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Infection and Immunity, September 2000, p. 4992-5001, Vol. 68, No. 9
0019-9567/00/$04.00+0
Copyright © 2000, American Society for Microbiology. All rights reserved.
Expression and Immunological Analysis of the
Plasmid-Borne mlp Genes of Borrelia burgdorferi
Strain B31
Stephen F.
Porcella,*
Cecily A.
Fitzpatrick, and
James L.
Bono
Laboratory of Human Bacterial Pathogenesis,
National Institute of Allergy and Infectious Disease, National
Institutes of Health, Rocky Mountain Laboratories, Hamilton, Montana
59840
Received 17 March 2000/Returned for modification 11 May
2000/Accepted 28 May 2000
 |
ABSTRACT |
A lipoprotein gene family first identified in Borrelia
burgdorferi strain 297, designated 2.9 LP and
recently renamed mlp, was found on circular and
linear plasmids in the genome sequence of B. burgdorferi
strain B31-M1. Sequence analyses of the B31 mlp genes and
physically linked variant gene families indicated that mlp
gene heterogeneity is unique and unrelated to location or linkage to
divergent sequences. Evidence of recombination between B31
mlp alleles was also detected. Northern blot analysis of
cultured strain B31 indicated that the mlp genes were not
expressed at a temperature (23°C) characteristic of that of ticks in
the environment. In striking contrast, expression of many
mlp genes increased substantially when strain B31 was
shifted to 35°C, a temperature change mimicking that
occurring in the natural transmission cycle of the spirochete from tick
to mammal. Primer extension analysis of the mlp mRNA transcripts suggested that sigma 70-like promoters are involved in
mlp expression during temperature shift conditions.
Antibodies were made against strain B31 Mlp proteins within the first 4 weeks after experimental mouse infection. Importantly, Lyme disease patients also had serum antibodies reactive with purified recombinant Mlp proteins from strain B31, a result indicating that humans are
exposed to Mlp proteins during infection. Taken together, the data
indicate that strain B31 mlp genes encode a diverse
array of lipoproteins which may participate in early infection
processes in the mammalian host.
 |
INTRODUCTION |
Lyme disease caused by the bacterium
Borrelia burgdorferi is the most prevalent arthropod-borne
disease in the United States (47). Humans acquire the
infection when the organism is transmitted by the bite of infected
Ixodes ticks. Subsequent tissue invasion results in diverse
clinical manifestations such as erythema migrans, flu-like symptoms,
and neurologic, musculoskeletal, and cardiac problems (4, 21, 33,
36, 37, 46).
Most B. burgdorferi outer surface proteins are lipoproteins
(29). B. burgdorferi strain B31-M1 has 21 extrachromosomal elements, which may carry up to 91 lipoprotein-encoding genes (9). The synthesis of several
outer surface lipoproteins increases when B. burgdorferi
cultures are shifted from 23 to 35°C (5, 34, 42, 45).
Temperature-shifted cultures are presumed to mimic the warming that
occurs when the tick attaches to the mammal and feeds. Several outer
surface lipoproteins synthesized by B. burgdorferi grown at
35°C are recognized by sera from infected animals (34, 42), indicating that the mammal is exposed to these proteins during infection or transmission. Antigens expressed early in infection
have potential serodiagnostic or vaccine utility.
A lipoprotein-encoding family of seven genes designated 2.9 LP located on 30- and 18-kb supercoiled plasmids was
originally discovered and characterized in B. burgdorferi
strain 297 (28). Recently, three new members of this gene
family were characterized in strain 297 and renamed mlp (for
"multicopy lipoprotein genes") (49). Mlp homologues also
are made by Borrelia hermsii (41) and
Borrelia afzelii (44). The mlp genes
in B. burgdorferi strain 297 can be assigned to categories
on the basis of molecular size, protein sequence, and serologic
reactivity (28). Two distinct categories of noncoding
DNA sequences located immediately upstream of the ribosomal binding
site of the mlp genes have been identified (28,
49).
B. burgdorferi strain B31-M1 may contain a combination of
nine related 32-kb circular plasmids (designated cp32-1 through cp32-9)
and a related linear plasmid (designated lp56) that contains an
integrated cp32 plasmid (9, 10, 53, 54). Analysis of the
seven cp32 plasmids and lp56 plasmid from the strain B31-M1 sequenced
genome identified three families of loci named erp, orfC/orf3, and mlp. Two of these gene families
(erp and mlp) encode lipoproteins, whereas the
third (orfC/orf3) is believed to participate in plasmid
partitioning (40).
Several lines of evidence suggest that members of the Mlp family
participate in host-pathogen interactions. First, Akins et al.
(2) demonstrated that one mlp operon in strain
297 was expressed only in vivo in dialysis chambers and not at 23, 34, or 37°C following a temperature shift. Second, Yang et al.
(49) analyzed three other mlp genes in strain 297 and discovered that their expression increased when the cultures were
shifted from 23 to 37°C and that they were antigenic in infected
mice. Third, Mlps are lipoproteins, molecules that constitute a
significant fraction of the spirochete outer surface and induce
immunological responses in the host (16, 22, 24, 48).
Fourth, a recent investigation has discovered that Mlp homologs in
B. hermsii are antigenic in relapsing-fever patients
(41).
Taken together, these observations suggest that Mlps are important
molecules that may participate in the pathogenesis of human Lyme
disease. The goal of the present study was to investigate molecular
variation, expression, and antigenicity of nine mlps identified in the genome of B. burgdorferi strain B31.
 |
MATERIALS AND METHODS |
Bacterial strains.
B. burgdorferi strain B31 was
originally isolated from an infected Ixodes scapularis tick
collected on Shelter Island, N.Y. (7). This strain has been
established in the laboratory by means of an infectious cycle between
I. scapularis and mice (34). Clone B31-4A
was derived from a single colony of infectious B31 plated on solid
Barbour-Stoenner-Kelly (BSK) and retains mouse infectivity (10,
19). Clone B31-e1 was derived from a single colony of a
high-passage, noninfectious culture of B31 (10).
