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Table 3 Group A2 Normalized reads

From: Comparisons among rainbow trout, Oncorhynchus mykiss, populations of maternal transcript profile associated with egg viability

 

Low quality

Medium quality

High quality

    

Gene

Mean

SEM

Mean

SEM

Mean

SEM

Mean reads

RSQ

RC

P value

Mitochondrial genes

 mt-atp8

70,396

3649

105,437

10,120

144,308

19,256

117,095

0.0355

486.1

0.3921

 mt-co1

187,167

75,666

215,761

24,277

295,887

23,547

241,777

0.0857

1435.7

0.0666

 mt-cytb

65,679

15,616

109,657

13,106

152,923

14,076

122,408

0.0814

776.0

0.0426

 mt-nd4l

4920

1356

6646

801

10,063

1467

7733

0.0317

36.0

0.2472

 mt-dlp

9707

4788

17,151

2254

23,632

4410

19,022

0.0540

132.9

0.0839

Nuclear genes

 agfg1-like

78.3

2.0

71.8

7.2

85.9

6.2

76.9

0.0084

0.1239

0.7307

 anxa2

53.8

8.2

73.4

8.0

80.9

9.8

75.1

0.0145

0.1950

0.4492

 apoc1

1209.5

793.1

2729.3

569.8

1897.9

753.6

2376.8

0.0022

5.5802

0.5534

 atg16l1

52.8

2.9

70.2

7.4

76.3

7.7

71.5

0.0146

0.1730

0.4387

 bmp10-like

13.4

1.2

39.3

4.7

35.1

3.8

36.7

0.0130

0.1017

ND

 ctsz

9929.1

3409.9

13,888.0

1113.6

12,001.9

927.1

13,065.0

0.0010

6.6351

0.4726

 cycB

14,225.4

3878.4

14,363.5

963.4

15,421.9

1008.5

14,718.0

0.0150

23.2022

0.5360

 dcaf11

83.8

10.0

147.6

11.4

205.1

14.6

164.3

0.1878

1.1626

0.0035

 dglucy

13.4

1.2

15.5

0.9

14.0

1.1

14.9

0.0007

0.0046

ND

 erich3

13.4

1.2

15.5

0.9

14.0

1.1

14.9

0.0007

0.0046

ND

 fbxo5

310.2

123.7

438.7

39.5

691.7

73.1

519.2

0.1702

4.4568

0.0120

 galnt3

354.3

16.0

230.1

20.4

254.5

19.1

244.1

0.0219

−0.5889

0.2481

 gsh-px

228.0

2.4

484.8

47.2

417.3

54.1

450.1

0.0018

0.4046

0.4661

 gtf3a

164.5

19.9

247.2

22.1

318.0

39.6

267.6

0.0540

1.2597

0.1150

 haus3

157.5

49.1

205.8

20.5

283.1

23.4

230.0

0.1106

1.4526

0.0510

 hbb

6945.0

2128.3

5318.5

1111.5

2745.4

821.5

4515.2

0.0132

−23.9143

0.2282

 ifngr1

13.4

1.2

15.5

0.9

14.6

1.0

15.1

0.0073

0.0146

ND

 igf-1

13.4

1.2

23.5

2.7

23.2

2.7

22.9

0.0657

0.1326

ND

 igf-2

46.9

0.8

72.9

10.1

98.2

25.0

80.4

0.0353

0.5423

0.3252

 igf-3

13.4

1.2

29.9

3.2

26.2

3.1

27.9

0.0146

0.0750

ND

 igfr1b

86.0

1.4

93.0

8.1

103.4

7.1

96.2

0.0003

0.0273

0.8610

 il17rd

506.1

55.0

284.1

27.8

364.1

30.1

321.5

0.0021

−0.2719

0.5848

 impa2

511.5

186.2

1966.8

199.4

2761.9

315.3

2171.7

0.1689

20.1204

0.0010

 ing3

60.8

4.4

80.0

7.2

101.8

10.5

86.5

0.0261

0.2604

0.2269

 itga7

18.0

5.8

24.3

2.8

24.7

2.7

24.2

0.0216

0.0772

ND

 kmt5b

70.8

7.3

61.0

5.9

70.1

6.3

64.6

0.0008

0.0332

0.8023

 krt18

159.7

0.8

178.3

28.9

116.5

13.6

156.4

0.0022

0.2393

0.8316

 krt8

95.9

2.6

164.8

39.8

