Table 1

DEGs clustered by their functional similarities based on GO annotation of D. melanogaster homologs and protein motifs described in Pfam database.

Functional Group

Official_set_ID

Scaffold_ID

Gene_name

Flybase_ID

M

Pfam description


Growth (1)

Protein folding (1.1)

GB16563

Group6.34

Trap1-PA

CG3152

Q(1.00)

Hsp90 protein

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

GB10587

Group13.6

Cct5-PA

CG8439

Q(0.95)

TCP-1/cpn60 chaperonin family

GB12619

Group7.16

CG14894-PA

CG14894

Q(0.57)

Tetratricopeptide repeat

GB12215

Group4.18

CG8863-PD

CG8863

Q(0.52)

DnaJ central domain (4 repeats)

DNA binding (1.2)

GB12948

GroupUn.293

His3.3A-PA

CG5825

Q(0.47)

Core histone H2A/H2B/H3/H4

GB18508

Group2.39

skpA-PE

CG16983

Q(0.42)

Skp1 family, dimerisation domain

Skp1 family, tetramerisation domain

GB19338

Group10.29

crc-PB

CG8669

W(0.29)

bZIP transcription factor

GB17426

Group3.15

Sirt6-PA

CG6284

W(0.48)

Sir2 family

Endopeptidase (1.3)

GB18440

Group13.4

Rpn6-PA

CG10149

Q(0.69)

PCI domain

GB15218

Group5.21

Pros26.4-PA

CG5289

Q(0.40)

ATPase family associated with various cellular activities (AAA)

GB11260

GroupUn.696

Rpn5-PA

CG1100

Q(0.38)

PCI domain

GB19406

Group2.43

Rpn7-PA

CG5378

Q(0.43)

PCI domain

Constituents of ribosome (1.4)

GB15503

Group15.29

RpL4-PA

CG5502

Q(0.46)

Ribosomal protein L4/L1 family

GB14287

Group7.1

mRpL45-PA

CG6949

Q(0.37)

Tim 44-like domain

GB13769

Group8.29

mRpS22-PA

CG12261

Q(0.35)

--

Protein binding(1.5)

GB17469

Group4.23

shot-PG

CG18076

W(0.42)

Spectrin repeat

Growth-Arrest-Specific Protein 2 Domain

Plectin repeat

EF hand

GB11456

Group12.27

CREG-PA

CG5413

W(0.63)

--

GB14059

GroupUn.5456

Nap1-PA

CG5330

Q(0.30)

Nucleosome assembly protein (NAP)

GB19591

GroupUn.549

CG5742-PA

CG5742

Q(0.24)

Ankyrin repeat

Other proteins (1.6)

GB12179

Group3.19

Gyc76C-PC

CG8742

Q(0.18)

Adenylate and Guanylate cyclase catalytic domain

Receptor family ligand binding region

Protein kinase domain

Protein tyrosine kinase

GB13416

Group1.40

Trip1-PA

CG8882

Q(0.49)

WD domain, G-beta repeat

GB16844

Group5.30

Ef1alpha100E-PC

CG1873

Q(0.62)

Elongation factor Tu GTP binding domain

Elongation factor Tu C-terminal domain

Elongation factor Tu domain 2

GB18599

Group8.14

CG6287-PA

CG6287

Q(0.46)

D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain

D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain

GB20148

Group8.12

pyd3-PA

CG3027

Q(1.60)

Carbon-nitrogen hydrolase

GB13298

Group3.35

Gasp-PA

CG10287

Q(1.07)

Chitin binding Peritrophin-A domain

GB18138

Group15.29

tws-PE

CG6235

Q(0.37)

WD domain, G-beta repeat

GB11086

Group10.31

tor-PA

CG8274

Q(0.34)

TPR/MLP1/MLP2-like protein

GB11665

GroupUn.5677

Idgf4-PB

CG1780

W(0.58)

Glycosyl hydrolases family 18


Neurogenesis (2)

GB17219

Group4.23

dac-PC

CG4952

W(0.28)

SKI/SNO/DAC family

GB18802

Group2.40

Atx2-PB

CG5166

W(0.37)

Ataxin-2 N-terminal region

GB17469

Group4.23

shot-PG

CG18076

W(0.42)

Spectrin repeat

Growth-Arrest-Specific Protein 2 Domain

Plectin repeat

EF hand

GB17380

Group3.22

fax-PC

CG4609

W(0.57)

GB14127

Group2.32

CRMP-PB

CG1411

W(1.25)

Amidohydrolase family

GB12585

Group14.24

Eph-PE

CG1511

W(0.24)

Protein tyrosine kinase

Ephrin receptor ligand binding domain

Protein kinase domain

Fibronectin type III domain

SAM domain (Sterile alpha motif)

GCC2 and GCC3

GB19338

Group10.29

crc-PB

CG8669

W(0.29)

bZIP transcription factor

GB14751

Group2.38

Tsp5D-PA

CG4690

W(0.44)

