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J Biol Chem, Vol. 275, Issue 10, 6707-6711, March 10, 2000
§,
, and
From the Departments of
Pathology and
¶ Pharmacology, Boyer Center for Molecular Medicine, Yale
University School of Medicine, New Haven, Connecticut 06536
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ABSTRACT |
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The inhibitor of apoptosis (IAP) gene family
comprises molecules that block the activity of pro-apoptotic caspase
proteases. Paradoxically, yeasts contain IAP proteins but no caspases
and no apoptotic program. To determine the function of these proteins in vivo, we disrupted the BIR1 gene, encoding
the only known IAP in yeast Saccharomyces cerevisiae.
Sporulation of heterozygous diploids yielded no viable mutant haploids,
indicating that BIR1 is an essential gene. By flow
cytometry, some heterozygous mutants were polyploid accumulating >4
N DNA content. These cells exhibited a 20-40% reduction
in growth rate, which was rescued by plasmid-borne over-expression of
BIR1 but not by its human counterpart, survivin. Deletion
analysis revealed that the N-terminal domain of Bir1, containing the
conserved baculovirus IAP repeat, was able to partially complement the
cell growth defect caused by BIR1 deletion. Moreover, the
full-length and truncated forms of Bir1 accelerated cell division in
wild-type cells. Finally, BIR1 heterozygous mutants
exhibited grossly altered cell morphology with mis-shapen or abnormally long buds connected to an unusually large mother cell. These findings identify a novel function of IAP proteins in the pleiotropic control of
cell division, in addition to their role in the suppression of apoptosis.
The genetic control of cell death and cell survival (apoptosis)
ensures developmental morphogenesis and preserves homeostasis in
differentiated organisms (1). Apoptosis is a highly evolutionarily conserved process, with homologous gene families of inhibitors and
stimulators of cell death present in all metazoa. Genetic studies in
model organisms Drosophila melanogaster (2) and Caenorhabditis elegans (3) provided fundamental paradigms
for the assembly of the cell death machinery and helped identify
critical molecular targets of apoptosis effector proteins (4). In
addition to the Bcl-2 family of cell death regulators (5), the
inhibitor of apoptosis (IAP)1
gene family has recently attracted attention for its broad distribution and evolutionary conservation (6, 7).
Originally found in the baculovirus as factors that prevent the suicide
of virally infected host cells (8), homologous IAP proteins have since
been identified in yeast, worms, flies, and mammalian cells (6, 7).
Each molecule contains one to three copies of an 80-amino acid
baculovirus IAP repeat (BIR), which are potentially involved in
Zn2+ ion coordination via a
DX3CX2C/HX6C
consensus (9). In addition, BIR proteins often contain a
C3HC4 RING finger (6, 7). Functionally, a
Drosophila IAP protein, DIAP, has been shown to counteract
apoptosis induced by the death genes, reaper,
hid, and grim (10). In contrast, mammalian IAP
proteins (XIAP, NAIP, c-IAP1, c-IAP2, and survivin) block apoptosis by
inactivating terminal effector caspase-3 and -7 and by interfering with
upstream activation of caspase-9 (6, 7). This suggested that, although
IAP proteins are evolutionarily conserved apoptosis inhibitors, they
may have distinct mechanisms in different organisms.
Recent evidence suggested that certain IAP proteins might participate
in cellular functions other than apoptosis and, in particular, cell
division. Specifically, survivin, the smallest mammalian IAP protein
with a single BIR domain and no RING finger (11), was found to be
expressed in mitosis in a strict cell cycle-regulated manner (12).
Starting at early prophase, survivin was localized to mitotic spindle
microtubules persisting until late telophase in midbodies (12).
Moreover, RNA interference of a single BIR-containing IAP gene,
BIR-1, in C. elegans did not result in
dysregulated apoptosis but caused an embryonic lethal defect of
cytokinesis with multinucleation (13). Intriguingly, a single BIR gene
is also present in yeast S. cerevisiae (6, 7), which lacks caspases and is not believed to possess an apoptosis program (14).
