Table 1.

Details of primers used in Southern blot analysis and Digital Droplet PCR (ddPCR)

Method	Probe Name	PlasmoDB Gene ID	Gene Name	Chr	CN	Sequence
Southern blot	dhodh amplicon	PF3D7_ 0603300	dihydroorotate dehydrogenase	6	Multi	F‐ TTGGTACCATAACCCCAAGG R‐ CCCTCCTGATGCAATAATGG
	Chr. 6 single copy gene	PF3D7_ 0,603,800	centrosomal protein CEP76, putative	6	Single	F‐ TGGGGGTCTTCTTCATCTTG R‐ ATACGTTCGTCGGATTTCCA
	Chr. 7 single copy gene	PF3D7_ 07177700	seryl‐tRNA synthetase	7	Single	F‐ TGCCGAACTTGATGACTTTG R‐ TGCGTTGTTTAAAGCTCCTG
	Chr. 11 single copy gene	PF3D7_ 1132900	H protein	11	Single	F‐ AAGTGCTTCTTCCCAGTTGTG R‐ CCCTTGCCCTTTATTTTCAA
ddPCR	dhodh amplicon	PF3D7_ 0603300	dihydroorotate dehydrogenase	6	Multi	F‐ TCCATTCGGTGTTGCTGCAGGATTT GAT a R‐TCTGTAACTTTGTCACAACCCATATT A a P:56FAM/CATTATTGCATCAGGAGGGA/MGBNFQ
	Chr. 7 Single copy gene	PF3D7_ 0717700	seryl‐tRNA synthetase	7	Single	F‐ GGAACAATTCTGTATTGCTTTACC a R‐ AAGCTGCGTTGTTTAAAGCTC a P:VIC/ACATGAAGAAATGATACAAACA/3MGBEc
	Chr. 8 single copy gene	PF3D7_0831700	heat shock protein 70‐X	8	Single	F‐ GAATCGGTTTGTGCTCCAAT b R‐ CAACTGTTGGTCCACTTCCA b P:5HEX/AGCAGGAATGCCAGGAA/3MGBEc
	mt‐cyb	mal_mito_3	cytochrome b	Mit	Multi	F‐ AGCAAGTCGATATACACCAGATG R‐ CAAGAGAAGCACCTGTTGCG P:56FAM/AAGAGAATTATGGAGTGGATGGTGTTT/3MGBEc

Chr, chromosome; CN, relative copy number; F‐, forward primer; P‐, probe; R‐, reverse primer.

^aOriginal primer reference (Guler et al., 2013).

^bOriginal primer reference (Ngwa et al., 2013).