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Table 2 DMGs most likely involved in female prolificacy pathways

From: Genome-wide analysis of DNA Methylation profiles on sheep ovaries associated with prolificacy using whole-genome Bisulfite sequencing

Gene Name

DMR

GO pathway

GO ID

KEGG Pathway

KO ID

location in chr

meth diff (LP vs HP)

P-value

BMP7

13(58222103–58,222,185)

−0.243

4.71E-08

menstrual cycle phase

GO:0022601

TGF-beta signaling pathway

ko04350

13(58258207–58,258,215)

0.203

8.29E-06

Hippo signaling pathway

ko04390

13(58174539–58,174,596)

0.218

0.000243

Cytokine-cytokine receptor interaction

ko04060

13(58235661–58,235,840)

0.344

3.01E-06

BMPR1B

6(29427102–29,427,372)

−0.232

7.32E-05

ovarian cumulus expansion

GO:0001550

TGF-beta signaling pathway

ko04350

6(29490707–29,490,892)

0.227

0.000308

Hippo signaling pathway

ko04390

6(29297691–29,297,945)

0.266

6.21E-06

Cytokine-cytokine receptor interaction

ko04060

CTNNB1

19(14002501–14,002,561)

−0.541

2.32E-10

oocyte development

GO:0048599

Hippo signaling pathway

ko04390

19(14008957–14,009,244)

−0.442

9.27E-14

Adherens junction

ko04520

19(13978757–13,978,906)

−0.424

4.50E-20

Tight junction

ko04530

19(13870396–13,870,492)

−0.409

9.06E-11

Leukocyte transendothelial migration

ko04670

19(13826519–13,826,590)

−0.333

3.17E-10

19(13831621–13,831,667)

−0.322

1.81E-11

19(14018620–14,018,858)

−0.313

3.71E-07

19(13959030–13,959,259)

−0.308

2.10E-14

19(13989628–13,989,661)

−0.282

1.63E-06

19(13882120–13,882,179)

−0.275

8.06E-08

19(13959905–13,959,997)

−0.271

0.00168

19(13993527–13,994,032)

−0.243

5.13E-11

19(13685445–13,685,483)

−0.231

7.72E-05

19(13675322–13,675,759)

0.207

7.68E-07

19(13676205–13,676,451)

0.209

1.74E-05

19(13706582–13,706,880)

0.233

8.69E-07

19(13853573–13,853,684)

0.277

1.04E-07

19(13793737–13,793,755)

0.319

0.000111

19(13707639–13,707,973)

0.344

3.25E-07

19(13682987–13,683,047)

0.404

4.49E-08

19(13815477–13,815,573)

0.418

1.70E-06

19(13708400–13,708,447)

0.617

2.94E-26

FSHR

3(75192698–75,192,705)

−0.371

2.39E-05

primary ovarian follicle growth

GO:0001545

cAMP signaling pathway

ko04024

3(75379496–75,379,558)

−0.365

1.81E-08

Neuroactive ligand-receptor interaction

ko04080

3(74644092–74,644,099)

0.154

8.92E-05

3(74716438–74,716,537)

0.213

9.40E-06

3(75040358–75,040,859)

0.218

9.66E-07

3(75387483–75,387,659)

0.224

0.000138

3(75366395–75,366,601)

0.226

5.29E-05

3(75298678–75,298,880)

0.249

3.49E-09

3(75134625–75,134,944)

0.257

6.08E-07

3(74739631–74,739,782)

0.352

3.21E-08

3(75132060–75,132,090)

0.402

9.62E-11

3(75027605–75,027,609)

0.466

1.72E-08

3(75289648–75,289,665)

0.483

2.63E-09

3(75291188–75,291,243)

0.625

9.79E-18

FST

16(25647868–25,647,877)

−0.291

2.30E-06

female gonad development

GO:0008585

TGF-beta signaling pathway

ko04350

LHCGR

3(75688216–75,688,347)

−0.286

1.48E-05

ovarian follicle development

GO:0001541

Neuroactive ligand-receptor interaction

ko04080

3(75736243–75,736,624)