To determine the function of prototypic, single BIR-containing IAP
proteins in vivo, we disrupted the BIR1 gene in
yeast S. cerevisiae. This action produced a lethal
phenotype, indicating that BIR1 is an essential gene.
Moreover, analysis of heterozygous diploid mutants revealed a
pleiotropic cell division defect, which affected ploidy, cell growth,
and cell morphology, revealing a role of IAP proteins in cell division control.
Strains, Media, and Transformation--
Standard methods for the
growth and maintenance of the yeast and bacteria were used throughout
(15). S. cerevisiae strain YPH501
(MATa/MAT
To construct the bir1::URA3 mutant, the
"left" and "right" portions of the bir1 gene
(lacking a 2938-base pair segment of the coding region) were
PCR-amplified using the primer pairs of yBIR1-P1 (5'-TGC TCT AGA TTG
GTT TGT TTC TTG CTA CG-3') and yBIR1-P2 (5'-GGA AGA TCT ATA AAC AAC CGA
TGT GTC C-3') or yBIR1-P3 (5'-GGA AGA TCT GAA TGT TTC GCC GCA TCG
CAG-3') and yBIR1-P4 (5'-GAC GCG TCG ACC AAG ATT ATG TCG TAG CAC C-3').
The amplification products were digested with
XbaI-BglII or BglII-SalI
and subcloned into the XbaI-SalI sites of
pBluescript KS, yielding pBluescript KS-BIR1-LR. The URA3
gene was subcloned as a 3.8-kilobase pair
BglII-BamHI fragment (from plasmid pNKY51) into
the BglII site of pBluescript KS-BIR1-LR, yielding the
bir1::URA3 plasmid, pBluescript
KS-BIR1-LR-URA3.
YPH501 cells were transformed using the LiAc TRAFO method, as described
previously (17). To confirm each gene disruption, genomic DNA was
prepared (15) and PCR-amplified using primers flanking yBIR-P0 (5'-CTG
CTT CAA ATG CAT GTC), as well as internal to the disrupting auxotrophic
marker. Disruptions were further confirmed using a set of primers
internal to the BIR1 gene, yBIR1-5' (5'-TCC CCC GGG ATA ATG
GAT GGT CAA ATA GAT AAA ATG G-3') and yBIR1-3' (5'-ACG CGT CGA CCT GCG
ATG CGG CGA AAC ATT C-3'). For tetrad dissection, diploids were grown
overnight at 24 °C in pre-sporulation medium (1% potassium acetate,
0.1% yeast extract, 0.67% yeast nitrogen base without amino acids and
ammonium sulfate, supplemented with amino acids and uracil) and then
washed and transferred to SPM sporulation medium (1% potassium
acetate) for an additional 3-5 days. Dissections were carried out as
described (15).
Expression Plasmids--
For expression of wild-type
BIR1, the gene was PCR-amplified from genomic DNA using the
primer pair yBIR1-P1 (5'-TGC TCT AGA TTG GTT TGT TTC TTG CTA CG-3') and
yBIR1-P4 (5'-GAC GCG TCG ACC AAG ATT ATG TCG TAG CAC C-3'). The
4930-kilobase pair PCR product was digested with
XbaI-SalI and subcloned into the corresponding sites of pRS315. For overexpression of BIR1, the full-length
open reading frame was amplified using yBIR1-5' and yBIR1-3'
(described above). The amplified product was digested with
SmaI-SalI and subcloned into the corresponding
sites of pRS315-ADH, a yeast expression vector containing the promoter
and terminator from ADH1 (18). Similar plasmids containing
the Bir1 N-terminal domain (containing two BIR repeats, residues
1-251) or the C-terminal domain (residues 252-954) were constructed
by PCR, as described above, using internal primers yBIR1N-3' (5'-ACG
CGT CGA CCT ATG TCT GAA AGA AAT AAC AGT TCC C-3') or yBIR1C-5' (5'-TCC
CCC GGG ATA ATG CAG ACA CGT AAT CGA TTT GAG AG-3').
