Department of Cell Biology, University of
Alberta, Edmonton, Alberta T6G 2H7, Canada,1 and
Laboratoire de Genetique des Microorganismes, INRA-CNRS, 78850 Thiverval-Grignon, France2
Dimorphism in fungi is believed to constitute a mechanism of
response to adverse conditions and represents an important attribute for the development of virulence by a number of pathogenic fungal species. We have isolated YlRAC1, a gene encoding a
192-amino-acid protein that is essential for hyphal growth in the
dimorphic yeast Yarrowia lipolytica and which represents
the first Rac homolog described for fungi. YlRAC1 is not an
essential gene, and its deletion does not affect the ability to mate or
impair actin polarization in Y. lipolytica. However,
strains lacking functional YlRAC1 show alterations in cell
morphology, suggesting that the function of YlRAC1 may be
related to some aspect of the polarization of cell growth. Northern
blot analysis showed that transcription of YlRAC1 increases
steadily during the yeast-to-hypha transition, while Southern blot
analysis of genomic DNA suggested the presence of several
RAC family members in Y. lipolytica.
Interestingly, strains lacking functional YlRAC1 are still
able to grow as the pseudohyphal form and to invade agar, thus pointing
to a function for YlRAC1 downstream of MHY1, a
previously isolated gene encoding a C2H2-type zinc finger protein with the ability to bind putative stress response elements and whose activity is essential for both hyphal and
pseudohyphal growth in Y. lipolytica.
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INTRODUCTION |
The members of the Rho family
of Ras-related small GTPases (Cdc42, Rac, and Rho proteins) are
signaling molecules that, like other Ras proteins, act as molecular
switches by transducing signals in the GTP-bound conformation, while
being inactive in the GTP-bound state (12, 13). Although Rho
family GTPases were originally thought to be involved solely in the
organization of the actin cytoskeleton (22, 23, 56, 57, 66, 67,
70), recent evidence has implicated them in an increasing number
of vital cellular processes, such as the activation of kinase cascades, regulation of gene expression and membrane trafficking, cell cycle control, and induction of apoptosis, and as critical regulators of
oncogenic transformation in mammalian cells (10, 11, 16, 24, 31,
45, 55, 58, 59, 70, 74). Rac proteins have also been shown to
regulate the NADPH oxidase system in phagocytes (7) and
plants (30) and to induce cell death in rice through a
mechanism that shows biochemical and morphological features similar to
those of apoptosis in mammalian cells (30).
In yeast, the Rho family has an important function in the budding
process and is known to be involved in the control of actin cytoskeleton dynamics in response to extracellular signals (5, 14,
36). This family is represented in Saccharomyces
cerevisiae by six proteins (Rho1p, Rho2p, Rho3p, Rho4p, Cdc42p,
and Ynl180cp), which are thought to regulate partially overlapping
pathways (19). No Rac homolog has yet been described for fungi.
The yeast Yarrowia lipolytica has received increasing
attention as a model to study dimorphic transition because of its
ability to alternate between a unicellular yeast form and distinct
filamentous forms (hyphae and pseudohyphae). This fact, combined with
the availability of specific molecular and genetic tools, has provided Y. lipolytica with a number of advantages over S. cerevisiae and Candida albicans for investigation of
the molecular mechanisms underlying dimorphic transition
(26). The dimorphic switch is induced by environmental
signals and is thought to be important for virulence in a number of
pathogenic fungi (8, 38, 41, 52, 62).
In this paper, we report the isolation and initial characterization of
YlRAC1, a gene encoding the first reported fungal Rac homolog, which is involved in the yeast-to-hypha transition in Y. lipolytica.
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MATERIALS AND METHODS |
Yeast strains and microbial techniques.
The Y. lipolytica strains used in this study are listed in Table
1. The mutant strain CHY1220 was isolated
after chemical mutagenesis of Y. lipolytica E122 cells with
1-methyl-3-nitro-1-nitrosoguanidine, as previously described
(51). Media components were as follows: YEPD, 1% yeast
extract, 2% peptone, and 2% glucose; YNA, 0.67% yeast nitrogen base
without amino acids and 2% sodium acetate; YNBD, 0.67% yeast nitrogen
base without amino acids and 2% glucose; YNBGlc, 1.34% yeast nitrogen
base without amino acids and 1% glucose; and YNBGlcNAc, 1.34% yeast
nitrogen base without amino acids, 1% N-acetylglucosamine,
and 50 mM citric acid (pH 6.0). YNA and YNBD were supplemented with
uracil, leucine, lysine, and histidine, each at 50 µg/ml, as
required. YNBGlc and YNBGlcNAc were supplemented with 2× Complete
Supplement Mixture (Bio101, Vista, Calif.) or 2× Complete Supplement
Mixture minus leucine, as required. Media, growth conditions, and
procedures for mating, sporulation, and transformation of Y. lipolytica have been described previously (9, 51).
