Design of a variant surface antigen-supplemented microarray chip for whole transcriptome analysis of multiple Plasmodium falciparum cytoadherent strains, and identification of strain-transcendent rif and stevor genes

Table 2 Summary of strain-transcendent Rifins found in at least three out of 3D7, HB3, Dd2 and IT

3D7		HB3	Dd2	IT	Pairwise alignment score¹
Gene ID	Found in F.I.²	Gene ID	Gene ID	Gene ID	3D7- HB3	3D7- Dd2	HB3- Dd2	IT- 3D7	IT- HB3	IT- Dd2
RifA2_PFD0070c		HB3rifA2_025	Dd2rifA2_p126³	IT4rifA2_125	92	83	85
/		HB3rifB1_050	Dd2rifB1_027	IT4rifB_114			100		100	100
RifB_MAL13P1.495		HB3rifB_t022⁴	Dd2rifB_t038	IT4rifB_111	94	94	99	100	99	100
RifB_PFE1630w	yes	HB3rifB_079	Dd2rifB_081	/	99	85	87
RifA_PFL2585c	yes	HB3rifA_098		IT4rifA_031	99			96	99
RifA_PFD0645w		/	Dd2rifA_086	IT4rifA_021		98		94		95
RifA_p_PFD1020c	yes	HB3rifA_p112	/	IT4rifA_050	97			90	98
/	yes	HB3rifA_051	Dd2rifA_p100	IT4rifA_052			99		100	98
RifB_p_PFA0710c	yes	HB3rifB_p116	Dd2rifB_p111	IT4rifB_104	97	98	99	98	99	98
RifA_PFE1635w	yes	HB3rifA_p115	Dd2rifA_p107	IT4rifA_p084	98	94	95	86	86	92
RifA_p_t_PFD0134c		HB3rifA_p101	/	IT4rifA_t072	100			95	90
RifA_p_PF11_0022		/	Dd2rifA_p112	IT4rifA_p087		98		86		87
RifA_p_MAL7P1.52		/	Dd2rifA_p098	IT4rifA_p088		91		97		96

¹Rifins with >90% amino acid identity between at least one pair of strains plus >80% amino acid identity between at least 2 other pairs of strains are shown.
²F.I: Brazilian field isolates [45]
³p=pseudogene: one or more stop codons or frameshifts within the sequence.
⁴t=truncated gene:part of the gene sequence is missing, possibly due to incomplete sequencing.

ISSN: 1475-2875