length regulation of flagellar hooks and filaments...
TRANSCRIPT
University of UtahMathematical Biology
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Length Regulation of Flagellar Hooks andFilaments in Salmonella
J. P. Keener
Department of Mathematics
University of Utah
Length Regulation of Flagellar Hooks – p.1/36
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Introduction
The first of many slides – p.2/36
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Control of Flagellar Growth
The motor is built in a precise step-by-step fashion.
• Step 1: Basal Body
• Step 2: Hook (FlgE secretion)
• Step 3: Filament (FliC secretion)Basal Body
Length Regulation of Flagellar Hooks – p.3/36
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Control of Flagellar Growth
The motor is built in a precise step-by-step fashion.
• Step 1: Basal Body
• Step 2: Hook (FlgE secretion)
• Step 3: Filament (FliC secretion)
FlgE
Hook
Basal Body
Length Regulation of Flagellar Hooks – p.3/36
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Control of Flagellar Growth
The motor is built in a precise step-by-step fashion.
• Step 1: Basal Body
• Step 2: Hook (FlgE secretion)
• Step 3: Filament (FliC secretion)
FliC
Hook−filamentjunction
Hook
Filament
Basal Body
Length Regulation of Flagellar Hooks – p.3/36
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Control of Flagellar Growth
The motor is built in a precise step-by-step fashion.
• Step 1: Basal Body
• Step 2: Hook (FlgE secretion)
• Step 3: Filament (FliC secretion)
FliC
Hook−filamentjunction
Hook
Filament
Basal Body
• How are the switches between steps coordinated?
• How is the hook length regulated (55 ±6 nm)?
• How is the length of the filament "measured"?Length Regulation of Flagellar Hooks – p.3/36
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Proteins of Flagellar Assembly
Length Regulation of Flagellar Hooks – p.4/36
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Hook Length Regulation
• Hook is built by FlgE secretion.
Length Regulation of Flagellar Hooks – p.5/36
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Hook Length Regulation
• Hook is built by FlgE secretion.
• FliK is the "hook length regulatory" protein.
Length Regulation of Flagellar Hooks – p.5/36
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Hook Length Regulation
• Hook is built by FlgE secretion.
• FliK is the "hook length regulatory" protein.• FliK is secreted only during hook production.
Length Regulation of Flagellar Hooks – p.5/36
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Hook Length Regulation
• Hook is built by FlgE secretion.
• FliK is the "hook length regulatory" protein.• FliK is secreted only during hook production.• Mutants of FliK produce long hooks; overproduction of
FliK gives shorter hooks.
Length Regulation of Flagellar Hooks – p.5/36
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Hook Length Regulation
• Hook is built by FlgE secretion.
• FliK is the "hook length regulatory" protein.• FliK is secreted only during hook production.• Mutants of FliK produce long hooks; overproduction of
FliK gives shorter hooks.• Lengthening FliK gives longer hooks.
Length Regulation of Flagellar Hooks – p.5/36
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Hook Length Regulation
• Hook is built by FlgE secretion.
• FliK is the "hook length regulatory" protein.• FliK is secreted only during hook production.• Mutants of FliK produce long hooks; overproduction of
FliK gives shorter hooks.• Lengthening FliK gives longer hooks.• 5-10 molecules of FliK are secreted per hook (115-120
molecules of FlgE).
Length Regulation of Flagellar Hooks – p.5/36
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Hook Length Data
0 20 40 60 80 1000
50
100
150
200
250
Num
ber
of h
ooks
(a) L(nm)0 20 40 60 80 100
0
50
100
150
200
250
Num
ber
of h
ooks
(b) L(nm)0 50 100 150 200 250
0
50
100
150
200
250
Num
ber
of h
ooks
(c) L(nm)
Wild type Overexpressed Underexpressed(M = 55nm) (M = 47nm) (M = 76nm)
Length Regulation of Flagellar Hooks – p.6/36
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The Secretion Machinery
• Secreted molecules arechaperoned to preventfolding.