Standard techniques for DNA manipulation and growth of
Escherichia coli were used as described previously
(6).
Mycelial induction.
Mycelial growth was induced as described
previously (20). Cells were grown for 12 h in YNBGlc,
harvested by centrifugation at room temperature, washed with sterile
distilled water, kept on ice for 15 min in YNB without a carbon source,
and inoculated at a final density of 107 cells/ml in
prewarmed YNBGlcNAc (for induction of the yeast-to-hypha transition) or
YNBGlc (for growth as the yeast form).
Cloning and characterization of the Y. lipolytica
RAC1 gene.
The Y. lipolytica RAC1
(YlRAC1) gene was isolated by functional complementation of
strain CHY1220 using a Y. lipolytica genomic DNA library
contained in the replicative E. coli shuttle vector pINA445
(51). Plasmid DNA was introduced into yeast cells by electroporation, and Leu+ transformants were screened on
YNA agar plates for their ability to give rise to filamentous colonies.
Complementing plasmids were recovered by transformation of E. coli, and the smallest fragment capable of restoring hyphal growth
was determined. Restriction fragments prepared from the genomic insert
of one of these constructs (pRAC1) were subcloned into the vector
pGEM-5Zf(+) or pGEM-7Zf(+) (Promega, Madison, Wis.) or pBluescript II
SK(+) (Stratagene, La Jolla, Calif.) for dideoxynucleotide sequencing
of both strands. The deduced polypeptide sequence, Y. lipolytica Rac1p (YlRac1p), was compared to other known
protein sequences using the BLAST Network Service of the National
Center for Biotechnology Information (Bethesda, Md.).
Nucleic acid manipulation.
Genomic DNA, plasmid DNA, and
total RNA were prepared from Y. lipolytica, as described
elsewhere (6). Southern and Northern blot analyses were
performed with DNA probes prepared with the ECL direct nucleic acid
labeling and detection system (Amersham Life Sciences, Oakville,
Ontario, Canada). Electrophoresis and transfer to nitrocellulose
membranes were carried out as described previously (6).
Hybridization, stringency of washes, and signal generation and
detection were as recommended by the manufacturer, except that for the
analysis of Y. lipolytica genomic DNA, the temperature of
hybridization and washes was reduced from 42 to 39°C.
Immunofluorescence microscopy.
F-actin was detected by
incubating cells with 1.3 µM Oregon Green 488 phalloidin (Molecular
Probes, Eugene, Oreg.), as previously described (2). Images
were scanned using SPOT software 1.2.1 (Diagnostic Instruments,
Sterling Heights, Mich.), processed in Photoshop 4.0.1 (Adobe Systems,
San Jose, Calif.), and printed on a DS8650 PS color printer
(Eastman-Kodak, Rochester, N.Y.).
Mutagenesis of CCCCT elements in the YlRAC1 promoter
region.
Three-base substitutions were introduced in the putative
stress response elements (STREs) found in the promoter region of the
YlRAC1 gene (CCCCT to ATTCT in STRE1,
CCCCT to AGCTT in STRE2,
and CCCCT to GATCT in STRE3) (see Fig. 2) by PCR
using the oligonucleotide pairs SE1 and SE2, EH1 and EH2, HB1 and HB2,
and BS1 and BS2 (Table 2). The four PCR
products (369-bp SpeI-EcoRI, 100-bp
EcoRI-HindIII, 197-bp
HindIII-BglII, and 122-bp
BglII-SalI fragments) were then ligated to the
396-bp SalI-SacII fragment obtained by PCR using
the oligonucleotides NT1 and NT2 (Table 2). The resulting
SpeI-SacII fragment (~1.2 kbp) was used to
replace its counterpart in the plasmid pRAC1. The integrity of the
final construct was confirmed by sequencing.
Nucleotide sequence accession number.
