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Rainer Buchholz
3. Enzyme reactions
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Classification of Enzymes
Fig.: 3-1
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
In principle the above discussed reaction kinetics are directly valid for
enzymatic reactions. But there is one remarkable difference to non
enzymatic reactions:
Enzymatic reactions exhibit the phenomenon of substrate saturation.
Vmax
V0
1/2 Vmax
Km substrate concentration
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
dES
k 1 ES k 2 ES (3 3)
dt
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
ES Et S (3 6)
K M S
V0 k 2
Et S (3 8)
K M S
If the total amount of enzyme is bound, the maximum initial production rate
follows:
Vmax k 2 ET (3 9)
This rate equation for enzyme catalytic reactions connects the initial reaction
velocity, the maximum of reaction velocity and the initial concentration of
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
KM
k 1
and K M K S
E S
k1 ES
0.020
0.10
0.015
0.08
P
0.06
0.010
0.04
S
0.005 ES
0.02
E
0.000 0.00
0 50 100 150 200 250 300 350
time / s
Fig.: 3-3
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
[Product]
[E]
[Substrate] [ES]
[Product]
Time
[E] [ES]
Time
or
1
KM
S
V0 Vmax S Vmax S
1 K 1 1
M (3 11)
V0 Vmax S Vmax
By plotting 1/V0 versus 1/[S] the Lineweaver-Burk plot results, this yields for
Michaelis-Menten kinetics a straight line.
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
1
V0
slope Km
Vmax
1
Vmax
1
-1 S
Km
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Eadie-Hofstee
V0
V0 Vmax K M (3 12)
S
Vmax
slope -Km
V0
Vmax
Km
V0
S
Fig. 3-6: Eadie-Hofstee plot
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Hanes
S KM
S (3 13)
V0 Vmax Vmax
1
slope
S Vmax
V
-Ksm S
S
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
trypsin
pepsin
6 8 10 2 4 6
pH pH
papain (substrate =
cholinesterase benzoylargininamid)
6 8 10 4 6 8
pH pH
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Some enzymes (e.g. ribonuclease) lose their activity during heating but
regain it after cooling.
a b
rmax rmax
r r
S S
Fig. 3-9: Substrate activation without (a) and with (b) substrate inhibition
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
k1 k2
S ES E P
k 1
E (3 14)
ki
I EI
k i
KI
E I (3 15)
EI
The reaction rate for conversion of substrate in the presence of an inhibitor I
is:
V0 Vmax
S (3 16)
K M 1 I / K I S
1 K 1 1
M 1 I / K I (3 17)
V0 Vmax S Vmax
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Uncompetitive inhibition means that the inhibitor may only react with the
enzyme-substrate complex, not with the free enzyme.
k1 k2
E S ES E P
k 1
(3 21)
kI
I ESI
k I
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
competitive non-competitive
inhibition inhibition
1 1
[S] [S]
uncompetitive substrate
inhibition inhibition
Slope of the Slope of the
1 inhibited reaction 1 inhibited reaction
V0 V0
1 1
[S] [S]
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
k1 k2
E S ES E P
k 1
(3 24)
k3
S ES2
k 3
V0 Vmax
S (3 25)
K M S S2 / K 3
whereby
KM
E S k 1 k 2
ES k1
K3
ES S k 3
ES2 k 3
Linearization of eq.(3 25) results in (c.f. Fig 3 11 d):
1 K 1 1 1
M S (3 26)
V0 Vmax S Vmax K 3 Vmax
Although this will not be a straight line in the Lineweaver-Burk plot, there
are two parts of the curve. For low substrate concentrations it follows:
1 K 1 1
M Michaelis Menten (3 27)
V0 Vmax S Vmax
For high substrate concentrations:
1 1 1
S (3 28)
V0 Vmax K 3 Vmax
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
properties of
thermodynamics kinetics
biocatalyst
Keq Mr, mechanical fragility, Vm, Km, Ki
activity, stability
process reactor
Tau, XA, productivity, design
enzyme consumption
Fig 3-11
Definitions
(R)-Product
(R,S)-
Substrate (S)-Product
molS
Turn Over Frequency (TOF) =
molcat * time
1
Deactivation Number (kde) =
time
TOF
Total Turnover Number (TTN ) =
kde
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Definitions
(R)-Product
(R,S)-
Substrate (S)-Product
S
conversion (X) = 1-
S0
(R)-Product
Yield (Y) =
S0
(R)-Product
Space-Time-Yield (STY) =
Tau
(R)-Product
Selectivity =
S0 - S
(R)-product
(R,S)-substrate
(R) 50 (S)-product 10
ratio R/S / -
90
0 1
(R)-product
(S) 50 selectivity =
S0 - S 0.1
(R)-Product - (S)-Product
ee =
S0 - S
100 0.01
0 20 40 60 80 100
chemical selectivity / %
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
4. Growth Kinetic
4.1 Biomass
Target of a quantitative description of the growth rate of any kind of
organisms or cells is the estimation of the functional correlation of biomass
increase during time.
