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Table 3 Putative Hymenoptera-specific genes

From: An annotated cDNA library and microarray for large-scale gene-expression studies in the ant Solenopsis invicta

 

Solenopsis invicta assembled sequence1

Blast statistics

Apis mellifera sequence

Confidence7

Identifier (length)

Span

Frame

ORF2 (bp)

I3

Exp4

Bit-score

E-value

Linkage Group

Span

Strand

ORF2 (bp)

Est5

Annotated gene6

 

SI.CL.8.cl.881.Contig1 (724 bp)

509-640

2

300

 

•

272

1.24E-18

6

2701427-2701558

+

429

 

Ab initio prediction

***

SI.CL.8.cl.843.SiJWH04BDO2.scf (730 bp)

582-761

3

147

 

•

210

1.99E-12

NW_001254419.8

44307-44486

-

147

•

Near NH homology. GB18184-PA on reverse strand

**

SI.CL.19.cl.1938.Contig1 (835 bp)

21-323

3

372

T

•

212

1.43E-12

6

1145090-1145392

-

429

 

Ab initio prediction. Near GB12791-PA on reverse strand

***

SI.CL.19.cl.1953.SiJWC11BBX.scf (613 bp)

81-215

3

555

 

•

166

5.08E-08

8

5253595-5253729

-

372

•

GB14543-PA. Near NH homology on reverse strand

*

 

306-416

    

87

4.5E-15

 

5252894-5253094

 

306

   
 

435-635

    

200

  

5253189-5253299

 

318

   

SI.CL.23.cl.2326.Contig1 (632 bp)

413-577

2

219

 

•

291

1.33E-20

11

8022183-8022347

+

480

 

Ab initio prediction

***

SI.CL.26.cl.2688.Contig1 (859 bp)

60-131

39

87

 

•

98

9.74E-15

9

10421877-10421948

-

549

•

Ab initio prediction. Near NH homology on reverse strand

**

 

119-256

29

558

  

186

  

10421751-10421888

     

SI.CL.33.cl.3311.Contig1 (710 bp)

228-359

3

189

 

•

258

3.07E-17

14

8634060-8634191

-

132

•

Near ab initio prediction. Near NH homology on reverse strand

*

SI.CL.33.cl.3384.Contig1 (469 bp)

229-327

19

264

T,S

•

160

3.11E-13

14

3770768-3770866

-

231

 

Ab initio prediction

***

 

362-454

29

180

S

 

104

  

3770649-3770741

 

186

   

SI.CL.35.cl.3595.Contig1 (415 bp)

123-398

3

342

 

•

301

5.97E-22

NW_001261806.8

12471-12746

+

327

 

Ab initio prediction

***

SiJWA02BAZ2.scf (600 bp)

374-469

2

261

 

•

193

2.13E-15

5

9909503-9909598

+

627

•

Near GB15931-PA and NH homology on reverse strand

*

 

533-604

    

98

  

9909356-9909427

     

SiJWA03CAW.scf (666 bp)

49-144

1

96

  

120

2.1E-16

NW_001259848.8

47860-47955

+

99

•

GB10007-PA on reverse strand

***

 

136-297

 

117

  

182

  

47704-47865

 

726

   

SiJWA12ACK.scf (212 bp)

137-268

29

69

 

•

264

1.42E-19

3

5151467-5151598

+

162

•

Near ab initio prediction and NH homology on reverse strand

**

 

63-143

39

72

  

69

  

5151391-5151471

 

189

   

SiJWB12BCQ.tag5_B12_04.scf (754 bp)

121-369

1

354

 

•

254

1.1E-16

7

5620128-5620376

+

336

 

Ab initio prediction on reverse strand

***

SiJWC11BAT.scf (342 bp)

189-278

3

228

 

•

160

3.98E-17

14

8645843-8645932

+

162

•

Near ab initio prediction and homology

**

 

282-368

    

123

6.41E-14

 

8645754-8645840

 

117

   

SiJWE02BBO2.scf (865 bp)

714-863

3

129

 

•

243

1.26E-15

6

4850974-4851123

-

354

 

Near ab initio prediction on reverse strand

**

SiJWF07BCC.tag5_F07_11.scf (799 bp)

329-529

2

96

 

•

196

6.59E-11

3

6205208-6205408

-

108

 

Near NH homology. Ab initio prediction on reverse strand

**

SiJWG01BDU2.scf (759 bp)

21-227

3

102

 

•

354

1.23E-26

2

9618145-9618351

+

171

•

GB12576-PA and NH homology on reverse strand

*

SiJWG03ACB.scf (623 bp)

172-609

1

471

 

•

558

4.63E-47

10

2344965-2345402

+

1440

•

GB19005-PA

***

SiJWH02AAN.scf (469 bp)

100-294

1

102

 

•

341

1.32E-30

12

281374-281568

-

294

 

-

***

 

28-105

 

69

  

104

  

281564-281641

 

207

   

SiJWH05BDPR5A08.scf (658 bp)

580-657

1

78

 

•

161

1.1E-15

10

2890267-2890344

+

159

•

Near ab initio prediction

**

SiJWH05BDV2.scf (517 bp)

204-353

3

198

 

•

237

4.87E-15

5

6704423-6704572

+

174

 

Ab initio prediction

**

SiJWH08AAT.scf (653 bp)

76-162

1

60

 

•

141

4.53E-20

5

1169177-1169263

+

84

•

Near ab initio prediction and NH homology

*

 

151-195

 

102

  

75

4.52E-13

 

1169261-1169305

 

69

   

SiJWH08ADY.scf (563 bp)

236-496

2

327

 

•

312

1.32E-22

12

4477772-4478032

-

432

 

GB16574-PA

***

  1. 1Solenopsis invicta assembled sequences that show no significant similarity to any known non-hymenopteran sequence (E > 1), but high similarity to a region of the honey bee genome (E < e-10). 2Length in base-pairs of the largest overlapping in-frame open reading frame. 3In-frame Interproscan annotation of fire ant assembled sequence. T means 'transmembrane region', S means 'signal peptide'. 4Gene is known (•) to be expressed in fire ant (unpublished microarray data). 5In honey bee, EST evidence exists (•) within 5,000 bp of the aligned region. 6This column shows the annotation of overlapping or nearby (within 5,000 bp) honey bee genes, as well as the nearby presence of genes from non-hymenopteran organisms. Numbers starting with GB are honeybee Official Gene Set numbers. 'Ab initio prediction' indicates that Gnomon, Genscan, or another algorithm was used to predict a gene that was not retained for the bee genome Official Gene Set. 'NH homology' indicates the nearby presence of a gene from non-hymenopteran organisms. 7Based on visual inspection we assigned a confidence level (the more asterisks the better) to each ant-bee putative gene pair (see Materials and methods). 8Apis mellifera unanchored scaffolds such as NW_001254419.1 are regions that have not been mapped to a chromosome. 9Multiple alignment frames for a S. invicta transcript indicate possible frameshifts during sequencing.
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Genome Biology

ISSN: 1474-760X

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