Step 1
FliI
FliJ
Cring
MS ring
CM FlhA FlhB
C
N
FliH
componentsmembrane
Length Regulation of Flagellar Hooks – p.7/36
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The Secretion Machinery
• Secreted molecules arechaperoned to preventfolding.
• FliI is an ATPase
FliJ
Step 2
N
C
Cring
MS ring
CM FlhA FlhB
membranecomponents
FliH
FliI
Length Regulation of Flagellar Hooks – p.7/36
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The Secretion Machinery
• Secreted molecules arechaperoned to preventfolding.
• FliI is an ATPase
• FlhB is the gatekeeperrecognizing the Nterminus of secretants.
N
C
Step 3
Cring
MS ring
CM FlhA FlhB
FliJ
ATP ADP+Pi
FliH
membranecomponents
FliI
Length Regulation of Flagellar Hooks – p.7/36
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The Secretion Machinery
• Secreted molecules arechaperoned to preventfolding.
• FliI is an ATPase
• FlhB is the gatekeeperrecognizing the Nterminus of secretants.
• once inside, molecularmovement is by diffu-sion.
C
Step 4
FliJ
N
Cring
MS ring
CM FlhA FlhB
membranecomponents
FliI
FliH
Length Regulation of Flagellar Hooks – p.7/36
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Secretion Control
Secretion is regulated by FlhB
• During hook formation, only FlgE and FliK can be secreted.
• After hook is complete, FlgE and FliK are no longersecreted, but other molecules can be secreted (thoseneeded for filament growth.)
• The switch occurs when the C-terminus of FlhB is cleavedby FlK.
Question: Why is the switch in FlhB length dependent?
Length Regulation of Flagellar Hooks – p.8/36
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Hypothesis: How Hook Length isdetermined
• The Infrequent Molecular Ruler Mechanism. FliK issecreted once in a while to test the length of the hook.
• The probability of FlhB cleavage is length dependent.
Length Regulation of Flagellar Hooks – p.9/36
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Binding Probability
Suppose the probability of FlhB cleavage by FliK is a function oflength Pc(L). Then, the probability of cleavage at time t, P (t), isdetermined by
dP
dt= αr(L)Pc(L)(1 − P )
where r(L) is the secretion rate, α is the fraction of secretedmolecules that are FliK, and
dL
dt= βr(L)∆
where β = 1 − α fraction of secreted FlgE molecules, ∆ lengthincrement per FlgE molecule.
Length Regulation of Flagellar Hooks – p.10/36
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Binding Probability
It follows thatdP
dL=
α
β∆Pc(L)(1 − P )
or
− ln(1 − P (L)) = κ
∫ L
0
Pc(L)dL
Length Regulation of Flagellar Hooks – p.11/36
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Check the Data
0 20 40 60 80 1000
50
100
150
200
250
Num
ber
of h
ooks
(a) L(nm)0 20 40 60 80 100
0
50
100
150
200
250
Num
ber
of h
ooks
(b) L(nm)0 50 100 150 200 250
0
50
100
150
200
250
Num
ber
of h
ooks
(c) L(nm)
Wild type Overexpressed Underexpressed
0 10 20 30 40 50 60 70 80 90 1000
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1
Hook Length (nm)
P(L
)
OverexpressedWTUnderexpressed
Length Regulation of Flagellar Hooks – p.12/36
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Check the Data
0 10 20 30 40 50 60 70 80 90 1000
2
4
6
8
10
Hook Length (nm)
−ln
(1−
P)
0 10 20 30 40 50 60 70 80 90 1000
2
4
6
8
10
Hook Length (nm)
−κ
ln(1
−P
)
OverexpressedWTUnderexpressed
κ = 0.9κ = 1κ = 4
− ln(1 − P (L)) = κ
∫ L
0
Pc(L)dL?Length Regulation of Flagellar Hooks – p.13/36
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Hypothesis: How Hook Length isdetermined
• The Infrequent Molecular Ruler Mechanism.
• The probability of FlhB cleavage is length dependent. Whatis the mechanism that determines Pc(L)?