B. burgdorferi was cultured in BSK-H broth (Sigma, St.
Louis, Mo.) supplemented with 6% heat-inactivated rabbit serum (Sigma) at 23 or 35°C as previously described (34, 42). Briefly,
500-ml cultures were grown at 23°C to a density of approximately
107 bacteria per ml; this required approximately 3 weeks.
For temperature shift conditions, a 100-ml volume of this culture was
diluted into 500 ml of prewarmed fresh medium and grown at 35°C to a
density not greater than 108 bacteria per ml (approximately
3 to 5 days). The bacteria were pelleted by centrifugation.
Cloning the B31 mlp genes.
Total genomic
DNA from strains B31-e1 and B31-4A was purified from 500 ml of
mid-log-phase BSK-H broth cultures with a DNA extraction kit
(Stratagene, San Diego, Calif.). DNA was quantitated by UV
spectroscopy, and 0.1 µg of DNA was used for PCRs. B31 mlp genes were given an alphabetical designation related to the cp32 plasmid (9, 10) on which they are found. The mlp
gene names in relation to their respective plasmid location are
designated as follows: mlpA, cp32-1; mlpB,
cp32-2; mlpC, cp32-3; mlpD, cp32-4; mlpF, cp32-6; mlpG, cp32-7; mlpH,
cp32-8; mlpI, cp32-9; and mlpJ, lp56. The
sequences for the mlpB and mlpE genes were not
available from The Institute for Genomic Research (TIGR) website
(www.tigr.org) because the plasmids encoding these genes (cp32-2 and
cp32-5) were not present in the sequenced B31-MI strain (9).
For the mlpB gene, Expand Long Template PCR (Boehringer
Mannheim, Indianapolis, Ind.) was performed, as recommended by the
manufacturer, on B31-e1 genomic DNA with primers designated
ErpC-prime and BB-2 (Table 1). A 12-kb
fragment was amplified, and the region containing the mlpB
gene was sequenced directly with primers ErpC-prime, Cp-2, ErpC-Lp2,
and BB-2 (Table 1).
The primers used to amplify the
mlpB gene from B31-e1 for
cloning into the pCR2.1 vector (Invitrogen, Carlsbad, Calif.) were
designated
mlpB-5' and
mlpB-3' (Table
1). Primers
for amplifying
DNA fragments containing the
mlpA,
mlpC,
mlpD,
mlpF,
mlpG,
mlpH,
mlpI, and
mlpJ, for cloning in
the pCR2.1 vector, were designed
based on the B31 cp32 sequences
available from the TIGR website.
The same 5' primer for several
mlp genes (
mlpA and
mlpF,
mlpC and
mlpD, and
mlpG,
mlpH,
mlpI, and
mlpJ) was used in
conjunction
with a unique 3' primer. The 5' primers were designated
mlpA/F-5',
mlpC/D-5', and
mlpG/H/I/J-5', and the 3' primers were designated
mlpA-3',
mlpC-3',
mlpD-3',
mlpF-3',
mlpG-3',
mlpH-3',
mlpI-3',
and
mlpJ-3' (Table
1).
The
mlpB-5' and
mlpB-3' primers (Table
1) were
used with B31-e1 genomic DNA. B31-e1 has been described as
containing cp32-1,
cp32-2, cp32-3, and cp32-4 but lacks the other cp32
plasmids (
10).
The
mlpA/F-5',
mlpC/D-5',
mlpG/H/I/J-5',
mlpA-3',
mlpC-3',
mlpD-3',
mlpF-3',
mlpG-3',
mlpH-3',
mlpI-3', and
mlpJ 3' primers were used
with B31-4A DNA. B31-4A contains
lp56 and all the cp32 plasmids
except cp32-2 (
10).
All PCRs were performed in a total volume of 100 µl under mineral oil
with the following thermocycler conditions: heat denaturation
at 94°C
for 1 min, annealing at 50°C for 30 s, and extension at
72°C
for 2 min. Twenty-five of these cycles were followed by 7
min of
fill-in extension at 72°C. PCR fragments of 499, 676, 566,
525, 506, 524, 553, 538, and 729 bp containing the genes for
mlpA,
mlpB,
mlpC,
mlpD,
mlpF,
mlpG,
mlpH,
mlpI, and
mlpJ,
respectively,
were
produced.
The PCR fragments were excised from agarose gels, and the fragment was
purified on (

)EtBr spin columns (Supelco, Bellefonte,
Pa.) as
specified by the manufacturer. Fragments were then quantitated
by UV
spectroscopy, ligated with the pCR2.1 vector, and transformed
into
INV

F' cells as specified by the manufacturer (Invitrogen).
Recombinants were selected, and the plasmids were purified and
sequenced. The resulting plasmids were designated pCR-MlpA, pCR-MlpB,
pCR-MlpC, pCR-MlpD, pCR-MlpF, pCR-MlpG, pCR-MlpH, pCR-MlpI, and
pCR-MlpJ.
DNA sequencing.
PCR fragments were sequenced by the
following method. PCR products that were free of contaminating bands as
assessed by agarose gel electrophoresis were purified and concentrated
with a Centricon 100 concentrator (Millipore, Bedford, Mass.). PCR
products with additional contaminating bands were purified in a
different manner. The fragment of interest was excised from the gel and
purified with a Supelco (
)EtBr spin column. DNA was quantitated by UV spectroscopy and diluted for automated DNA sequencing with an Applied
Biosystems Inc. model 373 Stretch automated DNA sequencer and ABI PRISM
dye terminator ready-reaction cycle-sequencing kit (PE Biosystems,
Foster City, Calif.). DNA plasmids were purified with a Qiagen Midi kit
(Qiagen, Valencia, Calif.).
DNA sequence analysis.
