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Table 5 The rate of synonymous (Ks) and non-synonymous (Ka) nucleotide substitution for secretory (signal peptide and mature peptide) and non-secretory proteomes

From: Contrasted evolutionary constraints on secreted and non-secreted proteomes of selected Actinobacteria

 

Ka (±S. E.)

Ks (±S. E.)

Ka/Ks (±S. E.)

Frankia ACN/ CcI

   

Signal Peptide (SP)

0.897 ± 0.335

11.698 ± 2. 627

0.182 ± 0.031

Mature Peptide (MP)

0.151 ± 0.009

10.499 ± 3. 11

0.066 ± 0.005

Secretory Protein (Sec)

0.105 ± 0.006

6.893 ± 2. 006

0.051 ± 0.003

Non-secretory Protein (NSec)

0.083 ± 0.002

6.555 ± 0.614

0.043 ± 0.001

Frankia ACN/ FD

   

Signal Peptide (SP)

0.5656 ± 0.2004

24.4256 ± 14.1669

0.1952 ± 0.063

Mature Peptide (MP)

0.2370 ± 0.0328

12.1243 ± 9.3627

0.0980 ± 0.028

Secretory Protein (Sec)

0.2690 ± 0.0255

27.415 ± 10.51547

0.077 ± 0.0211

Non-secretory Protein (NSec)

0.1862 ± 0.0028

31.77567 ± 1.283

0.0336 ± 0.001

Frankia ACN/ Ean

   

Signal Peptide (SP)

2.14 ± 0.6975

23.82 ± 4. 32

0.479 ± 0.262

Mature Peptide (MP)

0.194 ± 0.0124

29.85 ± 6. 224

0.0363 ± 0.005

Secretory Protein (Sec)

0.183 ± 0.008

29.785 ± 4. 460

0.040 ± 0.004

Non-secretory Protein (NSec)

0.144 ± 0.002

23.688 ± 1. 120

0.036 ± 0.001

Frankia ACN/ Eul

   

Signal Peptide (SP)

2. 99 ± 0.754

29. 198 ± 4. 055

0.568 ± 0.211

Mature Peptide (MP)

0.258 ± 0.011

50.244 ± 6. 94

0.035 ± 0.004

Secretory Protein (Sec)

0.235 ± 0.008

36. 971 ± 4. 836

0.043 ±0.004

Non-secretory Protein (NSec)

0.178 ± 0.003

33. 228 ± 1. 306

0.035 ± 0.001

Frankia CcI/FD

   

Signal Peptide (SP)

0.3762 ± 0.0565

5.4064 ± 2.5889

0.2136 ± 0.0524

Mature Peptide (MP)

0.2367 ± 0.0208

19.3491 ± 9.5834

0.0581 ± 0.0104

Secretory Protein (Sec)

0.265 ± 0.02113

18.01 ± 7.5958

0.0633 ± 0.0103

Non-secretory Protein (NSec)

0.1901 ± 0.003

28.1726 ± 1.158

0.0334 ± 0.001

Frankia CcI/ Ean

   

Signal Peptide (SP)

0.451 ± 0.125

12.861 ± 6.345

0.139 ± 0.054

Mature Peptide (MP)

0.206 ± 0.015

23.179 ± 10.192

0.043 ± 0.008

Secretory Protein (Sec)

0.179 ± 0.010

35.333 ± 4. 793

0.027 ± 0.003

Non-secretory Protein (NSec)

0.147 ± 0.002

24.320 ± 1. 059

0.031 ± 0.001

Frankia CcI/ Eu1

   

Signal Peptide (SP)

2.202 ± 1. 866

13.475 ± 8. 425

0.282 ± 0.111

Mature Peptide (MP)

0.143 ± 0.025

21.280 ± 9. 465

0.070 ± 0.014

Secretory Protein (Sec)

0.097 ± 0.006

5.761 ± 2. 462

0.061 ± 0.005

Non-secretory Protein (NSec)