Length Regulation of Flagellar Hooks – p.14/36
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Secretion Model
Hypothesis: FliK binds to FlhB during translocation to causeswitching of secretion target by cleaving a recognition sequence.
• FliK molecules move through the growingtube by diffusion.
L
x
0
Length Regulation of Flagellar Hooks – p.15/36
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Secretion Model
Hypothesis: FliK binds to FlhB during translocation to causeswitching of secretion target by cleaving a recognition sequence.
• FliK molecules move through the growingtube by diffusion.
• They remain unfolded before and duringsecretion, but begin to fold as they exit thetube.
L
x
0
Length Regulation of Flagellar Hooks – p.15/36
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Secretion Model
Hypothesis: FliK binds to FlhB during translocation to causeswitching of secretion target by cleaving a recognition sequence.
• FliK molecules move through the growingtube by diffusion.
• They remain unfolded before and duringsecretion, but begin to fold as they exit thetube.
• Folding on exit prevents back diffusion,giving a brownian ratchet effect.
L
x
0
Length Regulation of Flagellar Hooks – p.15/36
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Secretion Model
Hypothesis: FliK binds to FlhB during translocation to causeswitching of secretion target by cleaving a recognition sequence.
• FliK molecules move through the growingtube by diffusion.
• They remain unfolded before and duringsecretion, but begin to fold as they exit thetube.
• Folding on exit prevents back diffusion,giving a brownian ratchet effect.
• For short hooks, folding prevents FlhBcleavage.
0
L
x
Length Regulation of Flagellar Hooks – p.15/36
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Secretion Model
Hypothesis: FliK binds to FlhB during translocation to causeswitching of secretion target by cleaving a recognition sequence.
• FliK molecules move through the growingtube by diffusion.
• They remain unfolded before and duringsecretion, but begin to fold as they exit thetube.
• Folding on exit prevents back diffusion,giving a brownian ratchet effect.
• For short hooks, folding prevents FlhBcleavage.
• For long hooks, movement solely by diffu-sion allows more time for cleavage.
0
L
x
Length Regulation of Flagellar Hooks – p.15/36
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Stochastic Model
Follow the position x(t) of the C-terminus us-ing the stochastic langevin differential equa-tion
νdx = F (x)dt +√
2kbTνdW,
where F (x) represents the folding force act-ing on the unfolded FliK molecule, W (t) isbrownian white noise.
L
x
0
Length Regulation of Flagellar Hooks – p.16/36
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Fokker-Planck Equation
Let P (x, t) be the probability density of being at position x attime t with FlhB uncleaved, and Q(t) be the probability of beingcleaved by time t. Then
∂P
∂t= −
∂
∂x(F (x)P ) + D
∂2P
∂x2− g(x)P,
anddQ
dt=
∫ b
a
g(x)P (x, t)dx.
where g(x) is the rate of FlhBcleavage at position x.
g(x)
0 L x
Length Regulation of Flagellar Hooks – p.17/36
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Probability of Cleavage
To determine the probability of cleavage πc(x) starting fromposition x, solve
Dd2πc
dx2+ F (x)
dπc
dx− g(x)πc = 0
subject to π′
b(a) = 0 and πb(b) = 1.Then Pc(L) = πc(a).
Pc(L)
L
Length Regulation of Flagellar Hooks – p.18/36
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Results
0 20 40 60 80 1000
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1
(a) L(nm)
CD
F
0 20 40 60 80 1000
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1
(b) L(nm)
CD
F
0 50 100 150 200 2500
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1
(c) L(nm)
CD
F
0 20 40 60 80 1000
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.08
0.09
0.1
(a) L(nm)
PD
F
0 20 40 60 80 1000
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.08
0.09
0.1
(b) L(nm)
PD
F
0 50 100 150 200 2500
0.005
0.01
0.015
0.02
0.025
0.03
0.035
0.04
(c) L(nm)
PD
F
Wild type Overexpressed Underexpressed
Length Regulation of Flagellar Hooks – p.19/36
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Difficulties
• There is no direct experimental evidence either for oragainst this proposed length measurement mechanism.
