Department of Microbiology and Immunology,
University of Tennessee, Memphis, Tennessee 38163
Yvh1p, a dual-specific protein phosphatase induced specifically by
nitrogen starvation, regulates cell growth as well as initiation and
completion of sporulation. We demonstrate that yvh1
disruption mutants are also unable to accumulate glycogen in stationary
phase. A catalytically inactive variant of yvh1 (C117S) and
a DNA fragment encoding only the Yvh1p C-terminal 159 amino acids
(which completely lacks the phosphatase domain) complement all three
phenotypes as well as the wild-type allele; no complementation occurs
with a fragment encoding only the C-terminal 74 amino acids. These observations argue that phosphatase activity is not required for the
Yvh1p functions we measured. Mutations which decrease endogenous cyclic
AMP (cAMP) levels partially suppress the sporulation and glycogen
accumulation defects. In addition, reporter gene expression supported
by a DRR2 promoter fragment, containing two stress response elements known to respond to cAMP-protein kinase A, decreases in a
yvh1 disruption mutant. Therefore, our results identify
three cellular processes that both require Yvh1p and respond to
alterations in cAMP, and they lead us to suggest that Yvh1p may be a
participant in and/or a contributor to regulation of the cAMP-dependent
protein kinase cascade. The fact that decreasing the levels of cAMP
alleviates the need for Yvh1p function supports this suggestion.
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INTRODUCTION |
Saccharomyces cerevisiae
exhibits multiple responses to nutrient limitation depending on cell
type. Haploid cells exit the mitotic cell cycle at G1,
entering a quiescent phase reminiscent of the higher eukaryotic
G0 (48). Diploid cells undergo a dimorphic shift, developing pseudohyphae (13), or sporulate
(22). Sporulation depends on the transcriptional master
regulator Ime1p, and in some strains, its overproduction results in
gratuitous sporulation (18). Although not understood in
detail, the IME1 promoter is complex, containing multiple elements that
respond to a variety of signals (33). One of these elements,
IRE, is nutritionally responsive and homologous to the stress response
element (STRE), which supports transcription that is influenced by
cyclic AMP (cAMP)-dependent protein kinase A (PKA) activity (20,
35).
Yeast PKA is a heterodimer consisting of a regulatory subunit, Bcy1p,
complexed to one of three catalytic subunits encoded by
TPK1, TPK2, and TPK3 (7,
43). The binding of cAMP to Bcy1p promotes dissociation of the
Bcy1p-Tpkp dimer and concomitantly activates kinase activity. Elevated
PKA levels correlate with (i) inability to accumulate trehalose or
glycogen (7) and (ii) repression of STRE-dependent gene
expression (4). Overproduction of Rgs2p (a negative
regulator of PKA) increases glycogen accumulation at stationary phase
(1.75 versus 2.1% [wet weight]), whereas glycogen accumulation
decreases in a rgs2
mutant (2.1 versus 1.3% [wet weight]) (45).
Rim15p kinase is another PKA regulator as cells enter stationary phase,
(32). Although rim15
strains do not have an
observable growth defect, the growth phenotype of a conditional adenyl
cyclase mutation (cyr1) is suppressed in these mutants
(32). Conversely, overproduction of Rim15p suppresses the
phenotypes of mutations that cause elevated PKA activity, e.g.,
bcy1
. In log-phase rim15/rim15 cells, glycogen
levels are similar to those in wild-type cells (0.93 versus 1.63 mg of
glycogen/g of protein) (32). At stationary phase, however, a
greater fold difference is observed (11.36 versus 38.53 mg of
glycogen/g of protein, i.e., 3.4- versus 1.7-fold) (32).
We previously identified a nitrogen starvation-induced, dual-specific
protein phosphatase, Yvh1p, required for efficient sporulation (14, 28). YVH1 disruption reduces, but does not
abolish, IME1 expression; an even greater effect is observed
on IME2 (28). In addition, YVH1
disruption strains exhibit diminished ability to produce the
fluorescence associated with dityrosine accumulation occurring in
mature ascospore walls (1).
Here, we show that yvh1 disruption mutants cannot
effectively accumulate glycogen. YVH1 alleles complementing
this defect complement the growth and spore maturation defects as well.
Complementing alleles, surprisingly, include catalytically inactive
yvh1 variants and one encoding only the C-terminal 159 amino
acids (aa), suggesting that Yvh1p's phosphatase activity, per se, is
not required for complementation. Overproduction of phosphodiesterases
(responsible for cAMP degradation) suppressed the glycogen accumulation
and sporulation defects of yvh1 disruption mutants. Finally,
disruption of YVH1 decreases stress-mediated induction of a
STRE-driven reporter gene.
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MATERIALS AND METHODS |
Strains and plasmids.
Strains and plasmids used in this work
are listed in Tables 1 and
2, respectively.