0.097 ± 0.015

5.244 ± 0.511

0.047 ± 0.001

Frankia FD/ Eu1

   

Signal Peptide (SP)

0.450 ± 0.125

12.86 ± 6.34

0.138 ± 0.053

Mature Peptide (MP)

0.205 ± 0.015

23.179 ± 10.19

0.0429 ± 0.008

Secretory Protein (Sec)

0.307 ± 0.015

30.9 ± 10.99

0.0502 ± 0.0125

Non-secretory Protein (NSec)

0.189 ± 0.002

25.7 ± 1.32

0.0288 ± 0.009

Frankia FD/ Ean

   

Signal Peptide (SP)

2.202 ± 1.865

13.475 ± 8.4

0.282 ± 0.11

Mature Peptide (MP)

0.143 ± 0.022

21.28 ± 5.96

0.070 ± 0.011

Secretory Protein (Sec)

0.329 ± 0.016

29.094 ±10.111

0.053 ± 0.011

Non-secretory Protein (NSec)

0.203 ± .002

23.128 ± 8.98

0.028 ± .009

Frankia Ean/ Eul

   

Signal Peptide (SP)

0.677 ± 0.037

20.845 ± 8. 942

0.321 ± 0.034

Mature Peptide (MP)

0.235 ± 0.021

23.780 ± 7. 688

0.065 ± 0.005

Secretory Protein (Sec)

0.230 ± 0.009

51.172 ± 5. 025

0.033 ± 0.001

Non-secretory Protein (NSec)

0.201 ± 0.013

32.649 ± 1. 250

0.032 ± 0.004

S. coelicolor/S. avermitilis

   

Signal Peptide (SP)

0.483 ± 0.157

10.529 ± 2. 48

0.166 ±0.016

Mature Peptide (MP)

0.144 ± 0.005

11.029 ± 3. 42

0.061 ± 0.003

Secretory Protein (Sec)

0.142 ± 0.005

13.460 ± 3. 072

0.066 ± 0.003

Non-secretory Protein (NSec)

0.109 ± 0.002

10.344 ± 0.601

0.052 ± 0.001

S. coelicolor/S. griseus

   

Signal Peptide (SP)

0.952 ± 0.229

26.889 ± 3.260

0.157 ± 0.0250

Mature Peptide (MP)

0.210 ± 0.007

28.96 ± 5.938

0.049 ±0.003

Secretory Protein (Sec)

0.226 ± 0.007

39.273 ± 4.598

0.048 ± 0.004

Non-secretory Protein (NSec)

0.166 ± 0.002

27.224 ± 0.941

0.043 ± 0.001

S. coelicolor- S. somaliensis

   

Signal Peptide (SP)

1.648 ± 0.439

26.224 ± 5.183

0.324 ± 0.113

Mature Peptide (MP)

0.227 ± 0.009

35.567 ± 3.675

0.033 ± 0.005

Secretory Protein (Sec)

0.235 ± 0.005

45.582 ± 7.275

0.041 ± 0.005

Non-secretory Protein (NSec)

0.151 ± 0.002

26.060 ± 1.209

0.040 ± 0.001

S. coelicolor- S. scabiei

   

Signal Peptide (SP)

0.585 ± 0.126

15.974 ± 2.126

0.177 ± 0.016

Mature Peptide (MP)

0.172 ± 0.005

18.214 ± 3.100

0.057 ± 0.003

Secretory Protein (Sec)

0.159 ± 0.008

15.480 ± 4.913

0.067 ± 0.005

Non-secretory Protein (NSec)

0.103 ± 0.002

10.699 ± 0.802

0.050 ± 0.001

S. avermitilis- S. somaliensis

   

Signal Peptide (SP)

0.634 ± 0.101

23.098 ± 4.180

0.347 ± 0.088

Mature Peptide (MP)

0.233 ± 0.009

43.112 ± 6.251

0.040 ± 0.005

Secretory Protein (Sec)