For expression of wild-type survivin, the cDNA was PCR-amplified
using the primer pair of HS-Y5' (5'-CGG GAT CCA GAA TGG GTG CCC CGA CGT
TGC-') and HS-Y3' (5'-GG AAT TCT CAA TCC ATG GCA GCC AG-'). The
450-base pair products were digested with
BamHI-coRI and subcloned into the corresponding
sites of pRS316-ADH to yield pRS316-ADH-survivin. Similar plasmids
containing either the N-terminal (residues 1-96, N-survivin) and
C-terminal (65 residues 97-142, C-survivin) domains of survivin were
constructed by PCR as described above, using internal primers HS-N3'
(5'-GG AAT TCT CAA GAA AGG AAA GCG CAA CCG GA-') and HS-C5' (5'-GG GAT
CCA CAA TGC TTT CTG TCA AGA AGC AG-'). For galactose-inducible
expression, the ADH1 promoter was removed (KpnI,
SmaI fragment) and replaced with the GAL1/10
promoter (KpnI, blunt-ended XbaI) from
pRS315-GAL, to yield pRS316-GAL-survivin. Alternatively, the coding
region and ADH1 terminator were moved as a
BamHI-BglII fragment to the BamHI site
of pRS315-GAL to yield pRS315-GAL-survivin (including N-survivin and
C-survivin). To substitute the URA3 nutritional marker with the LEU2, URA3-containing
PvuI-PvuI fragment of pRS316-based vectors was
replaced with the corresponding LEU2-containing fragment of pRS315 to yield pRS315-ADH-survivin and pRS315-GAL-survivin. All PCR
products were confirmed by DNA sequencing.
Fluorescence-activated Cell Sorting (FACS)--
Cultures for
FACS analysis were grown to saturation and then diluted to
A600 nm ~ 0.2 in the same medium and grown to
A600 nm ~ 1.0. 1.5 ml of the culture was
sonicated for 10 s, centrifuged for 10 s at maximum speed in
a tabletop microfuge, resuspended in 2 ml of 70% EtOH, and incubated
overnight at 23 °C with gentle shaking. Cells were then centrifuged,
washed twice with 1 ml of 50 mM Tris-HCl, pH 7.8, resuspended in 0.8 ml of 50 mM Tris-HCl, pH 7.8, and 200 µg of heat-inactivated RNase A, and incubated at 37 °C overnight.
Cells were centrifuged, resuspended in 0.5 ml of 50 mM
Tris-HCl, pH 7.8, 2.5 mg pepsin, and incubated at 37 °C for 30 min.
Cells were centrifuged, washed once with 1 ml of 200 mM
Tris-HCl, pH 7.5, 211 mM NaCl, 78 mM
MgCl2, and resuspended in 0.55 ml of the same buffer
containing 50 µg of propidium iodide. Flow cytometric analysis was
performed with a FACS Vantage flow cytometer (Becton Dickinson, San
Jose, CA). The cells were excited at 488 nm, and the emission was
collected through a 630/22 nm band pass filter. A minimum of 10,000 cells was analyzed for each sample. Cell cycle analysis was performed using the Modfit 5.2 model (Verity Software House, Topsham, ME).
Microscopy--
For light microscopic examination, cells were
grown to mid-log phase, fixed in growth medium with formaldehyde (3.7%
final concentration), and photographed with Kodak TMax 100 film using a
Zeiss Axioscop and MC80 camera at 400× magnification with DIC optics.
Cell Growth--
Cell growth was monitored by diluting a
saturated overnight culture to A600 nm ~ 0.2 and measuring the change in absorbance over time. Cell viability was
determined by serially diluting cultures grown to saturation, spotting
onto the appropriate medium, and incubating for 48 h at 24, 30, 34, or 37 °C in the presence or absence of 1 M sorbitol.
The sequencing of the S. cerevisiae genome (19) has
revealed a single open reading frame with homology to IAP family
proteins. This gene, designated BIR1 (SCYJR089w), encodes a
protein of 954 amino acids and features two BIR domains at residues
12-116 and 145-240. Phylogenetic analysis (20) revealed the greatest
similarity to Schizosaccharomyces pombe bir1,
human survivin, and C. elegans BIR-2 and BIR-1. A
comprehensive analysis of cell cycle-regulated genes in yeast indicates
that BIR1 transcription does not change during the cell
cycle (21), in contrast to human survivin (12).
