Molecular determinants of caste differentiation in the highly eusocial honeybee Apis mellifera

Barchuk, Angel R; Cristino, Alexandre S; Kucharski, Robert; Costa, Luciano F; Simões, Zilá LP; Maleszka, Ryszard

doi:10.1186/1471-213X-7-70

BMC Developmental Biology

Table 1 DEGs clustered by their functional similarities based on GO annotation of D. melanogaster homologs and protein motifs described in Pfam database.

From: Molecular determinants of caste differentiation in the highly eusocial honeybee Apis mellifera

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

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ISSN: 1471-213X

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