The sequence data
reported here for YlRAC1 and Y. lipolytica CDC42
(YlCDC42) are available from EMBL/GenBank/DDBJ under
accession numbers AF176831 and AF209750, respectively.
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RESULTS |
Isolation of the Y. lipolytica mutant strain
CHY1220.
The Y. lipolytica mutant strain CHY1220 (Fig.
1B) was initially isolated by its
inability to form wild-type rough-surfaced colonies on YEPD agar plates
after 3 days of incubation at 28°C (Fig. 1A and J). Further analysis
revealed that, like
rac1 strains, strain CHY1220 was able
to form colonies having a small number of peripheral extensions after
prolonged periods of incubation on both rich and minimal media and that
these extensions consisted of chains of elongated cells following a
pseudohyphal pattern (Fig. 1B, C, K, and O; see Fig. 7).

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FIG. 1.
Colony morphology of various Y. lipolytica
strains. (A) Wild-type strain E122; (B) original mutant strain CHY1220;
(C) RAC1 disruptant strain CHY1220-A30; (D) MHY1
disruptant strain mhy1KO9; (E) strain CHY1220 transformed with plasmid
pRAC1; (F) strain CHY1220-A30 transformed with plasmid pRAC1; (G)
strain mhy1KO9 transformed with plasmid pRAC1; (H) strain CHY1220
transformed with plasmid pMHY1; (I) strain CHY1220-A30 transformed with
plasmid pMHY1; (J) wild-type strain 22301-3; (K) RAC1
disruptant strain CHY1220-B36; (L) RAC1/RAC1 diploid strain
E122//22301-3; (M and N) RAC1/rac1 diploid strains
22301-3//CHY1220-A30 and E122//CHY1220-B36, respectively; (O)
rac1/rac1 diploid strain CHY1220-A30//CHY1220-B36. Colonies
were photographed after 3 days of incubation at 28°C on YNA agar
plates. Magnification, ×100.
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Isolation and characterization of the YlRAC1 gene.
The YlRAC1 gene was isolated from a Y. lipolytica genomic DNA library contained in the replicative
E. coli shuttle vector pINA445 (51) by its
ability to restore hyphal growth to CHY1220 cells. Of approximately
70,000 transformants screened, 5 showed a restored filamentous
phenotype (Fig. 1E). Restriction enzyme analysis demonstrated that all
complementing plasmids shared a 2.2-kbp SpeI-ClaI
fragment capable of inducing hyphal growth in CHY1220 cells. Sequencing
of this fragment revealed an open reading frame (ORF) of 576 bp
interrupted by two introns, which are found at codons 12 and 36 (nucleotides +36 to +205 and +278 to +328 relative to the A residue of
the potential initiating codon, respectively) (Fig.
2). The putative 5'-splice donor
sequences of both introns (GTAAGTPu) diverge at the third and
fourth positions from the GTGAGTPu and GTATGT consensus motifs found
for Y. lipolytica (39, 65) and S. cerevisiae (69), respectively. As in the Y. lipolytica genes SEC14 (39) and
PYK1 (65), a 3'-splice acceptor CAG sequence is
found one nucleotide downstream of the consensus TACTAAC box (69) or its abbreviated form CTAAC (Fig. 2).

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FIG. 2.
Nucleotide sequence of the YlRAC1 gene and
deduced amino acid sequence of YlRac1p. The transcriptional
start site of the YlRAC1 gene is indicated by an arrow.
Putative STREs are indicated. Consensus sequences for intron splicing
are underlined. Putative transcription termination signals are doubly
underlined.
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No obvious TATA box or CT/CA-rich region, which is believed to play a
role in transcriptional regulation in Y. lipolytica (50, 71), is seen in the promoter region of
YlRAC1. However, analysis of cDNA showed that transcription
of the YlRAC1 gene starts preferentially at position
286
relative to the A nucleotide of the first ATG codon and that
polyadenylation occurs following the G nucleotide at position +1075.
Other features of YlRAC1 include the presence of conserved A
nucleotides at positions
1 and
3 relative to the A nucleotide of
the initiating ATG and three putative STRE (pentanucleotide CCCCT)
(32) in its upstream region (Fig. 2).
The deduced protein product of YlRAC1, YlRac1p,
is 192 amino acids in length and has a predicted molecular mass of
21,173 Da (Fig. 2). Comparison of the predicted amino acid sequence of YlRac1p with the sequences of Rac proteins from different
sources suggests that its closest homolog is human Rac1 (Fig.