Tetraspanin family


Leg development (3)

GB18685

GroupUn.154

Gug-PC

CG6964

W(0.49)

Atrophin-1 family

Myb-like DNA-binding domain

GB17219

Group4.23

dac-PC

CG4952

W(0.28)

SKI/SNO/DAC family

GB19338

Group10.29

crc-PB

CG8669

W(0.29)

bZIP transcription factor

GB18802

Group2.40

Atx2-PB

CG5166

W(0.37)

Ataxin-2 N-terminal region


Apoptosis and ovary dev. (4)

Protein binding (4.1)

GB16563

Group6.34

Trap1-PA

CG 3152

Q(1.0 0)

Hsp90 protein

GB10850

GroupUn.303

l(2)tid-PC

CG5504

Q(0.42)

DnaJ C terminal region

DnaJ domain

DnaJ central domain (4 repeats)

GB18249

Group4.15

eff-PA

CG7425

Q(0.36)

Ubiquitin-conjugating enzyme

GB10667

Group15.32

Gl-PA

CG9206

Q(0.41)

CAP-Gly domain

Other proteins (4.2)

GB16903

Group8.23

cathD-PA

CG1548

W(0.99)

Eukaryotic aspartyl protease

GB18912

Group1.14

26-29-p-PA

CG8947

W(0.49)

Papain family cysteine protease

Cathepsin propeptide inhibitor domain (I29)

GB15106

Group13.9

CG11159-PA

CG11159

W(0.57)

C-type lysozyme/alpha-lactalbum in family

GB18802

Group2.40

Atx2-PB

CG5166

W(0.37)

Ataxin-2 N-terminal region

GB10394

Group3.12

Traf1-PA

CG3048

W(0.36)

TRAF-type zinc finger

MATH domain

GB11086

Group10.31

tor-PA

CG8274

Q(0.34)

TPR/M LP1/M LP2-like protein


Cytoskeleton and others (5)

Cytoskeleton proteins (5.1)

GB11965

Group8.46

Mhc-PB

CG17927

W(0.36)

Myosin tail

Myosin head (motor domain)

GB17681

Group7.42

Act5C-PB

CG4027

W(0.38)

Actin

GB16881

Group6.3

up-PG

CG7107

W(0.30)

--

GB17469

Group4.23

shot-PG

CG18076

W(0.42)

Spectrin repeat

Growth-Arrest-Specific Protein 2 Domain

Plectin repeat

EF hand

GB19016

Group1.21

lva-PC

CG6450

W(0.52)

--

GB10337

Group4.18

Ank2-PB

CG7462

W(0.61)

Ankyrin repeat

ZU5 domain

Death domain

Transcription associated prot. (5.2)

GB15645

Group11.31

NFAT-PA

CG11172

W(0.71)

Rel homology domain (RHD)

IPT/TIG domain

GB16648

Group9.18

usp-PA

CG4380

W(0.20)

Ligand-binding domain of nuclear hormone receptor

Zinc finger, C4 type (two domains)

GB19023

Group2.33

Hcf-PD

CG1710

W(0.42)

Kelch motif

Fibronectin type III domain

Other proteins (5.3)

GB10771

GroupUn.3863

Jheh1-PA

CG15101

W(0.46)

Epoxide hydrolase N terminus

alpha/beta hydrolase fold

GB11059

Group8.20

RfaBp-PA

CG11064

W(0.49)

Lipoprotein amino terminal region

von Willebrand factor type D domain

Domain of Unknown Function (DUF1081)

GB17439

Group3.31

Scs-fp-PC

CG17246

W(0.59)

FAD binding domain

Fumarate reductase/succinate dehydrogenase flavoprotein C-terminal domain

GB16882

Group16.12

wal-PA

CG8996

Q(0.51)

Electron transfer flavoprotein FAD-binding

Electron transfer flavoprotein domain

GB12827

GroupUn.5348

Dox-A2-PA

CG10484

Q(0.42)

PCI domain

GB10658

Group14.24

l(3)neo18-PA

CG9762

W(0.70)

--


JH responsive (6)

Metabolic enzymes (6.1)

GB19085

Group13.10

CG9009-PA

CG9009

Q(1.10)

AM P-binding enzyme

GB16747

Group4.23

CG17323-PA

CG17323

Q(0.46)

UDP-glucoronosyl and UDP-glucosyl transferase

GB15619

Group2.43

CG8036-PC

CG8036

Q(0.33)

Transketolase, thiamine diphosphate binding domain

Transketolase, pyridine binding domain

Transketolase, C-terminal domain

GB13982

Group13.10

Faa-PA

CG14993

W(0.34)

Fumarylacetoacetate (FAA) hydrolase family

GB14870

Group13.13

CG31472-PB

CG31472

W(0.38)