0.236 ± 0.008

41.932 ± 6.196

0.042 ± 0.005

Non-secretory Protein (NSec)

0.147 ± 0.002

27.533 ± 1.286

0.036 ± 0.001

S. avermitilis- S. scabiei

   

Signal Peptide (SP)

0.554 ± 0.146

12.172 ± 1.912

0.268 ± 0.038

Mature Peptide (MP)

0.164 ± 0.005

13.605 ± 2.619

0.068 ± 0.003

Secretory Protein (Sec)

0.134 ± 0.006

3.663 ± 1.879

0.084 ± 0.005

Non-secretory Protein (NSec)

0.096 ± 0.002

7.412 ± 0.719

0.055 ± 0.001

S. avermitilis/ S. griseus

   

Signal Peptide (SP)

1.359 ± 0.326

21.298 ± 2.755

0.504 ± 0.036

Mature Peptide (MP)

0.210 ± 0.007

48.403 ± 6.312

0.037 ± 0.003

Secretory Protein (Sec)

0.234 ± 0.006

44. 581 ± 4.500

0.047 ± 0.005

Non-secretory Protein (NSec)

0.158 ± 0.002

26. 284 ± 0.889

0.040 ± 0.001

S. somaliensis- S. scabiei

   

Signal Peptide (SP)

1.346 ± 0.450

25.264 ± 4.391

0.492 ± 0.283

Mature Peptide (MP)

0.223 ± 0.007

24.696 ± 5.321

0.032 ± 0.004

Secretory Protein (Sec)

0.232 ± 0.008

42.124 ± 6.385

0.056 ± 0.006

Non-secretory Protein (NSec)

0.151 ± 0.002

27.537 ± 1.294

0.035 ± 0.004

S. somaliensis- S. griseus

   

Signal Peptide (SP)

0.565 ± 0.145

20.919 ± 3.434

0.170 ± 0.026

Mature Peptide (MP)

0.220 ± 0.009

42.007 ± 6.413

0.034 ± 0.004

Secretory Protein (Sec)

0.197 ± 0.006

38.510 ± 6.153

0.043 ± 0.005

Non-secretory Protein (NSec)

0.157 ± 0.039

20.710 ± 3.643

0.041 ± 0.003

S. scabiei- S. griseus

   

Signal Peptide (SP)

0.734 ± 0.178

22.970 ± 2.788

0.743 ± 0.256

Mature Peptide (MP)

0.216 ± 0.007

49.319 ± 6.226

0.037 ± 0.003

Secretory Protein (Sec)

0.211 ± 0.008

36.526 ± 6.828

0.046 ± 0.005

Non-secretory Protein (NSec)

0.148 ± 0.002

24.148 ± 1.233

0.040 ± 0.001

M. tuberculosis/M. leprae

   

Signal Peptide (SP)

0.414 ± 0.0408

12.978 ± 6.284

0.165 ± 0.069

Mature Peptide (MP)

0.111 ± 0.011

1.406 ± 0.055

0.079 ± 0.008

Secretory Protein (Sec)

0.137 ± 0.009

1.4109 ± 0.076

0.099 ± 0.008

Non-secretory Protein (NSec)

0.122 ± 0.002

2.173 ± 0.288

0.088 ± 0.001

M. tuberculosis/M. smegmatis

   

Signal Peptide (SP)

1.059 ± 0.273

30.888 ± 8.194

0.098 ± 0.031

Mature Peptide (MP)

0.199 ± 0.021

23.071 ± 10.099

0.043 ± 0.014

Secretory Protein (Sec)

0.239 ± 0.017

39.868 ± 9.856

0.032 ± 0.0105

Non-secretory Protein (NSec)

0.163 ± 0.003

28.329 ± 1.413

0.030 ± 0.001

M. tuberculosis/ M. ulcerans

   

Signal Peptide (SP)

0.685 ± 0.258

8.146 ± 3.966

0.436 ± 0.159

Mature Peptide (MP)