dX g (biomass) 1
dt lfermentation broth time
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
10
3
5
2
2
1 1
time
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
V
IV
VI
III
II
I
time
I. Lag phase
N N 0 konst (4 1)
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
t
g (4 3)
n
Is the initial number of cells N0, for n divisions it follows:
N N 0 2n (4 4)
The number of divisions per hour is defined as division rate v:
n log N log N 0 1
(4 5)
t log 2 t t 0 g
X X 0 e max t (4 8)
The time for doubling the amount of biomass is called doubling time td .
It may be calculated by inserting X=2 X0 into eq. (4-8):
2X 0 X 0 e max t (4 9)
ln 2 0.693
td (4 10)
max max
The specific growth rate and the specific rate of division v are not
necessarily equal. Only in the case of a constant cell size and the division of
one cell into two cells the are values equal.
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Table 4-1: Maximum growth rates for different microorganisms (substrate: glucose)
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
1.0
(5)
0.8
(4)
0.6
(3)
0.4
(2)
0.2
(1)
1 2 3 4
time t [h]
Fig. 4-3: Growth of E. coli under various initial glucose concentrations
(conc. In g/l: (1)=0, (2)=15, (3)=25, (4)=35, (5)=45)
In this simple case, the maximum specific growth max rate is independent of
a substrate concentration. The maximum biomass concentration at the end
of the process however, is a function of initial substrate concentration. This
leads to the definition of the yield coefficient YX/S :
X max X 0 g Biomass
YX / S g Substrate (4 11)
S0
In the preceding example the yield coefficient is constant at about 0.45, but
influences by other substrates or products may change the linear relation
between biomass produced and substrates consumed:
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
dX
dt
YX / S is not necessarily constant ! (4 12)
dS
dt
max
1/2 max
1 2 3 4 5
-4
glucose concentration [10 mol/l]
Fig. 4-4: Specific growth rate vs. substrate concentration (E. Coli
cultivation using glucose as carbon source)
The observations are similar to the reaction rate of the Michaelis Menten
equation. Therefore, in analogy the equation is set up:
max
S (4 13)
K S S
The analogy between enzyme kinetics and microbial growth was first
described by Monod (1942). Provided there are two limiting substrates, the
specific growth rate is formulated accordingly:
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
max
S1 S2 (4 14)
K S S1 K S S2
1 2
Setting up the mass balances for microbial growth in a batch reactor using
the simple Monod equation, two coupled differential equations result:
dX
max
S X (4 15)
dt K S S
dS
1
max
S X (4 16)
dt YX / S K S S
max
S (4 17)
K S S
S
2
K1
The differential equations for modelling a batch process are:
dX
max
S X (4 18)
dt
K S S
S
2
K1
dS
1
max
S X (4 19)
dt YX / S
K S S
S
2
K1
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
dX 1l S1l 1 jS1 j
X .....
dt K S K1 j S1 j
1l 1l
2l S2l 2 j S2 j
..... (4 20)
K S K 2 j S2 j
2 l 2 l
il Sil ij Sij
.... .....
K S K ij Sij
il il
with:
ij specific growth velocity with Sij
Sij substrate concentration
Kij Monod constant at given substrate
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
dX S S
X 1 1 21 2 (4 21)
dt K1 S1 K 2 S2
The substrates S1 and S2 are consumed mainly one after the other.
mg/l
2,0
1,5
1,0
ln X
0,5 ln S1
10
ln S2
10
0 10 20 30 40 50 h
Fig. 4-5: Growth of Proteus vulgaris with glucose (S1) and Citrat (S2)
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
max
S (4 23)
K So S0 S
or
max
S (4 24)
K S K So S0 S
Using these models the experimental behaviour of the deviation from the
exponential growth by increasing start concentration (S0) of the substrate
instead of approaching max can be described.
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
This model starts out of the fact that the population is regulated by the
restricted space available. It is borrowing from the animal growth in nature.