Pyridoxamine 5'-phosphate oxidase

GB13626

GroupUn.593

CG6206-PB

CG6206

W(0.40)

Glycosyl hydrolases family 38 N-terminal domain

Glycosyl hydrolases family 38 C-terminal domain

GB19030

Group15.25

CG10638-PA

CG10638

W(0.60)

Aldo/keto reductase family

GB19460

Group1.18

Ald-PB

CG6058

W(0.86)

Fructose-bisphosphate aldolase class-I

GB17864

GroupUn.36

CG7920-PA

CG7920

W(0.90)

Acetyl-CoA hydrolase/transferase

GB13401

Group6.55

CG9629-PA

CG9629

W(1.70)

Aldehyde dehydrogenase family

Carrier activity (6.2)

GB14751

Group2.38

Tsp5D-PA

CG4690

W(0.44)

Tetraspanin family

GB12135

Group1.65

CG1213-PC

CG1213

Q(0.76)

Sugar (and other) transporter

Major Facilitator Superfamily

GB13781

Group15.34

CG33528-PC

CG33528

Q(0.58)

Major Facilitator Superfamily

GB17499

Group7.37

sesB-PC

CG16944

Q(0.57)

Mitochondrial carrier protein

Protein binding (6.3)

GB13815

Group11.41

Cdep-PC

CG31536

Q(0.72)

FERM domain (Band 4.1 family)

PH domain

GB18087

Group1.59

Nacalpha-PC

CG8759

Q(0.47)

NAC domain

GB10836

Group2.22

Hsc70Cb-PC

CG6603

Q(0.44)

Hsp70 protein

GB19860

Group1.82

Hsc70-5-PA

CG8542

Q(0.42)

Hsp70 protein

GB18197

Group16.15

CAP-PC

CG18408

Q(0.53)

SH3 domain

GB10587

Group13.6

Cct5-PA

CG8439

Q(0.31)

TCP-1/cpn60 chaperonin family

Nucleic acid binding (6.4)

GB15755

Group5.12

RpS11-PC

CG8857

Q(0.61)

Ribosomal protein S17

GB15503

Group15.29

RpL4-PA

CG5502

Q(0.39)

Ribosomal protein L4/L1 family

GB20034

GroupUn.1172

CG8108-PB

CG8108

Q(0.32)

--

Other proteins (6.5)

GB12348

Group12.16

CG31952-PA

CG31952

Q(0.91)

--

GB14145

Group3.14

uzip-PA

CG3533

Q(0.49)

--

GB19075

Group5.26

CG3153-PA

CG3153

Q(0.28)

ML domain

GB19923

Group16.6

Cp1-PC

CG6692

W(0.42)

Papain family cysteine protease

Cathepsin propeptide inhibitor domain (I29)

GB11059

Group8.20

RfaBp-PA

CG11064

W(0.74)

Lipoprotein amino terminal region

von Willebrand factor type D domain

Domain of Unknown Function (DUF1081)

GB18626

GroupUn.41

Ccp84Ad-PA

CG2341

Q(1.53)

Insect cuticle protein


Hormone + caste (7)

JH24htreat+QL4

GB19085

Group13.10

CG9009-PA

CG9009

Q(1.1)

AMP-binding enzyme

JH24htreat+QL4

GB10836

Group2.22

Hsc70Cb-PC

CG6603

Q(0.44)

Hsp70 protein

JH24htreat+QL4

GB19860

Group1.82

Hsc70-5-PA

CG8542

Q(0.42)

Hsp70 protein

JH24htreat+QL4

GB15503

Group15.29

RpL4-PA

CG5502

Q(0.39)

Ribosomal protein L4/L1 family

JH24htreat+QL4

GB15619

Group2.43

CG8036-PC

CG8036

Q(0.33)

Transketolase, thiamine diphosphate binding domain

Transketolase, pyridine binding domain

Transketolase, C-terminal domain

JH24htreat+QL4

GB10587

Group13.6

Cct5-PA

CG8439

Q(0.31)

TCP-1/cpn60 chaperonin family

JH24hcontrol+WL4

GB13401

Group6.55

CG9629-PA

CG9629

W(1.70)

Aldehyde dehydrogenase family

JH24hcontrol+WL4+WS2

GB16686

Group15.25

no similarity

W(0.96)

--

JH24hcontrol+WL4

GB16631

Group16.12

no reciprocal

W(0.74)

Leucine Rich Repeat

JH24hcontrol+WL4

GB11059

Group8.20

RfaBp-PA

CG11064

W(0.44)

Lipoprotein amino terminal region

von Willebrand factor type D domain

Domain of Unknown Function (DUF1081)


M = log2 of the gene expression differences between developing queen and worker samples (based on microarray experiments). W = worker, Q = queen

Barchuk et al. BMC Developmental Biology 2007 7:70   doi:10.1186/1471-213X-7-70

Open Data