Plasmid construction.
pAB7 contains the parent allele of
YVH1 (1). To create a catalytically inactive
yvh1 variant, the XbaI and XhoI
fragment of pAB7 (in pSelect) was subjected to site-directed
mutagenesis producing a C117S change, which abolishes phosphatase
activity (9, 49). The entire fragment was sequenced to
ensure that no additional mutations were present and recloned back into
pAB7 to create plasmid pAB18.
To construct glutathione S-transferase (GST) fusion
plasmids, pAB7 and pAB18 were digested with NdeI and treated
with T4 DNA polymerase. pEGKG (23) was digested with
BamHI and filled in with Klenow enzyme, and blunted
NdeI fragments from pAB7 and pAB18 were cloned into it. This
YVH1-GST construct fused GST in frame to either
the catalytically active (pAB36) or inactive (pAB37) yvh1
alleles; the fusion genes are under the control of a GAL1,10 promoter. pAB111 (glycogen synthase II), pAB112 (phosphodiesterase I)
and pAB113 (phosphodiesterase II) were generated by PCR with either
BamHI sites or BglII sites at their 3' ends and
cloned in frame into the BamHI site of pEGKG.
YVH1 C-terminal fusions were made with oligonucleotides
containing 5' BamHI and 3' XbaI linkers. The
resulting PCR products were cloned into pEGKG and completely sequenced;
the constructs encoded the Yvh1p C-terminal 159 (pAB116) and 74 (pAB117) aa. To construct EGFP (enhanced green fluorescent protein)
fusion proteins, pAB7 and pAB18 were digested with NdeI and
the NdeI fragments were cloned into pNVS2, a pRS316-based, galactose-inducible EGFP fusion vector (37).
C-terminal deletions of YVH1.
Progressive C-terminal
truncations were made with PCR oligonucleotides removing 50 C-terminal
aa at a time; both 5' and 3' ends contained BamHI sites. The
PCR products were cloned into an intermediate vector, litmus 28, and
the resulting plasmids were verified by DNA sequencing; clones
containing the desired mutations were digested with BamHI
and cloned into Yep24. Full-length YVH1 pAB100 containing
the promoter and 3' untranslated regions was constructed by cloning the
2.2-kb XbaI fragment from pAB7 into Yep24 digested with
NheI.
Strain construction.
To construct strains GYC134
(pho85
) and GYC135 (pho85
yvh1::HIS3), the exact allele described by
Timblin et al. (42) was constructed and used to transform
strains GYC121 and GYC122, or GYC123 and GYC124, to Trp prototrophy.
All constructs were confirmed by Southern blot analysis. Strain GYC134
was constructed by mating strains GYC130 and GYC131. Both GYC134 and
GYC135 were demonstrated to sporulate when transformed with a plasmid
containing PHO85 (data not shown).
Since early-log-phase glycogen accumulation increases three- to
fourfold (2.5 versus 8 µg of glucose equivalents per 107
cells per ml) (42) in a pho85
(pho85 encodes a cyclin-dependent protein kinase) mutant and
glycogen synthase activity behaves similarly (0.2 versus 0.4 U)
(16), we used this mutant as a control. Unfortunately, we
could not reproduce the early-log-phase hyperaccumulation phenotype
mentioned above, i.e., the glycogen profiles of wild-type (GYC86) and
pho85
(GYC134) strains were indistinguishable (see Fig.
1A and C). Given this discrepancy with published reports, it was
imperative that we demonstrate that the pho85
strains,
GYC134 and GYC135, were in fact phenotypically Pho85
by
assaying their abilities to constitutively produce secreted acid
phosphatase (44), another pho85 phenotype. Both
strains GYC134 (pho85
) and GYC135 (pho85
yvh1::HIS3) constitutively express acid
phosphatase (see Fig. 1E). Further, GYC134 and GYC135 were incapable of
growing on nonfermentable carbon sources, another characteristic of
pho85 mutants (data not shown). These observations argue
that strains GYC134 and GYC135 are indeed phenotypically Pho85
but in our strain background do not hyperaccumulate
glycogen in early-log phase.
To construct strains YSB32 and GYC136, DNA fragments from pAB7
(HAYVH1) and pAB18 (HAyvh1C117S) were used to
transform strain GYC123 using standard procedures (17).
However, instead of plating the resulting transformants directly onto
selective medium, they were grown without selection in yeast
extract-peptone-dextrose (YEPD) medium, repeatedly subcultured, and
plated on YEPD. Both large and small colonies appeared. The large
colonies were scored for histidine prototrophy to test for integration,
and negative clones were selected for Southern analysis and direct
sequencing to confirm the presence of the C117S mutation. The resulting
haploid strains were then diploidized by transformation with YCp50-HO, followed by curing of the HO plasmid using 5-fluoro-oratic acid (5-FOA).
Construction of the STRE-responsive reporter.
