Download Table S1 Genes with similar expression patterns in Qing2

Table S1 Genes with similar expression patterns in Qing2 and 5-2 strains in the process of autolysis (fold ≤ 0.2 or fold≥ 5)
Down-regulated genes (97)
Gene Symbol
Ratio
Gene Title
MGA1
0.05
Protein similar to heat shock transcription factor; multicopy suppressor of pseudohyphal growth defects of ammonium permease mutants
OPT2
0.05
Oligopeptide transporter; member of the OPT family, with potential orthologs in S. pombe and C. albicans; also plays a role in formation
of mature vacuoles
FIT2
0.06
Mannoprotein that is incorporated into the cell wall via a glycosylphosphatidylinositol (GPI) anchor, involved in the retention of
siderophore-iron in the cell wall
MSF1
0.06
Mitochondrial phenylalanyl-tRNA synthetase, active as a monomer, unlike the cytoplasmic subunit which is active as a dimer
complexed to a beta subunit dimer; similar to the alpha subunit of E. coli phenylalanyl-tRNA synthetase
SLS1
0.06
Mitochondrial membrane protein that coordinates expression of mitochondrially-encoded genes; may facilitate delivery of mRNA to
membrane-bound translation machinery
NKP2
0.07
Non-essential
kinetochore
protein,
subunit
of
the
Ctf19
central
(Ctf19p-Mcm21p-Okp1p-Mcm22p-Mcm16p-Ctf3p-Chl4p-Mcm19p-Nkp1p-Nkp2p-Ame1p-Mtw1p)
OPI10
0.07
Protein with a possible role in phospholipid biosynthesis, based on inositol-excreting phenotype of the null mutant and its suppression by
exogenous choline
ACF2
0.08
Intracellular beta-1,3-endoglucanase, expression is induced during sporulation; may have a role in cortical actin cytoskeleton assembly
EST3
0.08
Component of the telomerase holoenzyme, involved in telomere replication
RSB1
0.08
Suppressor of sphingoid long chain base (LCB) sensitivity of an LCB-lyase mutation; putative integral membrane transporter or flippase
that may transport LCBs from the cytoplasmic side toward the extracytoplasmic side of the membrane
VPS73
0.08
Mitochondrial protein; mutation affects vacuolar protein sorting; putative transporter; member of the sugar porter family
SUR7
0.09
Plasma membrane protein that localizes to furrow-like invaginations (MCC patches); component of eisosomes; associated with
endocytosis, along with Pil1p and Lsp1p; sporulation and plasma membrane sphingolipid content are altered in mutants
YPS6
0.09
Putative GPI-anchored aspartic protease, member of the yapsin family of proteases involved in cell wall growth and maintenance
EHD3
0.10
3-hydroxyisobutyryl-CoA hydrolase, member of a family of enoyl-CoA hydratase/isomerases; non-tagged protein is detected in highly
purified mitochondria in high-throughput studies; phosphorylated; mutation affects fluid-phase endocytosis
GPH1
0.10
Non-essential glycogen phosphorylase required for the mobilization of glycogen, activity is regulated by cyclic AMP-mediated
kinetochore
complex
phosphorylation, expression is regulated by stress-response elements and by the HOG MAP kinase pathway
PPA2
0.10
Mitochondrial inorganic pyrophosphatase, required for mitochondrial function and possibly involved in energy generation from
inorganic pyrophosphate
TDA10
0.10
ATP-binding protein of unknown function; crystal structure resembles that of E.coli pantothenate kinase and other small kinases; null
mutant is sensitive to expression of the top1-T722A allele
TOS6
0.10
Glycosylphosphatidylinositol-dependent cell wall protein, expression is periodic and decreases in respone to ergosterol perturbation or
upon entry into stationary phase; depletion increases resistance to lactic acid
YHB1
0.10
Nitric oxide oxidoreductase, flavohemoglobin involved in nitric oxide detoxification; plays a role in the oxidative and nitrosative stress
responses
ELO1
0.11
Elongase I, medium-chain acyl elongase, catalyzes carboxy-terminal elongation of unsaturated C12-C16 fatty acyl-CoAs to C16-C18
fatty acids
RRN5
0.11
Protein involved in transcription of rDNA by RNA polymerase I; transcription factor, member of UAF (upstream activation factor)
family along with Rrn9p and Rrn10p
SSA2
0.11
ATP binding protein involved in protein folding and vacuolar import of proteins; member of heat shock protein 70 (HSP70) family;
associated with the chaperonin-containing T-complex; present in the cytoplasm, vacuolar membrane and cell wall; 98% identical with
Ssa1p, but subtle differences between the two proteins provide functional specificity with respect to propagation of yeast [URE3] prions
and vacuolar-mediated degradations of gluconeogenesis enzymes
CIN5
0.12
Basic leucine zipper (bZIP) transcription factor of the yAP-1 family; physically interacts with the Tup1-Cyc8 complex and recruits
Tup1p to its targets; mediates pleiotropic drug resistance and salt tolerance; nuclearly localized under oxidative stress and sequestered in
the cytoplasm by Lot6p under reducing conditions
CKI1
0.12
Choline kinase, catalyzing the first step in phosphatidylcholine synthesis via the CDP-choline (Kennedy pathway); exhibits some
ethanolamine kinase activity contributing to phosphatidylethanolamine synthesis via the CDP-ethanolamine pathway
COQ10
0.12
Coenzyme Q (ubiquinone) binding protein, functions in the delivery of Q<sub>6</sub> to its proper location for electron transport
during respiration; START domain protein with homologs in bacteria and eukaryotes
COQ3
0.12
O-methyltransferase, catalyzes two different O-methylation steps in ubiquinone (Coenzyme Q) biosynthesis; component of a
mitochondrial ubiquinone-synthesizing complex; phosphoprotein
COX17
0.12
Copper metallochaperone that transfers copper to Sco1p and Cox11p for eventual delivery to cytochrome c oxidase; contains twin
cysteine-x9-cysteine motifs
FMP30
0.12
Mitochondrial inner membrane protein with a role in maintaining mitochondrial morphology and normal cardiolipin levels; proposed to
be involved in N-acylethanolamine metabolism; related to mammalian N-acylPE-specific phospholipase D
SVS1
0.12
Cell wall and vacuolar protein, required for wild-type resistance to vanadate
TSA2
0.12
Stress inducible cytoplasmic thioredoxin peroxidase; cooperates with Tsa1p in the removal of reactive oxygen, nitrogen and sulfur
species using thioredoxin as hydrogen donor; deletion enhances the mutator phenotype of tsa1 mutants
CLN2
0.13
G1 cyclin involved in regulation of the cell cycle; activates Cdc28p kinase to promote the G1 to S phase transition; late G1 specific
expression depends on transcription factor complexes, MBF (Swi6p-Mbp1p) and SBF (Swi6p-Swi4p)
CPR5
0.13
Peptidyl-prolyl cis-trans isomerase (cyclophilin) of the endoplasmic reticulum, catalyzes the cis-trans isomerization of peptide bonds
N-terminal to proline residues; transcriptionally induced in response to unfolded proteins in the ER
CRD1
0.13
Cardiolipin synthase; produces cardiolipin, which is a phospholipid of the mitochondrial inner membrane that is required for normal
mitochondrial membrane potential and function; also required for normal vacuolar ion homeostasis
EMI2
0.13
Non-essential protein of unknown function required for transcriptional induction of the early meiotic-specific transcription factor IME1;
required for sporulation; expression is regulated by glucose-repression transcription factors Mig1/2p
MRPS9
0.13
Mitochondrial ribosomal protein of the small subunit
MSW1
0.13
Mitochondrial tryptophanyl-tRNA synthetase
PNP1
0.13
Purine nucleoside phosphorylase, specifically metabolizes inosine and guanosine nucleosides; involved in the nicotinamide riboside
salvage pathway
UBC12
0.13
Enzyme that mediates the conjugation of Rub1p, a ubiquitin-like protein, to other proteins; related to E2 ubiquitin-conjugating enzymes
CBS2
0.14
Mitochondrial translational activator of the COB mRNA; interacts with translating ribosomes, acts on the COB mRNA 5'-untranslated
leader
GDB1
0.14
Glycogen debranching enzyme containing glucanotranferase and alpha-1,6-amyloglucosidase activities, required for glycogen
degradation; phosphorylated in mitochondria; activity is inhibited by Igd1p
HXT13
0.14
Hexose transporter, induced in the presence of non-fermentable carbon sources, induced by low levels of glucose, repressed by high
levels of glucose
ISC1
0.14
Mitochondrial membrane localized inositol phosphosphingolipid phospholipase C, hydrolyzes complex sphingolipids to produce
ceramide; activated by phosphatidylserine, cardiolipin, and phosphatidylglycerol; mediates Na+ and Li+ halotolerance
LAP2
0.14
Leucyl aminopeptidase yscIV (leukotriene A4 hydrolase) with epoxide hydrolase activity, metalloenzyme containing one zinc atom;
green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
MST28
0.14
Putative integral membrane protein, involved in vesicle formation; forms complex with Mst27p; member of DUP240 gene family; binds
COPI and COPII vesicles
SEC11
0.14
18kDa catalytic subunit of the Signal Peptidase Complex (SPC; Spc1p, Spc2p, Spc3p, and Sec11p) which cleaves the signal sequence of
proteins targeted to the endoplasmic reticulum
YIP5
0.14
Protein that interacts with Rab GTPases, localized to late Golgi vesicles; computational analysis of large-scale protein-protein interaction
data suggests a possible role in vesicle-mediated transport
AFG1
0.15
Conserved protein that may act as a chaperone in the degradation of misfolded or unassembled cytochrome c oxidase subunits; localized
to matrix face of the mitochondrial inner membrane; member of the AAA family but lacks a protease domain
AIM20
0.15
Putative protein of unknown function; overexpression causes a cell cycle delay or arrest; green fluorescent protein (GFP)-fusion protein
localizes to the vacuole; null mutant displays elevated frequency of mitochondrial genome loss
ARC40
0.15
Subunit of the ARP2/3 complex, which is required for the motility and integrity of cortical actin patches
DPP1
0.15
Diacylglycerol pyrophosphate (DGPP) phosphatase, zinc-regulated vacuolar membrane-associated lipid phosphatase, dephosphorylates
DGPP to phosphatidate (PA) and Pi, then PA to diacylglycerol; involved in lipid signaling and cell metabolism
HEM12
0.15
Uroporphyrinogen decarboxylase, catalyzes the fifth step in the heme biosynthetic pathway; localizes to both the cytoplasm and nucleus;
a hem12 mutant has phenotypes similar to patients with porphyria cutanea tarda
LAS17
0.15
Actin assembly factor, activates the Arp2/3 protein complex that nucleates branched actin filaments; localizes with the Arp2/3 complex
to actin patches; homolog of the human Wiskott-Aldrich syndrome protein (WASP)
MRP4
0.15
Mitochondrial ribosomal protein of the small subunit
MRPL1
0.15
Mitochondrial ribosomal protein of the large subunit
PUS2
0.15
Mitochondrial tRNA:pseudouridine synthase; acts at positions 27 and 28, but not at position 72; efficiently and rapidly targeted to
mitochondria, specifically dedicated to mitochondrial tRNA modification
RGI1
0.15
Protein of unknown function involved in energy metabolism under respiratory conditions; protein abundance is increased upon
intracellular iron depletion
RTC3
0.15
Protein of unknown function involved in RNA metabolism; has structural similarity to SBDS, the human protein mutated in
Shwachman-Diamond Syndrome (the yeast SBDS ortholog = SDO1); null mutation suppresses cdc13-1 temperature sensitivity
SYM1
0.15
Protein required for ethanol metabolism; induced by heat shock and localized to the inner mitochondrial membrane; homologous to
mammalian peroxisomal membrane protein Mpv17
UGP1
0.15
UDP-glucose pyrophosphorylase (UGPase), catalyses the reversible formation of UDP-Glc from glucose 1-phosphate and UTP,
involved in a wide variety of metabolic pathways, expression modulated by Pho85p through Pho4p
MVD1
0.16
Mevalonate pyrophosphate decarboxylase, essential enzyme involved in the biosynthesis of isoprenoids and sterols, including ergosterol;
acts as a homodimer
RAM2
0.16
Alpha subunit of both the farnesyltransferase and type I geranylgeranyltransferase that catalyze prenylation of proteins containing a
CAAX consensus motif; essential protein required for membrane localization of Ras proteins and a-factor
TPS3
0.16
Regulatory subunit of trehalose-6-phosphate synthase/phosphatase complex, which synthesizes the storage carbohydrate trehalose;
expression is induced by stress conditions and repressed by the Ras-cAMP pathway
ACS2
0.17
Acetyl-coA synthetase isoform which, along with Acs1p, is the nuclear source of acetyl-coA for histone acetylation; mutants affect
global transcription; required for growth on glucose; expressed under anaerobic conditions
AIM10
0.17
Protein with similarity to tRNA synthetases; non-tagged protein is detected in purified mitochondria; null mutant is viable and displays
elevated frequency of mitochondrial genome loss
ALT1
0.17
Alanine transaminase (glutamic pyruvic transaminase); involved in alanine biosynthetic and catabolic processes; the authentic,
non-tagged protein is detected in highly purified mitochondria in high-throughput studies
MAL33
0.17
MAL-activator protein, part of complex locus MAL3; nonfunctional in genomic reference strain S288C
MBA1
0.17
Membrane-associated mitochondrial ribosome receptor; forms a complex with Mdm38p that may facilitate recruitment of
mRNA-specific translational activators to ribosomes; possible role in protein export from the matrix to inner membrane
OSH6
0.17
Member of an oxysterol-binding protein family with overlapping, redundant functions in sterol metabolism and which collectively