To determine the in vivo function of BIR1, we
constructed a gene disruption mutation in the diploid strain YPH501.
Cells were transformed with a construct in which the entire coding
region had been replaced with a nutritional marker
(bir1::URA3, bir1 The segregation pattern for YPH501-B9 did not match that expected for a
simple suppressor mutation. We thus considered whether this strain had
undergone endoreduplication, resulting in a higher than normal number
of chromosomes. To test for this possibility, we measured the DNA
content of YPH501-B9 using FACS analysis. Both the BIR1 and
the bir1
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INTRODUCTION
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES
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EXPERIMENTAL PROCEDURES
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES
ura3-52/ura3-52
lys2-801;am/lys2-801;am ade2-101;oc/ade2-101;oc
trp1-
63/trp1-
63 his3-
200/his3-
200 leu2-
1/leu2-
1)
(16) was used for the characterization of BIR1. Yeast cells
were maintained in rich (YP) medium or synthetic (SC) medium lacking
appropriate nutrients to maintain plasmid selection and were
supplemented with either 2% dextrose (YPD, SCD) or 2% galactose and
0.2% sucrose (YPG, SCG). Cells were grown at 30 °C unless otherwise indicated.
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RESULTS AND DISCUSSION
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS AND DISCUSSION
REFERENCES
). Gene
disruption mutants were confirmed by PCR and sporulated, and the
resulting tetrads were dissected and allowed to grow on rich (YPD)
medium. For one of the BIR1/bir1
mutants
(strain YPH501-B2), sporulation yielded two viable and two nonviable
spore products. The viable cells failed to grow in medium lacking
uracil, confirming that the bir1::URA3
mutation is lethal. However, another mutant (YPH501-B9) yielded a
complex pattern of spore products, some of which were viable but also
able to grow in uracil-free medium.
mutants and the corresponding wild-type strains
were characterized in this manner, as described in Fig. 1. YPH501 and YPH499 are wild-type
diploid and haploid strains, respectively. As expected, YPH501 and
YPH501-B2 each exhibited a normal (2 N + 4 N)
pattern of DNA content. In contrast, YPH501-B9 had major peaks
corresponding to 4 and 6 N DNA. A third mutant, YPH501-B6,
contained 3 or 5 N DNA. We also characterized a viable, URA+ spore product from YPH501-B9 (designated YPH499-B9).
Compared with the normal haploid strain YPH499, the YPH499-B9 mutant
strain had twice the normal DNA content (2 and 4 N) (Fig.
1). Again, bir1
haploid mutants were not viable and could
not be analyzed by FACS.

View larger version (10K):
[in a new window]
Fig. 1.
Some BIR1/bir1
mutants are polyploid. FACS analysis was used to
determine whether BIR1/bir1
mutants had a
higher than normal DNA content. Data are represented as cell number
(Counts) versus fluorescence intensity (DNA
content). YPH501 and YPH499 are wild-type diploid and haploid
strains, respectively. YPH501-B9 and YPH501-B2 are
BIR1/bir1
mutants derived from YPH501. YPH499-B9 is a
BIR1/bir1
spore product derived from YPH501-B9.
We then examined each of the mutants by DIC microscopy (Fig.
2). Compared with the wild-type parent
strain, YPH501, both the YPH501-B2 and YPH501-B9 mutants exhibited
aberrant cell morphology, with mis-shapen buds connected to an
unusually large mother cell. The YPH499-B9 mutant also had an altered
cell morphology, except that the bud neck was grossly elongated in most
cases. This morphology is distinct from that seen during pseudohyphal
differentiation, because disruption or overexpression of
BIR1 does not influence the formation of pseudohyphae
resulting from nitrogen starvation or from permanently differentiated
elm1 or tec1 mutant cells (22).
