Diversity of the var gene family of Indonesian Plasmodium falciparum isolates

Sulistyaningsih, Erma; Fitri, Loeki E; Löscher, Thomas; Berens-Riha, Nicole

doi:10.1186/1475-2875-12-80

Malaria Journal

Table 2 Amino acid sequence similarities of DBL1α in Indonesian isolates compared to sequences from other countries

From: Diversity of the var gene family of Indonesian Plasmodium falciparum isolates

	Pap1	Pap2	Pap3	Kal1	Kal2	Kal3	Kal4	Kal5	Kenya	Gabon	India	PNG-1	PNG-2	Philippines	Solomon	Amazonas
Pap1	48.5 ± 6.4	48.4 ± 6.6	48.6 ± 6.3	48.5 ± 6.1	48.4 ± 6.2	48.3 ± 6.3	48.9 ± 6.6	48.1 ± 6.7	47.3 ± 6.1	54.6 ± 6.7	50.8 ± 14.0	52.7 ± 4.3	55.4 ± 8.6	48.2 ± 11.8	46.7 ± 9.4	44.2 ± 4.0	Pap1
Pap2	0	48.5 ± 6.4	48.6 ± 6.7	48.4 ± 6.2	48.2 ± 6.6	47.9 ± 6.9	49.0 ± 7.0	47.8 ± 7.3	48.4 ± 4.1	54.8 ± 4.5	48.4 ± 2.5	50.1 ± 2.0	53.6 ± 3.8	45.1 ± 6.0	45.4 ± 6.1	45.2 ± 5.1	Pap2
Pap3	0	1	48.9 ± 6.3	48.6 ± 5.9	48.6 ± 6.1	48.6 ± 6.2	49.2 ± 6.6	48.2 ± 6.8	47.0 ± 3.8	53.9 ± 6.9	47.8 ± 11.6	51.6 ± 2.7	52.9 ± 6.4	52.8 ± 16.6	55.9 ± 22.4	44.9 ± 7.5	Pap3
Kal1	0	0	0	48.5 ± 5.7	48.4 ± 5.7	48.3 ± 5.6	49.0 ± 6.3	48.1 ± 6.3	49.4 ± 8.1	51.0 ± 5.1	44.5 ± 3.4	50.1 ± 2.2	53.7 ± 4.8	42.1 ± 3.8	41.9 ± 3.9	44.7 ± 6.4	Kal1
Kal2	0	0	0	0	48.3 ± 5.9	48.1 ± 5.8	49.1 ± 6.5	47.8 ± 6.6	47.3 ± 4.5	54.0 ± 3.6	47.5 ± 5.8	49.5 ± 3.3	55.6 ± 5.8	44.3 ± 8.4	44.1 ± 7.0	43.1 ± 5.9	Kal2
Kal3	0	0	0	0	0	46.9 ± 5.5	49.2 ± 6.7	47.3 ± 7.0	52.4 ± 3.1	54.6 ± 5.5	51.1 ± 2.6	53.5 ± 4.2	48.4 ± 2.6	49.0 ± 1.6	48.9 ± 0.9	53.6 ± 8.4	Kal3
Kal4	0	0	0	0	0	0	49.4 ± 6.8	48.7 ± 7.1	51.2 ± 3.0	52.0 ± 3.3	47.8 ± 3.1	51.0 ± 4.4	54.5 ± 4.2	47.7 ± 6.9	47.9 ± 7.7	46.3 ± 2.8	Kal4
Kal5	0	0	0	1	0	0	2	47.4 ± 7.4	47.6 ± 3.4	55.1 ± 5.5	48.0 ± 4.5	52.1 ± 2.6	549 ± 7.0	44.3 ± 3.1	44.7 ± 3.2	48.7 ± 12.9	Kal5
Kenya	0	0	0	0	0	0	0	0	***	41.1	44.2	51.9	44.2	46.5	46.5	43.4	Kenya
Gabon	0	0	0	0	0	0	0	0		***	60.6	52,0	63.8	44.9	44.9	38.6	Gabon
India	1	0	0	0	0	0	0	0			***	48.3	61.7	44.2	45	40.8	India
PNG-1	0	0	0	0	0	0	0	0				***	52.9	44.8	44.5	44.5	PNG-1
PNG-2	0	0	0	0	0	0	0	0					***	40.4	37.5	37.5	PNG-2
Philippines	0	0	0	0	0	0	0	0						***	75,0	51.7	Philippines
Solomon	0	0	1	0	0	0	0	0							***	50.9	Solomon
Amazonas	0	0	0	0	0	0	0	0								***	Amazonas
	Pap1	Pap2	Pap3	Kal1	Kal2	Kal3	Kal4	Kal5	Kenya	Gabon	India	PNG-1	PNG-2	Philippines	Solomon	Amazonas
	Pap1	Pap2	Pap3	Kal1	Kal2	Kal3	Kal4	Kal5	Kenya	Gabon	India	PNG-1	PNG-2	Philippines	Solomon	Amazonas