perform a function essential for viability; GFP-fusion protein localizes to the cell periphery; overexpression extends lifespan by
promoting vacuole fusion
PET8
0.17
S-adenosylmethionine transporter of the mitochondrial inner membrane, member of the mitochondrial carrier family; required for biotin
biosynthesis and respiratory growth
RAX1
0.17
Protein involved in bud site selection during bipolar budding; localization requires Rax2p; has similarity to members of the
insulin-related peptide superfamily
SAM50
0.17
Essential component of the Sorting and Assembly Machinery (SAM or TOB complex) of the mitochondrial outer membrane, which
binds precursors of beta-barrel proteins and facilitates their outer membrane insertion; homologous to bacterial Omp85
BNA5
0.18
Kynureninase, required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
CPD1
0.18
Cyclic nucleotide phosphodiesterase, hydrolyzes ADP-ribose 1'', 2''-cyclic phosphate to ADP-ribose 1''-phosphate; may have a role in
tRNA splicing; no detectable phenotype is conferred by null mutation or by overexpression
ERG26
0.18
C-3 sterol dehydrogenase, catalyzes the second of three steps required to remove two C-4 methyl groups from an intermediate in
ergosterol biosynthesis
FRE7
0.18
Putative ferric reductase with similarity to Fre2p; expression induced by low copper levels
GND1
0.18
6-phosphogluconate dehydrogenase (decarboxylating), catalyzes an NADPH regenerating reaction in the pentose phosphate pathway;
required for growth on D-glucono-delta-lactone and adaptation to oxidative stress
GPM2
0.18
Homolog of Gpm1p phosphoglycerate mutase, which converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be
non-functional derivative of a gene duplication event
LDB18
0.18
Component of the dynactin complex, which is required for dynein activity; null mutant exhibits defects in nuclear migration and spindle
orientation and has reduced affinity for alcian blue dye; has homology to mammalian dynactin subunit p24
MAS2
0.18
Larger subunit of the mitochondrial processing protease (MPP), essential processing enzyme that cleaves the N-terminal targeting
sequences from mitochondrially imported proteins
PGM2
0.18
Phosphoglucomutase, catalyzes the conversion from glucose-1-phosphate to glucose-6-phosphate, which is a key step in hexose
metabolism; functions as the acceptor for a Glc-phosphotransferase
PRY2
0.18
Protein of unknown function
PYK2
0.18
Pyruvate kinase that appears to be modulated by phosphorylation; PYK2 transcription is repressed by glucose, and Pyk2p may be active
under low glycolytic flux
WSC2
0.18
Partially redundant sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway involved in maintenance of cell wall
integrity and recovery from heat shock; secretory pathway Wsc2p is required for the arrest of secretion response
YFH7
0.18
Putative kinase with similarity to the phosphoribulokinase/uridine kinase/bacterial pantothenate kinase (PRK/URK/PANK) subfamily of
P-loop kinases
AIM36
0.19
Protein of unknown function; null mutant displays reduced respiratory growth and elevated frequency of mitochondrial genome loss; the
authentic, non-tagged protein is detected in purified mitochondria in high-throughput studies
AIM39
0.19
Putative protein of unknown function; null mutant displays elevated frequency of mitochondrial genome loss
AVT1
0.19
Vacuolar transporter, imports large neutral amino acids into the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7)
related to vesicular GABA-glycine transporters
BNA6
0.19
Quinolinate phosphoribosyl transferase, required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression
regulated by Hst1p
DUG1
0.19
Cys-Gly metallo-di-peptidase; forms a complex with Dug2p and Dug3p to degrade glutathione (GSH) and other peptides containing a
gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p)
HEM15
0.19
Ferrochelatase, a mitochondrial inner membrane protein, catalyzes the insertion of ferrous iron into protoporphyrin IX, the eighth and
final step in the heme biosynthetic pathway
LIP2
0.19
Lipoyl ligase, involved in the modification of mitochondrial enzymes by the attachment of lipoic acid groups
MSD1
0.19
Mitochondrial aspartyl-tRNA synthetase, required for acylation of aspartyl-tRNA; yeast and bacterial aspartyl-, asparaginyl-, and
lysyl-tRNA synthetases contain regions with high sequence similarity, suggesting a common ancestral gene
SET6
0.19
SET domain protein of unknown function; deletion heterozygote is sensitive to compounds that target ergosterol biosynthesis, may be
involved in compound availability
TVP15
0.19
Integral membrane protein localized to late Golgi vesicles along with the v-SNARE Tlg2p
YPK2
0.19
Protein kinase with similarity to serine/threonine protein kinase Ypk1p; functionally redundant with YPK1 at the genetic level;
participates in a signaling pathway required for optimal cell wall integrity; homolog of mammalian kinase SGK
BUD9
0.20
Protein involved in bud-site selection; mutant has increased aneuploidy tolerance; diploid mutants display a unipolar budding pattern
instead of the wild-type bipolar pattern, and bud at the distal pole
RPN14
0.20
Proteasome-interacting protein involved in the assembly of the base subcomplex of the 19S proteasome regulatory particle (RP); null
mutants accumulate ubiquitinated Gcn4p and display decreased 26S proteasome stability; interacts with Rpt5p
Up-regulated genes (99)
Gene Symbol
Ratio
Gene Title
ARO10
69.93
Phenylpyruvate decarboxylase, catalyzes decarboxylation of phenylpyruvate to phenylacetaldehyde, which is the first specific step in the
Ehrlich pathway
DAL80
44.44
Negative regulator of genes in multiple nitrogen degradation pathways; expression is regulated by nitrogen levels and by Gln3p; member
of the GATA-binding family, forms homodimers and heterodimers with Deh1p
ICS2
26.11
Protein of unknown function; null mutation does not confer any obvious defects in spore germination, viability, or carbohydrate
utilization
PDR12
20.62
Plasma membrane ATP-binding cassette (ABC) transporter, weak-acid-inducible multidrug transporter required for weak organic acid
resistance; induced by sorbate and benzoate and regulated by War1p; mutants exhibit sorbate hypersensitivity
ASG1
17.30
Zinc cluster protein proposed to function as a transcriptional regulator involved in the stress response; null mutants have a respiratory
deficiency, calcofluor white sensitivity and slightly increased cycloheximide resistance
NEJ1
15.90
Protein involved in regulation of nonhomologous end joining; interacts with DNA ligase IV components Dnl4p and Lif1p; repressed by
MAT heterozygosity; regulates cellular distribution of Lif1p
UGA4
13.97
Permease that serves as a gamma-aminobutyrate (GABA) transport protein involved in the utilization of GABA as a nitrogen source;
catalyzes the transport of putrescine and delta-aminolevulinic acid (ALA); localized to the vacuolar membrane
TPO2
13.04
Polyamine transport protein specific for spermine; localizes to the plasma membrane; transcription of TPO2 is regulated by Haa1p;
member of the major facilitator superfamily
ADH2
12.92
Glucose-repressible alcohol dehydrogenase II, catalyzes the conversion of ethanol to acetaldehyde; involved in the production of certain
carboxylate esters; regulated by ADR1
TAF7
12.59
TFIID subunit (67 kDa), involved in RNA polymerase II transcription initiation
SSA3
12.25
ATPase involved in protein folding and the response to stress; plays a role in SRP-dependent cotranslational protein-membrane targeting
and translocation; member of the heat shock protein 70 (HSP70) family; localized to the cytoplasm
GIS4
12.06
CAAX box containing protein of unknown function, proposed to be involved in the RAS/cAMP signaling pathway
RGS2
11.95
Negative regulator of glucose-induced cAMP signaling; directly activates the GTPase activity of the heterotrimeric G protein alpha
subunit Gpa2p
ROG1
11.48
Protein with putative serine active lipase domain
PTP3
11.05
Phosphotyrosine-specific protein phosphatase involved in the inactivation of mitogen-activated protein kinase (MAPK) during
osmolarity sensing; dephosporylates Hog1p MAPK and regulates its localization; localized to the cytoplasm
RPI1
11.04
Putative transcriptional regulator; mediates fermentation stress tolerance by modulating cell wall integrity; overexpression suppresses the
heat shock sensitivity of wild-type RAS2 overexpression and also suppresses the cell lysis defect of an mpk1 mutation
SRL4
10.81
Protein of unknown function; involved in regulation of dNTP production; null mutant suppresses the lethality of lcd1 and rad53
mutations; expression is induced by Kar4p
CWC24
10.44
Spliceosome assembly factor, essential for the first step of splicing; component of the pre-catalytic spliceosome complex containing
Cef1p; has similarity to S. pombe Cwf24p
MND1
10.30
Protein required for recombination and meiotic nuclear division; forms a complex with Hop2p, which is involved in chromosome pairing
and repair of meiotic double-strand breaks
SPS100
9.95
Protein required for spore wall maturation; expressed during sporulation; may be a component of the spore wall; expression also induced
in cells treated with the mycotoxin patulin
CTK1
9.41
Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I); phosphorylates both RNA pol II subunit Rpo21p to affect
transcription and pre-mRNA 3' end processing, and ribosomal protein Rps2p to increase translational fidelity; similar to the Drosophila
dCDK12 and human CDK12 and probably CDK13
FIG1
9.40
Integral membrane protein required for efficient mating; may participate in or regulate the low affinity Ca2+ influx system, which affects
intracellular signaling and cell-cell fusion during mating
PUT3
9.34
Transcriptional activator of proline utilization genes, constitutively binds PUT1 and PUT2 promoter sequences as a dimer and undergoes
a conformational change to form the active state; differentially phosphorylated in the presence of different nitrogen sources; has a
Zn(2)-Cys(6) binuclear cluster domain
DAD3
9.20
Essential subunit of the Dam1 complex (aka DASH complex), couples kinetochores to the force produced by MT depolymerization
thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
TMA23
9.08
Nucleolar protein implicated in ribosome biogenesis; deletion extends chronological lifespan
HXT5
8.70
Hexose transporter with moderate affinity for glucose, induced in the presence of non-fermentable carbon sources, induced by a decrease
in growth rate, contains an extended N-terminal domain relative to other HXTs
PPH3
8.69
Catalytic subunit of protein phosphatase PP4 complex; active complex is composed of Pph3p and Psy2p, with Psy4p apparently
providing additional substrate specificity in some cases; regulates recovery from the DNA damage checkpoint and also the gene
conversion- and single-strand annealing-mediated pathways of meiotic double-strand break repair; involved in activation of Gln3p to
alleviate nitrogen catabolite repression; Pph3p and Psy2p localize to foci on meiotic chromosomes
SLM2
8.64
Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm1p; acts downstream of Mss4p in a pathway regulating actin
cytoskeleton organization in response to stress; phosphorylated by the TORC2 complex
TOP1
8.49
Topoisomerase I, nuclear enzyme that relieves torsional strain in DNA by cleaving and re-sealing the phosphodiester backbone; relaxes
both positively and negatively supercoiled DNA; functions in replication, transcription, and recombination
UFO1
8.34
F-box receptor protein, subunit of the Skp1-Cdc53-F-box receptor (SCF) E3 ubiquitin ligase complex; binds to phosphorylated Ho
endonuclease, allowing its ubiquitylation by SCF and subsequent degradation
CCL1
8.28
Cyclin associated with protein kinase Kin28p, which is the TFIIH-associated carboxy-terminal domain (CTD) kinase involved in
transcription initiation at RNA polymerase II promoters
DAT1
8.27
DNA binding protein that recognizes oligo(dA).oligo(dT) tracts; Arg side chain in its N-terminal pentad Gly-Arg-Lys-Pro-Gly repeat is
required for DNA-binding; not essential for viability
AVO1
8.25
Component of a membrane-bound complex containing the Tor2p kinase and other proteins, which may have a role in regulation of cell
growth
MET4
8.22
Leucine-zipper transcriptional activator, responsible for the regulation of the sulfur amino acid pathway, requires different combinations
of the auxiliary factors Cbf1p, Met28p, Met31p and Met32p
IBD2
8.00
Component of the BUB2-dependent spindle checkpoint pathway, interacts with Bfa1p and functions upstream of Bub2p and Bfa1p
SMD2
7.79
Core Sm protein Sm D2; part of heteroheptameric complex (with Smb1p, Smd1p, Smd3p, Sme1p, Smx3p, and Smx2p) that is part of the
spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm D2
CDC26
7.56
Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C), which is a ubiquitin-protein ligase required for degradation of
anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
NRG1
7.47
Transcriptional repressor that recruits the Cyc8p-Tup1p complex to promoters; mediates glucose repression and negatively regulates a
variety of processes including filamentous growth and alkaline pH response
KEL1
7.46
Protein required for proper cell fusion and cell morphology; functions in a complex with Kel2p to negatively regulate mitotic exit,
interacts with Tem1p and Lte1p; localizes to regions of polarized growth; potential Cdc28p substrate
FRK1
7.42
Protein kinase of unknown cellular role; similar to Kin4p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm;
