Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential

Table 1 The PfSPZ strains differ from the 3D7 in genome size and sequence. Characteristics of the Pacio assembly for each strain (first four columns), with the Pf 3D7 reference genome shown for comparison (italics). Single nucleotide polymorphisms (SNPs) and indels in each PfSPZ assembly as compared to 3D7, both genome-wide (All) or restricted to the core genome

Strain	# of nuclear contigs¹	Cumulative length²	N50³	SNPs		Indels
Strain	# of nuclear contigs¹	Cumulative length²	N50³	All	Core⁴	All	Core⁴
3D7	14	23,332,831	1,687,656	–	–	–	–
NF54	28	23,404,633	1,527,116	1383	816	8396	7848
7G8	20	22,807,193	1,455,033	43,859	23,980	47,398	44,059
NF166.C8	30	23,281,895	1,610,926	51,011	25,925	47,259	43,335
NF135.C10	21	23,508,985	1,631,396	53,467	24,966	48,464	43,969

¹Contigs: number of pieces of continuous sequence in the final assembly
²Cumulative length: total length of the contigs
³N50: length of the contig which, along with all contigs larger than itself, contain 50% of the assembly (larger numbers indicate a more complete assembly)
⁴Core genome as defined in [32]

ISSN: 1756-994X