Exploration of Plasmodium vivax transmission dynamics and recurrent infections in the Peruvian Amazon using whole genome sequencing

Table 2 Pairwise comparison between samples obtained from the same subject at the time of initial infection and at the time of recurrent parasitemia

Initial infection	Recurrent parasitemia	Segregating sites	Core genome identical by descent (%)	Microsatellites (concordant/typed)
PQPC-029-0	PQPC-029-84	137	98.6	6/6
PQPC-035-0	PQPC-035-83	561	4.6	3/6
PQPC-047-0	PQPC-047-43	566	5.6	1/6
PQPC-071-0	PQPC-071-105	560	6.8	1/6
PQPC-088-0	PQPC-088-91	272	98.1	5/6
PQPC-113-0	PQPC-113-76	72	99.3	6/6
PQPC-117-0	PQPC-117-52	385	2.3	1/4
PQPC-125-0	PQPC-125-80	134	98.7	6/6
PQPC-128-0	PQPC-128-87	392	98.1	6/6
PQPC-135-0	PQPC-135-120	262	99.3	6/6
PQPC-139-0	PQPC-139-121	111	99.3	2/3
PQSC-013-0	PQSC-013-52	337	9.7	2/6
PQSC-042-0	PQSC-042-134	347	52.0	2/6
PQSC-058-0	PQSC-058-30	66	99.4	6/6
PQSC-105-0	PQSC-105-32	381	25.8	6/6
PQSJ-058-0	PQSJ-058-40	516	8.2	2/6
PQSJ-122-0	PQSJ-122-144	61	100	0/6
PQSJ-171-0	PQSJ-171-129	218	99.3	6/6
PQSJ-190-0	PQSJ-190-98	117	99.7	5/6
PQSJ-199-0	PQSJ-199-56	559	41.2	4/6
PQSJ-202-0	PQSJ-202-100	269	99.0	6/6
PQSJ-284-0	PQSJ-284-71	171	99.4	6/6
PQSJ-294-0	PQSJ-294-73	200	100	6/6

The mean number of segregating sites for all 69 samples included in the study was 489. We identified 12 pairs that are most likely to be homologous relapses, based on the mean number of segregating sites minus 1.5 standard deviations (< 290) and core genome IBD ≥ 99%, which are italicized

ISSN: 1756-994X