interacts with rRNA transcription and ribosome biogenesis factors and the long chain fatty acyl-CoA synthetase Faa3
FKH2
7.22
Forkhead family transcription factor with a major role in the expression of G2/M phase genes; positively regulates transcriptional
elongation; negative role in chromatin silencing at HML and HMR; substrate of the Cdc28p/Clb5p kinase
ARG3
7.12
Ornithine carbamoyltransferase (carbamoylphosphate:L-ornithine carbamoyltransferase), catalyzes the sixth step in the biosynthesis of
the arginine precursor ornithine
RAD2
7.12
Single-stranded DNA endonuclease, cleaves single-stranded DNA during nucleotide excision repair to excise damaged DNA; subunit of
Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPG protein
NTO1
7.07
Subunit of the NuA3 histone acetyltransferase complex that acetylates histone H3; contains PHD finger domain that interacts with
methylated histone H3
GRX6
6.99
Cis-golgi localized monothiol glutaredoxin that binds an iron-sulfur cluster; more similar in activity to dithiol than other monothiol
glutaredoxins; involved in the oxidative stress response; functional overlap with GRX7
GIP1
6.95
Meiosis-specific regulatory subunit of the Glc7p protein phosphatase, regulates spore wall formation and septin organization, required
for expression of some late meiotic genes and for normal localization of Glc7p
ARO80
6.93
Zinc finger transcriptional activator of the Zn2Cys6 family; activates transcription of aromatic amino acid catabolic genes in the
presence of aromatic amino acids
BCK2
6.78
Protein rich in serine and threonine residues involved in protein kinase C signaling pathway, which controls cell integrity;
overproduction suppresses pkc1 mutations
CRF1
6.76
Transcriptional corepressor involved in repression of ribosomal protein (RP) gene transcription via the TOR signaling pathway which
promotes accumulation of Crf1p in the nucleus; role in repression of RP genes varies by strain
RAD16
6.74
Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit
of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
AAT1
6.72
Mitochondrial aspartate aminotransferase, catalyzes the conversion of oxaloacetate to aspartate in aspartate and asparagine biosynthesis
SHH3
6.68
Putative mitochondrial inner membrane protein of unknown function; although similar to Sdh3p, Shh3p is not a stoichiometric subunit of
either succinate dehydrogenase or of the TIM22 translocase
SLK19
6.68
Kinetochore-associated protein required for normal segregation of chromosomes in meiosis and mitosis; component of the FEAR
regulatory network, which promotes Cdc14p release from the nucleolus during anaphase; potential Cdc28p substrate
ASE1
6.54
Mitotic spindle midzone localized microtubule-associated protein (MAP) family member; required for spindle elongation and
stabilization; undergoes cell cycle-regulated degradation by anaphase promoting complex; potential Cdc28p substrate
RSC2
6.54
Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; involved in
telomere maintenance
RIB1
6.52
GTP cyclohydrolase II; catalyzes the first step of the riboflavin biosynthesis pathway
BUD27
6.41
Unconventional prefoldin protein involved in translation initiation; mutants have inappropriate expression of nutrient sensitive genes due
to translational derepression of Gcn4p transcription factor; diploid mutants show random budding
PHM8
6.25
Lysophosphatidic acid (LPA) phosphatase involved in LPA hydrolysis in response to phosphate starvation; phosphatase activity is
soluble and Mg2+ dependent; expression is induced by low phosphate levels and by inactivation of Pho85p
CIN8
6.17
Kinesin motor protein involved in mitotic spindle assembly and chromosome segregation
ISW2
6.16
ATP-dependent DNA translocase involved in chromatin remodeling; ATPase component that, with Itc1p, forms a complex required for
repression of a-specific genes, INO1, and early meiotic genes during mitotic growth
LAS1
6.13
Protein required for pre-rRNA processing at both ends of ITS2; may coordinate the action of the Rat1p-Rai1p exoRNAse; required for
the G1/S transition of the cell cycle; human ortholog is Las1L; mutants require the SSD1-v allele for viability
KEX1
6.06
Protease involved in the processing of killer toxin and alpha factor precursor; cleaves Lys and Arg residues from the C-terminus of
peptides and proteins
CCH1
6.03
Voltage-gated high-affinity calcium channel involved in calcium influx in response to some environmental stresses as well as exposure
to mating pheromones; interacts and co-localizes with Mid1p, suggesting Cch1p and Mid1p function together
MEH1
5.95
Component of the EGO complex, which is involved in the regulation of microautophagy, and of the GSE complex, which is required for
proper sorting of amino acid permease Gap1p; loss results in a defect in vacuolar acidification
DFG5
5.81
Putative mannosidase, essential glycosylphosphatidylinositol (GPI)-anchored membrane protein required for cell wall biogenesis in bud
formation, involved in filamentous growth, homologous to Dcw1p
STE12
5.79
Transcription factor that is activated by a MAP kinase signaling cascade, activates genes involved in mating or pseudohyphal/invasive
growth pathways; cooperates with Tec1p transcription factor to regulate genes specific for invasive growth
ITC1
5.78
Subunit of the ATP-dependent Isw2p-Itc1p chromatin remodeling complex, required for repression of a-specific genes, repression of
early meiotic genes during mitotic growth, and repression of INO1; similar to mammalian Acf1p, the regulatory subunit of the
mammalian ATP-utilizing chromatin assembly and modifying factor (ACF) complex
BIR1
5.74
Subunit of chromosomal passenger complex (CPC; Ipl1p-Sli15p-Bir1p-Nbl1p), which regulates chromosome segregation; required for
chromosome bi-orientation and for spindle assembly checkpoint activation upon reduced sister kinetochore tension
RSM22
5.70
Mitochondrial ribosomal protein of the small subunit; also predicted to be an S-adenosylmethionine-dependent methyltransferase
FKH1
5.69
Forkhead family transcription factor with a minor role in the expression of G2/M phase genes; negatively regulates transcriptional
elongation; positive role in chromatin silencing at HML and HMR; regulates donor preference during switching
THP2
5.61
Subunit of the THO complex, which connects transcription elongation and mitotic recombination, and of the TREX complex, which is
recruited to activated genes and couples transcription to mRNA export; involved in telomere maintenance
RBA50
5.59
Protein involved in transcription; interacts with RNA polymerase II subunits Rpb2p, Rpb3, and Rpb11p; has similarity to human RPAP1
RAD9
5.57
DNA damage-dependent checkpoint protein, required for cell-cycle arrest in G1/S, intra-S, and G2/M; transmits checkpoint signal by
activating Rad53p and Chk1p; hyperphosphorylated by Mec1p and Tel1p; potential Cdc28p substrate
NOT3
5.56
Subunit of the CCR4-NOT complex, which is a global transcriptional regulator with roles in transcription initiation and elongation and
in mRNA degradation
YCG1
5.56
Subunit of the condensin complex; required for establishment and maintenance of chromosome condensation, chromosome segregation
and chromatin binding of the condensin complex; required for clustering of tRNA genes at the nucleolus
RPC31
5.55
RNA polymerase III subunit C31
CUS1
5.52
Protein required for assembly of U2 snRNP into the spliceosome, forms a complex with Hsh49p and Hsh155p
ARO9
5.50
Aromatic aminotransferase II, catalyzes the first step of tryptophan, phenylalanine, and tyrosine catabolism
SAP1
5.49
Putative ATPase of the AAA family, interacts with the Sin1p transcriptional repressor in the two-hybrid system
SLF1
5.46
RNA binding protein that associates with polysomes; proposed to be involved in regulating mRNA translation; involved in the
copper-dependent mineralization of copper sulfide complexes on cell surface in cells cultured in copper salts
ARK1
5.42
Serine/threonine protein kinase involved in regulation of the cortical actin cytoskeleton; involved in control of endocytosis
STL1
5.40
Glycerol proton symporter of the plasma membrane, subject to glucose-induced inactivation, strongly but transiently induced when cells
are subjected to osmotic shock
TOD6
5.38
PAC motif binding protein involved in rRNA and ribosome biogenesis; subunit of the RPD3L histone deacetylase complex; Myb-like
HTH transcription factor, similar to Dot6p; hypophosphorylated by rapamycin treatment in a Sch9p-dependent manne
RLM1
5.33
MADS-box transcription factor, component of the protein kinase C-mediated MAP kinase pathway involved in the maintenance of cell
integrity; phosphorylated and activated by the MAP-kinase Slt2p
RPC37
5.31
RNA polymerase III subunit C37
NSI1
5.30
Protein required for rDNA silencing at NTS1; plays a role in association of Sir2p with NTS1 and in cell longevity; interacts physically
with Fob1p, Sir2p, and Net1p; may interact with ribosomes, based on co-purification experiments; Myb-like DNA-binding protein that
may bind to the Ter region of rDNA
TOF2
5.23
Protein required for rDNA silencing and mitotic rDNA condensation; stimulates Cdc14p phosphatase activity and biphasic release to
promote rDNA repeat segregation; required for condensin recruitment to the replication fork barrier site
ASK1
5.22
Essential subunit of the Dam1 complex (aka DASH complex), couples kinetochores to the force produced by MT depolymerization
thereby aiding in chromosome segregation; phosphorylated during the cell cycle by cyclin-dependent kinases
BOI2
5.22
Protein implicated in polar growth, functionally redundant with Boi1p; interacts with bud-emergence protein Bem1p; contains an SH3
(src homology 3) domain and a PH (pleckstrin homology) domain
STR3
5.22
Peroxisomal cystathionine beta-lyase, converts cystathionine into homocysteine; may be redox regulated by Gto1p
SKS1
5.20
Putative serine/threonine protein kinase; involved in the adaptation to low concentrations of glucose independent of the SNF3 regulated
pathway
IMP4
5.19
Component of the SSU processome, which is required for pre-18S rRNA processing, essential protein that interacts with Mpp10p and
mediates interactions of Imp4p and Mpp10p with U3 snoRNA
GPR1
5.18
Plasma membrane G protein coupled receptor (GPCR) that interacts with the heterotrimeric G protein alpha subunit, Gpa2p, and with
Plc1p; sensor that integrates nutritional signals with the modulation of cell fate via PKA and cAMP synthesis
KNH1
5.16
Protein with similarity to Kre9p, which is involved in cell wall beta 1,6-glucan synthesis; overproduction suppresses growth defects of a
kre9 null mutant; required for propionic acid resistance
DAL81
5.15
Positive regulator of genes in multiple nitrogen degradation pathways; contains DNA binding domain but does not appear to bind the
dodecanucleotide sequence present in the promoter region of many genes involved in allantoin catabolism
MTR4
5.11
ATP-dependent 3'-5' RNA helicase of the DExD/H family; involved in nuclear RNA processing and degradation both as a component of
the TRAMP complex and in TRAMP independent processes; has a KOW domain that shows RNA binding activity
RSA3
5.09
Protein with a likely role in ribosomal maturation, required for accumulation of wild-type levels of large (60S) ribosomal subunits; binds
to the helicase Dbp6p in pre-60S ribosomal particles in the nucleolus
TAF1
5.09
TFIID subunit (145 kDa), involved in RNA polymerase II transcription initiation; possesses in vitro histone acetyltransferase activity but
its role in vivo appears to be minor; involved in promoter binding and G1/S progression
EKI1
5.02
Ethanolamine kinase, primarily responsible for phosphatidylethanolamine synthesis via the CDP-ethanolamine pathway; exhibits some
choline kinase activity, thus contributing to phosphatidylcholine synthesis via the CDP-choline pathway
Table S2 Genes with opposite expression patterns in Qing2 and 5-2 strains in the process of autolysis (fold ≥ 5 or fold≤ 0.2)
Genes which increased expression in 5-2 while decreased expression in Qing2
Gene Symbol
Ratio1
(5-2)
Ratio2
(Qing2)
Ratio
Gene Title
DBP2
28.25
0.02
1442.14
Essential ATP-dependent RNA helicase of the DEAD-box protein family, involved in nonsense-mediated
mRNA decay and rRNA processing
UTP13
29.15
0.02
1366.71
Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is
involved in processing of pre-18S rRNA
DHR2
21.01
0.02
1328.85
Predominantly nucleolar DEAH-box ATP-dependent RNA helicase, required for 18S rRNA synthesis
RPA49
14.93
0.01
1239.84
RNA polymerase I subunit A49
RRB1
26.46
0.03
869.15
Essential nuclear protein involved in early steps of ribosome biogenesis; physically interacts with the ribosomal
protein Rpl3p
RMT2
15.50
0.02
744.20
Arginine N5 methyltransferase; methylates ribosomal protein Rpl12 (L12) on Arg67
PRP43
24.45
0.03
701.97
RNA helicase in the DEAH-box family, functions in both RNA polymerase I and polymerase II transcript
metabolism, involved in release of the lariat-intron from the spliceosome
NAN1
30.30
0.04
683.90
U3 snoRNP protein, component of the small (ribosomal) subunit (SSU) processosome containing U3 snoRNA;
required for the biogenesis of18S rRNA
SEC63
10.16
0.02
603.26
Essential subunit of Sec63 complex (Sec63p, Sec62p, Sec66p and Sec72p); with Sec61 complex, Kar2p/BiP
and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein
targeting and import into the ER
URA7
12.56
0.02
595.76