0.109 ± 0.014

5.997 ± 4.625

0.069 ± 0.010

Secretory Protein (Sec)

0.127 ± 0.012

1.48434 ± 0.077

0.0864 ± 0.007

Non-secretory Protein (NSec)

0.096 ± 0.002

2.616 ± 0.353

0.065 ± 0.001

M. tuberculosis/ M. vanbaalenii

   

Signal Peptide (SP)

0.821 ± 0.083

13.294 ± 5.633

0.247 ± 0.072

Mature Peptide (MP)

0.226 ± 0.018

21.208 ± 9.415

0.053 ± 0.012

Secretory Protein (Sec)

0.247 ± 0.015

20.711 ± 7.419

0.049 ± 0.009

Non-secretory Protein (NSec)

0.168 ± 0.003

26.060 ± 1.344

0.032 ± 0.001

M. leprae/ M. smegmatis

   

Signal Peptide (SP)

1.003 ± 0.129

20.464 ± 6.323

0.207 ± 0.062

Mature Peptide (MP)

0.247 ± 0.025

16.558 ± 5.325

0.0278 ± 0.005

Secretory Protein (Sec)

0.281 ± 0.018

34.78545 ± 6.822

0.02763 ± 0.006

Non-secretory Protein (NSec)

0.188 ± 0.003

28.210 ± 1.291

0.026 ± 0.001

M. leprae/ M. ulcerans

   

Signal Peptide (SP)

0.462 ± 0.056

14.975 ± 6.791

0.273 ± 0.080

Mature Peptide (MP)

0.158 ± 0.021

6.794 ± 4.753

0.0731 ± 0.009

Secretory Protein (Sec)

0.176 ± 0.020

5.359 ± 3.338

0.081 ± 0.007

Non-secretory Protein (NSec)

0.132 ± 0.003

2.877 ± 0.312

0.070 ± 0.002

M. leprae/ M. vanbalanii

   

Signal Peptide (SP)

1.322 ± 0.349

33.707 ± 8.948

0.115 ± 0.048

Mature Peptide (MP)

0.278 ± 0.0267

17.136 ± 6.912

0.038 ± 0.006

Secretory Protein (Sec)

0.302 ± 0.021

25.442 ± 6.775

0.041 ± 0.008

Non-secretory Protein (NSec)

0.193 ± 0.004

25.629 ± 1.238

0.029 ± 0.001

M. smegmatis / M. ulcerans

   

Signal Peptide (SP)

1.409 ± 0.415

18.212 ± 5.189

0.293 ± 0.138

Mature Peptide (MP)

0.225 ± 0.0184

18.889 ± 7.0584

0.041947 ± 0.007

Secretory Protein (Sec)

0.257 ± 0.017

27.432 ± 6.438

0.037 ± 0.006

Non-secretory Protein (NSec)

0.163 ± 0.003

28.286 ± 1.443

0.030008 ± 0.001

M. smegmatis / M. vanbaalenii

   

Signal Peptide (SP)

3.458 ± 1.548

19.415 ± 5.519

0.668 ± 0.356

Mature Peptide (MP)

0.1737 ± 0.014936

19.717 ± 8.35107

0.0518 ± 0.0084

Secretory Protein (Sec)

0.2046 ± 0.01668

23.418 ± 7.994028

0.0621 ± 0.0111

Non-secretory Protein (NSec)

0.1252 ± 0.0027

16.09933 ± 1.215

0.0416 ± 0.0014

M. ulcerans / M. vanbaalenii

   

Signal Peptide (SP)

1.640 ± 0.833

20.487 ± 5.451

0.1985 ± 0.0625

Mature Peptide (MP)

0.2575 ± 0.017255

13.6171 ± 4.540

0.0524 ± 0.0084

Secretory Protein (Sec)

0.2721 ± 0.0158

24.692 ± 6.523

0.0438 ± 0.0071

Non-secretory Protein (NSec)

0.165 ± 0.0031

27.909 ± 1.427

0.0309 ± 0.0011