Nucleotide and deduced amino acid
sequences were analyzed with MacVector version 6.5.1 (Oxford Molecular,
Beaverton, Oreg.) and compared to reference sequences obtained from the
TIGR website. Sequence alignments, phylogenetic tree construction, and
calculation of protein sequence similarity values were performed with
DNASTAR (Lasergene, Madison, Wis.). Protein sequence identity values
were calculated by pairwise alignment of protein sequences in GAP
(Genetics Computer Group, Madison, Wis.). Sequence and primer extension data were further analyzed with the
70 consensus search
program MACTARGSEARCH (25). Detection and analysis of
recombination between mlp alleles were performed by previously described statistical methods (38).
Bendability/curvature propensity plots were calculated with the bend.it
server, with the DNase I-based trinucleotide bendability parameters
described by Brukner et al. (6) and the consensus
bendability scale (12).
Phylogenetic analyses also were performed with the PHYLIP phylogeny
inference package, version 3.57c, written by Joseph Felsenstein,
Department of Genetics, University of Washington, Seattle, Wash.
The
Jukes and Cantor method of nucleotide substitution (DNADIST)
was used
for comparative purposes, and distance matrices were
analyzed by the
neighbor-joining method (NEIGHBOR). Multiple bootstrapped
data sets
(SEQBOOT) were constructed with ClustalV alignments
and then analyzed
by using distance matrix construction (DNADIST)
or parsimony analysis
(DNAPARS). Trees were constructed from data
sets by the
neighbor-joining method NEIGHBOR or the Fitch Margoliash
and
Least-Squares method (KITCH). Majority-rule consensus trees
were
constructed with the program CONCENSE and RETREE. All phylogenetic
trees were viewed with TreeView, version 1.5, written by Roderic
D. M. Page, Division of Environmental and Evolutionary Biology,
University of Glasgow, Glasgow, United
Kingdom.
Northern blots.
Total RNA was extracted from B. burgdorferi B31-4A and B31-e1 cells grown at 23°C or after the
temperature shift to 35°C, with Ultraspec isolation solution
(Biotecx, Houston, Tex.). The RNA was denatured with glyoxal and
dimethyl sulfoxide, separated by agarose gel electrophoresis in 10 mM
sodium phosphate buffer (pH 7.0) (32), and transferred to
nylon membranes (Micron Separations, Westborough, Mass.). Probes
specific for each of the B31 mlp genes and the
flaB (flagellin) gene were generated by PCR from pCR2.1 recombinant plasmids with the cognate gene. Probe specificities were
first established by searching probe DNA sequences against the B31-M1
genome on the TIGR website. The oligonucleotides used to generate these
PCR fragment probes are listed in Table 1. The flaB-specific
probe was generated as previously described (39). DNA
fragments generated by PCR were gel purified by using QIAEX II kit
(QIAGEN) and radiolabeled with [
-32P]dATP (NEN
Research Products, Du Pont, Boston, Mass.) by random priming.
Unincorporated radiolabel was removed by column chromatography. To
check for probe specificity, purified DNAs from the pCR2.1 recombinant
clones were digested with EcoRI for 2 h at 37°C to linearize the DNA and 1 µg of the DNA was transferred to
nitrocellulose with a vacuum dot-blot apparatus (Bio-Rad, Hercules,
Calif.). Dot blot filters were hybridized overnight at 65°C in 2×
Denhardt's solution-6× SSC (1× SSC is 0.15 M NaCl plus 0.015 M
sodium citrate)-1 mM EDTA-100 µg of sonicated salmon sperm DNA per
ml in a rotating hybridization oven (Robbin's Scientific Corp.,
Sunnyvale, Calif.). Following hybridization, the nitrocellulose filters
were washed twice for 15 min at 65°C in 2× SSC containing 0.1%
sodium dodecyl sulfate (SDS) and then four times for 15 min each at
room temperature in 0.1× SSC containing 0.1% SDS. The filters then
were subjected to autoradiography at
70°C for 4 to 48 h.
For Northern analysis, nylon membranes containing total RNA from
B. burgdorferi B31-4A or B31-e1 were hybridized with
10
6 counts of each radiolabeled probe at 55°C in 1%
(wt/vol) bovine
serum albumin-7% (wt/vol) SDS-0.5 M sodium phosphate
(pH 7.0)-1
mM EDTA. The membranes were washed at 55°C in 0.2×
SSC-1% (wt/vol)
SDS as previously described (
5). The
radioactivity was allowed
to decay for more than 2 months until the
signal diminished to
a point no longer detectable by autoradiography
and the membrane
was reprobed with the
fla probe as
previously described (
39)
under similar hybridization
conditions.
Primer extension analysis.
RNA for primer extension analysis
was extracted from B. burgdorferi B31-4A or B31-e1 grown at
23°C or after the shift to 35°C by using Ultraspec isolation
solution (Biotecx). The RNA was treated with DNase (Promega, Madison,
Wis.), dissolved in sterile deionized water treated with 0.1%
diethylpyrocarbonate, and quantitated by UV spectroscopy.
mlpA and
mlpC were chosen for study on the basis
of the uniqueness of their upstream and coding sequences for primer
specificity.
The DNA sequences of
mlpA and
mlpF
are identical for the first
124 bases upstream and 275 bases downstream
of the start codons.
This high level of identity precluded the design
of a primer that
would differentiate between transcripts for these two
genes. Therefore,
a primer (designated
mlpA/F-PE) that would
bind equally well to
mlpA or
mlpF transcripts was
made. Base differences within the
regulatory and coding regions for
mlpC,
mlpD,
mlpG,
mlpH,
mlpI,
and
mlpJ allowed the design of a primer
specific for
mlpC transcript
expression, and this primer was
designated
mlpC-PE (Table
1).
Alignment of the
mlpA/F-PE and
mlpC-PE primers against the B31-M1
total genome sequence established that these primers were specific
for
their
targets.
