Differences in PfEMP1s recognized by antibodies from patients with uncomplicated or severe malaria

Duffy, Michael F.; Noviyanti, Rintis; Tsuboi, Takafumi; Feng, Zhi-Ping; Trianty, Leily; Sebayang, Boni F.; Takashima, Eizo; Sumardy, Fransisca; Lampah, Daniel A.; Turner, Louise; Lavstsen, Thomas; Fowkes, Freya J. I.; Siba, Peter; Rogerson, Stephen J.; Theander, Thor G.; Marfurt, Jutta; Price, Ric N.; Anstey, Nicholas M.; Brown, Graham V.; Papenfuss, Anthony T.

doi:10.1186/s12936-016-1296-4

Malaria Journal

Table 1 var sequences transcribed by parasites infecting a Papua New Guinean cerebral malaria patient

From: Differences in PfEMP1s recognized by antibodies from patients with uncomplicated or severe malaria

var Homologs^{a, b}	Notes	RPK^c	Contig bp	Homology bp	E value	% Identity
CIDRα2.4_D3_MAL7P1.55		7384	425	131	5.44E−34	84
DBLδ1_D4_ighvar31_CIDRγ9_D5_ighvar35		5174	1553	133, 410	2.52E−32, 1E−100	82.7, 79
DBLδ9_D5_PFCLINvar74		4369	583	303	1.05E−44	76.2
DBLδ5_D6_Dd2var4	DC5 ELISA protein 2	4227	273	219	1.19E−52	80.4
DBLγ6_D3_DD2var47–DBLγ2_D5_DD2var42	DC8 ELISA protein 4	4130	1807	190, 488	2.57E−58, 6.86E−148	86.3, 85
DBLβ6_D5_igh_var27		3562	395	258	3.17E−68	81.8
DBLε1_D6_PFCLINvar76	var1csa	3340	1025	429	0	100
CIDRα3.1_D3_DD2var50		2973	550	86.1	3.24E−57	86.1
DBLδ5_D6_Dd2var4	DC5 ELISA protein 2	2891	156	123	7.29E−46	92.7
CIDRβ1_D8_HB3var1		2814	650	161	7.44E−41	82.6
CIDRα3.1 pf08–0106–DBLδ5_D5_igh_var30		2302	883	167, 310	1.51E−38, 7.32E−68	85.6, 80.6
DBLγ15_D5_PFCLINvar76 (var1csa)		2199	246	230	2.56E−117	100
DBLγ17_D4_DD2var43–DBLδ5_D5_HB3var2	DC5	2153	626	192, 250	4.51E−56, 4.23E−31	87.5, 73.6
NTSB3_D1_igh_var31–DBLα0.11_D2_AAB60251	ELISA protein 6	2085	189	93, 80	1.03E−19, 1.03E−19	81.7, 85
DBLγ10_D5_HB3var34	DC17,21,22	1994	344	193	2.94E−74	91.7
CIDRβ1_D7_raj116_var11	DC8	1980	606	408	1.98E−60	73.8
DBLβ1_D4_igh_var19	DC8	1935	402	344	1.29E−98	83.7
DBLδ1_D4_HB3var50		1911	302	229	3.32E−60	82.1
DBLδ1_D4_IT4var39		1894	216	203	2.31E−41	76.4
DBLβ6_D4_igh_var9		1883	437	251	3.1E−75	85.3
DBLα0.15_D2_raj116_var34	ELISA protein 6	1871	132	125	6.84E−39	87.2
DBLδ1_D4_IT4var46–DBLγ4_D5_raj116_var11		1867	1461	115, 258	4.57E−35, 3.5E−106	87.8, 84.1
DBLα0.1_D2_HB3var30		1846	338	215	5.37E−43	82.8
DBLγ6_D5_IT4var32b	DC8	1833	307	178	1.45E−49	83.7
DBLγ13_D5_HB3var21		1822	828	402	1.09E−114	90.7
CIDRβ4_dd2var22–DBLβ3_D4_HB3var3	DC5-multi domain contig	1819	1152	707, 339	3.35E−86, 1.34E−59	70.9, 75.2
CIDRα2.9_D3_raj116_var14 –DBLδ1_D6_IT4var32b		1741	534	43, 196	1.83E−15, 9.49E−32	100, 76
DBLα0.19_D2_Itvar66-CIDRα2.4_D3_raj116_var29		1729	410	96, 279	3.33E−36, 2.73E−56	93.8, 79.2
DBLδ1_D4_igh_var20		1724	480	237	5.43E−57	79.7
DBLδ1_D4_IT4var47		1714	263	172	3.28E−46	83.7
DBLδ1_D4_igh_var18		1696	289	227	2.78E−48	82.8
DBLδ1_D4_PFD1005c		1649	191	191	5.39E−36	76.9
DBLβ7_D8_Dd2var4	DC5 ELISA proteins 1 & 3	1644	859	793	1.46E−152	78.6
DBLγ10_D4_PFCLINvar71	ELISA protein 5	1587	511	204	2.3E−71	89.2
DBLβ5_D4_IT4var16-DBLδ1_D4_raj116_var32		1579	447	135, 62	5.743E−53, 1.11E−17	93.3, 90.3
DBLδ1_D4_raj116_var29		1573	309	297	2.3E−43	73.4
DBLβ12_D4_raj116_var11–DBLγ11_D4_raj116_var17		1534	712	215, 178	7.05E−47, 1.45E−36	79.5, 80.3
DBLβ11_D4_IT4var35–DBLγ3_D7_HB3var4		1520	931	163, 131	3.27E−65, 3.5E−33	93.3, 83.2
DBLε3_D8_raj116_var29		1508	179	60	3.63E−25	100
DBLδ1_D7_IT4var22		1454	388	351	6.02E−52	74.1
DBLδ1_D5_igh_var5		1438	281	287	1.07E−40	70.5
DBLβ3_D4_AAQ73927–DBLγ4_D5_raj116_var8		1428	458	171, 184	8.18E−45, 2.2E−39	83, 79.9
DBLε10_D8_IT4var4		1392	442	138	3.35E−43	87.7
DBLδ1_D4_PFCLINvar28 (var2csa)		1378	506	138	9.7E−51	91.3
DBLγ8_D7_PFCLINvar76 (var1csa)		1377	244	200	1.05E−71	92
DBLγ11_D5_DD2var52–DBLδ1_D4_PFCLINvar36		1351	910	322, 84	3.21E−47, 1.12E−27	73.6, 91.7
DBLα1.6_D2_DD2var22		1320	111	102	1.7E−26	84.3
DBLα0.15_D2_HB3var18		1298	352	306	1.28E−53	77.8
CIDRβ1_D8_IT4var22		1297	431	224	9.97E−69	89.7
CIDRα1.5_D3_ighvar30–DBLβ7_D7_PFCLINvar69	EPCR binding	1283	2183	(31, 42, 66), 681	(1.06E−3, 3.7E−3, 1.21E−15), 1.33E−110	(87.1, 90.5, 98.5), 73.6

Shown are the 50 highest-ranked transcripts
^aThe domains that were expressed for analysis by ELISA are in italics
^bDomain annotation is as per [4]: domain subtype_domain (D) position within the PfEMP1 numbered from the most N terminal DBL/CIDR domain_P. falciparum isolate name var gene name
^cThe transcripts are ordered by coverage [reads mapped per kb assembled transcript (rpk)]

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ISSN: 1475-2875

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