Table 1.

Genomic locations of observed large deletions in AA1SA isolates

Coordinates	Size (BP)	Genes affected	Corresponding RD	RD coordinates	Presence	Notes
2128380–2129581	1202	glnA3, Rv1879 (glutamine synthesis)	163	2127981–2128972	AA1SA, AA1	Additional mutations were found in other genes involved in glutamine synthesis (glnE ACG278ACA and glnA2 CTG117TTG) in all AA1SA strains
2090364–2090443	81	Rv1841c	–	–	AA1SA	Non-essential conserved hypothetical membrane protein
2263779–2266164	2385	Rv2016–Rv2019	175a	2263448–2263637	AA1SA, some AA1	Rv2016, Rv2018 and Rv2019 are non-essential, conserved hypothetical proteins. Rv2017 is a transcriptional regulator, and essential for in vitro growth [43].

BP base pairs, RD Region of Difference; from Tsolaki et al. [44]