3). In addition, YlRac1p has a
relatively high pI (8.47), which is an attribute that distinguishes Rac
proteins from Rho and Ras proteins (whose pIs are in the range of 5.0 to 6.5) (17).

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FIG. 3.
Amino acid sequence alignment of Rac1p of Y. lipolytica (YlRac1p) and Rac proteins from Homo
sapiens (HsRac1, HsRac2, and
HsRac3), Mus musculus (MmRac1 and
MmRac2), Drosophila melanogaster
(DmRac1 and DmRac2), Caenorhabditis
elegans (CeRac1 and CeRac2), Canis
familiaris (CfRac1), and Xenopus laevis
(XlRac). GenBank accession numbers are M29870
(HsRac1), CAB45265 (HsRac2), AAC51667
(HsRac3), CAA40545 (MmRac1), Q05144
(MmRac2), AAA62870 (DmRac1), P48554
(DmRac2), AAA28141 (CeRac1), AAB40386
(CeRac2), P15154 (CfRac1), and AAD50299
(XlRac).
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Consensus elements GXXXXGK (GDGAVGK, residues 10 to 16) and DXXG (DTAG,
residues 57 to 60) (Fig. 3), which are involved in interactions with
the phosphate portion of the GTP molecule, are found in
YlRac1p at positions conserved among GTP-binding proteins (15, 18, 28, 46). Conserved motifs are also present at regions implicated in interaction with the GTPase-activating protein (TVFDNY, residues 35 to 40) (61) and in membrane association prior to biological activity (CVIL, residues 189 to 192) (23, 73) (Fig. 3). Notably, YlRac1p also contains the
conserved motif TKXD (TKLD, residues 115 to 118), which is responsible
for nucleotide specificity in Rac proteins and is involved in the
determination of the unusually high intrinsic rate of GTP hydrolysis
that distinguishes Rac proteins from other Rho family members
(17).
Isolation and characterization of the YlCDC42
gene.
Since no RAC gene had previously been reported
for fungi and since the CDC42 gene, which encodes a protein
that belongs to the Rac subfamily of Rho GTPases (19), had
been shown to be involved in the regulation of filamentous growth in
S. cerevisiae and C. albicans (46,
47), we decided to provide further evidence that we had
identified a fungal RAC gene by isolating the
CDC42 gene of Y. lipolytica (YlCDC42).
We combined the sequence of a partial YlCDC42 clone
previously obtained by probing a Y. lipolytica genomic DNA
library with an oligonucleotide derived from a highly conserved
sequence in the Rab family of proteins (53) with the
sequence of a YlCDC42 cDNA obtained by PCR of a Y. lipolytica cDNA library constructed in the ZAP Express vector
(Stratagene) with oligonucleotides T3, T7, CDC42U, and CDC42M (Table 2)
to obtain the sequence of the YlCDC42 gene. The
YlCDC42 gene contains an ORF of 573 bp, which is interrupted
by two introns, as is the YlRAC1 gene (Fig.
4). The introns are found between codons
16 and 17 and at codon 45 (nucleotides +49 to +157 and +244 to +327
relative to the A nucleotide of the potential initiating codon,
respectively). The putative 5'-splice donor sequences of both introns
are identical to the consensus motif GTGAGTPu found in other Y. lipolytica genes (39, 65), and a 3'-splice acceptor CAG
sequence is found one or two nucleotides downstream of the consensus
TACTAAC box (69) (Fig. 4).

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FIG. 4.
Nucleotide sequence of the YlCDC42 gene and
deduced amino acid sequence of YlCdc42p. Consensus sequences for intron
splicing are underlined.
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The deduced protein of YlCDC42, YlCdc42p, is 191 amino acids long and has a predicted molecular mass of 21,336 Da (Fig.
4) and an estimated pI of 6.09, which is characteristic of Cdc42 proteins (17). In addition, YlCdc42p contains all
motifs required for the biological function of small GTPases of the Rho
family (GDGAVGK, residues 10 to 16; TVFDNY, residues 35 to 40; DTAG, residues 57 to 60; and CIVL, residues 188 to 191) (Fig. 4 and 5). Comparison of YlCdc42p
with Cdc42 proteins from a number of different organisms suggests that
its closest relative is Schizosaccharomyces pombe Cdc42
(Fig. 5). Importantly, YlCdc42p contains the signature sequence of Cdc42 proteins (27), the motif TQXD (TQVD,
residues 115 to 118) in the region responsible for nucleotide
specificity.