112.0

20.8

143.7

0.0008

0.1936

0.5031

 lin7b

135.0

28.7

399.2

44.1

493.9

60.0

419.5

0.1175

3.3230

0.0095

 mettl3

13.4

1.2

15.5

0.9

14.0

1.1

14.9

0.0007

0.0046

ND

 mr-1

316.1

97.1

327.4

20.0

355.0

24.3

336.3

0.0000

−0.0106

0.9443

 mrpl39-like

54.3

4.5

214.6

26.9

273.2

42.6

227.3

0.0889

1.8588

0.0126

 myo1b

138.0

2.9

68.1

7.7

81.9

7.1

76.0

0.0477

−0.3429

0.1213

 nasp

157.3

3.3

217.2

17.1

294.0

22.0

240.7

0.0996

1.2183

0.0574

 npm2

13.4

1.2

16.0

0.8

14.4

1.1

15.4

0.0001

−0.0013

ND

 ntan1

336.7

52.6

322.3

25.8

356.8

29.8

334.7

0.0051

0.3686

0.8127

 pde4d

69.2

15.0

87.4

9.6

103.4

8.7

92.0

0.0243

0.2860

0.2916

 pgk1

173.4

65.0

228.0

12.1

260.1

17.6

236.5

0.0471

0.6028

0.0465

 phb2

54.3

10.9

73.1

5.1

88.9

11.8

77.7

0.0290

0.2436

0.2019

 psmb9

122.7

63.9

77.6

11.0

51.5

8.0

70.7

0.0015

−0.0826

0.5031

 ptgs2

630.3

111.9

685.1

68.2

760.7

89.5

708.4

0.0022

0.6635

0.9055

 pyc

70.7

29.5

72.8

6.2

85.2

7.4

76.9

0.0097

0.1259

0.5615

 ran

44.4

3.2

41.0

6.2

39.4

4.9

40.6

0.0106

0.1155

ND

 rpl22

229.6

27.9

566.2

54.1

640.3

134.1

576.2

0.0652

3.9744

0.0130

 rpl24

654.1

0.9

1268.8

156.9

1033.2

285.2

1160.5

0.0065

3.0154

0.6741

 rpl30

922.6

42.1

1505.6

154.9

1165.1

186.5

1363.0

0.0107

3.2904

0.5562

 rplp1

40.4

5.7

46.5

5.7

52.3

6.0

48.2

0.0050

0.0781

ND

 rps9

166.8

11.0

312.3

26.5

264.3

28.1

289.4

0.0135

0.6161

0.1591

 s100a1

115.8

22.5

154.0

15.7

192.3

15.2

165.3

0.0643

0.7820

0.0981

 samm50

162.2

42.9

546.5

45.3

650.0

46.0

564.3

0.1262

3.4057

0.0024

 sec14l2

71.6

17.4

88.6

8.0

101.8

10.5

92.3

0.0216

0.2453

0.3916

 senp7

36.6

6.3

52.3

5.1

72.4

5.9

58.5

0.1001

0.3488

0.0330

 ska3

89.5

20.1

187.6

17.0

253.9

21.2

205.8

0.1664

1.5573

0.0058

 slc7a6os

184.8

14.7

337.6

23.2

393.0

29.6

349.5

0.0732

1.3690

0.0410

 smc6

115.2

2.4

92.9

9.3

103.0

9.4

97.4

0.0014

−0.0669

0.6010

 tfip11

40.4

5.7

80.5

6.7

113.2

13.8

89.8

0.1357

0.6824

0.0115

 tob1

178.8

18.3

118.6

9.8

122.8

9.9

122.8

0.0399

−0.3867

0.1576

 tubb

1278.3

495.4

2522.1

174.7

3145.6

253.3

2678.1

0.1492

15.9537

0.0040

 uchl1

177.0

36.0

245.8

18.8

321.2

21.5

268.4

0.1074

1.3353

0.0348

 vasa

645.4

127.0

344.1

27.9

369.0

23.6

366.2

0.0919

−1.7727

0.0507

  1. Low quality is 0–20% eyeing (N = 2), Medium quality is 20–80% eyeing (N = 27), High quality is 80–100% eyeing (N = 15). Values in bold are significant at P < 0.05, ND indicates below detection limit. RSQ is square root, RC is regression coefficient, and P value is for regression of transcript abundance to eyeing rate for 44 individual samples. RSQ and RC are for normalized data and P value is for transformed normalized data