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Table 3 Selected signaling pathway genes identified in the O. fasciatus transcriptome.

From: The maternal and early embryonic transcriptome of the milkweed bug Oncopeltus fasciatus

    

Present in:

Pathway

# Hits

Hit ID (I/C/S)

Length (range)

Normalized

Non-Normalized

HEDGEHOG

     

cubitus interruptus

3

I,S

225-906

Y

Y

fused

2

I

516-1582

Y

Y

patched

2

C, S

225-418

N

Y

smoothened

2

I

1270-1604

Y

Y

JAK/STAT

     

domeless

1

I

4028

Y

Y

hopscotch (janus kinase)

3

I, C

473-2644

Y

Y

Signal transducer and activator of transcription

4

I

444-3270

Y

Y

NFKB/TOLL

     

cactus

7

I, C

629-1748

Y

Y

dorsal (Nuclear factor NF-kappa-B)

2

I

1308-3926

Y

Y

relish

1

I

2650

Y

Y

Toll

11

I, C, S

215-4323

Y

Y

NOTCH

     

fringe

1

I

877

Y

Y

Hairless

1

I

1053

Y

Y

hairy (Enhancer of split/HES-1)

1

I

2530

Y

Y

mind bomb

7 (6†)

I,C,S

335-1185

Y

Y

Notch

1

S

235

Y*

N

Notchless

1

I

2035

Y

Y

Presenilin

1

I

1661

Y

Y

Serrate/Jagged

2

S

246-300

Y*

Y

strawberry notch

7

I,S

191-3519

Y

Y

Suppressor of Hairless

3

I,C

375-697

Y

Y

WNT

     

armadillo

5

I,S

348-3001

Y

Y

dishevelled

2

I

954-1321

Y

Y

frizzled

3

C,S

194-500

N

Y

Wnt family (wingless, WNTs)

6

C,S

207-508

Y

Y

TGF-BETA

     

decapentaplegic (BMP2/4)

1

C

547

Y

Y

glass bottom boat (BMP5/7)

2

I

510-737

Y

Y

SMADs (Mad, Smad2/3, Smad4/Medea)

7

I,C

276-2276

Y

Y

Type I Receptor (saxophone/thickveins/activin receptor type I)

5

I,C

236-2466

Y

Y

Type II Receptor (punt, wishful thinking)

3

I

259-5038

Y

Y

RECEPTOR TYROSINE KINASES

     

Epidermal growth factor receptor

7 (5†)

I,C,S

229-715

N

Y

rhomboid

2

C

229-602

N

Y

HORMONE SIGNALING (ECDYSONE, NUCLEAR HORMONE)

disembodied (ecdysteroidogenic P450)

1

I

1835

Y

Y

Ecdysone receptor

2

I,C

231-1393

Y

Y

E75

3

I,S

257-649

Y

Y

Ecdysone-induced protein 63E

1

I

1479

Y

Y

ecdysoneless

1

I

4158

Y

Y

Nuclear hormone receptor E78

1

I

3150

Y

Y

Nuclear hormone receptor HR3

2

I

529-737

Y

Y

phantom (cytochrome P450 306a1)

2

C

344-575

N

Y

shade (cytochrome 450 314A1)

1

I

2125

Y

Y

shadow (cytochrome 450 315A1)

1

I

1650

Y

Y

ultraspiracle nuclear receptor

1

C

245

Y*

N

without children

2

I

1155-1357

Y

Y

  1. Hit ID indicates if gene hits were found among isotigs (I), Cap3-assembled contigs (C), or unassembled singletons (S). Sequence length (range) indicates the shortest and longest S, C or I hit sequences for each gene. These results were generated by BLASTing the raw reads from the N and NN samples against the full assembly. When multiple sequences were obtained via name search, they were tested to see whether they could be made to form a contig with Sequencher or CLC Combined Workbench (see Methods). Asterisk indicates hits only present in normalized GS-FLX reads. X(Y†) indicates that the X sequences with hits could be assembled into Y contigs.
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BMC Genomics

ISSN: 1471-2164

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