Table 1.
C. difficile ST1 isolates collected from a healthcare network in northern Arizona
|
Isolation date (YYYY-MM-DD) |
SRA accession |
Sequence type |
In silico genome screen for markers of interest |
|||||||||
|
Isolate name |
Lineage 1 |
tcdA/tcdB 2 |
tcdC 3 |
cdtA/cdtB 2 |
gyrA:82 4 |
TetM 5 |
ErmB 5 |
CdeA 5 |
DfrF 5 |
|||
|
HS-FS-000016-I-01 |
2016-04-20 |
SRR6890740 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+ / + |
I |
– |
+ |
+ |
– |
|
HS-FS-000023-I-01 |
2016-04-09 |
SRR6890728 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/ + |
I |
– |
+ |
+ |
– |
|
HS-FS-000030-I-01 |
2016-04-05 |
SRR6890724 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
+ |
+ |
– |
|
HS-FS-000082-I-02 |
2016-10-22 |
SRR6890738 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
+ |
+ |
+ |
+ |
|
HS-FS-000084-I-02 |
2016-10-30 |
SRR6890739 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
+ |
+ |
– |
|
HS-FS-000103-I-02 |
2016-11-15 |
SRR6890736 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
+ |
+ |
– |
|
HS-FS-000127-I-03 |
2016-12-03 |
SRR6890737 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
+ |
+ |
– |
|
HS-FS-000148-I-02 |
2016-12-12 |
SRR6890734 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
+ |
+ |
– |
|
HS-FS-000151-I-02 |
2016-12-08 |
SRR6890735 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
+6 |
+ |
– |
|
HS-FS-000173-I-03 |
2017-01-03 |
SRR6890732 |
ST1 |
FQR1 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
+ |
+ |
– |
|
HS-FS-000020-I-01 |
2016-04-25 |
SRR6890741 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000021-I-01 |
2016-04-27 |
SRR6890730 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000022-I-01 |
2016-04-20 |
SRR6890731 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000024-I-01 |
2016-04-09 |
SRR6890729 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000025-I-01 |
2016-03-29 |
SRR6890726 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000031-I-01 |
2016-03-26 |
SRR6890725 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000034-I-02 |
2016-05-04 |
SRR6890722 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000043-I-01 |
2016-05-31 |
SRR6890723 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000057-I-02 |
2016-07-09 |
SRR6890747 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000091-I-02 |
2016-09-16 |
SRR6890746 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000188-I-02 |
2017-01-11 |
SRR6890733 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000251-I-02 |
2017-05-30 |
SRR6890745 |
ST1 |
FQR2 |
A+/B+ |
Identical to CD196 |
+/+ |
I |
– |
– |
+ |
– |
|
HS-FS-000027-I-01 |
2016-04-29 |
SRR6890727 |
ST1 |
A+/B+ |
Identical to CD196 |
+/+ |
T |
– |
– |
+ |
– |
|
|
HS-FS-000194-I-03 |
2017-02-05 |
SRR8166226 |
ST1 |
A+/B+ |
Identical to CD196 |
+/+ |
T |
– |
– |
+ |
– |
|
|
HS-FS-000264-I-02 |
2017-07-29 |
SRR6890744 |
ST1 |
A+/B+ |
Identical to CD196 |
+/+ |
T |
– |
– |
+ |
– |
|
|
HS-FS-000287-I-02 |
2017-08-30 |
SRR6890743 |
ST1 |
A+/B+ |
Identical to CD196 |
+/+ |
T |
– |
– |
+ |
– |
|
|
HS-FS-000292-I-03 |
2017-09-06 |
SRR6890742 |
ST1 |
A+/B+ |
Identical to CD196 |
+/+ |
T |
– |
– |
+ |
– |
|
1, Lineages defined in He et al. 2013. 2, present if BSR value >0.8. 3, BSR value=1. 4, GyrA mutation inferring fluoroquinolone resistance: I=resistant and T=susceptible. 5, present if BSR value >0.9. 6, two putative copies.