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FIG. 5.
Amino acid sequence alignment of Cdc42p of Y. lipolytica (YlCdc42p) and its homologs in S. cerevisiae (ScCdc42p) (28), C. albicans (CaCdc42p) (46), S. pombe (SpCdc42p) (44), Caenorhabditis
elegans (CeCdc42p) (15), Mus
musculus (MmCdc42p) (43), and Homo
sapiens (HsCdc42p) (48).
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Strains with the YlRAC1 gene disrupted are viable and
unaffected in mating ability.
A 1.0-kbp
ApaI-NdeI fragment of YlRAC1 was
replaced by a 1.6-kbp ApaI-NdeI fragment
containing the Y. lipolytica URA3 gene (Fig.
6). This construct was digested with
DraI and XbaI to liberate a 2.4-kbp fragment
containing the entire URA3 gene flanked by 0.5 and 0.3 kbp
of the 5' and 3' regions of the YlRAC1 gene, respectively. This linear fragment was used to transform the wild-type Y. lipolytica strain E122 to uracil prototrophy.

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FIG. 6.
Integrative disruption of the YlRAC1 gene.
(A) Diagram illustrating the replacement of a 1.0-kbp
ApaI-NdeI fragment of YlRAC1 by a
1.6-kbp ApaI-NdeI fragment containing the
Y. lipolytica URA3 gene. (B) Southern blot analysis of
SpeI-HpaI-digested genomic DNA, and PCR analysis
of total genomic DNA, from wild-type strain E122 and strain
CHY1220-A30, confirming the correct replacement of the
YlRAC1 gene with the URA3-containing linear
molecule in strain CHY1220-A30. Primers KO1 and KO2 (Table 2) are
indicated by black arrows in panel A.
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Of 303 Ura+ transformants obtained, 3 showed a smooth
phenotype after 3 days on YEPD agar plates. Two of these transformants were confirmed by Southern blot analysis and PCR to have had the YlRAC1 gene correctly replaced by the URA3 gene
(Fig. 6), and one of them, CHY1220-A30 (Fig. 1C and Table 1), was
selected for further analysis.
Because mating has been found to be intimately connected to dimorphism
and, like dimorphism, is a phenomenon that involves dramatic changes in
cell morphology in response to environmental conditions
(40), we investigated whether disruption of the
YlRAC1 gene had any effect on the mating ability of Y. lipolytica. Crossing of the A mating type strain CHY1220-A30
(
rac1) with the B mating type wild-type strain 22301-3 was readily attained (Fig. 1M), indicating that no mating defect was
associated with disruption of YlRAC1 in these strains. To
determine whether the lack of effect on mating by disruption of the
YlRAC1 gene was confined to A mating type cells, a B mating
type strain, CHY1220-B36 (Fig. 1K and Table 1), with its
YlRAC1 gene deleted, was obtained by sporulation of the
diploid strain 22301-3//CHY1220-A30 (Fig. 1M and Table 1) and selection
of haploids for their inability to form hyphal cells. The
rac1::URA3 genotype of the
CHY1220-B36 strain was confirmed by cosegregation of the
Ura+ and Fil
phenotypes in random spore
analysis (data not shown), and this strain was found to be able to mate
to both wild-type E122 and CHY1220-A30 strains (Fig. 1N and O),
demonstrating that YlRAC1 is not essential for mating. One
copy of the YlRAC1 gene was sufficient to support dimorphic
transition in diploid strains of Y. lipolytica, although a
slight reduction in the proportion of hyphal cells could be observed in
these strains (Fig. 1M and N).
Disruption of the YlRAC1 gene affects cell morphology
but does not impair actin polarization or cell invasiveness.
Since
the organization of the actin cytoskeleton is directly involved in the
determination of cell shape and because Rac proteins play a fundamental
role in this process (21, 22, 57, 67), disruption of
YlRAC1 was anticipated to result in morphological defects in
Y. lipolytica cells. Indeed, exponentially growing
rac1 mutant cells were found to be round in shape,
clearly contrasting with the typically ovoid cells observed for
wild-type strains (Fig. 7, top panels).