In contrast to the pure exponential growth a mathematical function is
introduced which reduces the growth by increasing cell density. This
enhanced model is given by:
dX X
max X 1 (4 25)
dt X max
whereby Xmax is given by the maximum cell density in the stationary phase.
With increasing cell density the expression in the bracket decreases until the
change dX/dt becomes 0 by the maximum cell density. The equation (4
25) can be read as a combination of a growth term in
the 1st order and a dying term in the 2nd order.
dX
max X max X 2 (4 26)
dt X max
X max
exponential
growth evironment resistance
dX
= max X actual growth
dt
dX X
= max X 1-
dt X max
time t
X (4 27)
The logistic model itself describes only the part of the growth curve between
the exponential and the stationary phase.
with:
(X...S) = transition complex
[XS] = new biomass
Only the substrate which has direct contact with the cell can react. The
temporary change of the transient complex is given by:
dEXS S
k1 E k 1 k 2 EXS (4 33)
dt X
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
or:
EXS E S
KX
The specific growth rate is given by:
1 dX
k 2 EXS (4 35)
X dt
The maximum growth rate can be obtained, if the total amount of enzymes
are available as an EXS-complex:
max k 2 E t k 2 E EXS
k 2 E
E S (4 36)
KX
1 S
k 2 E 1
K X
Dividing by max leads to:
k2
E S/ X
(4 37)
max K k 2 E 1 S / X 1 / K
That means:
S/ X
max
K S/ X
or:
S
max (4 38)
KX S
This equation is formally equal to the Monod equation containing a
substrate limiting constant KS which depends on the cell density X .
K S f X (4 39)
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
This model can describe the influence of the initial cell density during the
lag phase in a certain qualified sense.
The decline phase is not describable because never becomes negative.
The Monod model can not be used without restrictions for fungi cultures,
due to the different rules compared to bacteria or yeast in growth
behaviour. E.g. the fungi Penicillium chrysogenum (belonging to the group
of Plectomycete) is growing filamenteously. The hyphes are equipped with
multiple branches. The active growth of this type of fungi is restricted to the
top of the hyphes. The growing area is small compared to the entire
biomass of mycelia, and for each top of the hyphes this area remains
constant. In literature one can find three to five stages of cell distinctions
with different nutrient consumptions, age distributions and metabolite
productions.
In submerged culture two extremes of morphology can be observed: the
filamenteous and the pellet form. If pellet behaviour is found, numerous
spherical compact cell clusters are formed. These clusters are only growing
on the outer surface. If filamentuous growth is observed a mycelia of low
density is formed. Ideally, in the case of filamenteous growth all hyphes are
homogeneously supplied with nutrients. Only then a kind of exponential
growth can be observed.
The growth of mycel-forming organisms is shown in the next graph.
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
t0
X
t1
X
t2
X0 X1 X2
The hyphes consist of the cell membrane and the cytoplasma with its
inclusions. The hyphes grow in one dimension only at the top (apex), also
named apecal growth. Some organisms form so-called septa (Mycomycetes
like Aspergillus spec. and Penicillium spec.). Others grow without forming
septa (Phycomycetes like Mucor spec. and Rhizopus spec.).
The pellet growth can not be described by the Monod equation (Emmerson:
J. Bacteriol. 60, 221 (1950)), therefore the following expression was
developed:
dX 2
Rx X 3 (4 40)
dt
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
1
X X 03 t
3
(4 41)
2
6 3
k g const.
with
= pellet density
Kg = dRP / dt
RP = radius of pellet
Pirt found the same relations using the assumption that oxygen is
transported only by diffusion into the pellet. Consequently, growth can only
take place in a zone at the surface due to the lack of oxygen in the centre of
the pellet. It is often found that the pellets with a diameter of more than one
millimeter are hollow spheres.
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
6.
-galactosidase Aspergillus sp. lactose non sterile, aerobic
Saccharomyces sp. reduced germs
Buc 047
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
8. acetic & neutral various fungi plant protein non sterile aerobic
protease various bacteria
10. lipase fungi, bacteria plant oil, train oil reduced germs aerobic
Buc 048
Buc 043
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
The following tables show the compositions of the mainly used carbon
sources. For being competitive waste materials are often used.
Carbohydrates are the traditional substrates of the fermentation industry.
Pure glucose or saccharose are seldom used as substrate due to its price.
The only exception is the demand on pure and exactly defined substrates
for product validation.