Length Regulation of Flagellar Hooks – p.20/36
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II - Flagellar Length Detection
• Flagella grow at a velocity thatdecreases as they get longer.
Length Regulation of Flagellar Hooks – p.21/36
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II - Flagellar Length Detection
• Flagella grow at a velocity thatdecreases as they get longer.
• If a flagellum is broken off, it willregrow at the same velocity aswhen it first grew.
Length Regulation of Flagellar Hooks – p.21/36
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II - Flagellar Length Detection
• Flagella grow at a velocity thatdecreases as they get longer.
• If a flagellum is broken off, it willregrow at the same velocity aswhen it first grew.
Question: How does the bacterium measure flagellar length?
Length Regulation of Flagellar Hooks – p.21/36
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How Do Flagella Grow?
• Step 1: Secretion
• Step 2: Diffusion
• Step 3: Polymerization
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Length Regulation of Flagellar Hooks – p.22/36
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How Do Flagella Grow?
• Step 1: Secretion
• Step 2: Diffusion
• Step 3: Polymerization
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Length Regulation of Flagellar Hooks – p.22/36
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How Do Flagella Grow?
• Step 1: Secretion
• Step 2: Diffusion
• Step 3: Polymerization
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Length Regulation of Flagellar Hooks – p.22/36
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Modelling Flagellar Growth
Step 2: Diffusion
Important Fact: Filament is a narrow hollow tube, so movement(diffusion) is single file.
Let p(x, t) be the probability that a molecule is at position x attime t. Then,
∂p
∂t+
∂J
∂x= 0
where
J = −D∂p
∂x.
Remark: Jl
= flux in molecules per unit time.
Length Regulation of Flagellar Hooks – p.23/36
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Rate of Secretion
Step 1: SecretionLet P (t) be the probability that ATP-ase is bound
N
C
Step 3
Cring
MS ring
CM FlhA FlhB
FliJ
ATP ADP+Pi
FliH
membranecomponents
FliI
Length Regulation of Flagellar Hooks – p.24/36
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Rate of Secretion
Step 1: SecretionLet P (t) be the probability that ATP-ase is bound
N
C
Step 3
Cring
MS ring
CM FlhA FlhB
FliJ
ATP ADP+Pi
FliH
membranecomponents
FliI
dPdt
=
Length Regulation of Flagellar Hooks – p.24/36
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Rate of Secretion
Step 1: SecretionLet P (t) be the probability that ATP-ase is bound
FliJ
Step 2
N
C
Cring
MS ring
CM FlhA FlhB
membranecomponents
FliH
FliI
dPdt
= Kon(1 − P )
on rate,
Length Regulation of Flagellar Hooks – p.24/36
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Rate of Secretion
Step 1: SecretionLet P (t) be the probability that ATP-ase is bound
C
Step 4
FliJ
N
Cring
MS ring
CM FlhA FlhB
membranecomponents
FliI
FliH
dPdt
= Kon(1 − P ) − koffP
on rate, off rate,
Length Regulation of Flagellar Hooks – p.24/36
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Rate of Secretion
Step 1: SecretionLet P (t) be the probability that ATP-ase is bound
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Step 4 Blocked
ATP ADP+Pi
N
C
C
ring
MS ring
CM FlhA FlhB
FliJ
membrane
components
FliH
FliI
dPdt
= Kon(1 − P ) −koff (1 − p(0, t))P
on rate, off rate, restricted if blocked by another molecule inthe tube.
Length Regulation of Flagellar Hooks – p.24/36
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Rate of Secretion
Step 1: SecretionLet P (t) be the probability that ATP-ase is bound
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Step 4 Blocked
ATP ADP+Pi
N
C
C
ring
MS ring
CM FlhA FlhB
FliJ
membrane
components
FliH
FliI
dPdt
= Kon(1 − P ) − koff (1 − p(0, t))P
on rate, off rate, restricted if blocked by another molecule inthe tube. Thus,
Jl
= koff (1 − p(0, t))P at x = 0 (A Robin boundary condition).
