Quantitative genome re-sequencing defines multiple mutations conferring chloroquine resistance in rodent malaria

BMC Genomics

Table 1 Phenotype and Genotype of Selected Clones of the AS P.chabaudi Lineage

		gene abbreviation, chromosome, residue
		dhfr ¹		aat1 ¹	031370²		cir ¹	ubp1 ¹	101550²
		chr07		chr11	chr03		chr03	chr02	chr10	chr14	chr07	chr05
		106		173	102	719	707	2728	162	intergenic	intergenic
Clone or Strain	PYR response		CQ response
AJ	Sensitive	S	Sensitive	A	I	T	T	V	Y	wt	wt	wt
AS-sens	Sensitive	S	Sensitive	A	I	T	T	V	Y	wt	wt	wt
AS-PYR	Resistant	N	Sensitive	A	I	T	T	V	Y	mut	34 bp deletion	wt
AS-3CQ	Resistant	N	Resistant	E	I	T	T	V	Y	mut	34 bp deletion	> 1 kbp deletion
AS-15CQ	this line is uncloned ³ ³
AS30CQ	Resistant	N	Hi-Resistant	E	I	N	N	F	H	mut	34 bp deletion	> 1 kbp deletion
AS-15MF⁴	Resistant	N	Resistant	E	del⁴	T	T	F	Y	mut	34 bp deletion	> 1 kbp deletion

The pyrimethamine (PYR) and CQ responses of clones of the AS lineage are shown along with all mutations detected in AS-30CQ (and other clones) relative to AS-sens. ¹ dhfr, dihydrofolate reductase; aat, aminoacid transporter; cir, chabaudi interspersed repeat; ubp, ubiquitin specific protease (de-ubiquitinating enzyme). ² Refers to genes PCHAS_031370 or PCHAS_101550. ³ mixed genotype and phenotype, see Additional File 1. ⁴ Note that AS-15MF carries an alternative allele of PCHAS_031370, namely I102del. Single-letter amino acid code used: A, alanine; E, glutamate; F, phenylalanine; H, histidine; I, isoleucine; N, asparagine; S, serine; T, threonine; V, valine; Y, tyrosine; del, codon deleted.

ISSN: 1471-2164