Continued incubation in rich medium yielded wild-type cultures composed
of yeast cells, pseudohyphae, and a few germ tubes, while
rac1 cultures contained only a small proportion of
pseudohyphal cells and no germ tubes (Fig. 7, middle panels). In
general, pseudohyphal
rac1 cells were found to be shorter
than their wild-type counterparts (Fig. 7, middle panels). As
stationary phase was reached, hyphal growth became predominant in
wild-type cultures, while only a limited number of chains composed of
pseudohyphal cells were seen in the
rac1 cultures (Fig.
7, bottom panels). Germ tubes arising from pseudohyphal cells were sometimes seen in the wild-type strain (Fig. 7, bottom right panel, inset). Interestingly, invasive pseudohyphal growth was found to be
substantially induced in the
rac1 strain by incubation on
minimal medium containing glucose as the sole carbon source (YNBD
agar), whereas this effect was not observed in
rac1 cells grown on minimal medium containing acetate as the sole carbon source
(YNA agar) or in mhy1KO9 (
mhy1) cells incubated under either condition (Fig. 8). No difference
in invasiveness was observed between the original mutant strain CHY1220
and the
rac1 strain CHY1220-A30 when they were subjected
to growth under the same conditions (data not shown).

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FIG. 7.
Disruption of YlRAC1 affects cell morphology
and impairs hyphal growth, but not pseudohyphal growth, in Y. lipolytica. Strains were grown in YEPD. Top panels, exponential
growth phase (optical density at 600 nm [OD600] = 1).
Middle panels, late exponential growth phase (OD600 = 4). Bottom panels and inset, stationary phase (OD600 = 10). WT, wild-type strain E122. rac1, strain CHY1220-A30.
Bars, 5 µm.
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FIG. 8.
Invasive filamentous growth by different Y. lipolytica strains. Following 5 days of incubation at 28°C on
minimal agar medium containing glucose or acetate as the sole carbon
source, plates were washed with running water to remove cells from the
agar surface. Pictures were taken before and after washes. WT,
wild-type strain E122. rac1, strain CHY1220-A30.
mhy1, strain mhy1KO9.
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As described for a number of fungi (1, 3, 4, 25, 34, 42, 60,
72), actin-rich zones at the sites of growth (apices of germ
tubes, hyphae, pseudohyphae, and yeast cells), combined with a
background of diffuse actin staining with punctate actin patches, were
observed for wild-type cells of Y. lipolytica (Fig. 9A to
G). Interestingly, despite alterations in
cell morphology,
rac1 mutant cells appeared to retain the
ability to concentrate actin granules at the apices of pseudohyphal
cells and emerging buds (Fig. 9H and I).

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FIG. 9.
Actin localization during different stages of
development of wild-type and rac1 cells. Actin was
detected by staining of cells with Oregon Green 488 phalloidin followed
by fluorescence microscopy. (A to G) Wild-type strain E122. (H and I)
rac1 strain CHY1220-A30. (A and H) Yeast-like cells; (B,
G, and I) pseudohyphal growth; (C) early germ tube formation; (D) late
germ tube formation; (E and F) hyphal growth. Bars, 5 µm.
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Transcription of the YlRAC1 gene is increased during
the yeast-to-hypha transition.
The dimorphic switch was induced in
exponentially growing E122 cells by a 15-min carbon source starvation
period at 4°C, followed by transfer to prewarmed (28°C) YNBGlcNAc.
Under these conditions, more than 80% of the cell population gave rise
to germ tubes after 10 h of incubation, while cells transferred to
fresh YNBGlc grew almost exclusively as the budding form, as described
previously (20, 26). Northern blot analysis performed with
total RNA extracted from cells harvested at 0, 1, 3, and 10 h of
incubation in YNBGlcNAc showed that YlRAC1 mRNA levels
increased steadily during the yeast-to-hypha transition, but they
remained virtually constant during incubation in YNBGlc (Fig.
10).

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FIG. 10.
YlRAC1 mRNA levels are increased during the
dimorphic transition. Total RNA was isolated from E122 cells incubated
at 28°C in YNBGlcNAc (induction of filamentous growth) or YNBGlc
(control culture, yeast-like cells) for the times indicated and
subjected to Northern blot analysis. Ten micrograms of RNA from each
time point was separated on a formaldehyde agarose gel and transferred
to nitrocellulose. Blots were hybridized with a probe specific for the
YlRAC1 gene (1.0-kbp ApaI-NdeI
fragment [see Fig. 6]). Equal loading of RNA was ensured by ethidium
bromide staining (data not shown).
