Table 7. Genes with positive evolution in the lineage to S288

ORF

Gene

Gene Ontology biological process

YAL002W

VPS8

Late endosome to vacuole transport

YAL005C

SSA1

Protein folding

YAL026C

DRS2

Processing of 20S pre-rRNA

YAL028W

FRT2

Response to stress

YAL044C

GCV3

One-carbon compound metabolism

YAL053W

 

Biological process unknown

YBL004W

UTP20

Processing of 20S pre-rRNA

YBL068W

PRS4

Histidine biosynthesis

YBL075C

SSA3

Response to stress

YBL106C

SRO77

Exocytosis

YBR043C

QDR3

Biological process unknown

YBR202W

CDC47

DNA replication initiation

YBR203W

COS111

Signal transduction

YBR207W

FTH1

Endocytosis

YBR241C

 

Biological process unknown

YBR267W

REI1

Bud growth

YBR273C

UBX7

Biological process unknown

YBR287W

ZSP1

Biological process unknown

YCL063W

VAC17

Vacuole inheritance

YCR023C

 

Biological process unknown

YCR057C

PWP2

Establishment of cell polarity (sensu Fungi)

YDL028C

MPS1

Mitotic spindle checkpoint

YDL031W

DBP10

35S primary transcript processing

YDL045C

FAD1

FAD biosynthesis

YDL065C

PEX19

Peroxisome organization and biogenesis

YDL072C

YET3

Biological process unknown

YDL087C

LUC7

mRNA splice site selection

YDL169C

UGX2

Biological process unknown

YDL243C

AAD4

Aldehyde metabolism

YDR061W

 

Biological process unknown

YDR062W

LCB2

Sphingolipid biosynthesis

YDR074W

TPS2

Response to stress

YDR090C

 

Biological process unknown

YDR118W

APC4

Ubiquitin-dependent protein catabolism

YDR172W

SUP35

mRNA catabolism, deadenylylation-dependent

YDR191W

HST4

Chromatin silencing at telomere

YDR208W

MSS4

Sporulation (sensu Fungi)

YDR402C

DIT2

Spore wall assembly (sensu Fungi)

YDR421W

ARO80

Positive regulation of transcription from Pol II promoter

YDR516C

EMI2

Sporulation (sensu Fungi)

YER002W

NOP16

Ribosomal large subunit biogenesis

YER080W

FMP29

Biological process unknown

YER103W

SSA4

Response to stress

YFL026W

STE2

Response to pheromone in conjugation with cellular fusion

YFR029W

PTR3

Sensory perception of chemical stimulus

YFR039C

 

Biological process unknown

YGL027C

CWH41

Cell wall organization and biogenesis

YGL056C

SDS23

Biological process unknown

YGL059W

 

Biological process unknown

YGL062W

PYC1

Gluconeogenesis

YGL063W

PUS2

tRNA modification

YGL071W

RCS1

Positive regulation of transcription from Pol II promoter

YGL073W

HSF1

Regulation of transcription from Pol II promoter

YGL114W

 

Transport

YGL116W

CDC20

Ubiquitin-dependent protein catabolism

YGL131C

SNT2

Biological process unknown

YGL141W

HUL5

Protein monoubiquitination

YGL172W

NUP49

mRNA-nucleus export

YGL197W

MDS3

Sporulation

YGL206C

CHC1

Vesicle-mediated transport

YGL213C

SKI8

Protein complex assembly

YGR070W

ROM1

Cell wall organization and biogenesis

YGR092W

DBF2

Protein amino acid phosphorylation

YGR116W

SPT6

Regulation of transcription, DNA-dependent

YGR169C

PUS6

tRNA modification

YGR172C

YIP1

Vesicle-mediated transport

YGR237C

 

Biological process unknown

YGR246C

BRF1

Transcription initiation from Pol III promoter

YGR254W

ENO1

Gluconeogenesis

YHL031C

GOS1

Intra-Golgi transport

YHR037W

PUT2

Glutamate biosynthesis

YHR137W

ARO9

Aromatic amino acid family metabolism

YHR179W

OYE2

Biological process unknown

YIL017C

VID28

Negative regulation of gluconeogenesis

YIL074C

SER33

Serine family amino acid biosynthesis

YIL114C

POR2

Ion transport

YIL123W

SIM1

Microtubule cytoskeleton organization and biogenesis

YJL130C

URA2

Pyrimidine base biosynthesis

YJL151C

SNA3

Biological process unknown

YJL164C

TPK1

Protein amino acid phosphorylation

YJL168C

SET2

Regulation of transcription, DNA-dependent

YJR040W

GEF1

Cation homeostasis

YJR107W

 

Biological process unknown

YJR124C

 

Biological process unknown

YJR147W

HMS2

Pseudohyphal growth

YKL034W

TUL1

Protein transport

YKL054C

DEF1

Ubiquitin-dependent protein catabolism

YKL068W

NUP100

mRNA-nucleus export

YKL129C

MYO3

Cell wall organization and biogenesis

YKL133C

 

Biological process unknown

YLL028W

TPO1

Polyamine transport

YLL035W

GRC3

rRNA processing

YLR165C

PUS5

rRNA modification

YLR196W

PWP1

Biological process unknown

YLR369W

SSQ1

DNA-dependent DNA replication

YLR383W

RHC18

DNA repair

YLR392C

 

Biological process unknown

YML023C

 

DNA repair

YML097C

VPS9

Protein-vacuolar targeting

YML110C

COQ5

Aerobic respiration

YML111W

BUL2

Protein monoubiquitination

YML119W

 

Biological process unknown

YMR019W

STB4

Biological process unknown

YMR077C

VPS20

Late endosome to vacuole transport

YMR124W

 

Biological process unknown

YMR205C

PFK2

Glycolysis

YMR215W

GAS3

Biological process unknown

YMR302C

PRP12

rRNA processing

YMR307W

GAS1

Cell wall organization and biogenesis

YNL012W

SPO1

Meiosis

YNL055C

POR1

Aerobic respiration

YNL058C

 

Biological process unknown

YNL064C

YDJ1

Protein-mitochondrial targeting

YNL074C

MLF3

Response to drug

YNL085W

MKT1

Viral life cycle

YNL172W

APC1

Ubiquitin-dependent protein catabolism

YNL209W

SSB2

Protein biosynthesis

YNL243W

SLA2

Cell wall organization and biogenesis

YNR021W

 

Biological process unknown

YOL054W

PSH1

RNA elongation from Pol II promoter

YOL058W

ARG1

Arginine biosynthesis

YOL067C

RTG1

Transcription initiation from Pol II promoter

YOL089C

HAL9

Transcription initiation from Pol II promoter

YOL145C

CTR9

Transcription from Pol II promoter

YOR150W

MRPL23

Protein biosynthesis

YOR208W

PTP2

Signal transduction during conjugation with cellular fusion

YOR209C

NPT1

Chromatin silencing at telomere

YOR237W

HES1

Steroid biosynthesis

YOR306C

MCH5

Transport

YOR370C

MRS6

Intracellular protein transport

YPL054W

LEE1

Biological process unknown

YPL100W

ATG21

Vacuolar protein processing or maturation

YPL118W

MRP51

Protein biosynthesis

YPL126W

NAN1

Processing of 20S pre-rRNA

YPL158C

 

Biological process unknown

YPL178W

CBC2

Nuclear mRNA splicing, via spliceosome

YPR086W

SUA7

Transcription initiation from Pol II promoter

YPR156C

TPO3

Polyamine transport