conjugated double bond have not been detected, while in
other rhizobia synthesizing Nod factors with
,
-unsaturated fatty
acyl groups (R. leguminosarum bv. viciae, R. leguminosarum bv. trifolii, M. huakuii, R. galegae, and
S. meliloti), up to three carbonyl-conjugated double bonds
have been characterized (20, 31, 34, 35, 40). In addition,
in the latter four species, contrary to N33, fatty acid chains are linear and generally carry a cis double bond at the
7
position. As in R. leguminosarum and S. meliloti,
the nodE gene is required in N33 for the synthesis of Nod
factors with
,
-unsaturated fatty acids. It was proposed earlier
(12) that the acyl carrier protein NodF and the putative
condensing enzyme NodE could modify normal fatty acid biosynthesis in
such a way that
,
-unsaturated fatty acid derivatives would not
undergo the step of reduction of the enoyl intermediate. Such a model
could also apply to the biosynthesis of N33 Nod factor acyl chains, if
it is postulated that N33 NodFE proteins have a higher affinity for
branched-chain intermediates than for unbranched ones. However, this
preference would not be strict, since when the nodAFEG genes
of N33 were transferred to an S. meliloti strain with a
deletion of its nodAFEG genes, Nod factors possessing linear
,
-unsaturated fatty acyl chains were produced. It is likely that
in S. meliloti, branched precursors are not synthesized, so
that N33 NodFE proteins instead use available linear precursors, such
as acetyl- and malonyl-acyl carrier proteins.
In a recent work (40), it was proposed that a cluster of
phylogenetically related legumes are nodulated by rhizobia producing Nod factors with
,
-unsaturated fatty acids. This cluster includes the Trifolieae, Vicieae, and Galegeae tribes. Strain N33, which produces Nod factors with
,
-unsaturated fatty acids, was isolated from O. arctobia, a member of the Galegeae tribe. It also
nodulates O. viciifolia, a member of the Hedysareae tribe,
which is closely related to the Galegeae tribe. Therefore, the present
work confirms the earlier proposal and extends the cluster of related
legumes nodulated by rhizobia producing Nod factors with
,
-unsaturated fatty acids to members of the Hedysareae tribe. We
hypothesized that in this group of plants, a new mechanism allowing the
recognition of structural features of the Nod factor acyl chain
evolved. This led to new possibilities for determining the specificity
of rhizobium-plant interactions. Previously, two sources of variation
among rhizobial LCO
,
-unsaturated fatty acids were known, the
length of the acyl chain and the number of conjugated double bonds.
With N33, another source of variation was explored, the branching of
the acyl chain; the latter might contribute to the peculiar host range of this species, together with the other substitutions. Methyl-branched fatty acids could also play a role in the adaptation of signaling mechanisms to low temperatures. It would be interesting to determine the structure of the acyl chain in Nod factors produced by other arctic rhizobia.
 |
ACKNOWLEDGMENT |
We are grateful to P. Roche for helpful discussions and
critical reading of the manuscript.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Laboratoire de
Biologie Moléculaire des Relations Plantes-Microorganismes,
INRA-CNRS, BP27, 31326 Castanet-Tolosan Cedex, France. Phone:
33561285463. Fax: 33561285061. E-mail:
debelle{at}toulouse.inra.fr.
 |
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Journal of Bacteriology, June 2001, p. 3721-3728, Vol. 183, No. 12
0021-9193/01/$04.00+0 DOI: 10.1128/JB.183.12.3721-3728.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.
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