Table 1

A complete list of bHLH genes from 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.

Liu et al.

Liu et al. BMC Evolutionary Biology 2012 12:165   doi:10.1186/1471-2148-12-165

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