Table 5

Genes used in the phylogenetic analysis of Plethodon.

Type of locus

Locus

Length

Variable characters

Parsimony-informative characters

Best-fitting model

Partitions

Number of taxa sampled

Data source


Nuclear introns

GAPD

659

221

92

GTR + Γ

none

48

this study

ILF3

281

56

34

HKY

none

40

this study

Mlc2a

257

79

39

GTR + Γ

none

55

this study

RPL12

463

159

90

HKY + Γ

none

48

this study

RHO

224

57

43

HKY + I

none

62

this study

TPI

1938

569

211

GTR + Γ

intron/exon

29

[56]


Nuclear exons

RAG-1

1467

358

248

GTR + I + Γ

codon

60

[56]

BDNF

707

67

29

GTR + Γ

codon

14

[60]

POMC

481

98

41

GTR + Γ

codon

15

[60]


Mitochondrial genes

Cyt-b

649

369

313

GTR + I + Γ

codon

66

[56]

ND4

686

409

364

GTR + I + Γ

codon

65

[56]

ND2

1107

741

635

GTR + I + Γ

codon, tRNA-TRP

52

[55]


Fisher-Reid and Wiens BMC Evolutionary Biology 2011 11:300   doi:10.1186/1471-2148-11-300

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