Two
oligonucleotides, 31 and 32 (5'-GGCCGCTTCTTTTCCCCTGTTTCCATTTTTGTCTTTTCTCACCCCTTATGGGCCG-3'
and
5'-TCGACGGTCCCCATAAGGGGTGAGAAAAGACAAAAATGGAAACAGGGGAAAAGAAGC-3') (19), were used. They differed from those published
earlier by the extensions used to clone the element. The
oligonucleotides were annealed, kinased by T4 polynucleotide kinase,
purified, and ligated into pNG15 digested with SalI and
EagI and treated with shrimp alkaline phosphatase (Boehringer).
Glycogen and enzyme assays.
Glycogen and enzyme assays were
performed as previously described (38) except that in some
cases glycogen levels were normalized to soluble protein levels, which
were assayed using the Bio-Rad assay. Glucose was quantitated using
hexokinase or affinity glucose reagent diagnostic kits (Sigma); both
kits yielded the same results.
-Galactosidase assays were performed as previously described except
that 10-ml samples were assayed after growth at 22°C or after a shift
to 40°C for 1 h. Reported values are means of four independent
transformants assayed in duplicate; error bars indicate standard
deviations of the assays.
Sporulation protocols.
Two growth protocols were used to
determine whether overexpression of PDE1 and PDE2
suppresses the dityrosine production (fluorescence) defect of
yvh1 strains. In the standard protocol (47),
transformants were grown on minimal glucose medium, transferred to YEPD
for 15 h of presporulation, and then transferred onto sporulation plates for 144 h (1). Under these conditions,
GAL1,10-GST-PDE1 and GAL1,10-GST-PDE2 expression
is expected to increase only as cells overcome glucose repression on
the sporulation plates, and then to decrease as cells sporulate. In the
second protocol, transformants are grown on minimal raffinose medium,
transferred to YEPGal for 15 h, and then transferred onto
sporulation plates for 144 h. Here, GAL1,10-GST-PDE1
and GAL1,10-GST-PDE2 expression is expected to be moderate
at the outset, increase to quite high levels on YEPGal presporulation
medium, and decrease as cells sporulate. Note that although conditions
in the second protocol are optimal for increased PDE1,2
expression, sporulation is less than optimal; wild-type cells sporulate
less efficiently.
GST purification, silver staining, and Western analyses.
GST
fusion proteins were produced as described previously (23)
with the following modifications. Cells were grown to an A600 of 1.0 in raffinose Ura
medium, induced for 3 h with 4% galactose, and harvested. Silver staining was done with Silver Stain (Bio-Rad). Phosphatase (pNPP) assays were performed as previously reported (25) with an
incubation time of 1 h. Western analyses were performed as
previously described (37) using horseradish peroxidase
(HRP)-conjugated anti-GST antibody (Pharmacia) following 3 h of
induction with galactose.
Epifluorescence microscopy.
Microscopy was performed as
previously described (37) by using a Zeiss Axiophot
microscope equipped with a fluorescein filter and cells induced for
3 h with 4% galactose.
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RESULTS |
Disruption of YVH1 leads to defects in glycogen
metabolism.
Similar phenotypes of mutations in multiple genes
affecting glycogen accumulation (32, 42) and a
yvh1 disruption prompted determination of whether
yvh1 strains accumulate glycogen. Glycogen did not increase
in the yvh1 mutant strain as it did when the wild type
reached stationary phase (Fig. 1A and B).
The observation that a yvh1 pho85 double mutant behaved
similarly to a pho85 single mutant argued that
pho85 mutations were epistatic to those in yvh1
(Fig. 1B through D). These results suggested that YVH1 is required for stationary-phase cells to accumulate glycogen. In fact,
yvh1 disruption exhibits a phenotype that more closely
resembles that of snf1 and bcy1 mutants
(15), i.e., the effects are observed only as cells approach
stationary phase.

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FIG. 1.
Glycogen accumulation in stationary-phase cells.
Wild-type (GYC86) (A), yvh1 (HPY120) (B),
pho85 (GYC134) (C), and yvh1 pho85
(GYC135) (D) cultures were grown in YEPD medium, and aliquots were
withdrawn at the A600 indicated on the ordinate
and quantified for glycogen as described in Materials and Methods. Each
value represents the average of two determinations per aliquot. (E)
Acid phosphatase assay. Wild-type (GYC86), yvh1 (HPY120),
pho85 (GYC134), and yvh1 pho85 (GYC134)
cells were streaked on high Pi X-P synthetic complete plates and
incubated at 30°C. The appearance of blue color indicates acid
phosphatase expression.
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Only the C-terminal portion of Yvh1p is needed to perform its role
in glycogen accumulation, growth, and spore maturation.
