Figure S1 - PLOS

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10 3. 10 4. 10 5. 19. 2. 78. F. G. PT. AGM. CD8+ Lymph node. PT. AGM. CD8+ PBMCs. 0. 1000 10000 1x105. CD45RA. 0. 1000. 10000. 1x105 37.6. 43.3. 4.48.
Figure S1

A Log RNA copies/ml

AGM

*

11

10

06004

9

06005

7

06007

8

06006

6

PT

5

A99028

4 3

A99059

2

A98073

1

-10

0

10

20

30

40

J96082

50

Days Post-infection

B

Day -14

Day 0

Day 3

Day 10

Day 17

Day 28

Day 45+ AGM

0

100

0 1000

10000

1x105

100

0 1000

10000

1x105

100

0 1000

10000

5

1x10

100

0 1000

10000

100

0 1000

10000

5

1x10

100

1x105

PT

0 1000

10000

1000 5

1x10

10000

1x105

Ki67 in CD4+ T cells

C

Lymph node PT

AGM

Colon PT

AGM

AGM Lymph node

Day 45+

Ki67+ CD8+ cells (Cells/mm2)

Day -14

Day 10

PT

600

#

*#

Colon 600 #

400

400 p=0.08

p=0.06

200

200 0

-14

10

45+

0

-14

Days Post-infection

D

Lymph node

Day 10

Day 45+

CXCL9/MIG+ cells (Cells/mm2)

Day -14

#

*#

400

300 200 100

200 0

45+

Colon *#

600

10

-14

10

45+

0

-14

Days Post-infection

10

45+

Figure S1

E

Day -14

Day 0

29

1x105

10000

10000

1000

1000

: CD8 : CD8 100

CD8

0

Blood

0

100

1000

10000

5

10000

73

0

1x10

0

1000 : CD8

100

1000

5

10000

1x10

0

72

5

1x10

68

3 100

1000

10000

0 5

1x10

68

1x105

0

10000

10000

10000

10000

1000

1000

1000

1000

: CD8 : CD8 100 0

0

100

9

15 100

1000

0 5

10000

0

1x10

100

1000

5

10000

12

20

1x10

0

100

1000

10000

0

1000

10000

1x10

5

1x10

0

1000

0

100

1000

1000

5

1000

5

10000

0

1x10

74

100

10000

1000

1000

10000

7

3

5

1x10

0

75

1x105

1000

0

12

5

PT

: CD8

: CD8

10000

1000

10000

1x10

5

76

5

1x10

10000

AGM

1000

: CD8 0

10000

89

1x105

10000

0

6

5

1x105

8 100

1000

5

78

14

10000

0

: CD8

0

11

16

100

5

1x10

10000

Day 45+

82

1x105

: CD8 : CD8

39

4

Day 28

88

5

1x10

10000

1000 : CD8

2

Day 17

57

5

1x10

: CD8

0

76

5

1x10

Day 10

27

5

1x10

100

65

4

Day 3

22

5

1x10

1x10

0

100

1000

: CD8

0

11

15

0

5

10000

11

14

1x10

100

1000

10000

0

: CD8

10

13

5

1x10

0

1000

10000

5

1x10

CD4

28

5

1x10

10000

CD8 1000

CD8 1000

CD8

70

2 0

100

1000

10000

62

2

5

0

100

1000

0

10000

1x105

49

5

1x10

0

10000

10000

10000

CD8 1000

CD8 1000

0

28

32 0

100

1000

0

10000

24

26

1x105

0

100

8

1000

0

10000

1x10

0

1000

10 3



Colon

5

AGM

23

26

1x105

10000

1000

33

0

50

1x105

CD8 1000

52

10000

Day 10

10 4

PT

1000

1x10

39

5

1x10

10 5

36

5

1x10

10000

0

: CD8

Day -14

Day 45+

36

1x105

10000

0

Lymph node

Day 10

CD8

Day -14

5

10

4

10

3

79

10

52 10

2

10 4

10

3

10

4

10

0

5

10 4

10

4

10 3

10

3

10

CD4+

CD8+ T cells 44.6

5

1x10

10

15

15

5

1x10

0

60.2

5

1x10

10000

10000

CD27 1000

CD27 1000

CD27 1000

0

0

0

22.3 0

1x105

5.42 1000

10000

CD45RA

11

5.67

1x105

78.7

0

1x105

1.91 1000

10000

CD45RA

10

2

10

3

10

4

17.4

75.9

1x105

10000

1000 CD27

1000 CD27

1000 CD27

0

0

1.9 1000

10000

CD45RA

1x105

1x105

PBMCs 37.7 0

10000

8.41

19

9.8

10000

0

CD8+

33.5

1x105

1000

10000

CD45RA

24.4

AGM

1x105

63.5

LNCs

0

2.87 0

3.77 1000

10000

CD45RA

1x105

9.8

CD45RA

10

4

10

0

EF

N CD27

+

+

MEM

CD27

F EF

TD

-

-

EFF

4

10

5

4

10

5

AGM

10 3

1

35

5

0

10

2

10

0

3

10

4

10

2

19

5

0

10

3

10

1000

10000

CD45RA

78.1

16.6

1x105

89

CD4+

CD3+ DN

0.54

1x105

10000

10000

CD27 1000

CD27 1000

CD27 1000

0

0

0

5.13 0

1x105

0.12 1000

10000

CD45RA

37.6

10.4

1x105

43.3

0

1x105

0 1000

10000

CD45RA

1.09

1x105

10000

10000

CD27

CD27

CD27

1000

1000

1000

0

0

14.6 0

4.48 1000

10000

CD45RA

1x105

PBMCs 0

10000

1x105

0.51

28.3

1x105

78.3

71.2

0.014 1000

10000

CD45RA

61.5

1x105

3.9

. LNCs

0

20.6 0

0.064 1000

10000

CD45RA

1x105

34.4 0

0.15 1000

10000

CD45RA

1x105

CD4+: Lymph node

PT

PT

AGM

AGM

F

VE M EM

+

AI

+

10



2

CD4+ PBMCs

CD45RA

3

CD45RA

G Legend

10

78

5

10

10 4

0 10

1

9

5

10000

2.3 0

3

CD4

DN

32.2

10000

CD27

PT

27.7

10

: CD8 0

CD27

CD8+ 5

1x10

2

0

61

CD4

F

2

12

5

68

PT

10 3



2

0

10

10 5

88

5

10

: CD8

6 0

10

Day 45+

-

CD8+ Lymph node

CD8+ PBMCs

NAIVE

PT

PT

AGM

AGM

TD EFF

CD45RA

Days -14

0

3

10

17

28

45+

Days -14

10

45+