Extension reactions were performed with the avian myeloblastosis virus
reverse transcriptase primer extension system (Promega).
The reaction
products were loaded onto a 6% or 8% acrylamide sequencing
gel. A
1,093-bp DNA fragment containing the start codon and upstream
sequence
for the
mlpA gene was made with primers designated
mlpAprom-5'
and
mlpAprom-3' (Table
1) and cloned
into the pCR2.1 vector (Invitrogen).
The plasmid DNA (designated
p
mlpA-prom) was purified and used
as a sequencing marker.
For primer extension analysis of the
mlpC gene, a 1,174-bp
DNA fragment containing the
mlpC ATG start codon
and
upstream sequence was made with primers designated
mlpCprom-5'
and
mlpCprom-3' (Table
1). This
fragment was cloned into the
pCR2.1 vector (designated
p
mlpC-prom) and used as a sequencing
marker for
mlpC primer extension analysis. All sequencing reactions
were performed with the Amplicycle sequencing kit (PE
Biosystems).
Recombinant Mlp proteins and Western blotting.
Genes
encoding Mlp proteins were amplified with PCR primers that would result
in a XhoI site and a BamHI site for restriction digestion and cloning in frame with an amino-terminal histidine tag in
the pET-15b expression vector (Novagen, Madison, Wis.). The same 5'
primer (designated MlpA/C/F/H-His5') was used for the mlpA,
mlpC, mlpF, and mlpH genes (Table 1).
For mlpB, mlpD, mlpG, mlpI,
and mlpJ, unique 5' primers were designated MlpB-His5', MlpD-His5', MlpG-His5', MlpI-His5', and MlpJ-His5', respectively (Table
1). The same 3' primer, designated All(-G)His3' (Table 1), was
used with all of the above-mentioned 5' primers. Unique primers
designated MlpG-His5' and MlpG-His3' were used for cloning and
expression of the mlpG gene. The 5' fusion primers begin
with the codon for the first amino acid immediately downstream of the lipidated cysteine, and the 3' primers correspond to the sequence in
the pCR2.1 vector. The Mlp-His fusion proteins were terminated by the
encoded Borrelia mlp termination sequence in each construct.
All PCRs were performed in a total volume of 100 µl under mineral oil
with the appropriate primer set and the appropriate
pCR2.1 recombinant
DNA as the template. The PCR conditions used
were 25 cycles of 94°C
for 1 min, 50°C for 30 s, and 72°C for
2 min followed by one
cycle of 7 min at 72°C. The pET15b vector
(Novagen) was digested with
XhoI and
BamHI enzymes, purified with
(

)EtBr
spin columns, and ligated to the fusion PCR fragments.
Ligation
reaction mixtures were transformed into BLR(DE3) competent
cells
(Novagen). Recombinants were induced with
isopropyl-

-
D-thiogalactopyranoside
(IPTG) and the
proteins encoded by
mlpA,
mlpC,
mlpD,
mlpF,
mlpG,
mlpH,
mlpI, and
mlpJ were identified in supernatant fractions
by
SDS-polyacrylamide gel electrophoresis analysis. These proteins
were
purified as recommended by the manufacturer (Novagen). The
MlpB fusion
protein was present in the cell pellet fraction, and
attempts to purify
the protein under denaturing conditions were
unsuccessful.
Purified proteins were quantitated with the Bio-Rad protein assay kit,
and 2 µg of each protein was loaded onto 15% polyacrylamide
gels and
subjected to SDS-polyacrylamide gel electrophoresis.
The gels were
stained with Coomassie blue or transferred to nitrocellulose.
Mouse
serum collected 4 weeks (two mice) or 8 weeks (three mice)
after
infection of the mouse, via a tick bite, with a low-passage,
nonclonal
population of B31, was provided by Tom Schwan, Rocky
Mountain
Laboratories (
39). The individual 4- and 8-week mouse
sera
were pooled separately prior to immunoblotting of nitrocellulose
membranes. Control sera were collected from two mice not infected
with
B. burgdorferi. Eleven human sera were collected from Lyme
disease patients and provided by Tom Schwan. The diagnosis of
Lyme
disease was based on p39 immunoreactivity and clinical presentation
consistent with Lyme disease (
35). In addition, sera
collected
from five noninfected humans, with no previous exposure to
B. burgdorferi, were used in immunoblotting
experiments.
Western blotting was performed as previously described with slight
modifications (
39). Briefly, primary incubations were
performed for 1 h with mouse or human sera at a 1:100 dilution.
A
rabbit anti-mouse or anti-human horseradish peroxidase-conjugated
secondary antibody at 1:20,000 dilution was incubated with the
membrane
for 1 h in phosphate-buffered saline-Tween. Membranes
were
developed with the ECL kit as specified by the manufacturer
(Amersham,
Piscataway, N.J.).
Nucleotide sequence accession number.
The sequence for the
B31 mlpB gene has been deposited in GenBank under accession
number AF245449.
 |
RESULTS |
mlp genes in strain B31.
B. burgdorferi
strain B31 can contain nine different cp32 plasmids and a related
linear plasmid designated lp56. The B. burgdorferi strain
recently sequenced (B31-M1) contains seven cp32 mlp genes (cp32-2 and cp32-5 are absent) and one lp56 mlp gene. We
used DNA purified from a B31 passage variant known to contain cp32-2 to
amplify a large fragment that extended from the erpC gene to the intergenic region located 3' of the mlp gene on cp32-2.
Sequence analysis of this PCR fragment indicated that a mlp
gene homologue (designated mlpB) was present. Our attempt to
clone the mlp gene located on the cp32-5 plasmid with a
similar strategy was unsuccessful.
Alignment of the Mlp protein sequences encoded by
mlp genes
in strains 297 and B31 identified a relatively conserved consensus
signal peptidase II cleavage site for all Mlps (Fig.