Length Regulation of Flagellar Hooks – p.24/36
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Rate of Polymerization
Stage 3: Polymerization
J
l= kpp
at the polymerizing end x = L.
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Then, the growth velocity is
dL
dt= β
J
l≡ V
where β =length of filament per monomer (0.5nm/monomer)
· · · a moving boundary problem.
Length Regulation of Flagellar Hooks – p.25/36
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Diffusion Model
After some work, it can be shown that
λ =1
j−
Ka
1 − j− Kb
where j = JlKon
, λ = lLKon
D, Ka = Kon
koff, Kb = Kon
kp.
A good approximation J ≈1
KJ+LD
≈DL
for large L
0 0.5 1 1.5 2 2.5 3 3.5 4 4.5 50
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1flux vs. length
j
So, why is growth length dependent? – p.26/36
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Filament Length Control
Introducing FlgM and σ28:
Length Regulation of Flagellar Hooks – p.27/36
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Filament Length Control
Introducing FlgM and σ28:
Class 1→ Class 2
σ28
FlgE
FlgKL
FlgM
FliK
Eσ28
→ Class 3
FliC
FliD
FlgM
Basal Body
Length Regulation of Flagellar Hooks – p.27/36
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Filament Length Control
Introducing FlgM and σ28:
Class 1 → Class 2
σ28
FlgE
FlgKL
FlgM
FliK
Eσ28
→ Class 3
FliC
FliD
FlgM
FlgE
Hook
Basal Body
Length Regulation of Flagellar Hooks – p.27/36
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Filament Length Control
Introducing FlgM and σ28:
Class 1 → Class 2
σ28
FlgE
FlgKL
FlgM
FliK
Eσ28
→ Class 3
FliC
FliD
FlgM
FliC
Hook−filamentjunction
Hook
Filament
Basal Body
Length Regulation of Flagellar Hooks – p.27/36
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FlgM-σ28 Chemistry
σ
σ
E28
FliCJ(L)
*Eσ∗
FlgM FlgM
FlgM28 σ
Length Regulation of Flagellar Hooks – p.28/36
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FlgM-σ28 Chemistry
σ
σ
E28
FliCJ(L)
*Eσ∗
FlgM FlgM
FlgM28 σ
• FlgM inhibits σ28 activity;
Length Regulation of Flagellar Hooks – p.28/36
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FlgM-σ28 Chemistry
σ
σ
E28
FliCJ(L)
*Eσ∗
FlgM FlgM
FlgM28 σ
• FlgM inhibits σ28 activity;
• Therefore, during stage 3, FlgM inhibits its own production(negative feedback);
Length Regulation of Flagellar Hooks – p.28/36
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FlgM-σ28 Chemistry
σ
σ
E28
FliCJ(L)
*Eσ∗
FlgM FlgM
FlgM28 σ
• FlgM inhibits σ28 activity;
• Therefore, during stage 3, FlgM inhibits its own production(negative feedback);
• And, FlgM inhibits the production of Flagellin (FliC).
Length Regulation of Flagellar Hooks – p.28/36
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FlgM-σ28 Secretion Dynamics
• FlgM is not secreted during hookgrowth.
FlgE
Hook
Basal Body
Length Regulation of Flagellar Hooks – p.29/36
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FlgM-σ28 Secretion Dynamics
• FlgM is not secreted during hookgrowth.
• FlgM is secreted during filamentgrowth.
FliC
Hook−filamentjunction
Hook
Filament
Basal Body
Length Regulation of Flagellar Hooks – p.29/36
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FlgM-σ28 Secretion Dynamics
• FlgM is not secreted during hookgrowth.
• FlgM is secreted during filamentgrowth.
FliC
Hook−filamentjunction
Hook
Filament
Basal Body
So, how fast is FlgM secreted, and why does it matter?
Length Regulation of Flagellar Hooks – p.29/36
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Tracking Concentrations
FlgM (M ):
dM
dt= rate of production − rate of secretion
Flagellin (FliC) (F ):
dF
dt= rate of production − rate of secretion
Filament Length (L):
dL
dt= β ∗ rate of FliC secretion
.