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Putative STREs in the YlRAC1 gene are not necessary for
the induction of hyphal growth.
Genetic interaction between
YlRAC1 and MHY1 was initially suggested by
the observation that a pINA445-based multicopy plasmid bearing the
MHY1 gene (pMHY1) (26) was able to restore hyphal growth upon introduction into CHY1220, but not CHY1220-A30
(
rac1), cells (Fig. 1H and I). The inability of pRAC1 to
induce dimorphic transition in
mhy1 cells (Fig. 1D and
G); the presence of three copies of the pentanucleotide STRE sequence
CCCCT in the promoter region of YlRAC1 (Fig. 2), one of
which has been shown to specifically bind in vitro-synthesized Mhy1p
(26); and the finding that
rac1 mutant cells
can form pseudohyphae, while
mhy1 mutants are unable to
grow as either the hyphal or pseudohyphal form (Fig. 7 and 8) suggested
that Mhy1p might act to promote hyphal growth through these regulatory
elements via YlRAC1. In order to investigate the role of
these putative STRE sequences in the induction of hyphal growth,
mutagenesis of these elements in pRAC1 was performed. No defect was
observed in the ability to induce the dimorphic transition upon
introduction of the plasmid pRAC1-Mut (which contains mutations in all
three STREs) into a
rac1 strain (CHY1220-A30), suggesting
that these elements are not necessary for the induction of hyphal
growth via YlRAC1 (data not shown).
Genomic DNA analysis of RAC genes in Y. lipolytica.
As most organisms have multiple Rac and Rho homologs,
we looked for evidence of other RAC genes in Y. lipolytica. Genomic DNA from the E122 strain was digested with
various combinations of restriction endonucleases and analyzed by
Southern blotting under low-stringency conditions with a labeled 240-bp
SacII-NdeI fragment of the YlRAC1
gene. A complex pattern of bands was observed, suggestive of the
presence of several RAC-related superfamily members in
Y. lipolytica (Fig. 11).

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|
FIG. 11.
Southern blot analysis of E122 genomic DNA. Ten
micrograms of DNA per lane was digested with the indicated restriction
enzymes, separated by electrophoresis, transferred to nitrocellulose,
and probed with a 240-bp SacII-NdeI-labeled
fragment from YlRAC1 (boxed), as described in Materials and
Methods.
|
|
 |
DISCUSSION |
Rac proteins have been implicated in the control of a diverse and
extensive set of cellular processes (74), including notably the regulation of the assembly and organization of the actin
cytoskeleton (21, 22, 49, 56, 57, 66, 67, 70). As a
consequence, Rac-mediated changes in actin organization or in gene
expression are believed to play a pivotal role in the control of cell
shape, cell attachment, cell motility and invasion, cell-cell
interaction, and cell proliferation and differentiation
(74). In plants, Rac homologs are thought to be involved in
the regulation of growth of the pollen tube, a process that shares
several characteristics with filamentous growth in fungi. Pollen tube
elongation is based on a process known as tip growth, where polarized
secretion is restricted to the apex, and cell membrane and cell wall
material are delivered exclusively to this location (33, 37, 64, 68). Significantly, plant Rac homologs have been shown to be localized to the plasma membrane of the pollen tube in the region of
the tip (37). The localization of YlRac1p in
Y. lipolytica has so far remained elusive. Although an
epitope-tagged YlRac1p could be detected at the growing tip
region of filamentous Y. lipolytica cells (data not shown),
this fusion protein was unable to induce hyphal growth in
rac1 cells, making it impossible to ascertain whether the
distribution of the tagged protein was truly representative of that of
the natural protein. The availability of antibodies specific for
YlRac1p will be extremely useful in addressing this question.
Although no Rac homolog had previously been described for fungi, a
newly identified S. cerevisiae ORF, Ynl180c, codes for a
protein with a number of features typical of Rac proteins, including the presence of all conserved motifs required for biological function and an estimated pI of 8.76. However, this putative protein, which is
only 52.1% identical to YlRac1p, is at 331 amino acids
considerably larger than all known Rac proteins, and it is not known at
this time whether it is functional.