−0.214

1.87E-07

3(75712912–75,712,941)

0.209

0.00544

TGFB2

12(20040207–20,040,350)

0.229

5.70E-08

menstrual cycle phase

GO:0022601

Cytokine-cytokine receptor interaction

ko04060

12(20044759–20,045,177)

0.23

2.80E-05

FoxO signaling pathway

ko04068

12(20286676–20,286,930)

0.245

0.000418

TGF-beta signaling pathway

ko04350

12(20300287–20,300,401)

0.316

1.90E-06

Hippo signaling pathway

ko04390

12(19982100–19,982,518)

0.206

4.89E-09

12(19995176–19,995,216)

0.243

5.97E-07

12(20020000–20,020,214)

0.278

8.20E-11

TGFB3

7(84205818–84,206,098)

−0.205

0.000768

menstrual cycle phase

GO:0022601

Cytokine-cytokine receptor interaction

ko04060

7(84097027–84,097,093)

0.217

0.000423

FoxO signaling pathway

ko04068

7(84139476–84,139,762)

0.227

8.22E-06

TGF-beta signaling pathway

ko04350

7(84057073–84,057,143)

0.24

4.51E-05

Hippo signaling pathway

ko04390

7(84105957–84,106,089)

0.262

0.000133

INHBA

4:79,346,323–79,346,467

0.281

7.62E-06

ovarian follicle development

GO:0001541

TGF-beta signaling pathway

ko04350

4:79,358,172–79,358,309

0.2

1.35E-07

positive regulation of ovulation

GO:0060279

 

4:79,364,290–79,364,421

0.223

1.30E-05

4:79,410,632–79,410,649

0.433

3.46E-09

4:79,467,732–79,468,003

0.286

0.000264

4:79,470,908–79,471,096

0.324

8.99E-07

4:79,511,040–79,511,072

−0.227

0.00129

4:79,522,334–79,522,542

0.553

1.75E-12

4:79,524,739–79,524,926

0.346

1.16E-08

4:79,544,088–79,544,103

−0.309

1.46E-09

4:79,554,774–79,554,784

0.334

4.59E-06

4:79,568,886–79,568,895

0.545

1.61E-08

4:79,580,604–79,580,858

0.643

6.50E-17

4:79,581,799–79,582,035

0.507

6.30E-12

4:79,595,470–79,595,497

0.625

1.59E-15

4:79,601,022–79,601,037

−0.129

9.26E-06

4:79,605,844–79,606,024

0.465

5.60E-14

4:79,658,524–79,658,656

−0.28

0.000333

4:79,658,703–79,658,930

0.206

0.000186

4:79,794,804–79,794,808

0.385

1.32E-09

4:79,818,557–79,818,672

0.266

6.96E-09

4:79,821,799–79,821,883

0.403

7.91E-08

4:79,823,656–79,823,864

0.47

1.76E-08

4:79,829,698–79,829,729

−0.222

0.0017

4:79,836,260–79,836,367

0.56

5.75E-09

4:79,968,621–79,968,690

−0.37

1.87E-09

4:80,049,783–80,050,296

−0.254

4.52E-14

4:80,063,788–80,063,855

−0.244

1.31E-06

4:80,085,854–80,085,996

−0.223

4.88E-05

4:80,150,315–80,150,500

0.274

2.37E-06

4:80,157,514–80,157,656

0.475

6.14E-13

JUP

11(41441802–41,442,083)

−0.22

0.000192

oocyte development

GO:0048599

  

11(41458174–41,458,384)

0.254

8.93E-07

  1. chr chromosome, DMR different methylated regions, meth diff the difference in methylation levels between HP and LP (LP vs HP); a positive number means the methylation levels of this region in the HP group are higher than those in the LP group, and a negative number means that the methylation levels of this region in the HP group are lower than those in the LP group, GO pathway The name of the GO term, GO ID The ID of the GO term, KEGG pathway The name of the KEGG pathway, KO ID The ID of the KEGG pathway
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BMC Genomics

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