A genome-wide identification and analysis of the basic helix-loop-helix transcription factors in the ponerine ant, Harpegnathos saltator

Liu, Ake; Wang, Yong; Dang, Chunwang; Zhang, Debao; Song, Huifang; Yao, Qin; Chen, Keping

doi:10.1186/1471-2148-12-165

Table 1 A complete list of bHLH genes from Harpegnathos saltator

From: A genome-wide identification and analysis of the basic helix-loop-helix transcription factors in the ponerine ant, Harpegnathos saltator

No.	Gene name	Family	Fruit fly homolog	Bootstrap values			Protein accession No.
				NJ	MP	ML
01	PaAse1*	ASCa	ase	99	98	97	EFN85365.1
02	PaAse2	ASCa	ase	44	33	61	EFN85366.1
03	PaDa	E12/E47	da	100	100	92	EFN82122.1
04	PaNau	MyoD	nau	100	99	57	EFN79255.1
05	PaTap(bp)	Ngn	tap (bp)	99	97	84	EFN75119.1
06	PaMistr1	Mist	Mistr	100	100	70	EFN88257.1
07	PaMistr2	Mist	Mistr	100	97	65	EFN75769.1
08	PaOli	Beta3	Oli	100	100	59	EFN75891.1
09	PaCato	Atonal	cato	48	43	55	EFN82083.1
10	PaAto	Atonal	ato	98	94	75	Not available
11	PaAmos	Atonal	amos	84	65	50	EFN82082.1
12	PaNet	Net	net	100	100	63	Not available
13	PaMyoR	MyoRa	MyoR	99	97	64	EFN78165.1
14	PaSage	Mesp	sage	100	100	94	Not available
15	PaPxs	Paraxis	Pxs	93	77	88	Not available
16	PaTwi1	Twist	twi	100	99	83	EFN77900.1
17	PaTwi2	Twist	twi	63	43	73	EFN77901.1
18	PaFer1	PTFa	Fer1	100	78	63	EFN75358.1
19	PaFer2	PTFb	Fer2	99	95	53	EFN80609.1
20	PaFer3	PTFb	Fer3	100	100	88	EFN77527.1
21	PaHand	Hand	Hand	99	95	50	EFN90007.1
22	PaSCL	SCL	SCL	100	100	59	EFN82626.1
23	PaNSCL	NSCL	NSCL	100	100	67	EFN83537.1
24	PaMnt1	Mnt	Mnt	100	100	88	EFN84151.1
25	PaMnt2*	Mnt	Mnt	95	52	66	Not available
26	PaMax1	Max	Max	100	98	86	EFN76634.1
27	PaMax2	Max	max	96	80	73	EFN83237.1
28	PaDm	Myc	dm	82	76	68	EFN89178.1
29	PaUSF1	USF	USF	100	89	95	EFN78146.1
30	PaUSF2	USF	USF	99	94	95	EFN76085.1
31	PaMitf	MITF	Mitf	100	100	80	EFN77564.1
32	PaCrp1	AP4	Crp	100	100	94	Not available
33	PaCrp2*	AP4	Crp	100	100	70	Not available
34	PaBmx	TF4	bmx	100	96	89	EFN84400.1
35	PaMLX	MLX	MLX	100	100	97	EFN77615.1
36	PaSREBP	SREBP	SREBP	100	100	70	EFN85492.1
37	PaTai	SRC	tai	100	99	82	EFN80872.1
38	PaClk1	Clock	clk	100	99	94	EFN76178.1
39	PaClk2*	Clock	clk	100	100	90	Not available
40	PaDys1	AHR	dys	100	100	82	Not available
41	PaDys2*	AHR	dys	58	70	n/m	Not available
42	PaSs	AHR	ss	100	100	83	EFN80844.1
43	PaSim	Sim	sim	88	92	63	EFN79346.1
44	PaTrh	Trh	trh	100	94	98	EFN81642.1
45	PaSima	HIF	sima	95	94	94	EFN75729.1
46	PaTgo	ARNT	tgo	100	100	99	Not available
47	PaCyc	Bmal	cyc	99	83	68	EFN88377.1
48	PaEmc	Emc	emc	99	83	74	EFN83186.1
49	PaHey	Hey	Hey	98	45	n/m*	EFN83075.1
50	PaStich1	Hey	Stich1	100	99	94	EFN89077.1
51	PaH1	H/E(spl)	h	69	70	64	EFN78278.1
52	PaH2	H/E(spl)	h	n/m	47	n/m*	EFN78273.1
53	PaSide	H/E(spl)	side	99	100	94	EFN79220.1
54	PaE(spl)1*	H/E(spl)	E(spl) mC(d)	98	50	n/m*	EFN87932.1
55	PaE(spl)2*	H/E(spl)	? - ortholog of AmE(spl)2	80	67	52	EFN87924.1
56	PaE(spl)3*	H/E(spl)	? - ortholog of AmE(spl)3	100	96	99	EFN87930.1
57	Pakn(col)	COE	kn (col)	100	100	92	EFN79194.1

We named PabHLH genes according to their D. melanogaster homologues. Bootstrap values were obtained from in-group phylogenetic analyses with D. melanogaster or A. mellifera bHLH motif sequences using NJ, MP, and ML algorithms, respectively. OsRa (the rice bHLH motif sequence of R family) was used as the outgroup in each constructed tree. n/m means that a H. saltator bHLH does not form a monophyletic group with any other single bHLH motif sequence. n/m* means that a H. saltator bHLH does not form a monophyletic clade with any specific bHLH motif sequence but forms a monophyletic clade with other bHLH proteins of the same family. * means that orthology of the gene was defined through in-group phylogenetic analyses with bHLH orthologs from A. mellifera.

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ISSN: 2730-7182

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