1). Mlp proteins
have been previously
assigned to two categories or classes on
the basis of sequence
homology, reactivity with polyclonal antisera,
and molecular weight
(
28,
49). Phylogenetic tree construction
with the amino acid
sequences of 9 strain B31 Mlps and 10 strain
297 Mlps confirmed that
two distinct sequence families exist and
that
mlpB encodes a
class I protein (Fig.
2). Identity values
ranged from 22.1 to 43.1% for comparison of Mlp class I proteins
with
class II proteins within or between the two strains. Within
the two
classes, the identity values were 68.7 to 86.4% for class
I proteins
and 65.8 to 88.6% for class II proteins. The phylogenetic
analysis
also found that divergent or unique Mlp proteins exist
between the two
strains (Fig.
2). For example, only four of nine
strain B31 Mlp
proteins were related to strain 297 Mlp proteins
(Mlp-2 and MlpC,
81.1% identity; Mlp-4 and MlpJ, 88.6% identity;
Mlp-8 and MlpH,
81.4% identity; and Mlp-3 and MlpG, 74.4% identity).
Hence, there are
no closely related Mlp homologs (>95%) in strains
B31 and 297.

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FIG. 1.
Alignment of Mlp proteins from strain B31 and 297. The
protein alignment was constructed with ClustalV (15). Mlp
proteins from strain 297 were numerically designated (Mlp1, Mlp2,
etc.), and Mlp proteins from strain B31 have alphabetical designations
(MlpA, MlpB, etc.). The bracket identifies the consensus signal
peptidase II sequence. The lipidated cysteine is shown in bold type.
Boxed residues indicate perfect matches with consensus sequence. Dashes
indicate gaps created during the alignment process.
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FIG. 2.
Phylogenetic tree of Mlp proteins from strains B31 and
297. The phylogenetic tree was constructed by using ClustalV
(15) and the nearest-neighbor joining method
(31). Class I and class II groupings are shown. Mlp proteins
from strain 297 are numerically designated (Mlp1, Mlp2, etc.), and Mlp
proteins from strain B31 have alphabetical designations (MlpA, MlpB,
etc.). The scale represents the number of amino acid replacements,
expressed as a percentage of the number of residue positions
compared.
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|
The cp32
orfC/orf3 genes encode proteins similar to ParA and
SopA (
3,
54), products required for efficient partitioning
of low-copy-number plasmids in other bacteria (
1,
27).
Sequence
analysis of
orfC/orf3 loci that have physically
linked
erp loci
was used to assess the possibility of past
recombination events
within the
erp genes on the cp32
plasmids (
40). Comparison of
strain B31
mlp
phylogenetic trees with previously published trees
for the B31
orfC/orf3 loci (
40) indicated that the sequence
differences observed among the
mlp genes were distinct and
did
not correlate with differences observed in cp32 plasmids or
orfC/orf3 loci. For example,
mlpB (cp32-2) and
mlpJ (lp56), both encoding
members of the class I proteins,
are most homologous to each other,
whereas the cp32-2
orfC/orf3 locus is most similar to the cp32-7
orfC/orf3 locus and the lp56
orfC/orf3 locus is
most similar to
the cp32-8
orfC/orf3 locus (
40).
Similar sequence analysis of
the strain B31
erp genes did
not identify a correlation between
linkage and sequence heterogeneity
for the
erp and
mlp loci (data
not shown). These
data suggest that strain B31
mlp sequence diversity
is
distinct and unrelated to the diversity observed in two other
linked,
heterogeneous loci on strain B31 cp32
plasmids.
To determine if intragenic recombination between the
mlp
genes had occurred and therefore may have contributed to the distinct
sequence heterogeneity observed for these genes in strain B31,
seven
members of the B31 class II Mlp protein-encoding genes were
analyzed.
The strain B31 class I protein genes were not included
because they
demonstrated bias due to their small sample size
and significant
sequence divergence from class II protein-encoding
genes. Recombination
identification was performed by a statistical
phylogenetic partitioning
method that comparatively analyzes polymorphic
sites in each allele
(
38). The results indicated that the seven
strain B31 class
II protein-encoding alleles contain significant
clustered sites that
partition into distinct, conflicting groups
(data not shown), thereby
demonstrating that strong evidence of
recombination exists among these
alleles.
Northern analysis of mlp gene expression at tick
(23°C) and mammalian (35°C) temperatures.
The expression of
several B. burgdorferi outer surface lipoproteins increases
when cultures are shifted from 23 to 35°C (34, 42). We
investigated if the mlp genes of B31 were differentially expressed at temperatures normally associated with the tick
(23°C) or mammal (35°C) (42). Oligonucleotide primers
were designed that amplify unique regions of the B31
mlp genes. The resulting PCR products varied in size from 84 to 160 bp for mlpA through mlpJ. Each probe was
confirmed to be specific by being tested against the full-length cloned
mlp genes digested with EcoRI.
When the PCR products were probed against
B. burgdorferi
B31-4A RNA under stringent hybridization conditions, it was found
that
full-length
mlp gene transcripts were not present at 23°C
(Fig.
3). In striking contrast, predicted
full-length transcripts
were identified when the cultures were shifted
from 23 to 35°C
(Fig.
3). The RNA transcripts smaller than the
predicted full-length
transcript observed for
mlpA,
mlpC,
mlpF, and
mlpH (Fig.
3) may
be
caused by functional inactivation, a process involving endonucleolytic
cleavage or degradation of the 5' terminus of the transcript
(
18).
The intensities of RNA transcripts for
mlpA,
mlpC,
mlpF, and
mlpH were considerably greater than those observed for
mlpD,
mlpG,
mlpI, and
mlpJ. Variance in
transcript intensity could be due,
in part, to differences in
mlp promoter sequences. For example,
mlpA and
mlpF, which contain nearly identical upstream sequences,
had
a high level of band intensity, whereas
mlpC,
mlpD,
mlpG,
mlpH,
mlpI, and
mlpJ, with a different upstream sequence, had
comparatively
lower band intensity.