Major CTP synthase isozyme (see also URA8), catalyzes the ATP-dependent transfer of the amide nitrogen
from glutamine to UTP, forming CTP, the final step in de novo biosynthesis of pyrimidines; involved in
phospholipid biosynthesis
TRM11
20.79
0.04
579.98
Catalytic subunit of an adoMet-dependent tRNA methyltransferase complex (Trm11p-Trm112p), required for
the methylation of the guanosine nucleotide at position 10 (m2G10) in tRNAs; contains a THUMP domain and
a methyltransferase domain
SPO19
33.56
0.06
574.66
Meiosis-specific prospore protein; required to produce bending force necessary for proper assembly of the
prospore membrane during sporulation; identified as a weak high-copy suppressor of the spo1-1 ts mutation
RPA43
16.67
0.03
572.88
RNA polymerase I subunit A43
DRS1
15.53
0.03
556.69
Nucleolar DEAD-box protein required for ribosome assembly and function, including synthesis of 60S
ribosomal subunits; constituent of 66S pre-ribosomal particles
AAH1
23.81
0.04
541.05
Adenine deaminase (adenine aminohydrolase), converts adenine to hypoxanthine; involved in purine salvage;
transcriptionally regulated by nutrient levels and growth phase; Aah1p degraded upon entry into quiescence via
SCF and the proteasome
SSF1
56.18
0.10
539.15
Constituent of 66S pre-ribosomal particles, required for ribosomal large subunit maturation; functionally
redundant with Ssf2p; member of the Brix family
UTP15
19.16
0.04
535.67
Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is
involved in processing of pre-18S rRNA
ATC1
35.09
0.07
532.14
Nuclear protein, possibly involved in regulation of cation stress responses and/or in the establishment of bipolar
budding pattern
KRE33
15.38
0.03
515.00
Essential protein, required for biogenesis of the small ribosomal subunit; heterozygous mutant shows
haploinsufficiency in K1 killer toxin resistance
RPA12
24.45
0.05
489.02
RNA polymerase I subunit A12.2; contains two zinc binding domains, and the N terminal domain is responsible
for anchoring to the RNA pol I complex
UTP8
27.32
0.06
479.01
Nucleolar protein required for export of tRNAs from the nucleus; also copurifies with the small subunit (SSU)
processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
PPT1
12.97
0.04
360.42
Protein serine/threonine phosphatase, regulates Hsp90 chaperone by affecting its ATPase and cochaperone
binding activities; has similarity to human phosphatase PP5; present in both the nucleus and cytoplasm;
expressed during logarithmic growth
IPI3
22.22
0.07
339.31
Essential component of the Rix1 complex (Rix1p, Ipi1p, Ipi3p) that is required for processing of ITS2
sequences from 35S pre-rRNA; highly conserved and contains WD40 motifs; Rix1 complex associates with
Mdn1p in pre-60S ribosomal particles
EMG1
11.39
0.03
331.38
Member of the alpha/beta knot fold methyltransferase superfamily; required for maturation of 18S rRNA and
for 40S ribosome production; interacts with RNA and with S-adenosylmethionine; associates with
spindle/microtubules; forms homodimers
UTP4
26.88
0.08
329.60
Subunit of U3-containing 90S preribosome and Small Subunit (SSU) processome complexes involved in
production of 18S rRNA and assembly of small ribosomal subunit; member of t-Utp subcomplex involved with
transcription of 35S rRNA transcript
HOR2
35.46
0.11
329.13
One of two redundant DL-glycerol-3-phosphatases (RHR2/GPP1 encodes the other) involved in glycerol
biosynthesis; induced in response to hyperosmotic stress and oxidative stress, and during the diauxic transition
RRP3
10.03
0.03
323.47
Protein involved in rRNA processing; required for maturation of the 35S primary transcript of pre-rRNA and
for cleavage leading to mature 18S rRNA; homologous to eIF-4a, which is a DEAD box RNA-dependent
ATPase with helicase activity
DIP2
19.76
0.07
294.60
Nucleolar protein, specifically associated with the U3 snoRNA, part of the large ribonucleoprotein complex
known as the small subunit (SSU) processome, required for 18S rRNA biogenesis, part of the active pre-rRNA
processing complex
NSR1
16.29
0.06
290.96
Nucleolar protein that binds nuclear localization sequences, required for pre-rRNA processing and ribosome
biogenesis
NOP56
8.80
0.03
287.39
Essential evolutionarily-conserved nucleolar protein component of the box C/D snoRNP complexes that direct
2'-O-methylation of pre-rRNA during its maturation; overexpression causes spindle orientation defects
NOC4
7.96
0.03
285.61
Nucleolar protein, forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal
subunits
NOP13
20.12
0.07
274.94
Nucleolar protein found in preribosomal complexes; contains an RNA recognition motif (RRM)
CYB5
5.22
0.02
272.34
Cytochrome b5, involved in the sterol and lipid biosynthesis pathways; acts as an electron donor to support
sterol C5-6 desaturation
FRS1
6.78
0.03
270.04
Beta subunit of cytoplasmic phenylalanyl-tRNA synthetase, forms a tetramer with Frs2p to generate active
enzyme; able to hydrolyze mis-aminoacylated tRNA-Phe, which could contribute to translational quality
control
RPC19
20.58
0.08
269.29
RNA polymerase subunit AC19, common to RNA polymerases I and III
RSA4
19.46
0.07
268.21
WD-repeat protein involved in ribosome biogenesis; may interact with ribosomes; required for maturation and
efficient intra-nuclear transport or pre-60S ribosomal subunits, localizes to the nucleolus
UTP6
17.86
0.07
259.69
Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is
involved in processing of pre-18S rRNA
PWP1
12.76
0.05
252.86
Protein with WD-40 repeats involved in rRNA processing; associates with trans-acting ribosome biogenesis
factors; similar to beta-transducin superfamily
HXK2
6.54
0.03
226.42
Hexokinase isoenzyme 2 that catalyzes phosphorylation of glucose in the cytosol; predominant hexokinase
during growth on glucose; functions in the nucleus to repress expression of HXK1 and GLK1 and to induce
expression of its own gene
RRP1
21.88
0.10
211.03
Essential evolutionarily conserved nucleolar protein necessary for biogenesis of 60S ribosomal subunits and
processing of pre-rRNAs to mature rRNAs, associated with several distinct 66S pre-ribosomal particles
UTP21
10.08
0.05
208.81
Subunit of U3-containing 90S preribosome and Small Subunit (SSU) processome complexes involved in
production of 18S rRNA and assembly of small ribosomal subunit; synthetic defect with STI1 Hsp90
cochaperone; human homolog linked to glaucoma
ARX1
21.41
0.10
208.73
Shuttling pre-60S factor; involved in the biogenesis of ribosomal large subunit biogenesis; interacts directly
with Alb1; responsible for Tif6 recycling defects in absence of Rei1; associated with the ribosomal export
complex
MAK11
10.99
0.05
205.67
Protein involved in an early, nucleolar step of 60S ribosomal subunit biogenesis; essential for cell growth and
replication of killer M1 dsRNA virus; contains four beta-transducin repeats
CMS1
5.19
0.03
204.75
Putative subunit of the 90S preribosome processome complex; overexpression rescues supressor mutant of
mcm10; null mutant is viable
RIX1
12.72
0.06
203.63
Essential component of the Rix1 complex (Rix1p, Ipi1p, Ipi3p) that is required for processing of ITS2
sequences from 35S pre-rRNA; Rix1 complex associates with Mdn1p in pre-60S ribosomal particles
GUA1
11.83
0.06
203.20
GMP synthase; highly conserved enzyme that catalyzes the second step in the biosynthesis of GMP from
inosine 5'-phosphate (IMP); transcription is not subject to regulation by guanine but is negatively regulated by
nutrient starvation; reduction-of-function mutation gua1-G388D causes changes in cellular guanine nucleotide
pools, defects in general protein synthesis, and impaired translation of GCN4 mRNA
IMD4
10.45
0.05
199.75
Inosine monophosphate dehydrogenase, catalyzes the first step of GMP biosynthesis, member of a four-gene
family in S. cerevisiae, constitutively expressed
RFU1
14.27
0.07
194.55
Protein that inhibits Doa4p deubiquitinating activity; contributes to ubiquitin homeostasis by regulating the
conversion of free ubiquitin chains to ubiquitin monomers by Doa4p; GFP-fusion protein localizes to
endosomes
NOC3
10.59
0.06
191.26
Protein that forms a nuclear complex with Noc2p that binds to 66S ribosomal precursors to mediate their
intranuclear transport; also binds to chromatin to promote the association of DNA replication factors and
replication initiation
RPA135
11.01
0.06
189.44
RNA polymerase I second largest subunit A135
BFR2
29.94
0.16
185.86
Essential protein that is a component of 90S preribosomes; may be involved in rRNA processing; multicopy
suppressor of sensitivity to Brefeldin A; expression is induced during lag phase and also by cold shock
RPL22B
9.18
0.05
185.10
Protein component of the large (60S) ribosomal subunit, has similarity to Rpl22Ap and to rat L22 ribosomal
protein
PRM7
21.98
0.12
184.44
Pheromone-regulated protein, predicted to have one transmembrane segment; promoter contains Gcn4p binding
elements
YVH1
13.33
0.07
180.74
Protein phosphatase involved in vegetative growth at low temperatures, sporulation, and glycogen
accumulation; mutants are defective in 60S ribosome assembly; member of the dual-specificity family of
protein phosphatases
SRO9
16.50
0.09
180.69
Cytoplasmic RNA-binding protein that associates with translating ribosomes; involved in heme regulation of
Hap1p as a component of the HMC complex, also involved in the organization of actin filaments; contains a La
motif
POR2
5.70
0.03
177.12
Putative mitochondrial porin (voltage-dependent anion channel), related to Por1p but not required for
mitochondrial membrane permeability or mitochondrial osmotic stability
NSA2
20.28
0.12
173.15
Protein constituent of 66S pre-ribosomal particles, contributes to processing of the 27S pre-rRNA
RIX7
18.80
0.11
172.84
Putative ATPase of the AAA family, required for export of pre-ribosomal large subunits from the nucleus;
distributed between the nucleolus, nucleoplasm, and nuclear periphery depending on growth conditions
NOP1
8.92
0.05
170.24
Nucleolar protein, component of the small subunit processome complex, which is required for processing of
pre-18S rRNA; has similarity to mammalian fibrillarin
PLP2
9.70
0.06
159.63
Essential protein that interacts with the CCT (chaperonin containing TCP-1) complex to stimulate actin folding;
has similarity to phosducins; null mutant lethality is complemented by mouse phosducin-like protein MgcPhLP
PWP2
13.16
0.08
159.17
Conserved 90S pre-ribosomal component essential for proper endonucleolytic cleavage of the 35 S rRNA
precursor at A0, A1, and A2 sites; contains eight WD-repeats; PWP2 deletion leads to defects in cell cycle and
bud morphogenesis
URB1
9.76
0.06
155.12
Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2
pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit
ERB1
11.25
0.07
153.86
Constituent of 66S pre-ribosomal particles, forms a complex with Nop7p and Ytm1p that is required for
maturation of the large ribosomal subunit; required for maturation of the 25S and 5.8S ribosomal RNAs;
homologous to mammalian Bop1
URB2
10.41
0.07
150.18
Nucleolar protein required for normal metabolism of the rRNA primary transcript, proposed to be involved in
ribosome biogenesis
HOM3
6.63
0.04
149.54
Aspartate kinase (L-aspartate 4-P-transferase); cytoplasmic enzyme that catalyzes the first step in the common
pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of
amino acid synthesis
RPL13A
8.02
0.05
149.34
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl13Bp; not essential for viability;
has similarity to rat L13 ribosomal protein
MAK16
19.19
0.13
147.20
Essential nuclear protein, constituent of 66S pre-ribosomal particles; required for maturation of 25S and 5.8S
rRNAs; required for maintenance of M1 satellite double-stranded RNA of the L-A virus
PAC10
16.56
0.12
143.83
Part of the heteromeric co-chaperone GimC/prefoldin complex, which promotes efficient protein folding
THI80
7.67
0.05
143.45
Thiamine pyrophosphokinase, phosphorylates thiamine to produce the coenzyme thiamine pyrophosphate
(thiamine diphosphate)
LIA1
10.44
0.07
140.93
Deoxyhypusine hydroxylase, a HEAT-repeat containing metalloenzyme that catalyzes hypusine formation;
binds to and is required for the modification of Hyp2p (eIF5A); complements S. pombe mmd1 mutants
defective in mitochondrial positioning
GIM3
6.04
0.04
136.03
Subunit of the heterohexameric cochaperone prefoldin complex which binds specifically to cytosolic
chaperonin and transfers target proteins to it
DUS3
9.03
0.07
135.35
Dihydrouridine synthase, member of a widespread family of conserved proteins including Smm1p, Dus1p, and
Dus4p; contains a consensus oleate response element (ORE) in its promoter region
EMP70
6.42
0.05
133.70
Protein with a role in cellular adhesion, filamentous growth, and endosome-to-vacuole sorting; similar to
Tmn2p and Tmn3p; member of Transmembrane Nine family of proteins with 9 transmembrane segments
NIP7
11.74
0.09
132.56
Nucleolar protein required for 60S ribosome subunit biogenesis, constituent of 66S pre-ribosomal particles;
physically interacts with Nop8p and the exosome subunit Rrp43p
IMD3
8.88
0.07
131.29
Inosine monophosphate dehydrogenase, catalyzes the first step of GMP biosynthesis, member of a four-gene
family in S. cerevisiae, constitutively expressed
GAR1
7.53
0.06
127.34
Protein component of the H/ACA snoRNP pseudouridylase complex, involved in the modification and cleavage
of the 18S pre-rRNA
RPS22A
6.88
0.05
125.26
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps22Bp and has similarity to E.