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Enlarged cells are often the consequence of slower cell division. Thus,
we examined the ability of each mutant to grow in liquid medium (Fig.
3A). Compared with the
wild-type YPH501, which had a doubling time of 107 min, YPH501-B2,
YPH501-B6, and YPH501-B9 grew somewhat more slowly, with doubling times
of 122, 122, and 134 min, respectively. Compared with the parent
haploid strain, YPH499, the doubling time of YPH499-B9 was similarly
increased (from 124 to 166 min). To determine whether the
bir1
mutant was responsible for this slow-growth
phenotype, YPH499 and YPH499-B9 were transformed with a plasmid-borne
copy of BIR1 or the parent vector alone. As described in
Fig. 3B, the mutant carrying the empty vector grew slowly
(180 min, doubling time), whereas mutants carrying BIR1 on a
plasmid doubled at a rate (157 min) comparable with that of the wild
type carrying the vector (152 min) or BIR1 (150 min) (Fig.
3B).
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We then examined the consequences of BIR1 over-expression.
Our rationale was that if a reduction in gene copy number leads to a
slow-growth phenotype, an increase in expression might accelerate growth. Wild-type YPH501 cells were transformed with a plasmid containing full-length BIR1 expressed using a strong
constitutive promoter from ADH1. As described in Fig.
4, BIR1 over-expressing cells
doubled at a rate considerably faster (111 min) than
non-over-expressing cells (146 min) (Fig. 4A). To determine
whether the BIR homology was responsible for the enhanced growth, we
tested a C-terminally truncated form of the protein containing only the
two BIR domains (residues 1-251, designated N-Bir1). As a control, we
also tested the reciprocal construct containing an N-terminally
truncated protein lacking the BIR domains (residues 252-954, C-Bir1).
As shown in Fig. 4, the rate enhancement by N-Bir1 nearly matched that
of the full-length protein Bir1, whereas the C-Bir1 mutant behaved like
the empty vector. N-Bir1 was also able to partially complement the slow
growth phenotype of the YPH499-B9 and YPH501-B9 mutants (data not
shown).
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BIR proteins are remarkably well conserved across species. To determine whether this conservation of sequence translates into conservation of function, we tested the ability of survivin (12) to function in place of BIR1 in yeast. Survivin was selected because it is the closest human homologue and the smallest member of the family (6, 7) and is therefore likely to be efficiently expressed in yeast. Wild-type YPH501 cells were transformed with full-length survivin, a C-terminally truncated form of the protein containing only the BIR domain (N-survivin), an N-terminally truncated form lacking the BIR domain (C-survivin), or the empty vector alone. As described in Fig. 4B, the empty vector and wild-type human survivin had no effect on the doubling time of these cells. However, N-survivin (which contains the BIR domain) exhibited a dramatic reduction in the rate of cell doubling, from 163 to 243 min. C-survivin had only a modest growth inhibitory effect (181 min). Thus, the survivin BIR domain appears to act in a dominant-negative manner to inhibit cell division.
Finally, we noticed that yeast expressing survivin exhibit an increased
susceptibility to lysis in low osmotic solutions. When cells were
transferred from synthetic medium to water, approximately 10% of the
cells underwent spontaneous lysis. A similar "cell integrity"
defect has been described for a variety of mutants and is thought to
indicate a defect in cell wall synthesis (21, 23). The effect was
exacerbated by growth at high temperatures and ameliorated by growth at
low temperatures and in an osmotically balanced solution of 1 M sorbitol. As shown in Fig.
5, YPH501 cells expressing full-length
survivin showed a marked decrease in viability on plates maintained at
34 °C as compared with vector alone. A less severe defect was
exhibited by the N-survivin and C-survivin constructs. This defect was
reversed by growth in 1 M sorbitol, by growth in dextrose
(which represses survivin expression), or both. A cell integrity defect
was not seen in any of the bir1
mutant strains described
above or in cells overexpressing wild-type Bir1. Thus, the phenotype is
unique to yeast that express survivin or the survivin BIR domain
(N-survivin). It is also distinct from the slow growth phenotype
described in Fig. 4, where full-length survivin had no effect.