Molasses
Malt extract
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Dry substance % 78 - 85 77 - 84
Saccharose 48.5 33.4
Raffinose 1.0
Invert sugar 1.0 21.2
Organic non sugar 20.7 19.6
N 0.2 - 2.8 0.4 - 1.5
P2O5 0.02 - 0.7 0.6 - 2.0
CaO 0.15 - 0.15 0.1 - 1.1
MgO 0.01 - 0.1 0.03 - 0.1
K2O 2.2 - 4.5 2.6 - 5.0
SiO2 0.1 - 0.5
Al2O3 0.005 - 0.06
Fe2O3 0.001 - 0.02
Ash 4 -8 7 -11 Buc 045
Riboflavin 41 250
Pyridoxine 540
Buc 046
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
(dry)
Maltose 52.2
Saccharose 1.8
Dextrin 15.0
Ash 1.5
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
max.
productivity
overall productivity
productivity P/t
Classification by Gaden:
Type of fermentation I:
This type is issued if the product is deduced directly from the primary
metabolism. For example, ethanol, lactic acid and gluconic acid are some
potential products next to pure biomass. In this case, growth, substrate
consumption and product formation are running under nearly identical
conditions. Trophophase (exponential growth phase) and Idiophase
(production phase) can not be separated from each other.
Example: alcohol production with Saccaromyces cerevisiae.
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
1 5 10
0 0 0
a)
0 2 4 6 8 10 12 14
RX Growth, g/(lh)
RP Alcohol synthesis, g/(lh) 0.25 1.2 2.5
RS Sugar utilization, g/(l
h)
5 10 0.20 1.0 2.0
1
4 8 0.8
0.8 0.15 1.5
RP,RS 0.6 ,
0.6 3 6
RX 0.10 1.0
RX RP RS
2 4 0.4
0.4 Growth, g/(g h)
0.05 0.2 0.5 Alcohol synthesis, g/(g
h)
0.2 1 2 Sugar utilization, g/(g
h)
0 0 0 0
0 0
0 2 4 6 8 10 12 14
b) 0 2 4 6 8 10 12 14 c)
Time [t]
Buc 036
E F product
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
This type leads to two maxima in all volumetric rates during a batch
fermentation. In the beginning there is only growth in biomass, a high
consumption of substrates, and no or only a small product forming. Later
the growth is reduced, but by using a high consumption of substrate,
product formation is induced. Trophophase (exponential growth phase) and
Idiophase (production phase) are separated from each other.
Examples for this type of fermentation are the production of citric acid,
itaconic acid and some amino acids like glutaminic acid.
24 240 S
X Biomass dry wt, g/l
20 200 P Citric acid, g/l
Titrable acidity
Citric acid
a) Cell mass- and product concentrations 16 160 S Substrate
X
used
and utilized substrate,
X 12 P,S 120
b) Growth-, production and substrate
uptake rates and 8 80 P
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
25 1.25
S
20 1.00
a) Cell mass- and product concentrations
and utilized substrate, 15 0.75 X
X,S P
P
b) Growths-, production- and substrate 10 0.50
conversion rates and
X Biomass dry wt, g/l
c) specific rates as function of time 5 .25 P Penicillin, g/l
S Substrate us ed, g/l
0
a) 0 20 40 60
Time [t]
80 100 120 140
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
Time Time
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
= 1/X dX/dt
First, this model was used to estimate the kinetic of the production rate of
lactic acid. It was shown that the production is neither alone proportional to
the growth rate nor to the biomass concentration. Using equation (4-42) the
following types of fermentation can be distinguished.
Type A: The production rate is not related to the growth rate, that means
=0
dP
X (4 44)
dt
Type B: The production rate is only related to the growth rate, that
means = 0
dP dX
(4 45)
dt dt
An example of this particular type is the fermentation of sorbose with
Acetobacter suboxidans.
Type C
Type B
Type A
1/XdX/dt
dP 1 dX
dt max dt
that means
dP dX
const
dt dt
In some cases the formed product is not stable, e.g. penicillin production.
Here the product hydrolysis is in an aqueous solution identical to a 1st order
reaction. This phenomena can be taken into account by using a destruction
term:
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Bioprocess- and Bioreaction Engineering Prof. Dr. Rainer Buchholz
dP dX
X P (4 46)
dt dt
Competitive inhibition:
dX 1
max X (4 47)
dt P
K S 1 S
K P
Noncompetitive inhibition:
dX S KP
max X (4 48)
dt KS S K P P
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