Length Regulation of Flagellar Hooks – p.30/36
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Tracking Concentrations
FlgM (M ):
dM
dt=
K∗
KM + M− α
M
F + MJ
Flagellin (FliC) (F ):
dF
dt=
K∗
KM + M− α
F
F + MJ
Filament Length (L):
dL
dt= β
F
M + FJ
with J = 1
KJ+LD
(which is length dependent!) .
Length Regulation of Flagellar Hooks – p.30/36
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Filament Growth
0 200 400 600 800 1000 1200 14000
5
10
15
20
25Filament Length vs Time
Leng
th (
mic
rons
)
Time (minutes)0 200 400 600 800 1000 1200 1400
0
500
1000
1500
2000
2500
3000
3500
4000
Time (minutes)
Intracellular FlgM and FliC
Num
ber
of M
olec
ules
• Before secretion begins FlgM concentration is large. Whensecretion begins, FlgM concentration drops, producing FliCand more FlgM.
Length Regulation of Flagellar Hooks – p.31/36
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Filament Growth
0 200 400 600 800 1000 1200 14000
5
10
15
20
25Filament Length vs Time
Leng
th (
mic
rons
)
Time (minutes)0 200 400 600 800 1000 1200 1400
0
500
1000
1500
2000
2500
3000
3500
4000
Time (minutes)
Intracellular FlgM and FliC
Num
ber
of M
olec
ules
• Before secretion begins FlgM concentration is large. Whensecretion begins, FlgM concentration drops, producing FliCand more FlgM.
• As the filament grows, secretion slows, FlgM concentrationincreases, shutting off FliC and FlgM production.
Length Regulation of Flagellar Hooks – p.31/36
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Filament Growth
0 200 400 600 800 1000 1200 14000
5
10
15
20
25Filament Length vs Time
Leng
th (
mic
rons
)
Time (minutes)0 200 400 600 800 1000 1200 1400
0
500
1000
1500
2000
2500
3000
3500
4000
Time (minutes)
Intracellular FlgM and FliC
Num
ber
of M
olec
ules
• Before secretion begins FlgM concentration is large. Whensecretion begins, FlgM concentration drops, producing FliCand more FlgM.
• As the filament grows, secretion slows, FlgM concentrationincreases, shutting off FliC and FlgM production.
• If filament is suddenly shortened, secretion suddenlyincreases, reinitiating the growth phase. Length Regulation of Flagellar Hooks – p.31/36
University of UtahMathematical Biology
theImagine Possibilities
Observations
0 200 400 600 800 1000 1200 14000
5
10
15
20
25Filament Length vs Time
Leng
th (
mic
rons
)
Time (minutes)0 200 400 600 800 1000 1200 1400
0
500
1000
1500
2000
2500
3000
3500
4000
Time (minutes)
Intracellular FlgM and FliC
Num
ber
of M
olec
ules
• Because the flux is inversely proportional to length, theamount of FlgM in the cell is a direct measure of the lengthof the filament.
Length Regulation of Flagellar Hooks – p.32/36
University of UtahMathematical Biology
theImagine Possibilities
Observations
0 200 400 600 800 1000 1200 14000
5
10
15
20
25Filament Length vs Time
Leng
th (
mic
rons
)
Time (minutes)0 200 400 600 800 1000 1200 1400
0
500
1000
1500
2000
2500
3000
3500
4000
Time (minutes)
Intracellular FlgM and FliC
Num
ber
of M
olec
ules
• Because the flux is inversely proportional to length, theamount of FlgM in the cell is a direct measure of the lengthof the filament.
• Because of negative feedback, the cell "knows" to produceFliC only when it is needed.
Length Regulation of Flagellar Hooks – p.32/36
University of UtahMathematical Biology
theImagine Possibilities
Acknowledgments
Help came from
• Kelly Hughes, U of Washington
• Bob Guy, U of Utah
• Tom Robbins, U of Utah
No computers were harmed by Microsoft products during theproduction or presentation of this talk.
The End
Length Regulation of Flagellar Hooks – p.33/36