coli S8 and rat S15a ribosomal proteins
HAT1
8.98
0.07
125.26
Catalytic subunit of the Hat1p-Hat2p histone acetyltransferase complex that uses the cofactor acetyl coenzyme
A, to acetylate free nuclear and cytoplasmic histone H4; involved in telomeric silencing and DNA
double-strand break repair
BRX1
10.86
0.09
123.54
Nucleolar protein, constituent of 66S pre-ribosomal particles; depletion leads to defects in rRNA processing and
a block in the assembly of large ribosomal subunits; possesses a sigma(70)-like RNA-binding motif
MIS1
6.57
0.05
123.32
Mitochondrial C1-tetrahydrofolate synthase, involved in interconversion between different oxidation states of
tetrahydrofolate (THF); provides activities of formyl-THF synthetase, methenyl-THF cyclohydrolase, and
methylene-THF dehydrogenase
RPL27B
6.17
0.05
122.58
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl27Ap and has similarity to rat
L27 ribosomal protein
WRS1
6.32
0.05
122.30
Cytoplasmic tryptophanyl-tRNA synthetase, aminoacylates tryptophanyl-tRNA
HAS1
11.60
0.10
121.83
ATP-dependent RNA helicase; localizes to both the nuclear periphery and nucleolus; highly enriched in nuclear
pore complex fractions; constituent of 66S pre-ribosomal particles
RPS26B
5.49
0.05
121.02
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps26Ap and has similarity to rat
S26 ribosomal protein
SAM1
11.30
0.09
120.24
S-adenosylmethionine synthetase, catalyzes transfer of the adenosyl group of ATP to the sulfur atom of
methionine; one of two differentially regulated isozymes (Sam1p and Sam2p)
PUS1
17.79
0.15
117.73
tRNA:pseudouridine synthase, introduces pseudouridines at positions 26-28, 34-36, 65, and 67 of tRNA;
nuclear protein that appears to be involved in tRNA export; also acts on U2 snRNA
RPL6B
8.64
0.07
116.25
Protein component of the large (60S) ribosomal subunit, has similarity to Rpl6Ap and to rat L6 ribosomal
protein; binds to 5.8S rRNA
NEW1
8.78
0.08
115.48
ATP binding cassette protein that cosediments with polysomes and is required for biogenesis of the small
ribosomal subunit; Asn/Gln-rich rich region supports [NU+] prion formation and susceptibility to [PSI+] prion
induction
RBG2
9.45
0.08
112.94
Protein with a role in translation; forms a complex with Gir2p; has similarity to mammalian developmentally
regulated GTP-binding protein
CDC14
11.78
0.11
112.16
Protein phosphatase required for mitotic exit; located in the nucleolus until liberated by the FEAR and Mitotic
Exit Network in anaphase, enabling it to act on key substrates to effect a decrease in CDK/B-cyclin activity and
mitotic exit; required for meiosis I spindle disassembly; released from nucleolus upon entry into anaphase I of
meiosis, resequestered in metaphase II, then released again upon entry into anaphase II; maintained in nucleolus
by Cdc55p in early meiosis
SDO1
12.80
0.12
110.34
Essential protein involved in ribosome maturation; with Ria1p, promotes release of Tif6p from 60S ribosomal
subunits in the cytoplasm so that they can assemble with 40S subunits to generate mature ribosomes; ortholog
of the human protein (SBDS) responsible for autosomal recessive Shwachman-Bodian-Diamond Syndrome;
highly conserved across archaea and eukaryotes
RRP12
20.00
0.18
109.64
Protein required for export of the ribosomal subunits; associates with the RNA components of the
pre-ribosomes; has a role in nuclear import in association with Pse1p; contains HEAT-repeats
RLI1
7.75
0.07
109.00
Essential iron-sulfur protein required for ribosome biogenesis and translation initiation and termination;
facilitates binding of a multifactor complex (MFC) of initiation factors to the small ribosomal subunit; predicted
ABC family ATPase
PUF6
9.87
0.09
108.83
Pumilio-homology domain protein that binds the 3' UTR of ASH1 mRNA and represses its translation,
resulting in proper asymmetric localization of ASH1 mRNA; also co-sediments with the 60S ribosomal subunit
and is required for its biogenesis
GSP1
7.76
0.07
108.74
Ran GTPase, GTP binding protein (mammalian Ranp homolog) involved in the maintenance of nuclear
organization, RNA processing and transport; regulated by Srm1p, Rna1p, Yrb1p, Yrb2p, Yrp4p, Yrb30p, Cse1p
and Kap95p; yeast Gsp2p homolog
SHB17
6.74
0.06
106.19
Sedoheptulose bisphosphatase involved in riboneogenesis; dephosphorylates sedoheptulose 1,7-bisphosphate,
which is converted via the nonoxidative pentose phosphate pathway to ribose-5-phosphate; facilitates the
conversion of glycolytic intermediates to pentose phosphate units; also has fructose 1,6-bisphosphatase activity
but this is probably not biologically relevant, since deletion does not affect FBP levels; GFP-fusion protein
localizes to the cytoplasm and nucleus
SLX9
11.70
0.11
102.79
Protein required for pre-rRNA processing; associated with the 90S pre-ribosome and 43S small ribosomal
subunit precursor; interacts with U3 snoRNA; deletion mutant has synthetic fitness defect with an sgs1 deletion
mutant
MES1
6.22
0.06
102.35
Methionyl-tRNA synthetase, forms a complex with glutamyl-tRNA synthetase (Gus1p) and Arc1p, which
increases the catalytic efficiency of both tRNA synthetases; also has a role in nuclear export of tRNAs
RPL22A
6.24
0.06
100.86
Protein component of the large (60S) ribosomal subunit, has similarity to Rpl22Bp and to rat L22 ribosomal
protein
NOP58
9.63
0.10
100.86
Protein involved in pre-rRNA processing, 18S rRNA synthesis, and snoRNA synthesis; component of the small
subunit processome complex, which is required for processing of pre-18S rRNA
MST27
6.84
0.07
100.64
Putative integral membrane protein, involved in vesicle formation; forms complex with Mst28p; member of
DUP240 gene family; binds COPI and COPII vesicles
RPL18A
7.72
0.08
99.54
Protein component of the large (60S) ribosomal subunit, identical to Rpl18Bp and has similarity to rat L18
ribosomal protein; intron of RPL18A pre-mRNA forms stem-loop structures that are a target for Rnt1p cleavage
leading to degradation
QRI1
5.24
0.05
97.42
UDP-N-acetylglucosamine pyrophosphorylase, catalyzes the formation of UDP-N-acetylglucosamine
(UDP-GlcNAc), which is important in cell wall biosynthesis, protein N-glycosylation, and GPI anchor
biosynthesis
RPL6A
7.08
0.07
96.25
N-terminally acetylated protein component of the large (60S) ribosomal subunit, has similarity to Rpl6Bp and
to rat L6 ribosomal protein; binds to 5.8S rRNA
KTI12
5.55
0.06
94.04
Protein that plays a role, with Elongator complex, in modification of wobble nucleosides in tRNA; involved in
sensitivity to G1 arrest induced by zymocin; interacts with chromatin throughout the genome; also interacts
with Cdc19p
RPL4B
8.24
0.09
92.88
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl4Ap and has similarity to E. coli
L4 and rat L4 ribosomal proteins
RFC5
6.27
0.07
91.88
Subunit of heteropentameric Replication factor C (RF-C), which is a DNA binding protein and ATPase that acts
as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases
delta and epsilon
SUA5
8.60
0.09
91.64
Single-stranded telomeric DNA-binding protein, required for normal telomere length; null mutant lacks
N6-threonylcarbamoyl adenosine (t6A) modification in the anticodon loop of ANN-decoding tRNA; member of
conserved YrdC/Sua5 family
HGH1
17.27
0.19
90.80
Nonessential protein of unknown function; predicted to be involved in ribosome biogenesis; green fluorescent
protein (GFP)-fusion protein localizes to the cytoplasm; similar to mammalian BRP16 (Brain protein 16)
CBF5
10.15
0.11
89.51
Pseudouridine synthase catalytic subunit of box H/ACA small nucleolar ribonucleoprotein particles (snoRNPs),
acts on both large and small rRNAs and on snRNA U2; mutations in human ortholog dyskerin cause the
disorder dyskeratosis congenita
RPL8A
5.41
0.06
88.75
Ribosomal protein L4 of the large (60S) ribosomal subunit, nearly identical to Rpl8Bp and has similarity to rat
L7a ribosomal protein; mutation results in decreased amounts of free 60S subunits
LCP5
11.44
0.13
87.45
Essential protein involved in maturation of 18S rRNA; depletion leads to inhibited pre-rRNA processing and
reduced polysome levels; localizes primarily to the nucleolus
RPS19A
8.28
0.10
86.54
Protein component of the small (40S) ribosomal subunit, required for assembly and maturation of pre-40 S
particles; mutations in human RPS19 are associated with Diamond Blackfan anemia; nearly identical to
Rps19Bp
TPA1
9.31
0.11
85.85
Poly(rA)-binding protein involved in translation termination efficiency, mRNA poly(A) tail length and mRNA
stability; interacts with Sup45p (eRF1), Sup35p (eRF3) and Pab1p; similar to prolyl 4-hydroxylases; binds
Fe(III) and 2-oxoglutarate
RPS23A
5.63
0.07
85.13
Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit, required for translational accuracy; nearly
identical to Rps23Bp and similar to E. coli S12 and rat S23 ribosomal proteins; deletion of both RPS23A and
RPS23B is lethal
VRG4
10.37
0.12
84.80
Golgi GDP-mannose transporter; regulates Golgi function and glycosylation in Golgi
MRD1
14.93
0.18
84.41
Essential conserved protein that is part of the 90S preribosome; required for production of 18S rRNA and small
ribosomal subunit; contains five consensus RNA-binding domains
RPS16A
5.55
0.07
83.80
Protein component of the small (40S) ribosomal subunit; identical to Rps16Bp and has similarity to E. coli S9
and rat S16 ribosomal proteins
FRS2
8.53
0.10
82.44
Alpha subunit of cytoplasmic phenylalanyl-tRNA synthetase, forms a tetramer with Frs1p to form active
enzyme; evolutionarily distant from mitochondrial phenylalanyl-tRNA synthetase based on protein sequence,
but substrate binding is similar
UTP30
6.95
0.08
81.93
Putative subunit of U3-containing 90S preribosome complex; complex is involved in production of 18S rRNA
and assembly of small ribosomal subunit
LEU9
5.28
0.06
81.91
Alpha-isopropylmalate synthase II (2-isopropylmalate synthase), catalyzes the first step in the leucine
biosynthesis pathway; the minor isozyme, responsible for the residual alpha-IPMS activity detected in a leu4
null mutant
NOP15
11.55
0.14
81.54
Constituent of 66S pre-ribosomal particles, involved in 60S ribosomal subunit biogenesis; localizes to both
nucleolus and cytoplasm
NOG1
12.24
0.15
81.04
Putative GTPase that associates with free 60S ribosomal subunits in the nucleolus and is required for 60S
ribosomal subunit biogenesis; constituent of 66S pre-ribosomal particles; member of the ODN family of
nucleolar G-proteins
OLA1
7.28
0.09
80.07
P-loop ATPase with similarity to human OLA1 and bacterial YchF; identified as specifically interacting with