To
identify the portions of Yvh1p required for glycogen accumulation, we
constructed progressive C-terminal yvh1 deletion plasmids
and used them to transform strain HPY120. Since the glycogen accumulation defect of yvh1 mutants is most pronounced late
in growth, these and subsequent assays were preformed 72 h after inoculation, and results were standardized to soluble protein levels.
Nearly three times more glycogen accumulated with full-length YVH1 (containing or devoid of its 3' flanking sequences)
(pAB100 and pAB101) than with vector Yep24 (Fig.
2A). Deletion of DNA encoding the
C-terminal 50 aa of Yvh1p (pAB102) resulted in loss of glycogen
accumulation above that of the negative control (YEp24); this also
occurred with the remaining five deletion plasmids (Fig. 2A). Similar
results were observed when growth was assayed with glucose (Fig. 2C and
D) or raffinose (data not shown) as a sole carbon source. Finally, the
same deletion plasmids also failed to complement the yvh1
spore maturation defect (fluorescence) phenotype in diploid cells (Fig.
2B). These data argued for the necessity of the C-terminal portion of
Yvh1p to perform these three functions or, alternatively, to maintain
the protein's stability. These alternatives were indistinguishable
because the levels of Yvh1p are below the level of detection even in
the wild type.

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FIG. 2.
Effects of progressive C-terminal yvh1
deletions on their ability to complement the yvh1 null
mutation in strain HPY120. (A) Normalized glycogen accumulation 72 h after inoculation of strain HPY120, transformed with plasmids
indicated on the abscissa, into synthetic complete (SC)
Ura medium. (B) Spore maturation (dityrosine
fluorescence). (C and D) Growth on SC Ura plates. All
transformants were streaked onto the respective plate and incubated at
30°C.
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Yvh1p has been demonstrated to possess the activity of
phosphotyrosine-specific protein phosphatase (14) and
is presumed (based on its homology with vaccinia virus VH1) to be a
dual-specific phosphatase (14). Detailed knowledge about the
Cys-His residues essential to the catalytic activity of this class of
phosphatases (9, 49) prompted us to construct a
catalytically inactive yvh1 variant. Changing Cys117 to Ser
completely abolishes phosphatase activity in Yvh1p-related phosphatases
(9, 49). This substitution elicits a similar result in Yvh1p
(Fig. 3A) but does not affect the
protein's stability (Fig. 3B and C).

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FIG. 3.
Phosphatase activity of wild-type and catalytically
inactive alleles of YVH1. (A) pNPP activities of purified
wild-type (pAB36) and catalytically inactive (pAB37) Yvh1p-GST fusion
proteins. (B) Silver-stained polyacrylamide gel electrophoresis (PAGE)
gels of the proteins used in panel A. (C) Western analyses of various
YVH1 alleles fused to GST.
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Having demonstrated the C117S yvh1 mutant to be devoid of
phosphatase activity, we transformed yvh1 mutant HPY120 with
pAB37 and assessed its ability to complement the three mutant
phenotypes. Contrary to expectation, the C117S allele (pAB37)
complemented the yvh1 mutation as well as the full-length
wild-type control (pAB36); vector pEGKG could not (Fig.
4A). These growth results were the same
whether glucose or raffinose was the carbon source (Fig. 4A and B),
arguing that very little Yvh1p was required (plasmid-borne YVH1 genes were under GAL control).
Complementation was also positive when spore maturation (fluorescence)
was assayed (Fig. 5C, pAB36 and pAB37).

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FIG. 4.
Abilities of various GST tagged alleles of YVH1 to
suppress the slow-growth defect of yvh1 strain HPY120 on
glucose (A) and raffinose (B) plates. (C) Growth phenotypes of various
strains used in this work, including the integrated catalytically
inactive allele of YVH1, on YEPD plates. All strains and
transformants were grown at 30°C.
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The pattern of complementation was more complex when glycogen
accumulation was measured. In glucose medium, it increased about twofold relative to the control (pEGKG) when
GST-full-length YVH1 and GST-C117S
yvh1 alleles were assayed (Fig. 5A,
pAB36 and pAB37). This difference was not seen, however, when pAB107,
which complemented the defects in the growth and spore maturation
assays, was used. When raffinose replaced glucose as the carbon source,
glycogen accumulation increased 50% when any of the three plasmids was used as the complementing DNA (Fig. 5B). The basal level was twice that
observed with glucose, which diminished the difference between glycogen
levels observed in the presence (pAB36) and absence (pEGKG) of
complementation. cAMP levels are reported to be higher in glucose than
in raffinose, thereby accounting for the increased levels of glycogen
accumulation (40). Also note that greater expression of the
GAL1,10-yvh1 constructs would be expected with raffinose as
the carbon source. Although the fold increases in this experiment were
uncomfortably small, they are similar to those reported as being
physiologically significant (see the introduction) (32, 42,
45).

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FIG. 5.
