Table 2.

Summary of known non-synonymous chromosomal point mutations conferring AMR

Protein	Substitution	Clade distribution*						Comment
		C1	C2	C3	C4	C5	Cryptic
Fluoroquinolone resistance
GyrA	Val43Asp	○	○	○	○	○	○	Absent in this dataset
	Asp71Val	●	○	○	●	○	○	Found in <10 strains in this dataset
	Asp81Asn	●	○	○	○	○	○	Found in <10 strains in this dataset
	Thr82Ile	●	●	●	●	●	○	Most common substitution
	Thr82Val	●	○	○	○	●	○	Found in <10 strains in this dataset
	Ala118Thr	●	○	○	○	●	○	Found in <10 strains in this dataset
	Ala384Asp	●	○	○	○	○	○	Found in <10 strains in this dataset
GyrB	Arg377Gly	○	○	○	○	○	○	Absent in this dataset
	Asp426Asn	●	●	○	●	○	○	Most common substitution
	Asp426Val	●	○	○	●	○	○	Mostly found in clade 4 C . difficile
	Arg447Lys	●	●	○	○	●	○
	Glu466Val	○	○	○	○	●	○	Found in <10 strains in this dataset
Rifamycin resistance
RpoB	Asp492Asn	○	○	○	○	○	○	Absent in this dataset
	Asp492Val	○	○	○	○	○	○	Absent in this dataset
	His502Asn	●	●	○	●	○	○
	His502Arg	○	○	○	○	○	○	Absent in this dataset
	His502Leu	○	○	○	○	○	○	Absent in this dataset
	His502Tyr	●	○	○	○	○	○	Found in <10 strains in this dataset
	Arg505Lys	●	●	●	●	●	○	Most common substitution
	Ser550Phe	●	●	○	○	●	○	Found in <10 strains in this dataset
	Ser550Tyr	●	●	○	●	○	○	Found in <10 strains in this dataset
Fidaxomicin resistance
RpoB	Gln1073Arg	○	○	○	○	○	○	Absent in this dataset
Carbapenem resistance
Pbp1	Leu543His	●	○	○	○	○	○
	Ala555Thr	●	●	○	●	●	○	Most common substitution
Pbp3	Tyr721Ser	●	○	○	●	○	○

*Based on significant findings in this study. Solid circles refer to the presence of the substitution in the clade.