Whole genome sequencing of a natural recombinant Toxoplasma gondiistrain reveals chromosome sorting and local allelic variants

Table 3 Genes with more than two novel SNPs in the coding region of TgCkUg2

Gene ID (v4.3)*		Novel SNPs in TgCkUg2		SNPs between the three lineages^†
	Number	Synonymous	Non-synonymous	Synonymous	Non-synonymous	Protein description
641.m01562	IV	1	1	12	86	SRS16B
641.m02553	IV	1	1	6	1	WD-40 repeat protein, putative
49.m03276	VI	1	1	0	4	ROP29
49.m03279	VI	2	8	1	13	Hypothetical
49.m03372	VI	1	1	13	3	Long chain fatty acid CoA ligase
55.m04829	VIIb	1	3	1	2	SRS26A
44.m02583	VIII	0	2	9	11	Hypothetical
44.m05903	VIII	0	2	7	8	Hypothetical
57.m01765	IX	0	2	143	231	Protein kinase domain containing
2.m00067	IX	3	7	0	0	Hypothetical
57.m01732	IX	0	2	7	8	Hypothetical
80.m02252	IX	1	1	4	2	Phosphoenolpyruvate carboxykinase, putative
42.m07434	X	0	2	0	0	Hypothetical
551.m00238	XII	3	6	8	44	ROP5
65.m00001	XII	4	0	9	6	NTPase I

*Since the comparison was made against the annotation of Me49 in v4.3 of ToxoDB, these gene IDs are used throughout. These remain searchable in the current annotation (v 5.0). ^†Data from ToxoDB showing the total number of SNPs between GT1, Me49 and VEG, in order to put the number of novel SNPs into context.

ISSN: 1474-760X