Abilities of various GST tagged alleles of
YVH1 to suppress the glycogen accumulation and spore
maturation defects of yvh1 strain HPY120. (A and B)
Normalized glycogen accumulation of transformants 72 h
postinoculation into synthetic complete (SC) Ura medium
with glucose (A) or raffinose (B) as the carbon source. (C) Spore
maturation (dityrosine fluorescence) assays using the standard spore
maturation protocol described in Materials and Methods.
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The observation of complementation of the yvh1 disruption by
GAL1,10-GST-YVH1 alleles in minimal-glucose medium was at
first unexpected, because the GAL1,10 promoter would be
actively repressed and hence would support very little Yvh1p
production. It should not have been unexpected, however, because (i)
the YVH1 alleles were expressed from 2µm-based plasmids
and (ii) Northern blot analyses had already demonstrated that
YVH1-specific mRNA, though highly induced by nitrogen
starvation, is still present in very small amounts (28).
Low-level YVH1 expression also likely accounts for the
observation that YVH1-lacZ fusion plasmids possess
insufficient activity to be detected in a normal
-galactosidase
assay (A. E. Beeser and T. G. Cooper, unpublished data).
That phosphatase catalytic activity was not required for
complementation prompted us to question whether this observation might
derive artifactually because the C117S allele was plasmid borne.
Accordingly, we integrated hemagglutinin (HA)-tagged wild-type (from
plasmid pAB7) or catalytically inactive YVH1 (from plasmid pAB18); both genes were expressed under the control of the
YVH1 promoter, in its native position on chromosome IX. The
resulting HA-tagged wild-type and catalytically inactive strains (YSB32 and GYC136) are indistinguishable from the parental wild-type diploid
(GYC86) in all three phenotypes assessed (Fig. 4C and 6).

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FIG. 6.
Protein phosphatase activity is not required for
glycogen accumulation or spore maturation. (A) Normalized glycogen
content for wild-type (GYC86), yvh1 (HPY120),
mck1 (YSB40), pho85 (GYC134), and
HAyvh1C117S (GYC136) strains 72 h postinoculation. (B)
Spore maturation phenotypes of wild-type (GYC86), yvh1
(HPY120), HAYVH1 (YSB32), HAyvh1C117S (GYC136),
and mck1 (YSB40) strains under standard conditions.
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yvh1 mutants, lacking the phosphatase domain,
complement YVH1 null mutations.
The above results
suggested that Yvh1p phosphatase activity itself was not required for
growth, glycogen accumulation, or spore maturation (fluorescence).
Therefore, we identified the portions of Yvh1p that were required by
determining whether fragments encoding C-terminal portions of Yvh1p
could complement a yvh1 mutation. The C-terminal 159 (pAB107) or 74 (pAB108) aa were fused to GAL1,10-GST in pEGKG. pAB107,
lacking sequences encoding the Yvh1p phosphatase domain, complemented
the growth (Fig. 4A and B) and fluorescence (Fig. 5C) phenotypes,
whereas plasmid pAB108 did not. pAB107 complements the glycogen
accumulation phenotype, but only when the plasmid-borne YVH1
fragment is expressed at moderate levels, i.e., when the GAL1,10
reporter is derepressed by growing transformants with raffinose as a
sole carbon source (Fig. 5A and B).
To exclude the possibility that differential suppression observed with
pAB107 and pAB108 resulted from differential localization of the fusion
proteins, we fused C-terminal extensions of pAB107 and pAB108 to EGFP,
yielding pAB116 and pAB117. There was no detectable difference in the
localization observed with either plasmid or with pAB115 (EGFP-YVH1),
eliminating this as a possible explanation for the differing
suppressive abilities (data not shown).
Lowering cAMP levels partially suppresses the glycogen accumulation
and spore maturation defects of yvh1.
One form of cellular
regulation previously implicated in growth, glycogen accumulation, and
ability to sporulate is cAMP and its stimulation of PKA. Cells with
constitutively active PKA activity (bcy1 mutants) fail to
accumulate glycogen, are sporulation deficient, and possess various
growth defects (7). Conversely, cells with low PKA activity
(ras2 mutants) exhibit growth defects, hyperaccumulate glycogen, and sporulate precociously in the presence of nutrients (10, 24). In other words, the phenotypes associated with
elevated levels of cAMP-PKA are qualitatively similar to those caused
by disruption of YVH1.
We reasoned that if (i) yvh1 mutations abnormally elevate
PKA signaling and (ii) high cAMP-PKA levels caused the three
yvh1 phenotypes, then reducing cAMP-PKA levels might
suppress these phenotypes. Technically, this would have to be done in a
conditional manner, since total loss of PKA is lethal (43).