Pap1	48.5 ± 6.4	48.4 ± 6.6	48.6 ± 6.3	48.5 ± 6.1	48.4 ± 6.2	48.3 ± 6.3	48.9 ± 6.6	48.1 ± 6.7	47.3 ± 6.1	54.6 ± 6.7	50.8 ± 14.0	52.7 ± 4.3	55.4 ± 8.6	48.2 ± 11.8	46.7 ± 9.4	44.2 ± 4.0	Pap1
Pap2	0	48.5 ± 6.4	48.6 ± 6.7	48.4 ± 6.2	48.2 ± 6.6	47.9 ± 6.9	49.0 ± 7.0	47.8 ± 7.3	48.4 ± 4.1	54.8 ± 4.5	48.4 ± 2.5	50.1 ± 2.0	53.6 ± 3.8	45.1 ± 6.0	45.4 ± 6.1	45.2 ± 5.1	Pap2
Pap3	0	1	48.9 ± 6.3	48.6 ± 5.9	48.6 ± 6.1	48.6 ± 6.2	49.2 ± 6.6	48.2 ± 6.8	47.0 ± 3.8	53.9 ± 6.9	47.8 ± 11.6	51.6 ± 2.7	52.9 ± 6.4	52.8 ± 16.6	55.9 ± 22.4	44.9 ± 7.5	Pap3
Kal1	0	0	0	48.5 ± 5.7	48.4 ± 5.7	48.3 ± 5.6	49.0 ± 6.3	48.1 ± 6.3	49.4 ± 8.1	51.0 ± 5.1	44.5 ± 3.4	50.1 ± 2.2	53.7 ± 4.8	42.1 ± 3.8	41.9 ± 3.9	44.7 ± 6.4	Kal1
Kal2	0	0	0	0	48.3 ± 5.9	48.1 ± 5.8	49.1 ± 6.5	47.8 ± 6.6	47.3 ± 4.5	54.0 ± 3.6	47.5 ± 5.8	49.5 ± 3.3	55.6 ± 5.8	44.3 ± 8.4	44.1 ± 7.0	43.1 ± 5.9	Kal2
Kal3	0	0	0	0	0	46.9 ± 5.5	49.2 ± 6.7	47.3 ± 7.0	52.4 ± 3.1	54.6 ± 5.5	51.1 ± 2.6	53.5 ± 4.2	48.4 ± 2.6	49.0 ± 1.6	48.9 ± 0.9	53.6 ± 8.4	Kal3
Kal4	0	0	0	0	0	0	49.4 ± 6.8	48.7 ± 7.1	51.2 ± 3.0	52.0 ± 3.3	47.8 ± 3.1	51.0 ± 4.4	54.5 ± 4.2	47.7 ± 6.9	47.9 ± 7.7	46.3 ± 2.8	Kal4
Kal5	0	0	0	1	0	0	2	47.4 ± 7.4	47.6 ± 3.4	55.1 ± 5.5	48.0 ± 4.5	52.1 ± 2.6	549 ± 7.0	44.3 ± 3.1	44.7 ± 3.2	48.7 ± 12.9	Kal5
Kenya									-	41.1	44.2	51.9	44.2	46.5	46.5	43.4	Kenya
Gabon										-	60.6	52,0	63.8	44.9	44.9	38.6	Gabon
India											-	48.3	61.7	44.2	45	40.8	India
PNG-1												-	52.9	44.8	44.5	44.5	PNG-1
PNG-2													-	40.4	37.5	37.5	PNG-2
Philippines														-	75,0	51.7	Philippines
Solomon															-	50.9	Solomon
Amazonas																-	Amazonas
	Pap1	Pap2	Pap3	Kal1	Kal2	Kal3	Kal4	Kal5	Kenya	Gabon	India	PNG-1	PNG-2	Philippines	Solomon	Amazonas

The table shows in the right upper half means and standard deviations of similarities of pair wise alignments of sequences. All sequences identified per parasite are compared against each other. Several polypeptide sequences from other areas were selected for comparison. The bold numbers in the diagonal show the intra-parasite sequence similarities in the Indonesian samples. In the upper left side, the number of shared sequences (>95% similarity) between the parasite lines are presented. (Accession numbers for sequences used: India: AF404253; Solomon Islands: AY054815; Kenya-Kilifi: AM115931; Papua New Guinea, Madang, Amele (PNG-1): DQ134266; Papua New Guinea (PNG-2): EU787882; Gabon-Bakoumba: DQ135170; Philippines: AY054892).

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ISSN: 1475-2875

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