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Table 2 Nucleotide sequence diversity of the 126 Pfmsp1 block2 alleles detected in Dielmo, Senegal.

From: Population diversity and antibody selective pressure to Plasmodium falciparum MSP1 block2 locus in an African malaria-endemic setting

 

code

AA repeat

nucleotide sequence

K1 family

   
 

1

SGT

AGT GGT ACA

 

2

SGP

AGT GGT CCA

 

3

SAQ

AGT GCT CAA

 

4

SGA

AGT GGT GCA

 

7

SVT

AGT GTT ACA

MAD20 family

   
 

5

SGG

TCA GGT GGT

 

5

SGG

TCA GGT GGC

 

6

SVA

TCA GTT GCT

 

7

SVT

TCA GTT ACT

 

8

SKG

TCA AAG GGT

 

9

SSG

TCA AGT GGT

 

Allele

Repeat motifs

24 AA family-specific region

K1 family Group1

DK1

3 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 2

3 1 1 1 1 1 1 1 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 3

3 1 1 1 1 1 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 4

3 1 1 1 1 1 1 1 1 1 1 1 3 1 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 5

3 1 1 1 1 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 6

3 1 1 1 1 1 1 1 1 1 1 3 1 3 1 3 1 1 1 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 7

3 1 1 1 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 8

3 1 1 1 1 1 1 1 2 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 9

3 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 10

3 1 1 1 1 1 1 2 2 2 2 2 2 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 11

3 1 1 1 1 3 1 3 1 3 1 1 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 12

3 1 1 1 1 3 1 3 1 3 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 13

3 1 1 1 1 3 1 3 1 3 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 14

3 1 1 1 2 1 2 1 2 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 15

3 1 1 1 2 1 2 1 2 1 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 16

3 1 1 1 3 1 1 1 3 1 1 1 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 17

3 1 1 1 3 1 1 3 1 1 3 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 18

3 1 1 2 1 2 1 2 1 2 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 19

3 1 1 2 1 2 1 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 20

3 1 1 2 1 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 21

3 1 2 1 2 1 2 1 1 1 1 2 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 22

3 1 2 1 2 1 2 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 23

3 1 2 1 2 1 2 1 2 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 24

3 1 2 1 2 1 2 1 2 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 25

3 1 2 1 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 26

3 1 2 1 2 2 2 2 2 2 2 2 2 2 2 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 27

3 1 3 1 3 1 1 1 1 1 1 1 1 1 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 28

3 3 1 1 1 1 1 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

K1 family Group2

DK 29

3 4 3 1 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 30

3 4 3 1 1 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 31

3 4 3 1 1 1 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 32

3 4 3 1 1 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 33

3 4 3 1 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 34

3 4 3 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 35

3 4 3 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 36

3 4 3 1 1 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 37

3 4 3 1 1 1 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 38

3 4 3 1 2 1 2 1 2 1 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 39

3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 40

3 4 3 1 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 41

3 4 3 1 3 1 2 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 42

3 4 3 1 3 1 3 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 43

3 4 3 1 3 1 3 1 1 1 1 1 1 1 1 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 44

3 4 3 1 3 1 3 1 1 1 1 1 1 2 1 1 2 1

SPSSRSNTLPRSNT L SGASPPADA

 

DK 45

3 4 3 1 3 1 3 1 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 46

3 4 3 1 3 1 3 1 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 47

3 4 3 1 3 1 3 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 48

3 4 3 1 3 1 3 1 1 2 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 49

3 4 3 1 3 4 3 4 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 50

3 4 3 1 7 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 51

3 4 3 4 3 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 52

3 4 3 4 3 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 53

3 4 3 4 3 1 1 1 1 1 1 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 54

3 4 3 4 3 1 1 1 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 55

3 4 3 4 3 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 56

3 4 3 4 3 1 1 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 57

3 4 3 4 3 1 2 1

SPSSRSNTLPRSNT L SGASPPADA

 

DK 58

3 4 3 4 3 1 2 1 2 1 2 2 2 1 2 2 2 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 59

3 4 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 60

3 4 3 4 3 1 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 61

3 4 3 4 3 1 3 1 3 1 3 1 3 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 62

3 4 3 4 3 4 3 1 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 63

3 4 3 4 3 4 3 1 1 1 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 64

3 4 3 4 3 4 3 1 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 65

3 4 3 4 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 66

3 4 3 4 3 4 3 1 2 2 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 67

3 4 3 4 3 4 3 1 3 1 1 1 1 1 2 1

SPSSRSNTLPRSNT L SGASPPADA SPPADA

 