Disruption of the YlRAC1 gene is not lethal and does not
abolish the ability of cells to polarize actin at the site of growth. These findings might be explained by the presence of other genes in
Y. lipolytica that are closely related to YlRAC1,
as suggested by the complex banding pattern revealed by Southern
analysis of Y. lipolytica genomic DNA under conditions of
low stringency. Nevertheless, alterations in the cell morphology of
rac1 mutants and the inability of these strains to grow
as the hyphal form strongly suggest that YlRAC1 functions in
some aspect of the polarization of cell growth.
We have previously reported the isolation and characterization of the
gene MHY1, which codes for a putative transcription factor
that binds in vitro to an oligonucleotide containing STRE1 from
YlRAC1 (Fig. 2) and is essential for filamentous growth in Y. lipolytica (26). Here we report that while
deletion of MHY1 completely abolishes the ability of
Y. lipolytica to grow as both the hyphal and pseudohyphal
forms on solid minimal medium containing either glucose or acetate as
the sole carbon source, strains lacking a functional YlRAC1
gene are still able to form pseudohyphae and invade agar on
glucose-based minimal medium, suggesting, as has been suggested for
C. albicans (38), that these two morphologies in
Y. lipolytica are controlled, at least in part, by two
parallel signaling pathways, each with a different and additive input, or that they represent a sequence of events in a single pathway of
filamentous growth requiring a quantitatively stronger regulatory input
to produce hyphae rather than pseudohyphae. Likewise, the analysis of a
Ras homolog in Aspergillus nidulans has suggested a scenario
in which several thresholds of Ras concentration exist, each of which
allows development to proceed to a certain point, producing the proper
cell type while inhibiting further development (63). Our
findings that overexpression of MHY1 can restore hyphal growth in CHY1220 but not in CHY1220-A30 (
rac1) cells,
that disruption of YlRAC1 affects only hyphal growth while
disruption of MHY1 blocks both hyphal and pseudohyphal
growth, and that pseudohyphal cells can give rise to hyphae (Fig. 7,
bottom right panel, inset) support such a scenario and suggest that
MHY1 acts upstream of YlRAC1 in the filamentous pathway(s).
It is important to point out that regardless of the fact that
mutagenesis of all three putative STREs in the promoter of
YlRAC1 did not affect its ability to induce hyphal growth in
Y. lipolytica (data not shown), a role for these elements in
the induction of dimorphism cannot be ruled out. The activity of other
unidentified regulatory elements in the YlRAC1 gene or
compensation for the loss of transcriptional induction of
YlRAC1 by the activation of other related GTPases may
explain this negative result. We are currently investigating these possibilities.
Here we also report the isolation and initial characterization of the
YlCDC42 gene. In C. albicans, a transient
increase in the CDC42 mRNA levels was observed during the
switch to hyphal growth (46), but it still remains to be
determined whether Cdc42p also plays a role in pseudohyphal formation
in this organism. Although no variation in the abundance of Cdc42p has
been observed during the cell cycle of S. cerevisiae
(73), CDC42 has been shown to be a potent
regulator of filamentous growth in this yeast, acting downstream of
RAS2 and activating pseudohyphal growth of diploid cells and
invasive growth of haploid cells in response to nitrogen starvation via
STE20 (35, 47, 54). We are currently investigating whether YlCDC42 also plays a role in the
induction of filamentous growth in Y. lipolytica.
In conclusion, we report the isolation and initial characterization of
the first fungal Rac homolog and provide evidence that YlRac1p plays an important role in the regulation of hyphal
growth in Y. lipolytica. Greater knowledge of the
function(s) of YlRAC1 and of its interactions with other
Y. lipolytica genes will be important for a better
understanding of the mechanisms by which environmental conditions
induce changes in the pattern of cell growth, a phenomenon with strong
implications for the development of virulence by fungal pathogens
(8, 38, 41, 52, 62) and for the elucidation of the molecular
mechanisms controlling differentiation in higher eukaryotes.
Furthermore, as one of the mechanisms of Ras transformation relies on
signaling cascades controlled by Rac and Rho GTPases, the dimorphic
yeast Y. lipolytica may represent a more suitable model for
the understanding of such complex events in mammalian cells, with
important implications for the search for potential drug targets for
Ras-mediated malignancies (29, 66, 74).
This work was supported by an International Research Scholarship
from the Howard Hughes Medical Institute to R.A.R. R.A.R. is a
Medical Research Council of Canada Senior Scientist.
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Oncogene
17:1415-1438[CrossRef][Medline].
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