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Table 3 Genetic diversity and evolutionary dynamics of the two haplogroups (A and B) identified from cox1 sequences of R. appendiculatus

From: Mitochondrial phylogeography and population structure of the cattle tick Rhipicephalus appendiculatus in the African Great Lakes region

Genetic indices and statistics

Haplogroup A

Haplogroup B

Overall data set

DRC

Burundi

Rwanda AEZ2

Haplogroup A (overall)

  

AEZ1

AEZ2

AEZ3

AEZ1

AEZ3

Diversity indices

Number of sequences

39

50

44

25

17

14

189

20

209

Number of polymorphic sites

7

9

6

8

4

7

18

2

27

Number of haplotypes

8

9

6

7

5

6

19

3

22

Haplotype diversity (SD)

0.76 (0.044)

0.78 (0.032)

0.77 (0.033)

0.7 (0.084)

0.77 (0.057)

0.77 (0.089)

0.77 (0.016)

0.56 (0.063)

0.81 (0.01)

Nucleotide diversity (SD)

0.002 (0.0003)

0.0025 (0.0003)

0.002 (0.0003)

0.002 (0.0004)

0.002 (0.0003)

0.002 (0.0006)

0.002 (0.0001)

0.001 (0.0002)

0.006 (0.0006)

Neutrality tests

Tajima's D (P-value)

-0.6 (0.35)

-0.79 (0.23)

0.096 (0.6)

-1.4 (0.049)*

-0.21 (0.45)

-1.4 (0.07)

-1.5 (0.032)*

0.24 (0.67)

-0.93 (0.23)

Fu's Fs (P-value)

-2.4 (0.08)

-2.5 (0.097)

-0.1 (0.49)

-2.6 (0.027)*

-1.1 (0.18)

-2.1 (0.041)*

-10.4 (0.001)*

0.2 (0.49)

-3.8 (0.15)

Demographic expansion

Sum of Squared deviation (P-value)

0.002 (0.66)

0.004 (0.31)

0.002 (0.49)

0.002 (0.72)

0.02 (0.17)

0.001 (0.9)

0.0008 (0.44)

0.029 (0.049)*

0.017 (0.1)

Harpending’s Raggedness index (P-value)

0.06 (0.39)

0.079 (0.21)

0.06 (0.38)

0.05 (0.71)

0.16 (0.12)

0.06 (0.73)

0.057 (0.2)

0.21 (0.1)

0.049 (0.51)

Spatial expansion

Sum of Squared deviation

(P-value)

0.002 (0.5)

0.004 (0.21)

0.002 (0.4)

0.002 (0.67)

0.02 (0.1)

0.001 (0.9)

0.0008 (0.26)

0.029 (0.011)*

0.036 (0.28)

Harpending’s Raggedness index

(P-value)

0.064 (0.39)

0.079 (0.21)

0.062 (0.43)

0.05 (0.75)

0.16 (0.12)

0.06 (0.72)

0.057 (0.22)

0.21 (0.12)

0.049 (0.74)

  1. Abbreviations: D Tajima’s neutrality statistic, Fs Fu’s neutrality statistic
  2. *Values are statistically significant at P < 0.05; significance was determined using 1000 coalescent simulations