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|
FIG. 3.
Northern blot analysis of mlp mRNA
transcripts. B. burgdorferi B31-4A was grown in culture
medium at 23°C (lanes 23°C) or shifted from 23°C to 35°C (lanes
35°C). RNA in gels was transferred to filters, which were
individually incubated with radiolabeled probes specific for the B31
gene indicated above each panel. Arrows indicate the predicted sizes of
mRNA transcripts for each gene. Cp32-2 does not exist in B31-4A, and
therefore, as anticipated, no reactivity was observed in the
mlpB-probed lane. (B) After 2 months of decay and loss of
signal, each filter was rehybridized with a probe specific for the
constitutively expressed flaB gene. RNA molecular size
markers (in kilobases) are indicated to the left of each panel.
|
|
Primer extension analysis of mlpA/F and
mlpC.
Primer extension analysis was performed to identify
the mRNA initiation sites and promoter regions responsible for
transcript initiation. The DNA sequence of mlpC,
mlpD, mlpG, mlpH, mlpI, and
mlpJ in strain B31 differs completely from that of the
analogous region of mlpA and mlpF beginning 6 bases upstream of the ATG start codon. The high homology between the
coding and noncoding regions of mlpA and mlpF
precluded the design of a primer which would bind specifically to one
gene but not the other. Therefore, the primer used (designated
mlpA/F-PE) had the potential to bind to both mlpA
or mlpF transcripts. Primer extension experiments were
performed with RNA isolated from temperature-shifted strain B31-e1, a
passage variant known to contain cp32-1 (mlpA present) but
not cp32-6 (mlpF absent). No product was detected in primer extension experiments (data not shown). Northern blot analysis with the
mlpA-specific probe also failed to detect an mRNA transcript for the mlpA gene in RNA from temperature-shifted strain
B31-e1 (data not shown). PCR amplification and sequence analysis with the mlpA/F-5' and mlpA-3' primers confirmed the
presence of the mlpA gene in DNA from strain B31-e1.
Primer extension analysis of RNA obtained from temperature-shifted
strain B31-4A with the
mlpA/F-PE primer produced a single,
dominant extension product (Fig.
4A).
This product is most probably
the result of extension from
mlpA and
mlpF transcripts known to
be present in
this preparation (Fig.
3). The calculated point
of initiation is 95 bases from the 3' end of the primer sequence
and 56 bases upstream of
the ATG start codon for
mlpA and
mlpF.
No
additional extension products were detected during brief or
prolonged
runs of the gel or subsequent repeated experiments (data
not shown).
The faint bands observed immediately above and below
the primary
initiation site (Fig.
4A) may represent initiation
just before and
after the adenine 56 bases upstream of the ATG
start codon for
mlpA and
mlpF during transcription initiation,
a
phenomenon reported in studies of
ospC transcription
initiation
(
23).

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FIG. 4.
Primer extension analysis of the transcriptional
initiation site for the mlpA, mlpF, and
mlpC genes and alignment of the upstream sequences for the
mlp genes, with primer extension initiation sites and
potential promoters identified. Alignments were performed with ClustalV
(15). (A) cDNA synthesized from B. burgdorferi
B31-4A (4A) mRNA using the mlpA/F-PE primer was loaded
adjacent to lanes containing a DNA-sequencing reaction with the same
primer and pmlpAprom recombinant DNA. Lanes A, C, G, and T
represent the mlpA upstream noncoding sequence. (B) cDNA
synthesized from B. burgdorferi B31-e1 (e1) or B31-4A (4A)
mRNA using the mlpC-PE primer was loaded adjacent to lanes
containing a DNA-sequencing reaction performed using the same primer
and pmlpCprom recombinant DNA. Lanes A, C, G, and T
represent the mlpC upstream noncoding sequence. Minus-strand
sequence and coding-strand sequences are shown, with lines and boxes
denoting the cDNA products and the initiating nucleotides,
respectively. Numbers 1 and 2 designate the two initiation sites
relative to distance from the ATG start codon for mlpC. (C)
mlpA and mlpF upstream alignment. The ATG start
codon is shown in bold type on the right, and the potential ribosomal
binding site (RBS) is noted. The transcript initiation site is marked
with an arrow, and the potential promoter element with 10 ( 10) and
35 ( 35) regions (bracketed) is shown. The consensus
S sequence CTATACT is shown above the 10 region, along
with the one base difference (*). The percent similarity score for
the 70 consensus is listed above the spacer
region. (D) mlpC, mlpD, mlpG,
mlpH, mlpI, and mlpJ upstream
alignment. The ATG start codon is shown in bold type on the right, and
the potential ribosomal binding site (RBS) is noted. The initiation
sites are indicated by arrows and designated 1 and 2, and the potential
promoter element for site 1 with 10 ( 10) and 35 ( 35)
regions (bracketed) is shown. The percent similarity score for
70 consensus is listed above the sequences. Boxed
residues signify bases different from the consensus.
|
|
Primer extension analysis with the
mlpC-PE primer, specific
for
mlpC, and RNA from temperature-shifted B31-4A identified
two
products (Fig.
4B). The first initiation site was located 34 bases
upstream from the ATG start codon of the
mlpC gene,
and the second
site was 57 bases upstream. No other extension
products were detected
in primer extension reactions during short or
prolonged runs of
the gel or in subsequent repeated experiments (data
not shown).
Interestingly, for strain B31-e1 temperature-shifted RNA,
only
the lower-molecular-weight product (initiation at the first site)
was observed (Fig.
4B). Primer extension experiments with the
mlpC-PE and
mlpA/F-PE primers were repeated 11 times with different
acrylamide gels, cultures, and RNA preparations of
strain B31-4A
and strain B31-e1. Results identical to those shown in
Fig.
4 were always obtained (data not
shown).
Computer analyses of the region 7 bases upstream of the initiation site
for
mlpA and
mlpF identified a potential
70 promoter with a similarity score of 56.8% (Fig.
