Single-cell sequencing of the small and AT-skewed genome of malaria parasites

Table 1 Pre-sequencing quality control by droplet digital PCR

Result	Sample type	MALBAC type	Sample name (#)	Pre-sequencing ddPCR assessment
Result	Sample type	MALBAC type	Sample name (#)	Uniformity score AVG (SD)*	Pfmdr1 CN AVG (SD)
Sequenced	Single cell	Optimized	EOM (13)	248 (202)	2.6 (0.8)
			LOM (10)	118 (69)	2.2 (1.3)
			COM (2)	369 (–)	1.9 (0.8)
		Non-optimized	ENM (1)	18519 (–)	0.2 (–)
		Non-optimized	LNM (1)	13121 (–)	0.1 (–)
	Bulk	N/A	Dd2_bulk (1)	30	2.7
	Bulk	N/A	Clinical_bulk (1)	–	–
Not sequenced	Single cell	Optimized	EOM (4)	1012 (195)	3.7 (3.9)
			LOM (4)	775 (683)	2.8 (2.1)
			COM (2)	–^ (–)	4.7 (6.6)
		Non- optimized	ENM (2)	13689 (–)	0 (–)
		Non- optimized	LNM (3)	1578 (–)	0.1 (0.1)

EOM early-stage single parasites amplified by optimized MALBAC, LOM late-stage single parasites amplified by optimized MALBAC, COM clinical single parasites amplified by optimized MALBAC, ENM early-stage single parasites amplified by non-optimized MALBAC, LNM late-stage single parasites amplified by non-optimized MALBAC, AVG average, SD standard deviation
*Uniformity scores were calculated when all of the six genes were detected by ddPCR in the sample
^Due to the lack of ddPCR detection of some genes in COM samples, the uniformity score could not be calculated. (–) Indicates only one sample was included in the calculation

ISSN: 1756-994X