Table 2 SNPs found between the first and the relapsed paired isolates.

From: Estimation of the mutation rate of Mycobacterium tuberculosis in cases with recurrent tuberculosis using whole genome sequencing

Pair

Relapsing period

N

Point

Gene

Functional category

Mutation effect

P1

13 m/8736 h

0

    

P2

31 m/20,832 h

1

1,042,251

pstS1

Cell wall and cell processes

Non-synonymous

P3

92 m/61,842 h

4

2,793,634

lipQ

Intermediary metabolism and respiration

Non-synonymous

3,031,623*

Rv2719c:lexA

Intergenic region

 

3,869,344

Rv3448

Cell wall and cell processes

Synonymous

4,134,177*

moxR2

Regulatory proteins

Non-synonymous

P4

12 m/8064 h

0

    

P5

51 m/34,272 h

0

    

P6

13 m/8736 h

1

156,912

fbpC

Lipid metabolism

Non-synonymous

P7

64 m/43,008 h

3

1,480,972*

Rv1319c

Intermediary metabolism and respiration

Synonymous

1,845,545

uvrA

Information pathways

Synonymous

3,179,330

Rv2867c:ispG

Intergenic region

Synonymous

P8

160 m/107,520 h

0

    

P9

31 m/20,832 h

0

    

P10

31 m/20,832 h

1

245,322

mmpL3

Cell wall and cell processes

Non-synonymous

P11

42 m/28,224 h

7

144,506*

fadD7

Lipid metabolism

Non-synonymous

157,655

fbpC:htdZ

Intergenic region

 

1,952,766*

Rv1726

Intermediary metabolism and respiration

Synonymous

2,278,535

hspX

Virulence, detoxification, adaptation

Non-synonymous

3,912,404

mce4F

Virulence, detoxification, adaptation

Non-synonymous

456,028

secE2

Cell wall and cell processes

Non-synonymous

1,837,204

uvrB

Information pathways

Non-synonymous

P12

39 m/26,208 h

8

1,049,482*

Rv0939

Intermediary metabolism and respiration

Synonymous

2,124,862*

Rv1875:Rv1876

Intergenic Region

 

2,145,578

lppD

Cell wall and cell processes

Non-synonymous

2,555,780*

Rv2282c

Regulatory proteins

Non-synonymous

3,111,151*

Rv2802c

Conserved hypotheticals

Non-synonymous

4,364,271*

mycP1

Intermediary metabolism and respiration

Non-synonymous

4,394,960*

Rv3909

Conserved hypotheticals

Non-synonymous

P13

32 m/21,504 h

1

3,574,424

Rv3201c

Information pathways

Synonymous

P14

14 m/9408 h

1

1,543,706

Rv1371

Cell wall and cell processes

Synonymous

P15

104 m/69,888 h

6

1,505,180

murI

Cell wall and cell processes

Non-synonymous

2,477,975

Rv2212

Intermediary metabolism and respiration

Synonymous

2,675,882

mbtB:mbtA

Intergenic Region

 

2,701,688

lepA

Intermediary metabolism and respiration

Non-synonymous

3,160,108

Rv2851c

Intermediary metabolism and respiration

Synonymous

3,470,698*

ftsE

Cell wall and cell processes

Synonymous

P16

14 m/9408 h

0

    

P17

59 m/39,648 h

4

1,840,457*

Rv1634

Cell wall and cell processes

Synonymous

1,923,131

Rv1698

Cell wall and cell processes

Synonymous

4,338,635

whiB6:Rv3863

Intergenic region

 

4,400,765

sigM

Information pathways

Non-synonymous

P18

16 m/10,752 h

2

397,372

Rv0331:Rv0332

Intergenic region

 

1,247,257

ephC

Virulence, detoxification, adaptation

Non-synonymous

  1. Relapsing period (time between the first episode and the second) in months (m) and hours (h), Number of SNPs found between the paired isolates (N), Point referred to H37Rv genome, Gene name, Functional Category and the Effect of the SNP are detailed.
  2. *SNPs detected in the first isolate and not in the relapsed isolate.
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