Therefore, we altered intracellular cAMP levels using conditional
overexpression of PDE1 and PDE2, encoding the
high- and low-affinity phosphodiesterases responsible for cAMP
degradation (27, 34). Glycogen assays were performed with
yvh1 transformants grown to saturation with glucose or
raffinose as a carbon source. In glucose medium, only when pAB36 or
pAB37 was used as the transforming DNA were glycogen levels above those
of the negative control (pEGKG) (Fig.
7A). The yvh1 phenotype was
not suppressed in PDE1 and PDE2 transformants. However, GAL1,10-driven expression, as occurs in these
plasmids, should be low with glucose as a carbon source. When raffinose medium was used, not only did functional alleles of YVH1
yield glycogen accumulation higher than that of the negative control, but so too did cells transformed with GSY2, PDE1,
or PDE2. With respect to the GSY2 result, it has
been reported that overexpression of GSY2 under conditions
of diminished cAMP, e.g., growth in glycerol (15) or
expression in a ras2 mutant (10), increases
glycogen accumulation.

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FIG. 7.
Conditional expression of genes responsible for cAMP
turnover, PDE1 (pAB112) and PDE2 (pAB113), can
partially suppress the glycogen accumulation and spore maturation
defects of yvh1 in an expression-dependent manner. (A and
B) Normalized glycogen accumulation 72 h postinoculation in
glucose (A) or raffinose (B) medium. (C and D) Spore maturation
phenotypes of the same transformants under the standard dityrosine
protocol (C) and the unconventional protocol (D) as described in
Materials and Methods.
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Two growth protocols were used to determine whether overexpression of
PDE1 and PDE2 suppresses the dityrosine
production (fluorescence) defect of yvh1 strains. With the
first, i.e., the standard, protocol (low-level PDE1 and
PDE2 expression), only GAL1,10-GST-YVH1 (pAB36) complemented yvh1 with respect to dityrosine production
(Fig. 7C). The results were quite different with the second protocol (elevated PDE1 and PDE2 expression).
Neither the wild-type strain GYC86 nor the yvh1 mutant
HPY120 transformed with pEGKG sporulated well, and they fluoresced
minimally if at all. However, strain HPY120 transformed with
GAL1,10-GST-YVH1 (pAB36), GAL1,10-GST-PDE1 (pAB112), or GAL1,10-GST-PDE2 (pAB113) fluoresced
(Fig. 7D), i.e., the yvh1 mutation was suppressed.
Suppression was specific, however, because pAB111
(GAL1,10-GST-GSY2) was unable to suppress (Fig. 7D).
In contrast to the results just presented, overexpression of
PDE1 (pAB112) or PDE2 (pAB113) did not suppress
the growth defect of the yvh1 mutation on either glucose or
raffinose plates (Fig. 8). This result
probably derives from an inability of the GAL1,10 promoter
to decrease endogenous cAMP levels sufficiently to suppress the
slow-growth phenotype without depleting them to such an extent that the
cells physiologically resemble ras2 mutants. Consistent with
this suggestion, full induction of the GAL1,10 promoter
(growth on galactose) was severely detrimental to wild-type and
yvh1 disruption strains transformed with plasmids pAB112
(GAL1,10-GST-PDE1) or pAB113 (GAL1,10-GST-PDE2)
(data not shown); adenyl cyclase mutants behave similarly
(3). These results suggest that two of the three phenotypes
associated with YVH1 disruption are partially suppressed by
overexpression of genes which lower cAMP levels.

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FIG. 8.
Conditional expression of PDE1 and
PDE2 does not suppress the slow-growth phenotype of
yvh1 mutants. Strain HPY120 was transformed with
GST fused to one of the following genes: none (pEGKG;
vector), YVH1 (pAB36), yvh1C117S (pAB37),
GSY2 (pAB111), PDE1 (pAB112), and PDE2
(pAB113). Transformants were streaked onto minimal glucose (A) or
raffinose (B) medium and grown at 30°C; these conditions yield low
and moderate levels of fusion gene expression. Full induction of the
GAL1,10 promoter, driving the above gene expression, is
highly detrimental to growth of both the yvh1 (HPY120) and
wild-type (GYC86) strains transformed with pAB112 and pAB113.
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Disruption of YVH1 affects STRE-mediated gene
expression.
To further test whether yvh1 mutations
elicit the same effects as elevated cAMP-PKA levels, we determined
whether cAMP-PKA-dependent heterologous reporter gene expression was
affected by disruption of YVH1. We chose the DDR2
promoter fragment, previously reported by Kobayashi and McEntee to
support approximately 15 and 120 U of
-galactosidase production at
23 and 37°C, respectively, an induction ratio of 8.1 (19).
This DNA fragment, which contains two STREs, was cloned into the
heterologous expression vector pNG15; the resulting plasmid, pAB60, was
used to transform wild-type (GCY86) and yvh1 (HPY120)
strains. Transformants were grown without stress (22°C) and subjected
to a transient heat shock (40°C) for 1 h;
-galactosidase
activities were then measured. Heat shock has little if any effect on
basal lacZ expression supported by the parent vector pNG15
in either the wild-type or the mutant strain (Fig.