DK 68

3 4 3 4 3 4 3 4 3 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 69

3 4 3 4 3 4 3 4 3 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 70

3 4 3 4 3 4 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 71

3 4 3 4 3 4 3 4 3 1 2 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 72

3 4 3 4 3 4 3 4 3 1 3 1 1 1 1 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 73

3 4 3 4 3 4 3 4 3 1 3 1 1 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 74

3 4 3 4 3 4 3 4 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 75

3 4 3 4 3 4 3 4 3 4 3 1 7 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 76

3 4 3 4 3 4 3 4 3 4 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

DK 77

3 4 3 4 3 4 3 4 3 4 3 4 3 4 3 4 3 1 2 2 1

SPSSRSNTLPRSNTSSGASPPADA

 

Allele

repeat motifs

13 AA family-specific region

MAD20 family Group1

DM1

5 6 5 5 6 5 5 6 5 5 6 5 5 6 5 5 6 5

SG -----------------NS

 

DM 2

5 6 5 5 6 5 5 6 5 5 6 5 5 6 5

SG -----------------NS

 

DM 3

5 6 5 5 6 5 5 6 5

SG -----------------NS

 

DM 4

5 6 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 5

5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 6

5 7 5 5 5 6 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 7

5 7 5 5 6 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 8

5 7 5 5 5 6 5 6 5 5 6 5

SGNSRRTNPSDNS

MAD20 family Group2

DM 9

8 5

SGNSRRTNPSDNS

 

DM 10

8 5 6 5 6 5 6 5 6 5 6 5 6 5 6 5 5 6 5

SGNSRRTNPSDNS

 

DM 11

8 5 6 5 5 6 5 5 6 5 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 12

8 5 6 5 5 5 6 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 13

8 5 6 5 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 14

8 5 6 6 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 15

8 5 6 5 5 6 6 5 6 6 5 6 5

SGNSRRTNPSDNS

 

DM 16

8 6 5 5 6 5 6 5 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 17

8 6 5 6 5 6 5 5 5 6 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 18

8 6 5 6 5 6 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 19

8 6 5 6 5 5 5 6 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 20

8 6 5 6 5 6 5 5 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 21

8 6 5 6 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 22

8 6 5 6 5 5 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 23

8 6 5 6 5 5 6 5 5 6 5 5 6 5

SGNSRRTNPSDNS

 

DM 24

8 6 5 5 6 5 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 25

8 6 5 6 5 6 5 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 26

8 6 5 5 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 27

8 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 28

8 6 5 6 5 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 29

8 6 9 6 5

SGNSRRTNPSDNS

 

DM 30

8 7 5 5 5 6 5 5 6 5 5 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 31

8 7 5 5 5 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 32

8 7 5 5 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 33

8 7 5 5 5 6 5 6 5 6 5 6 5 6 5

SGNSRRTNPSDNS

 

DM 34

8 7 5 5 6 5 5 6 5 5 6 5 6 5

SGNSRRTNPSDNS

RO33-family

 

mutation

sequence

 

RD0

 

KPADAVSTQSAKNPPGATVPSGTASTKGAIRSPGAANPSDDS

 

RD1

Q72E

KPADAVSTESAKNPPGATVPSGTASTKGAIRSPGAANPSDDS

 

RD2

K90N

KPADAVSTQSAKNPPGATVPSGTASTNGAIRSPGAANPSDDS

 

RD3

G91D

KPADAVSTQSAKNPPGATVPSGTASTKDAIRSPGAANPSDDS

 

RD4

G97D

KPADAVSTQSAKNPPGATVPSGTASTKGAIRSPDAANPSDDS

 

RD5

G97D/D104N

KPADAVSTQSAKNPPGATVPSGTASTKGAIRSPDAANPSDNS

Hybrids

Allele

MAD20 repeat motif

C-terminal specific region

 

DMR1

5 7 5 5 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMR 2

8 7 5 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMR 3

8 7 5 5 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMR 4

8 7 5 5 5 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMR 5

8 7 5 5 5 6 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMR 6

8 7 5 5 5 5 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMR 7

8 7 5 5 5 5 5 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMR 8

8 7 5 5 5 5 5 5 4

TVPSGTASTKGAIRSPDAANPSDNS

 

DMRK

8 7 5 5 5 5 4

TVPSGTASTKGAIRSPDAASPPADA

  1. Codes for K1- and Mad20-types tripeptide repeats together with the nucleotide sequence are as proposed in [9, 12]. Sequence of the K1-type alleles are grouped as mentioned in the text based on the 5' di-motif and the presence of motif 4 and 7. Sequence of the Mad20-type alleles are grouped as mentioned in the text based on the 5' motifs.
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