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Table 4 Mean branch lengths and node depths across clade resolution categories

From: What are the consequences of combining nuclear and mitochondrial data for phylogenetic analysis? Lessons from Plethodonsalamanders and 13 other vertebrate clades

Clade

Type of node

Number of nodes

Mean branch length

Standard error branch lengths

Mean node depth

Standard error node depth

Balistid fish

Concordant

9

0.0113

0.0024

6.44

0.53

 

mtDNA wins

3

0.0045

0.0021

6.33

0.84

 

nucDNA wins

5

0.0042

0.0004

6.00

0.88

 

Unique

6

0.0051

0.0005

3.00

0.73

Scarine fish

Concordant

22

0.0110

0.0028

5.68

0.53

 

mtDNA wins

10

0.0042

0.0040

6.90

0.95

 

nucDNA wins

4

0.0058

0.0008

5.75

1.00

 

Unique

4

0.0023

0.0007

6.75

1.97

Hemiphractid frogs

Concordant

18

0.0528

0.0129

5.72

0.67

 

mtDNA wins

13

0.0118

0.0019

8.85

1.36

 

nucDNA wins

6

0.0142

0.0022

4.67

0.49

 

Unique

3

0.0068

0.0007

8.00

1.00

Hylid frogs

Concordant

41

0.0828

0.0081

10.12

0.63

 

mtDNA wins

11

0.0686

0.0049

7.45

0.86

 

nucDNA wins

13

0.0299

0.0150

9.46

1.11

 

Unique

11

0.0196

0.0024

9.27

1.02

Plethodon salamanders

Concordant

17

0.0199

0.0054

5.00

0.74

 

mtDNA wins

25

0.0067

0.0020

8.32

1.93

 

nucDNA wins

5

0.0052

0.0011

6.20

0.67

 

Unique

4

0.0023

0.0003

8.25

1.11

Phrynosomatid lizards

Concordant

17

0.1046

0.0169

5.29

0.73

 

mtDNA wins

2

0.0221

0.0126

8.00

1.31

 

nucDNA wins

12

0.0395

0.0091

7.92

3.00

 

Unique

4

0.0152

0.0032

9.50

2.63

Alcid birds

Concordant

14

0.0478

0.0093

3.71

0.40

 

mtDNA wins

6

0.0212

0.0073

3.17

0.65

 

nucDNA wins

1

0.0057

-

2.00

-

 

Unique

0

-

-

-

-

Caprimulgid birds

Concordant

31

0.0562

0.0085

7.87

0.54

 

mtDNA wins

10

0.0309

0.0042

8.40

0.99

 

nucDNA wins

10

0.0149

0.0045

7.00

1.06

 

Unique

4

0.0090

0.0023

8.00

0.82

Cotingid birds

Concordant

22

0.0550

0.0081

5.27

0.52

 

mtDNA wins

5

0.0132

0.0017

5.60

1.03

 

nucDNA wins

7

0.0140

0.0029

5.29

1.15

 

Unique

1

0.0091

-

1.00

-

Dicaeid birds

Concordant

10

0.0919

0.0104

3.70

0.37

 

mtDNA wins

13

0.0604

0.0042

5.54

1.49

 

nucDNA wins

4

0.0312

0.0162

5.25

0.79

 

Unique

1

0.0214

NA

5.00

NA

Emydid turtles

Concordant

12

0.0078

0.0013

3.50

0.47

 

mtDNA wins

7

0.0024

0.0004

6.29

0.88

 

nucDNA wins

12

0.0032

0.0006

6.00

0.87

 

Unique

5

0.0007

0.0002

7.80

1.39

Cervid mammals

Concordant

7

0.0288

0.0030

2.57

0.43

 

mtDNA wins

14

0.0160

0.0022

4.36

0.34

 

nucDNA wins

2

0.0066

0.0014

4.00

3.00

 

Unique

0

-

-

-

-

Murid rodents (Philippines)

Concordant

32

0.1341

0.0146

7.06

0.50

 

mtDNA wins

7

0.1011

0.0083

6.71

0.89

 

nucDNA wins

13

0.0494

0.0644

6.46

1.15

 

Unique

3

0.0305

0.0065

3.67

1.20

Murid rodents (Sahul)

Concordant

42

0.0097

0.0013

6.64

1.03

 

mtDNA wins

4

0.0018

0.0003

9.50

4.75

 

nucDNA wins

13

0.0038

0.0008

6.77

1.88

 

Unique

1

0.0015

-

7.00

-

Pooled across clades

Concordant

294

0.0556

0.0035

0.51

0.01

 

mtDNA wins

130

0.0265

0.0045

0.60

0.02

 

nucDNA wins

107

0.0198

0.0024

0.52

0.02

 

Unique

47

0.0108

0.0015

0.53

0.04

  1. A summary of the mean branch lengths and mean node depths of branches in the combined-data trees for each clade, grouped by how they are resolved. For the node depths, larger numbers indicate shallower nodes (i.e. those closer to the tips and farther from the root). The last row of pooled data reports mean relative branch lengths and mean relative node depths. Significance testing is summarized in the Results and more extensively in Additional File 1.
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BMC Ecology and Evolution

ISSN: 2730-7182

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