the proteasome; protein levels are induced by hydrogen peroxide
RPS11A
7.79
0.10
78.40
Protein component of the small (40S) ribosomal subunit; identical to Rps11Bp and has similarity to E. coli S17
and rat S11 ribosomal proteins
GRC3
6.45
0.08
78.36
Polynucleotide kinase present on rDNA that is required for efficient transcription termination by RNA
polymerase I; required for cell growth; mRNA is cell-cycle regulated
GAS1
6.06
0.08
77.29
Beta-1,3-glucanosyltransferase, required for cell wall assembly and also has a role in transcriptional silencing;
localizes to the cell surface via a glycosylphosphatidylinositol (GPI) anchor; also found at the nuclear periphery
YTM1
9.68
0.13
77.24
Constituent of 66S pre-ribosomal particles, forms a complex with Nop7p and Erb1p that is required for
maturation of the large ribosomal subunit; has seven C-terminal WD repeats
URK1
11.93
0.16
76.53
Uridine/cytidine kinase, component of the pyrimidine ribonucleotide salvage pathway that converts uridine into
UMP and cytidine into CMP; involved in the pyrimidine deoxyribonucleotide salvage pathway, converting
deoxycytidine into dCMP
PHO88
9.87
0.13
75.62
Probable membrane protein, involved in phosphate transport; pho88 pho86 double null mutant exhibits
enhanced synthesis of repressible acid phosphatase at high inorganic phosphate concentrations
HMT1
12.20
0.17
72.72
Nuclear SAM-dependent mono- and asymmetric arginine dimethylating methyltransferase that modifies
hnRNPs, including Npl3p and Hrp1p, affecting their activity and nuclear export; methylates U1 snRNP protein
Snp1p and ribosomal protein Rps2p
NIP1
8.51
0.12
72.11
eIF3c subunit of the eukaryotic translation initiation factor 3 (eIF3), involved in the assembly of preinitiation
complex and start codon selection
FPR4
7.19
0.10
71.62
Peptidyl-prolyl cis-trans isomerase (PPIase) (proline isomerase) localized to the nucleus; catalyzes
isomerization of proline residues in histones H3 and H4, which affects lysine methylation of those histones
RPS9A
9.66
0.14
69.68
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps9Bp and has similarity to E. coli
S4 and rat S9 ribosomal proteins
URA6
5.69
0.08
68.87
Uridylate kinase, catalyzes the seventh enzymatic step in the de novo biosynthesis of pyrimidines, converting
uridine monophosphate (UMP) into uridine-5'-diphosphate (UDP)
RTT10
13.00
0.19
68.74
WD40 domain-containing protein involved in endosomal recycling; forms a complex with Rrt2p that functions
in the retromer-mediated pathway for recycling internalized cell-surface proteins; has a role in regulation of
Ty1 transposition; human ortholog is WDR6
VTS1
12.48
0.18
68.29
Post-transcriptional gene regulator, flap-structured DNA-binding and RNA-binding protein; shows genetic
interactions with Vti1p, a v-SNARE involved in cis-Golgi membrane traffic; stimulates Dna2p endonuclease
activity; contains a SAM domain
RRM3
7.24
0.11
67.73
DNA helicase involved in rDNA replication and Ty1 transposition; relieves replication fork pauses at telomeric
regions; structurally and functionally related to Pif1p
RPS18B
5.13
0.08
67.54
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps18Ap and has similarity to E.
coli S13 and rat S18 ribosomal proteins
INM1
12.02
0.18
67.36
Inositol monophosphatase, involved in biosynthesis of inositol and in phosphoinositide second messenger
signaling; INM1 expression increases in the presence of inositol and decreases upon exposure to antibipolar
drugs lithium and valproate
SCP160
6.56
0.10
67.05
Essential RNA-binding G protein effector of mating response pathway, mainly associated with nuclear
envelope and ER, interacts in mRNA-dependent manner with translating ribosomes via multiple KH domains,
similar to vertebrate vigilins
RPS1A
5.59
0.08
66.87
Ribosomal protein 10 (rp10) of the small (40S) subunit; nearly identical to Rps1Bp and has similarity to rat S3a
ribosomal protein
RPB5
9.45
0.14
66.17
RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III; contacts DNA and affects
transactivation
RPL34A
7.67
0.12
65.61
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl34Bp and has similarity to rat
L34 ribosomal protein
RPS16B
6.04
0.09
65.47
Protein component of the small (40S) ribosomal subunit; identical to Rps16Ap and has similarity to E. coli S9
and rat S16 ribosomal proteins
RPL43B
6.59
0.10
65.27
Protein component of the large (60S) ribosomal subunit, identical to Rpl43Ap and has similarity to rat L37a
ribosomal protein
RPL11A
5.41
0.09
63.50
Protein of the large 60S ribosomal subunit, nearly identical to Rpl11Bp but expressed at twice the level;
involved in ribosomal assembly; depletion causes degradation of 60S proteins and RNA; similar to E. coli L5
and rat L11
NNT1
7.13
0.11
63.35
S-adenosylmethionine-dependent methyltransferase; has a role in rDNA silencing and in lifespan determination
RPL21B
7.18
0.11
62.93
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl21Ap and has similarity to rat
L21 ribosomal protein
RPL37A
6.66
0.11
62.69
Protein component of the large (60S) ribosomal subunit, has similarity to Rpl37Bp and to rat L37 ribosomal
protein
RPS0B
7.03
0.11
62.11
Protein component of the small (40S) ribosomal subunit, nearly identical to Rps0Ap; required for maturation of
18S rRNA along with Rps0Ap; deletion of either RPS0 gene reduces growth rate, deletion of both genes is
lethal
HAM1
5.09
0.08
62.11
Nucleoside triphosphate pyrophosphohydrolase; active against a wide range of substrates including ITP, dITP
and XTP; mediates exclusion of noncanonical purines and pyrimadines from deoxyribonucleoside triphosphate
pools; mutant is sensitive to the base analog 6-N-hydroxylaminopurine
RPS0A
5.65
0.09
61.96
Protein component of the small (40S) ribosomal subunit, nearly identical to Rps0Bp; required for maturation of
18S rRNA along with Rps0Bp; deletion of either RPS0 gene reduces growth rate, deletion of both genes is
lethal
RPL17B
5.52
0.09
61.95
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl17Ap and has similarity to E.
coli L22 and rat L17 ribosomal proteins
HPM1
12.05
0.20
61.33
AdoMet-dependent methyltransferase involved in a novel 3-methylhistidine modification of ribosomal protein
Rpl3p; seven beta-strand MTase family member; null mutant exhibits a weak vacuolar protein sorting defect
and caspofungin resistance
MRT4
10.63
0.17
61.04
Protein involved in mRNA turnover and ribosome assembly, localizes to the nucleolus
RPC40
8.59
0.14
61.03
RNA polymerase subunit AC40, common to RNA polymerase I and III
RPS8B
6.35
0.10
60.63
Protein component of the small (40S) ribosomal subunit; identical to Rps8Ap and has similarity to rat S8
ribosomal protein
RLP24
9.12
0.15
58.95
Essential protein with similarity to Rpl24Ap and Rpl24Bp, associated with pre-60S ribosomal subunits and
required for ribosomal large subunit biogenesis
RPS29A
5.25
0.09
58.64
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps29Bp and has similarity to rat
S29 and E. coli S14 ribosomal proteins
SHE1
5.49
0.09
58.21
Mitotic spindle protein; interacts with components of the Dam1 (DASH) complex, its effector Sli15p, and
microtubule-associated protein Bim1p; also localizes to nuclear microtubules and to the bud neck in a
ring-shaped structure; inhibits dynein function
TRM9
7.18
0.12
58.10
tRNA methyltransferase, catalyzes esterification of modified uridine nucleotides in tRNA(Arg3) and
tRNA(Glu), likely as part of a complex with Trm112p; deletion confers resistance to zymocin
PRT1
6.00
0.10
57.86
eIF3b subunit of the core complex of translation initiation factor 3 (eIF3), essential for translation; part of a
subcomplex (Prt1p-Rpg1p-Nip1p) that stimulates binding of mRNA and tRNA(i)Met to ribosomes
RPS21B
6.67
0.12
57.84
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps21Ap and has similarity to rat
S21 ribosomal protein
KAP123
5.96
0.10
57.80
Karyopherin beta, mediates nuclear import of ribosomal proteins prior to assembly into ribosomes and import
of histones H3 and H4; localizes to the nuclear pore, nucleus, and cytoplasm; exhibits genetic interactions with
RAI1
HST4
9.46
0.16
57.56
Member of the Sir2 family of NAD(+)-dependent protein deacetylases; involved along with Hst3p in silencing
at telomeres, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid
metabolism
RPS5
5.94
0.10
57.28
Protein component of the small (40S) ribosomal subunit, the least basic of the non-acidic ribosomal proteins;
phosphorylated in vivo; essential for viability; has similarity to E. coli S7 and rat S5 ribosomal proteins
RKM3
7.31
0.13
57.22
Ribosomal lysine methyltransferase specific for monomethylation of Rpl42ap and Rpl42bp (lysine 40); nuclear
SET domain containing protein
OYE2
8.54
0.15
57.09
Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN), homologous to Oye3p with
different ligand binding and catalytic properties; may be involved in sterol metabolism, oxidative stress
response, and programmed cell death
RPS28B
11.12
0.20
56.77
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps28Ap and has similarity to rat
S28 ribosomal protein
RPL24A
5.43
0.10
56.36
Ribosomal protein L30 of the large (60S) ribosomal subunit, nearly identical to Rpl24Bp and has similarity to
rat L24 ribosomal protein; not essential for translation but may be required for normal translation rate
SSB1
5.77
0.10
55.72
Cytoplasmic ATPase that is a ribosome-associated molecular chaperone, functions with J-protein partner
Zuo1p; may be involved in folding of newly-made polypeptide chains; member of the HSP70 family; interacts
with phosphatase subunit Reg1p
BUD17
9.40
0.17
54.92
Putative pyridoxal kinase, a key enzyme in vitamin B6 metabolism; involved in bud-site selection; diploid
mutants display a random rather than a bipolar budding pattern; similarity to yeast BUD16 and human
pyridoxal kinase (PDXK)
SEC12
7.81
0.14
53.99
Guanine nucleotide exchange factor (GEF), activates Sar1p by catalyzing the exchange of GDP for GTP;
required for the initiation of COPII vesicle formation in ER to Golgi transport; glycosylated integral membrane
protein of the ER
UTP10
6.22
0.12
53.54
Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is
involved in processing of pre-18S rRNA; mutant has increased aneuploidy tolerance
RPP1
5.09
0.10
53.48
Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P
cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs
RPL26A
5.67
0.11
53.31
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl26Bp and has similarity to E.