9). Under non-stress conditions (22°C),
-galactosidase production is only marginally higher (less than
twofold) in the yvh1 mutant than in the wild type (Fig. 9).
Heat shock increased lacZ expression in both wild-type (25- to 26-fold) and yvh1 (6- to 7-fold) strains, but the
yvh1 mutation lowered cAMP-PKA-dependent stress-responsive
transcription 4- to 5-fold.

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|
FIG. 9.
Deletion of YVH1 results in decreased
induction of transcription mediated by a multi-STRE. Wild-type (GYC86)
and yvh1 (HPY120) strains were transformed with the
lacZ reporter plasmid pNG15 or the same plasmid containing
the DDR2 promoter element (pAB60). Transformants were grown
at 22°C (non-stress condition) and then shifted to 40°C for 1 h (stress condition) before expression was assayed. Values represent
the average of four independent transformants assayed in duplicate.
|
|
 |
DISCUSSION |
Data presented here expand the targets of the dual-specific
phosphatase Yvh1p to include those associated with glycogen
accumulation in stationary phase. In this characteristic, Yvh1p joins
the Glc7p, Pph21, Pph22, Pgp1p/YNRO32w, and Sit4p phosphatases, which
also regulate glycogen accumulation (8, 29-31). Experiments
with YVH1 truncation alleles demonstrate that the alleles
which suppress slow growth also suppress the spore maturation and
glycogen accumulation defects. The congruence of suppression suggests
that all three phenotypes are probably manifestations of a common
function. Surprisingly, the function is independent of the catalytic
activity demonstrated for YVH1, namely, a protein tyrosine
phosphatase (14). During preparation of this article,
J. E. Dixon's laboratory reported isolation of the human variant
of YVH1 and observed that suppression of the vegetative
growth defect was not impaired by the same mutations which abolish
catalytic activity with either the yeast or the human YVH1
(25). Our results are in agreement with theirs and extend
their findings by demonstrating that the C-terminal 159 aa of Yvh1p are
sufficient for suppression, an important result, since this allele
completely lacks the phosphatase domain. It is this result that
prevents us from reaching the same conclusion as Muda et al. regarding
the biochemical role of the Yvh1p C-terminal region (25).
Although noncatalytic domain positioning of the catalytic domain in
proximity to its substrate is one way in which signal insulation is
achieved (6), pAB107 lacking the catalytic domain remains
competent for suppression. Therefore, we favor a model in which Yvh1p
phosphatase activity is not required for the functions that are
suppressed by the C-terminal peptide. Although catalytic activity is
not required for the functions we assayed, it is entirely possible that
Yvh1p phosphatase activity is required for a function that has so far
escaped detection. This surprising conclusion is not unique.
Schwartzberg et al. demonstrated that kinase-deficient variants of
src did not induce osteocarcinomas in rats, whereas deletion
of SRC did (36). Although these two cases are
certainly exceptions to the rule, they prompt caution in the use of
homology as the means of establishing physiological function.
If phosphatase activity is not required for the Yvh1p function, what is
the target of the Yvh1p C-terminal peptide? While we have not
established how the Yvh1p C-terminal peptide suppresses the
yvh1 null mutant phenotypes, the suppressed functions
possess striking similarities. The three suppressed phenotypes,
growth, sporulation and glycogen accumulation, are affected by cAMP and alteration of cAMP-dependent PKA (7). A ras2
strain precociously sporulates (24), whereas cells with
elevated PKA activity, e.g. a bcy1 mutant and constitutively
active alleles of RAS2, are completely sporulation defective
(21). Additionally, DIT1 and DIT2
expression (responsible for dityrosine production, exploited in our
fluorescence assays) is driven by a promoter containing 4 STREs through
which PKA functions (PATCHMATCH at http://genome-ww2.stanford.edu). The
negative effects of yvh1 mutations on heterologous
STRE-dependent DDR2 expression are consistent with the
argument that Yvh1p may well interact directly or indirectly with one
or more component molecules of the cAMP-PKA signal cascade and thereby
produce the same effect as that resulting from decreased cAMP levels.
Supporting this interpretation is the observation (Fig. 7A and B) that
artificially decreasing cAMP levels by overproduction of
phosphodiesterases 1 and 2 partially suppresses yvh1
defects. We favor the suggestion that Yvh1p's physiological function
is not, in the current context, to dephosphorylate critical
phosphoproteins but to modulate a component(s) of the cAMP-PKA signal
transduction cascade via a physical interaction (Fig.
10). Although this suggestion fits well with our data, our information does not permit exclusion of other possible alternatives. Most specifically, our experiments do not distinguish whether Yvh1p affects cAMP-PKA levels or some function downstream of cAMP in the cAMP-dependent PKA cascade.