4C).
Moreover,
further analysis of this promoter indicated the presence of
an
Escherichia coli
S (RpoS) consensus
sequence (
11) in the

10 region (Fig.
4C).
Consistent with
this observation, a curvature-propensity plot
calculated with DNase
I-based trinucleotide parameters (
6,
12) identified an
upstream sequence capable of adopting a curved
conformation. We note
that
E. coli
S promoters usually are located
immediately downstream of DNA capable
of adopting a curved conformation
(
11).
A
70 consensus promoter sequence with a homology score
of 55% was found immediately upstream of the first initiation site for
mlpC (Fig.
4D). Alignment of the regulatory regions of
mlpC,
mlpD,
mlpG,
mlpH,
mlpI, and
mlpJ and the first and second
initiation
sites is shown in Fig.
4D. Surprisingly, no consensus
sequence
with a homology score greater than 45%, the cutoff value for
functional
70 promoter sequences in
E. coli,
was identified upstream of the
second initiation site (
25).
In addition, no
S consensus sequence or curved DNA was
identified upstream of the
first or second initiation
site.
Immunoblot analysis of the B31 Mlp proteins with sera
from infected mice and Lyme disease patients.
Identification of
temperature-induced mRNA transcripts corresponding to the B31
mlp genes led us to test if the protein products were
antigenic in mammalian hosts. Each Mlp protein was expressed as a
His-tagged fusion protein and purified to homogeneity (Fig. 5A). MlpB was present in insoluble form
in the E. coli pellet fraction and was intractable to
purification (Fig. 5A).

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FIG. 5.
Immunoblot analysis of recombinant B31 Mlp proteins. (A)
Coomassie blue-stained gel of the purified Mlp fusion proteins (CBB).
(B) Nitrocellulose filter incubated with a 1:100 dilution of serum
collected from mice 4 weeks after infection with strain B31 by tick
feeding (4wkB31). Sera from uninfected mice did not react with any of
the Mlp proteins (data not shown). MlpB, a 20-kDa protein band, could
not be purified to homogeneity from E. coli proteins
(higher- and lower-molecular-weight bands). (C and D) Two immunoblots
probed with patient sera (NY62 and NY86, respectively). Sera from
uninfected humans did not react with any of the Mlp proteins (data not
shown). Molecular masses (in kilodaltons) are indicated to the left.
|
|
Western blot analysis was conducted with pooled mouse sera obtained 4 weeks after tick inoculation with low-passage, noncloned
strain B31,
which contains cp-1 through cp-9 and lp56 (
10) (Fig.
5B).
The mouse sera contained antibodies that reacted with the
Mlp proteins
(Fig.
5B). Identical results were obtained with pooled
mouse sera
collected 8 weeks post inoculation. No increased reactivity
was
identified to the proteins observed to be weakly reactive
with the sera
collected at 4 weeks (data not shown). Differences
in mouse antibody
production or reactivity to the Mlp proteins
were apparent (Fig.
5B), a
result suggesting that Mlps may differ
in antigenicity or levels of
expression during this early stage
of
infection.
We next determined if antibodies were produced against Mlp proteins
during natural human infections. Sera obtained from Lyme
disease
patients were used. Sera obtained from two patients (designated
NY62
and NY86) had differential antibody reactivities to the panel
of B31
Mlp proteins (Fig.
5C and D). For example, serum from patient
NY62
reacted strongly with MlpA, MlpF, and MlpI, reacted weakly
with MlpC,
MlpD, and MlpJ, and did not react with MlpB, MlpG and
MlpH (Fig.
5C).
In contrast, serum from patient NY86 reacted strongly
with MlpH and
MlpJ, reacted weakly with MlpD, and did not react
with MlpA, MlpB,
MlpC, MlpF, MlpG, and MlpI (Fig.
5D). Normal
human serum did not
contain anti-Mlp antibodies (data not
shown).
We next tested sera obtained from nine additional patients diagnosed
with Lyme disease. On average, these nine Lyme disease
patients had
antibodies against relatively few of the strain B31
Mlp proteins (Fig.
6). Similarly, some proteins had more
reactivity
with the patient sera than others did. For example, MlpA and
MlpF
(86.6% identical) had similar patterns of reactivity (Fig.
6),
whereas proteins with 75.9% identity or less did not have similar
patterns of reactivity. MlpD and MlpI belong to the same class
of
proteins (class II) and have 75.9% sequence identity, but they
had
very different reactivity with the mouse sera (Fig.
5B).

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FIG. 6.
Reactivity of Lyme disease patient antisera (diluted
1:100) with recombinant B31 Mlp proteins. Sera were scored for strong
reactivity (++), weak reactivity (+), or no reactivity ( ). The
numbers above the brackets represent percent identity values for MlpA
and MlpF (86.6%), MlpB and MlpJ (70.4%), MlpD and MlpI (75.9%), and
MlpG and MlpH (70.2%).
|
|
 |
DISCUSSION |
Sequence analysis.
Phylogenetic analysis of the B31 cp32
mlp genes compared with two other physically linked
heterogeneous gene families established that the sequence diversity
present in the mlp genes is unique and is unrelated to
location or linkage to variant sequences. Caimano et al. (8)
concluded that the importance of recombination as a mechanism for
generating sequence diversity at the B31 mlp loci was
less apparent than their results obtained for the strain 297 mlp genes, presumably because of the lower level of sequence diversity seen among the strain B31 mlp alleles. However,
our focused analysis of polymorphic sites within each of the seven class II mlp alleles demonstrated that these genes, and
presumably the class I mlp genes, have been diversified by
recombination events. Comparative analysis of the mlp genes
present in strains 297 and B31 (including the newly discovered
mlpB gene) demonstrated that only four mlp genes
were relatively homologous. Taken together, the data suggest that
recombination events contribute to the diversity of the mlp
genes and suggest that the rate of generating new allelic variants may
be relatively high. Although the host processes that select new
Mlp variants are unknown, immune avoidance or functional selection processes may participate.
mlp Northern blot analysis.