coli L24 and rat L26 ribosomal proteins; binds to 5.8S rRNA
RPS15
6.58
0.12
53.23
Protein component of the small (40S) ribosomal subunit; has similarity to E. coli S19 and rat S15 ribosomal
proteins
NOP2
8.55
0.16
52.87
Probable RNA m(5)C methyltransferase, essential for processing and maturation of 27S pre-rRNA and large
ribosomal subunit biogenesis; localized to the nucleolus; constituent of 66S pre-ribosomal particles
NHP2
10.21
0.19
52.57
Nuclear protein related to mammalian high mobility group (HMG) proteins, essential for function of
H/ACA-type snoRNPs, which are involved in 18S rRNA processing
RPL12A
6.28
0.12
52.42
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl12Bp; rpl12a rpl12b double
mutant exhibits slow growth and slow translation; has similarity to E. coli L11 and rat L12 ribosomal proteins
RPL12B
6.86
0.13
52.15
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl12Ap; rpl12a rpl12b double
mutant exhibits slow growth and slow translation; has similarity to E. coli L11 and rat L12 ribosomal proteins
FEN1
5.08
0.10
52.06
Fatty acid elongase, involved in sphingolipid biosynthesis; acts on fatty acids of up to 24 carbons in length;
mutations have regulatory effects on 1,3-beta-glucan synthase, vacuolar ATPase, and the secretory pathway
GCN3
5.87
0.11
51.55
Alpha subunit of the translation initiation factor eIF2B, the guanine-nucleotide exchange factor for eIF2;
activity subsequently regulated by phosphorylated eIF2; first identified as a positive regulator of GCN4
expression
RKI1
7.02
0.14
50.19
Ribose-5-phosphate ketol-isomerase, catalyzes the interconversion of ribose 5-phosphate and ribulose
5-phosphate in the pentose phosphate pathway; participates in pyridoxine biosynthesis
RPS24B
5.53
0.11
50.13
Protein component of the small (40S) ribosomal subunit; identical to Rps24Ap and has similarity to rat S24
ribosomal protein
CST26
8.51
0.17
50.07
Protein required for incorporation of stearic acid into phosphatidylinositol; affects chromosome stability when
overexpressed
RPL31B
5.64
0.11
49.98
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl31Ap and has similarity to rat
L31 ribosomal protein; associates with the karyopherin Sxm1p; loss of both Rpl31p and Rpl39p confers
lethality
TSR1
5.11
0.10
48.71
Protein required for processing of 20S pre-rRNA in the cytoplasm; associates with pre-40S ribosomal particles;
inhibits the premature association of 60S subunits with assembling 40S subunits in the cytoplasm; similar to
Bms1p
RFC4
8.78
0.18
47.59
Subunit of heteropentameric Replication factor C (RF-C), which is a DNA binding protein and ATPase that acts
as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases
delta and epsilon
GIM5
5.56
0.12
47.09
Subunit of the heterohexameric cochaperone prefoldin complex which binds specifically to cytosolic
chaperonin and transfers target proteins to it
RPS10A
6.33
0.13
47.03
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps10Bp and has similarity to rat
ribosomal protein S10
FKS1
6.99
0.15
46.66
Catalytic subunit of 1,3-beta-D-glucan synthase, functionally redundant with alternate catalytic subunit Gsc2p;
binds to regulatory subunit Rho1p; involved in cell wall synthesis and maintenance; localizes to sites of cell
wall remodeling
RPS28A
7.55
0.16
46.46
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps28Bp and has similarity to rat
S28 ribosomal protein
LCB1
8.93
0.20
45.68
Component of serine palmitoyltransferase, responsible along with Lcb2p for the first committed step in
sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
PRO1
6.62
0.15
45.60
Gamma-glutamyl kinase, catalyzes the first step in proline biosynthesis
PAM18
6.67
0.15
45.02
Constituent of the import motor (PAM complex) component of the Translocase of the Inner Mitochondrial
membrane (TIM23 complex); essential J-protein cochaperone that stimulates Ssc1p ATPase activity to drive
import; inhibited by Pam16p
DBP9
8.66
0.19
44.90
DEAD-box protein required for 27S rRNA processing; exhibits DNA, RNA and DNA/RNA helicase activities;
ATPase activity shows preference for DNA over RNA; DNA helicase activity abolished by mutation in
RNA-binding domain
TRM82
8.55
0.20
43.66
Catalytic subunit of a tRNA methyltransferase complex; Trm8p and Trm82p comprise an enzyme that catalyzes
a methyl-transfer from S-adenosyl-l-methionine to the N(7) atom of guanine at position 46 in tRNA; Trm8
lacks catalytic activity if not bound to Trm82p
RPL30
5.23
0.12
42.71
Protein component of the large (60S) ribosomal subunit, has similarity to rat L30 ribosomal protein; involved in
pre-rRNA processing in the nucleolus; autoregulates splicing of its transcript
RPL5
5.58
0.13
42.68
Protein component of the large (60S) ribosomal subunit with similarity to E. coli L18 and rat L5 ribosomal
proteins; binds 5S rRNA and is required for 60S subunit assembly
RPL3
5.41
0.13
42.64
Protein component of the large (60S) ribosomal subunit, has similarity to E. coli L3 and rat L3 ribosomal
proteins; involved in the replication and maintenance of killer double stranded RNA virus
MCM5
6.90
0.17
41.59
Component of the hexameric MCM complex, which is important for priming origins of DNA replication in G1
and becomes an active ATP-dependent helicase that promotes DNA melting and elongation when activated by
Cdc7p-Dbf4p in S-phase
HUG1
5.08
0.12
41.41
Protein involved in the Mec1p-mediated checkpoint pathway that responds to DNA damage or replication
arrest, transcription is induced by DNA damage
STM1
5.58
0.13
41.37
Protein required for optimal translation under nutrient stress; perturbs association of Yef3p with ribosomes;
involved in TOR signaling; binds G4 quadruplex and purine motif triplex nucleic acid; helps maintain telomere
structure
RPG1
7.24
0.18
40.95
eIF3a subunit of the core complex of translation initiation factor 3 (eIF3), essential for translation; part of a
Prt1p-Rpg1p-Nip1p subcomplex that stimulates binding of mRNA and tRNA(i)Met to ribosomes; involved in
translation reinitiation
ILV1
7.94
0.20
40.47
Threonine deaminase, catalyzes the first step in isoleucine biosynthesis; expression is under general amino acid
control; ILV1 locus exhibits highly positioned nucleosomes whose organization is independent of known ILV1
regulation
PUS9
6.58
0.16
40.26
Mitochondrial tRNA:pseudouridine synthase, catalyzes the formation of pseudouridine at position 32 in
mitochondrial tRNAs; contains an N-terminal mitochondrial targeting sequence
RPS7A
5.37
0.13
40.23
Protein component of the small (40S) ribosomal subunit, nearly identical to Rps7Bp; interacts with Kti11p;
deletion causes hypersensitivity to zymocin; has similarity to rat S7 and Xenopus S8 ribosomal proteins
BNR1
7.56
0.19
40.11
Formin, nucleates the formation of linear actin filaments, involved in cell processes such as budding and mitotic
spindle orientation which require the formation of polarized actin cables, functionally redundant with BNI1
RPL39
5.53
0.14
39.74
Protein component of the large (60S) ribosomal subunit, has similarity to rat L39 ribosomal protein; required
for ribosome biogenesis; loss of both Rpl31p and Rpl39p confers lethality; also exhibits genetic interactions
with SIS1 and PAB1
MEU1
7.46
0.19
39.38
Methylthioadenosine phosphorylase (MTAP), catalyzes the initial step in the methionine salvage pathway;
affects polyamine biosynthesis through regulation of ornithine decarboxylase (Spe1p) activity; regulates ADH2
gene expression
DEG1
6.94
0.18
39.13
tRNA:pseudouridine synthase, introduces pseudouridines at position 38 or 39 in tRNA, important for
maintenance of translation efficiency and normal cell growth, localizes to both the nucleus and cytoplasm;
non-essential for viability
RPS13
6.51
0.17
39.04
Protein component of the small (40S) ribosomal subunit; has similarity to E. coli S15 and rat S13 ribosomal
proteins
RPS8A
6.41
0.17
38.68
Protein component of the small (40S) ribosomal subunit; identical to Rps8Bp and has similarity to rat S8
ribosomal protein
AIR1
6.47
0.17
38.05
Zinc knuckle protein, involved in nuclear RNA processing and degradation as a component of the TRAMP
complex; stimulates the poly(A) polymerase activity of Pap2p in vitro; functionally redundant with Air2p
NPT1
5.72
0.15
37.97
Nicotinate phosphoribosyltransferase, acts in the salvage pathway of NAD+ biosynthesis; required for silencing
at rDNA and telomeres and has a role in silencing at mating-type loci; localized to the nucleus
RPS1B
5.36
0.14
37.74
Ribosomal protein 10 (rp10) of the small (40S) subunit; nearly identical to Rps1Ap and has similarity to rat S3a
ribosomal protein
RPL11B
7.40
0.20
37.69
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl11Ap; involved in ribosomal
assembly; depletion causes degradation of proteins and RNA of the 60S subunit; has similarity to E. coli L5 and
rat L11
PMA1
5.74
0.15
37.42
Plasma membrane H+-ATPase, pumps protons out of the cell; major regulator of cytoplasmic pH and plasma
membrane potential; P2-type ATPase; Hsp30p plays a role in Pma1p regulation; interactions with Std1p appear
to propagate [GAR+]
SSB2
5.05
0.14
36.71
Cytoplasmic ATPase that is a ribosome-associated molecular chaperone, functions with J-protein partner
Zuo1p; may be involved in the folding of newly-synthesized polypeptide chains; member of the HSP70 family;
homolog of SSB1
PUS7
5.65
0.16
36.39
Pseudouridine synthase, catalyzes pseudouridylation at positions 35 and 56 in U2 snRNA, position 50 in 5S
rRNA, position 13 in cytoplasmic tRNAs, and position 35 in pre-tRNA(Tyr); conserved in archaea, vertebrates,
and some bacteria
RPL20B
5.15
0.14
36.21
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl20Ap and has similarity to rat
L18a ribosomal protein
NUG1
6.83
0.19
36.19
GTPase that associates with nuclear 60S pre-ribosomes, required for export of 60S ribosomal subunits from the
nucleus
YPT6
6.54
0.19
35.28
Rab family GTPase, Ras-like GTP binding protein involved in the secretory pathway, required for fusion of
endosome-derived vesicles with the late Golgi, maturation of the vacuolar carboxypeptidase Y; has similarity to
the human GTPase, Rab6
SUP45
6.42
0.18
34.89
Polypeptide release factor (eRF1) in translation termination; mutant form acts as a recessive omnipotent
suppressor; methylated by Mtq2p-Trm112p in ternary complex eRF1-eRF3-GTP; mutation of methylation site
confers resistance to zymocin
RPL29
6.01
0.17
34.41
Protein component of the large (60S) ribosomal subunit, has similarity to rat L29 ribosomal protein; not
essential for translation, but required for proper joining of the large and small ribosomal subunits and for
normal translation rate
THR4
5.08
0.15
33.93
Threonine synthase, conserved protein that catalyzes formation of threonine from O-phosphohomoserine;