This interpretation fits well with existing physiological models and
may serve to resolve several outstanding issues. First is the nature of
the kinases regulating glycogen synthase activity. Pho85p, Snf1p, and
PKA all regulate GSY2p, but it appears that this regulation is heavily
influenced by the cell's growth status, since (i) pho85
mutants reaching saturation possess glycogen levels similar to those in
the wild type (Fig. 1) and (ii) GSY2p activity decreases 20 to 50%
when snf1 cells enter stationary phase (15). These decreases may seem modest, but as glycogen is a key regulatory process, small differences have been shown to be physiologically important (32, 42, 45). bcy1 mutations, on the
other hand, generate much larger defects in stationary phase; this is
expected of mutations which completely abolish the cAMP dependence of
PKA rather than merely increasing its activity by elevating cAMP
levels. The effects of yvh1 disruptions on Gsy2p activity
are comparable to those in snf1 mutants in stationary phase
(15). Second is the nature of the nitrogen starvation
signal. Starvation specifically for nitrogen dramatically induces
YVH1 expression, making it a reasonable participant in
transduction of the signal. Loss of Yvh1p decreases, but does not
abolish, expression of early meiotic regulators, and Yvh1p is situated
upstream of Mck1p, a protein known to modulate expression of the master
sporulation regulator IME1 in response to nutritional signals (1,
28). Like Mck1p, Yvh1p also has an additional role in spore
maturation (1, 26).
In light of the cAMP-related phenotypes generated by YVH1
disruption, we can suggest an explanation of the mechanism by which Yvh1p regulates early sporulation genes independently of its ability to
dephosphorylate proteins. IME1 transcription is repressed by cAMP
(21, 33). Sagee et al. localized this effect to an IRE which
is homologous to the STREs in DDR2 (19, 33).
Disruption of YVH1 modestly decreases IME1
expression and more drastically decreases IME2
transcription, leading to inefficient sporulation (28). This
is the same pattern of control we observe with the stress-responsive
STRE-driven reporter system (Fig. 9). Direct overexpression of
IME1, or increasing its expression by overexpressing MCK1, suppresses both the sporulation and spore maturation
defects of yvh1 mutants (1). The spore maturation
phenotype of yvh1 mutants is interesting in light of the
fact that DIT gene expression, associated with dityrosine
production, may be STRE regulated. Further, the two phenotypes, early
and late in sporulation, are linked. Cells which sporulate
inefficiently are unlikely to synthesize much dityrosine because
expression of the DIT1 and DIT2 genes is
temporally regulated by the sporulation transcriptional cascade (Ime1p
Ime2p) (39) as well as, conceivably, by PKA.
The identification of the PKA phenotypes of rim15 mutations
is also intriguing in light of the fact that Rim15p was independently identified as being required for maximal expression of IME2
(46), another characteristic shared by Yvh1p. The similarity
of rim15 and yvh1 phenotypes may derive from the
possibility that the two proteins are components of the same cascade as
mentioned above. The rim15 and yvh1 phenotypes
also fit the Reinders et al. model for regulating PKA (32).
There are, however, very real quantitative differences between the
rim15 and yvh1 phenotypes. rim15
mutants sporulate much less efficiently than yvh1 strains
(<3% [32] versus 50% [28] with
respect to congenic wild-type strains), and rim15 mutants do
not possess a vegetative growth defect (32, 46).
The observation that MCK1 and IME1 overexpression
suppresses the spore maturation but not the slow-growth defect of
yvh1 mutants argues that perhaps more than one Yvh1p target
exists. It will be informative to isolate targets of the slow-growth
phenotype in light of Muda et al.'s report of a human Yvh1p orthologue
which suppresses the slow-growth phenotype of S. cerevisiae
yvh1
strains (25). Despite differences in the number
of variants and mechanisms of adenyl cyclase activation in yeast and
humans, the observation that human YVH1 maps to a
chromosomal location that is duplicated in certain liposarcomas prompts
the question as to whether cAMP levels, PKA activity, or downstream
components of the cascade are also affected in these cell lines
(11, 12). If a physiological function of Yvh1p is to
modulate cAMP or a downstream component in the cAMP-dependent signal
cascade, one might expect Yvh1p orthologues from other eukaryotes to
also suppress the S. cerevisiae yvh1 null mutant phenotypes.
A Yvh1p homologue has been identified in the Schizosaccharomyces
pombe genome, and preliminary experiments suggest that the
S. pombe protein is also capable of suppressing the growth
and spore maturation defects in HPY120 (Beeser and Cooper, unpublished).
We thank Tim Higgins for preparing the figures and members of the
UT Yeast Group for reading the manuscript and offering suggestions for
its improvement.
This work was supported by Public Health Service grant GM-35642 from
the National Institute of General Medical Sciences.
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