Skip to main content

Table 1 Convergence regions identified in this study based on the overlapping of the results of the four mapping analyses performed to identify selection sweeps between Churra and Australian Merino breeds

From: High-resolution analysis of selection sweeps identified between fine-wool Merino and coarse-wool Churra sheep breeds

CCRa

SSb

Chrc

CCR flanking markers

Start position (bp)

End position (bp)

XP-EHH valued

1

XPEHH-SS1

2

OAR2_55248792.1- OAR2_57832237.1

51658967

53837176

6.297

 

FST-SS4

2

OAR2_55493630_X.1- OAR2_57596413.1

51898098

53597080

 
 

Churra-ObsHtz-SS5

2

OAR2_55493630_X.1- OAR2_56828090.1

51898098

52997998

 
 

hapflk-SS1

2

OAR2_55493630_X.1- OAR2_56768579.1

51898098

52938537

 
 

Churra-ObsHtz-SS6

2

s18609.1- s53985.1

53366034

53670410

 

2

XPEHH-SS7

2

OAR2_84010413.1- OAR2_84382185.1

78854385

79189919

4.571

 

FST-SS5

2

OAR2_84182215.1- OAR2_84382185.1

79017511

79189919

 

3

XPEHH-SS13

3

s59799.1- OAR3_162871753.1

151088496

152334140

5.232

 

FST-SS6

3

OAR3_161831413.1- OAR3_162231144.1

151512221

151778900

 
 

FST-SS7

3

OAR3_162782289.1- OAR3_162794870.1

152215311

152227684

 

4

hapflk-SS4

3

OAR3_163071695_X.1- OAR3_164185125.1

152544998

153519437

 
 

XPEHH-SS14

3

s59746.1- OAR3_164185125.1

152644200

153519437

6.651

 

FST-SS8

3

OAR3_163342940.1- OAR3_163641518.1

152795421

153090551

 
 

FST-SS9

3

OAR3_164115875.1-OAR3_164185125.1

153459890

153519437

 

5

XPEHH-SS16

3

s26177.1- OAR3_165200988.1

154006814

154402834

4.324

 

FST-SS10

3

OAR3_164788310.1-OAR3_165324739.1

154069702

154522600

 

6

XPEHH-SS17

3

OAR3_165450843.1-OAR3_169414477.1

154638280

158339544

5.409

 

FST-SS11

3

OAR3_166034748.1- OAR3_166122747.1

155167107

155252399

 

7

XPEHH-SS24

3

s07782.1- s67950.1

179815920

180128893

4.066

 

Churra-ObsHtz-SS23

3

OAR3_193567675.1

179832455

  

8

Churra-ObsHtz-SS24

3

OAR3_196791000.1- OAR3_196913312.1

182778735

182916410

 
 

XPEHH-SS26

3

OAR3_196880003.1- OAR3_196904777.1

182867529

182900674

3.373

9

Churra-ObsHtz-SS25

3

s67036.1- OAR3_197402139.1

183347210

183368930

 
 

Merino-ObsHtz-SS22

3

OAR3_197402139.1

183368930

  
 

XPEHH-SS27

3

OAR3_197402139.1- OAR3_197466728.1

183368930

183429797

4.061

10

XPEHH-SS31

3

OAR3_201886269.1- OAR3_202943170.1

187634152

188481721

4.323

 

FST-SS15

3

OAR3_202741875.1

188276666

  

11

Merino-ObsHtz-SS35

6

s73850.1-OAR6_40855809.1

36461468

36655091

 
 

XPEHH-SS43

6

s20660.1- s32980.1

36626596

36914376

− 4.211

12

FST-SS24

6

s17946.1

37164263

  
 

XPEHH-SS44

6

s17946.1- OAR14_57922732.1

37164263

38580198

− 4.837

 

Merino-ObsHtz-SS36

6

OAR6_42247197.1

37987281

  
 

Merino-ObsHtz-SS37

6

OAR6_42484920_X.1

38214088

  
 

Merino-ObsHtz-SS38

6

OAR6_42743614.1- OAR6_42834740.1

38417881

38481174

 

13

XPEHH-SS55

8

s50528.1- OAR8_36294417_X.1

32778561

33477406

4.846

 

Churra-ObsHtz-SS37

8

OAR8_35694056.1- OAR8_35827974.1

32849509

32979538

 

14

XPEHH-SS60

8

OAR8_39847976.1-s27049.1

37075040

37422641

4.194

 

Churra-ObsHtz-SS38

8

OAR8_39977285.1- OAR8_40079017.1

37211967

37313171

 

15

XPEHH-SS62

10

OAR10_29381795.1- OAR10_29448537.1

29344224

29415140

3.716

 

FST-SS29

10

OAR10_29389966_X.1-OAR10_29737372.1

29353089

29713193

 
 

Churra-ObsHtz-SS42

10

OAR10_29511510.1-OAR10_29722772.1

29476678

29688513

 

16

Merino-ObsHtz-SS52

11

OAR11_27752920.1- OAR11_28473036.1

26512466

26939891

 
 

XPEHH-SS77

11

s56248.1-s31301.1

26571629

26623188

− 3.459

17

Merino-ObsHtz-SS70

15

s19862.1- s00941.1

74618189

74636302

 
 

XPEHH-SS95

15

s19862.1- s00941.1

74618189

74636302

− 3.429

18

Merino-ObsHtz-SS95

25

s30024.1-s67158.1

7356301

7727709

 
 

FST-SS49

25

s31858.1-s44881.1

7599609

7608913

 
 

XPEHH-SS97

25

s44881.1- s74537.1

7608913

7821104

− 4.234

  1. After defining the selection signals identified by the different selection sweep mapping methods considered in our study, i.e. differentiation analysis (FST-SS), identification of regions of reduced heterozygosity (ObsHtz-SS) and haplotype-based selection mapping methods hapFLK and XEHPP analyses (hapFLK-SS) and XEHPP-SS), the corresponding intervals were compared and Convergence Candidate regions (CCR) were defined when at least one haplotype-based method showed coincidence with any of the two other analyses performed
  2. aConvergence candidate regions defined based on the convergence of selection signals identified in this study
  3. bSelection signals identified by the four analysis methods used in this study: the methods based on the estimation of F ST and observed heterozygosity (ObsHtz) and the two methods based on haplotype analysis (hapFLK and XPEHH). Note that the signals identified by the haplotype-based methods are indicated in italics. It was necessary that at least overlapping of one significant haplotype-based SS (identified by the hapFLK or the XPEHH analyses) and one SS identified by any of the two other methods (FST or ObsHtz-based analyses) to label a region as a CCR
  4. cChromosome
  5. dFor the SS identified with the XP-EHH test, the most extreme XP-EHH estimate is provided. Note that positive and negative (negative highlighted in bold font) estimates indicate selection in the Churra and Merino populations, respectively
Back to article page

Genetics Selection Evolution

ISSN: 1297-9686