Regardless, either of the growth phenotypes could be useful for
yeast-based genetic screens for IAP-domain mutants in survivin.
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The main conclusion that can be drawn from these studies is that inactivation of the IAP gene, BIR1, causes a pleiotropic cell division defect in yeast, with dysregulation of cellular ploidy, cell growth rate, and overall cell morphology. The identification of IAP homologous genes in yeast, which are not believed to implement an apoptosis program (14), has suggested the potential participation of these molecules in functions other than apoptosis control, particularly in the cell division control pathway. In support of this view, we found that BIR1 is essential for cell viability and that an increase or decrease in the BIR1 copy number will accelerate or decelerate cell division, respectively. This view is further reinforced by the cell cycle-regulated expression and localization to the mitotic apparatus of the mammalian IAP homologue, survivin (12), and by the multinucleation and cytokinesis defect resulting from targeting a single BIR molecule, BIR-1, in C. elegans (13).
Very recently, Uren et al. (22) described their efforts to disrupt BIR1 in yeast. Consistent with our findings, they observed inefficient sporulation and germination of both heterozygous and homozygous diploid mutants, with only a small percentage of viable spore products and an unusual bud morphology. In striking contrast to our findings, however, they conclude that homozygous diploid and haploid mutants are viable. They acknowledge that this could have resulted from "maldistribution of DNA" during cell division, but they did not test that possibility directly (e.g. by FACS). Nor did they attempt to confirm the genotype of their "diploid" mutants. Finally, and not surprisingly, they were also unable to demonstrate complementation by plasmid-borne BIR1. Thus, the rare viable spore products that they obtained are likely to have been polyploid, as documented here.
Although the molecular ordering of the cell division control pathway
coordinated by BIR1 in yeast has not been elucidated, the
pleiotropic nature of the defect in diploid mutants reveals a likely
role in cytokinesis and control of cytoskeletal and cell wall
integrity. This function was recapitulated by the isolated BIR domain,
a potential Cys/His-based zinc finger fold (9), known to participate in
apoptosis inhibition by certain mammalian IAP proteins (6, 7).
Interestingly, heterologous expression of survivin (11) also resulted
in dysregulation of cell growth rate, thus emphasizing the high degree
of evolutionary and functional conservation among IAP proteins.
Altogether, these data are consistent with a potential unifying model
in which "ancient" IAP proteins (20), containing a single BIR
module, are primarily involved in cell division control rather than
regulation of apoptosis. More recently diverged IAP proteins may have
further evolved a specialized function of suppression of apoptosis
through a direct BIR-dependent interaction with terminal
effector caspases (6, 7). Intriguingly, human survivin may provide an
adaptation between these two evolutionarily conserved processes for its
cell cycle-dependent expression in mitosis, localization to
the mitotic apparatus (12), and caspase-inhibitory properties (6, 7). The use of powerful yeast genetic approaches should facilitate the
molecular dissection and identification of additional modulators of
IAP-dependent cell division control.
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FOOTNOTES |
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* This work was supported by National Institutes of Health Grants GM55316 and GM59167 (to H. G. D.), HL54131 and CA78810 (to D. C. A.), CA16359 (to the Yale Cancer Center Flow Cytometry Shared Resource), and T32-NS07136 (to P. L. F.).The costs of publication of this article were defrayed in part by the payment of page charges. The article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.
§ These authors contributed equally to this work.
To whom correspondence should be addressed: Dept. of
Pathology, Boyer Center for Molecular Medicine, Yale University School of Medicine, 295 Congress Ave., New Haven, CT 06536-0812. Tel.: 203-737-2869; Fax: 203-737-2402; E-mail: dario.altieri@yale.edu.
** An Established Investigator of the American Heart Association.
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ABBREVIATIONS |
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The abbreviations used are: IAP, inhibitor of apoptosis; BIR, baculovirus IAP repeat; YPD, PCR, polymerase chain reaction; FACS, fluorescence-activated cell sorting; DIC, differential interference contrast.
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