expression is regulated by the GCN4-mediated general amino acid control pathway
SSZ1
5.49
0.16
33.44
Hsp70 protein that interacts with Zuo1p (a DnaJ homolog) to form a ribosome-associated complex that binds
the ribosome via the Zuo1p subunit; also involved in pleiotropic drug resistance via sequential activation of
PDR1 and PDR5; binds ATP
ADE17
6.31
0.19
33.27
Enzyme of 'de novo' purine biosynthesis containing both 5-aminoimidazole-4-carboxamide ribonucleotide
transformylase and inosine monophosphate cyclohydrolase activities, isozyme of Ade16p; ade16 ade17 mutants
require adenine and histidine
RPA14
6.08
0.18
33.17
RNA polymerase I subunit A14
NUC1
5.98
0.18
33.13
Major mitochondrial nuclease, has RNAse and DNA endo- and exonucleolytic activities; has roles in
mitochondrial recombination, apoptosis and maintenance of polyploidy
TRM10
5.83
0.18
32.71
tRNA methyltransferase, methylates the N-1 position of guanosine in tRNAs
RPS29B
6.16
0.19
32.56
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps29Ap and has similarity to rat
S29 and E. coli S14 ribosomal proteins
RPL18B
5.56
0.17
32.35
Protein component of the large (60S) ribosomal subunit, identical to Rpl18Ap and has similarity to rat L18
ribosomal protein
ARF1
5.63
0.17
32.31
ADP-ribosylation factor, GTPase of the Ras superfamily involved in regulation of coated vesicle formation in
intracellular trafficking within the Golgi; functionally interchangeable with Arf2p
DBP5
5.69
0.18
32.13
Cytoplasmic ATP-dependent RNA helicase of the DEAD-box family; involved in mRNA export from the
nucleus; involved in translation termination; ATP/ADP cycling is regulated by Gle1p and Nup159p
ATF2
6.01
0.19
31.60
Alcohol acetyltransferase, may play a role in steroid detoxification; forms volatile esters during fermentation,
which is important for brewing and winemaking
RPL2B
5.24
0.17
30.32
Protein component of the large (60S) ribosomal subunit, identical to Rpl2Ap and has similarity to E. coli L2
and rat L8 ribosomal proteins; expression is upregulated at low temperatures
RPL24B
5.69
0.19
30.25
Ribosomal protein L30 of the large (60S) ribosomal subunit, nearly identical to Rpl24Ap and has similarity to
rat L24 ribosomal protein; not essential for translation but may be required for normal translation rate
STP4
5.02
0.17
29.72
Protein containing a Kruppel-type zinc-finger domain; has similarity to Stp1p, Stp2p, and Stp3p; predicted to be
a transcription factor
STE14
5.30
0.18
29.37
Farnesyl cysteine-carboxyl methyltransferase, mediates the carboxyl methylation step during C-terminal CAAX
motif processing of a-factor and RAS proteins in the endoplasmic reticulum, localizes to the ER membrane
RPS26A
5.22
0.18
29.22
Protein component of the small (40S) ribosomal subunit; nearly identical to Rps26Bp and has similarity to rat
S26 ribosomal protein
GDT1
5.53
0.20
28.18
Putative protein of unknown function; expression is reduced in a gcr1 null mutant; GFP-fusion protein localizes
to the vacuole; expression pattern and physical interactions suggest a possible role in ribosome biogenesis
EFG1
5.43
0.19
28.06
Essential protein required for maturation of 18S rRNA; null mutant is sensitive to hydroxyurea and is delayed
in recovering from alpha-factor arrest; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus
RPL20A
5.39
0.20
27.42
Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl20Bp and has similarity to rat
L18a ribosomal protein
Genes which increased expression in Qing2 while decreased expression in 5-2
Gene Symbol
Ratio1
(Qing2)
Ratio2
(5-2)
Ratio
Gene Title
SUL1
58.48
0.09
679.81
High affinity sulfate permease of the SulP anion transporter family; sulfate uptake is mediated by specific
sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate
intermediates
CIT3
85.47
0.13
671.32
Dual specificity mitochondrial citrate and methylcitrate synthase; catalyzes the condensation of acetyl-CoA and
oxaloacetate to form citrate and that of propionyl-CoA and oxaloacetate to form 2-methylcitrate
ENA5
38.76
0.06
643.27
Protein with similarity to P-type ATPase sodium pumps, member of the Na+ efflux ATPase family
IRC15
35.46
0.11
324.52
Microtubule associated protein; regulates microtubule dynamics; required for accurate meiotic chromosome
segregation; null mutant displays large budded cells due to delayed mitotic progression, increased levels of
spontaneous Rad52 foci
CSM4
19.38
0.08
244.73
Protein required for accurate chromosome segregation during meiosis; involved in meiotic telomere clustering
(bouquet formation) and telomere-led rapid prophase movements
YAT1
30.96
0.16
193.06
Outer mitochondrial carnitine acetyltransferase, minor ethanol-inducible enzyme involved in transport of
activated acyl groups from the cytoplasm into the mitochondrial matrix; phosphorylated
UTR5
16.61
0.10
167.96
Protein of unknown function; transcription may be regulated by Gcr1p; essential for growth under standard
(aerobic) conditions but not under anaerobic conditions
CTF19
20.04
0.14
146.16
Outer kinetochore protein, required for accurate mitotic chromosome segregation; component of the
kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) that functions as a platform for
kinetochore assembly
HXT8
9.57
0.09
109.68
Protein of unknown function with similarity to hexose transporter family members, expression is induced by
low levels of glucose and repressed by high levels of glucose
GTO3
6.46
0.11
57.75
Omega class glutathione transferase; putative cytosolic localization
NBL1
5.25
0.10
50.26
Subunit of the conserved chromosomal passenger complex (CPC; Ipl1p-Sli15p-Bir1p-Nbl1p), which regulates
mitotic chromosome segregation; not required for the kinase activity of the complex; mediates the interaction of
Sli15p and Bir1p
SGA1
8.45
0.20
42.40
Intracellular sporulation-specific glucoamylase involved in glycogen degradation; induced during starvation of
a/a diploids late in sporulation, but dispensable for sporulation
MET13
6.03
0.14
41.83
Major
isozyme
of
methylenetetrahydrofolate
reductase,
catalyzes
the
reduction
5,10-methylenetetrahydrofolate to 5-methyltetrahydrofolate in the methionine biosynthesis pathway
BSC4
5.15
0.13
38.98
Protein of unknown function, ORF exhibits genomic organization compatible with a translational
readthrough-dependent mode of expression; readthrough is increased upon depletion of Sup35p
BDH2
6.92
0.18
37.67
Putative medium-chain alcohol dehydrogenase with similarity to BDH1; transcription induced by constitutively
of
active PDR1 and PDR3
AVT4
6.57
0.18
36.53
Vacuolar transporter, exports large neutral amino acids from the vacuole; member of a family of seven S.
cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
LCL1
6.04
0.18
34.25
Putative protein of unknown function; deletion mutant is fluconazole resistant and has long chronological
lifespan
SAF1
5.03
0.20
25.32
F-Box protein involved in proteasome-dependent degradation of Aah1p during entry of cells into quiescence;
interacts with Skp1
Table S3 Genes which increased expression in 5-2 while decreased expression in Qing2 (fold ≥ 5 or fold≤ 0.2), gathered according to their
ontological group with more than five genes.
GO ID
GO Term
Gene
Number
Genes
6364
rRNA processing
71
MAK16,RPS8A,PWP2,NOP1,TSR1,RPS16B,NHP2,SSB1,RPS11A,RPS13,RRP1,BFR2,UTP4,UT
P6,NUG1,RPS8B,NSA2,LCP5,RPL30,PRP43,SLX9,RPS23A,UTP8,NSR1,RPS0A,EFG1,RPP1,SS
Z1,RRP3,GAR1,RIX1,RPS24B,UTP10,RPS21B,MRT4,URB1,MAK11,DHR2,DRS1,GRC3,NOC3,
RPS0B,DIP2,CBF5,EMG1,PWP1,NOP56,UTP13,DBP9,GSP1,UTP21,RPS1A,RPS18B,RPS1B,ER
B1,UTP15,RPS16A,HAS1,NOP2,DBP2,IPI3,SSB2,PUS7,NOP58,RRP12,RPS9A,NOG1,NAN1,NI
P7,MRD1,NOC4
2181
cytoplasmic translation
63
RPS8A,RPG1,SRO9,RPS29B,RPL13A,RPS16B,SSB1,RPL4B,RPS11A,RPS13,RPL12B,RPL27B,
RPL12A,RPL34A,RPS8B,RPS26B,RPL22B,RPL29,RPL30,RPL24A,RPS26A,RPL11B,RPL24B,R
BG2,RPS0A,RPL8A,SSZ1,RPL2B,RPS24B,RPS21B,RPL17B,RPL39,RPS22A,RPL43B,RPS5,RP
S0B,RPL22A,RPL37A,RPS28B,RPL26A,RPS29A,RPL31B,RPS1A,RPL6B,RPS18B,RPS1B,RPL6
A,RPS16A,RPL20A,SSB2,RPL18B,RPS15,RPL18A,RPS19A,RPL3,RPS7A,RPS28A,RPS10A,RP
L20B,RPL21B,RPS9A,RPL5,RPL11A
42274
ribosomal small subunit biogenesis
41
RPS8A,PWP2,RPS16B,RPS11A,RPS13,UTP4,UTP6,RPS8B,PRP43,SLX9,RPS23A,UTP8,NSR1,R
PS0A,EFG1,RRP3,RPS24B,UTP10,RPS21B,DHR2,UTP30,RPS0B,DIP2,EMG1,UTP13,UTP21,RP
S1A,RPS18B,RPS1B,UTP15,RPS16A,HAS1,KRE33,RPS19A,NOP58,RRP12,RPS9A,NAN1,NEW
1,MRD1,NOC4
42273
ribosomal large subunit biogenesis
34
MAK16,RSA4,RLI1,RPL12B,PUF6,RPL12A,NSA2,PRP43,RPL11B,SSF1,RIX1,YVH1,MRT4,UR
B1,MAK11,DRS1,RIX7,GRC3,RLP24,DBP9,RPL6B,RPL6A,ERB1,HAS1,NOP2,NOP15,IPI3,BR
X1,RPL3,YTM1,NOG1,RPL5,NIP7,RPL11A
51169
nuclear transport
25
HMT1,SSB1,RLI1,ARX1,NUG1,KAP123,RPS26B,RPS26A,UTP8,RPS0A,RIX1,RPS5,RIX7,RPS
0B,RPS28B,GSP1,RPS18B,SSB2,RPS15,RPS19A,DBP5,RPS28A,RPS10A,NOG1,NEW1
70925
organelle assembly
23
RSA4,RPS11A,RPL12B,RPL12A,RPL11B,NSR1,RPS0A,SSF1,RIX1,YVH1,MRT4,MAK11,DRS
1,SDO1,RPS0B,RPL6B,RPL6A,IPI3,BRX1,RPL3,RPL5,RPL11A,MRD1
42255
ribosome assembly
23
RSA4,RPS11A,RPL12B,RPL12A,RPL11B,NSR1,RPS0A,SSF1,RIX1,YVH1,MRT4,MAK11,DRS
1,SDO1,RPS0B,RPL6B,RPL6A,IPI3,BRX1,RPL3,RPL5,RPL11A,MRD1
9451
RNA modification
17
NOP1,PUS9,NHP2,TRM82,LCP5,DEG1,GAR1,KTI12,CBF5,EMG1,NOP56,DUS3,TRM9,TRM10
,TRM11,PUS7,PUS1
15931
nucleobase-containing
transport
compound
17
HMT1,RPS26B,RPS26A,VRG4,UTP8,RPS0A,POR2,RPS5,RPS0B,RPS28B,RPS18B,RPS15,RPS1
9A,DBP5,RPS28A,RPS10A,NEW1
6360
transcription from RNA polymerase
I promoter
14
RPB5,RPA14,UTP4,UTP8,UTP10,RPA12,GRC3,UTP15,RPC19,RPA49,RPA43,NAN1,RPA135,R
PC40
6520
cellular
process
13
MIS1,THR4,PRO1,HOM3,ILV1,FRS2,MES1,LIA1,MEU1,FRS1,SAM1,WRS1,LEU9
55086
nucleobase-containing
molecule metabolic process
13
URA7,QRI1,SUA5,HAM1,URA6,SAM1,IMD3,ADE17,GUA1,AAH1,SEC12,RKI1,NPT1
8033
tRNA processing
11
PUS9,TRM82,DEG1,RPP1,KTI12,DUS3,TRM9,TRM10,TRM11,PUS7,PUS1
6417
regulation of translation
11
SSB1,PUF6,RPL30,SUA5,RPS23A,SSZ1,RPS5,GCN3,STM1,RPL31B,SSB2
54
ribosomal subunit export
nucleus
8
SSB1,RLI1,ARX1,NUG1,RIX1,RIX7,SSB2,NOG1
6414
translational elongation
8
SSB1,SUA5,RPS23A,SSZ1,RPS5,STM1,RPL31B,SSB2
6629
lipid metabolic process
7
URA7,CST26,FEN1,HST4,ATF2,LCB1,CYB5
6260
DNA replication
7
RFC5,RRM3,RIX1,NOC3,MCM5,IPI3,RFC4
18193
peptidyl-amino acid modification
7
RKM3,HMT1,RMT2,HPM1,LIA1,FPR4,HAT1
amino
acid
metabolic
small
from
6413
translational initiation
6
RPG1,RLI1,GCN3,STM1,NIP1,PRT1
6401
RNA catabolic process
6
TPA1,AIR1,NUC1,MRT4,DBP2,VTS1
8213
protein alkylation
6
RKM3,HMT1,STE14,RMT2,HPM1,FPR4
51186
cofactor metabolic process
6
MIS1,SAM1,BUD17,RKI1,THI80,NPT1
8150
biological process unknown
6
OLA1,STP4,HGH1,CMS1,IMD4,NOP13
5975
carbohydrate metabolic process
5
HOR2,HXK2,INM1,FKS1,RKI1
70271
protein complex biogenesis
5
PAC10,BNR1,GIM5,GIM3,SEC12
910
cytokinesis
5
SUP45,PWP2,ATC1,NOP15,BUD17