We discovered that
upregulation of the mlp genes in B. burgdorferi
strain B31 occurs when cultures are shifted from 23 to 35°C, a result
in agreement with data obtained from analysis of three newly identified
mlp genes in B. burgdorferi strain 297 (49). We note that unlike the Northern blot results reported for the erp genes (40), no
mlp-specific transcripts were detected in bacteria grown at
23°C. Hence, our results add the strain B31 mlp gene
family to other Borrelia lipoprotein genes that are
differentially upregulated by growth at 35°C, a temperature
characteristic of many mammalian hosts, including humans (2,
34, 42).
Primer extension analysis of mlp expression.
Primer extension analysis identified the transcriptional initiation
sites of the mlp transcripts produced during temperature shift conditions. These experiments identified
70
promoter elements that may participate in the expression of
mlpA, mlpF, and mlpC. Promoters with
70-like homology in B. burgdorferi have been
described previously for the genes encoding variable, lipidated
proteins such as OspA, OspC, OspD, and OspE (20, 23, 26) and
flagellin (13). We note that primer extension studies with
the mlp genes of strain 297 were not performed due to high
sequence identity between genes and the lack of defined cp32 passage
variants for strain 297 (28).
Promoters under the control of
70 can be recognized in
vitro by
S, a sigma factor involved in stationary-growth
gene expression
(
43). Our discovery of a consensus
S sequence (CTATCT) in the

10 region of the promoter
region of
mlpA and
mlpF, together with
identification of a region of potential
curved DNA upstream, suggests
that these genes may be regulated
by
S. In
E. coli, the presence of a

35 region in a
S promoter
generally favors recognition by
70 (
11).
However, direct evidence of molecular interaction between
the
mlpA and
mlpF promoters and
S and/or
70 was not sought in the
present
study.
The promoter region identified for the second transcription initiation
site located upstream of the
mlpC gene was not homologous
to
70 or
S sequences, suggesting a distinct
molecular mechanism of mRNA
initiation. We discovered that this cryptic
promoter is no longer
active in strain B31-e1 (which lacks cp32
plasmids and some other
plasmids and is noninfectious
[
10]), a result mimicking that
seen for the promoter
element of the
mlpA gene. It is probable
that
cis
and
trans factors responsible for expression of
mlpA and
mlpC are not present, are present at
greatly reduced levels,
or are not active in B31-e1. Altered gene
expression has been
described in high-passage B31 variants (
17,
30).
Among the B31
mlpC,
mlpD,
mlpG,
mlpH,
mlpI, and
mlpJ genes,
mlpC and
mlpH had the highest level of expression
by Northern
analysis. These two genes also had identical sequences in
the
spacer region and the

10 region of the promoter identified for
the first upstream initiation site. In contrast,
mlpJ had
the
lowest level of expression and the greatest divergence in sequence
of this promoter region. It is likely that the number and location
of
minor base changes in this promoter region affect the level
of
expression of these genes in vitro. Minor base changes in promoter
sequences that lead to altered promoter activity are well described
in
many
organisms.
Antigenicity of purified Mlp recombinant proteins.
We
discovered that mice made anti-Mlp antibodies within the first 4 weeks
of experimental infection. This antibody reactivity was not Mlp class
specific, because Mlps from both classes reacted similarly with the
mouse sera. In addition, there was no simple relationship between the
Mlp proteins that were immunoreactive and the upstream regulatory
region of their structural genes. Importantly, similar results were
obtained with sera from the Lyme disease patients. The
mlp complement of the organisms that infected these Lyme
disease patients is not known. It is possible that some of the
structural features of the Mlp proteins from B31 may be conserved among
different B. burgdorferi strains or isolates. In addition,
we do not know if these Mlp-reactive antibodies were produced early or
late in these human infections, although the mouse data favor early
production. We note that our data are consistent with results obtained
from recent work on B. hermsii Mlp homologs, also shown to
be antigenic in infected humans (41).
Potential pathogenesis roles have been attributed to protein families
such as Vls, BlyAB, and the Opps on the basis of functional
assays or
sequence homologies (
5,
14,
50-52). Putative functions
have
yet to be assigned to the Erp, 39-kDa, and Mlp proteins and
numerous
other paralog proteins of
B. burgdorferi. The identification
of multiple
mlp alleles in strain B31, together with
evidence
of intragenic recombination, suggests that more alleles will
arise
in a strain by recombination. In addition, other
B. burgdorferi strains will undoubtedly have diversity in
mlp sequence. The extensive
diversity of
mlp
genes within and between strains could constrain
the serodiagnostic and
vaccine utility of these proteins unless
broadly conserved epitopes are
identified.
Conclusions.
Our data and those contributed by others (2,
8, 28, 44, 49) suggest that Mlp proteins may play an important,
albeit undefined role in B. burgdorferi transmission,
establishment of infection, or immune evasion. Analysis of early
expression of the mlp genes in the tick during the
transmission cycle and their expression within different host tissues
may provide important new insights into Lyme disease pathogenesis.
 |
ACKNOWLEDGMENTS |
We thank Thomas S. Whittam for help in analysis of the B31
mlp alleles, Tom Schwan for providing sera from Lyme disease
patients and infected mice, and Gary Hettrick for help with the
graphics. J. M. Musser edited the manuscript.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Laboratory of
Human Bacterial Pathogenesis, Rocky Mountain Laboratories, National
Institute of Allergy and Infectious Diseases, National Institutes of
Health, 903 South 4th St., Hamilton, MT 59840. Phone: (406) 363-9271. Fax: (406) 363-9204. E-mail: sporcella{at}nih.gov.
Editor:
D. L. Burns
 |
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Infection and Immunity, September 2000, p. 4992-5001, Vol. 68, No. 9
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