Table 1 Classification of phylogenetic studies based on review categories

Spatial level

Continental

29

[18, 33, 40, 88–113]

National

17

[19, 20, 27, 73, 114–126]

Regional

13

[127–139]

Aims

Phylogenetic relationship and/or genetic diversity

42

[19, 20, 33, 40, 73, 96, 100–113, 120–125, 132–139]

Population structure and/or genetic diversity

9

[88–91, 93, 94, 114, 117, 126]

Genetic diversity and/or host association

3

[27, 116, 127]

Genetic diversity and genome or proteome association

5

[18, 92, 95, 115, 128]

Hypothesis

Study and sample design based on a hypothesis

2

[133, 136]

Study and sample design not based on a hypothesis

57

[18–20, 27, 33, 40, 73, 88–132, 134, 135, 137–139]

Sample source

Humans, other mammals, and triatomines

43

[18–20, 33, 40, 73, 88, 90, 92–99, 102–120, 122–124, 126–128, 131, 139]

Triatomines and humans

6

[27, 89, 100, 121, 130, 134]

Triatomines and other mammals

2

[125, 137]

Triatomines

4

[129, 133, 135, 136]

Other mammals

1

[91]

Humans

3

[131, 132, 138]

Parasite population analyzed

Isolates selected using in vitro or in vivo methods

53

[18–20, 33, 73, 88–128, 130–132, 134, 135, 137, 139]

Original sample

4

[27, 129, 133, 136]

Isolates + original

2

[40, 138]

Molecular marker used for parasite diagnosis and genotyping

DTU

9

[89, 90, 94, 97, 99, 104, 112, 122, 127]

MLEE +/or RAPD + DTUs

9

[18, 33, 95, 105–109, 111]

Mini-exon + 24S rRNA

9

[91, 96, 113, 116, 130–132, 135, 138]

MLEE +/or RAPD

6

[100, 103, 114, 118, 137, 139]

Mini-exon + 24S rRNA + DTU

2

[73, 110]

Mini-exon + MLEE+/or RAPD

2

[88, 102]

GPI

2

[117, 128]

Cyt b

1

[125]

24SrRNA

6

[92, 93, 98, 115, 127, 133]

Mini-exon

10

[19, 20, 40, 119–121, 123, 124, 134, 136]

kDNA (121/122)

1

[126]

kDNA (S35/S36)

2

[27, 129]

DTU

Classified

19

[19, 20, 27, 40, 73, 98, 116, 119–121, 123, 125, 128, 130, 133–137]

Previously classified

26

[18, 33, 89–91, 94, 95, 97, 100, 102, 104, 106–112, 114, 117, 118, 122, 124, 126, 127, 131]

Not classified

14

[16, 88, 92, 93, 96, 99, 103, 105, 113, 115, 129, 132, 138, 139]

Population genetic analyses

Nuclear

23

[19, 20, 33, 40, 89, 96–99, 101, 105, 106, 110–113, 117, 120, 127, 133, 135–137]

Mitochondrial

3

[108, 116, 125]

Nuclear + mitocondrial

7

[18, 73, 100, 103, 107, 118, 122]

Nuclear + mitochondrial + microsatelite

4

[88, 90, 104, 131]

Nuclear + microsatellite

1

[121]

Mitochondrial + microsatellite

2

[94, 128]

Microsatelite

10

[27, 91–93, 102, 109, 114, 115, 130, 132]

LSSP or RFLP

9

[95, 119, 123, 124, 126, 129, 134, 138, 139]

Outgroups

T. c. marinkelli

9

[95, 106–108, 116, 125, 127, 135, 136]

T. c. marinkelli + T. dionisii

1

[73]

T. c. marinkelli + T. rangeli

2

[33, 101]

T. c. marinkelli + T. brucei

1

[122]

T. c. marinkelli + Leishmania major + L. donovani

1

[96]

T. c. marinkelli + T. vespertilionis

3

[18, 100, 103]

T. c. marinkellei + T. rangeli + T. brucei

1

[90]

T. rangeli + T. dionisii

1

[119]

T. rangeli

5

[113, 123, 124, 126, 133]

TcII and/ or TcIV

4

[20, 117, 120, 128]

Leishmania chagasi

1

[134]

B. caudatus + T. borreli + T. rangeli

1

[98]

Not used

29

[19, 27, 40, 88, 89, 91–94, 97, 99, 102, 104, 105, 109–112, 114, 115, 118, 121, 129–132, 137–139]