bio sensors and bio electronics 16, 2001
TRANSCRIPT
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Biosensors & Bioelectronics 16 (2001) 10011007
Analysis of ethanolglucose mixtures by two microbial sensors:application of chemometrics and artificial neural networks for dataprocessing
Alexei V. Lobanov a, Ivan A. Borisov a, Sherald H. Gordon b, Richard V. Greene c,Timothy D. Leathers b,*, Anatoly N. Reshetilov d
a Chair of Biotechnology and En6ironmental Protection, Pushchino State Uni6ersity, Pushchino, Moscow Region 142290, Russiab Biopolymer Research Unit, National Center for Agricultural Utilization Research, USDA, ARS, 1815 North Uni6ersity Street, Peoria,
IL 61604, USAc Office of International Programs, ARS, USDA, 5601 Sunnyside A6enue, Belts6ille, MD 20705, USA
d
G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino,Moscow Region 142290, Russia
Received 6 July 2000; received in revised form 28 March 2001; accepted 10 April 2001
Abstract
Although biosensors based on whole microbial cells have many advantages in terms of convenience, cost and durability, a major
limitation of these sensors is often their inability to distinguish between different substrates of interest. This paper demonstrates
that it is possible to use sensors entirely based upon whole microbial cells to selectively measure ethanol and glucose in mixtures.
Amperometric sensors were constructed using immobilized cells of either Gluconobacter oxydans or Pichia methanolica. The
bacterial cells of G. oxydans were sensitive to both substrates, while the yeast cells ofP. methanolica oxidized only ethanol. Using
chemometric principles of polynomial approximation, data from both of these sensors were processed to provide accurateestimates of glucose and ethanol over a concentration range of 1.08.0 mM (coefficients of determination, R2=0.99 for ethanol
and 0.98 for glucose). When data were processed using an artificial neural network, glucose and ethanol were accurately estimated
over a range of 1.010.0 mM (R2=0.99 for both substrates). The described methodology extends the sphere of utility for
microbial sensors. Published by Elsevier Science B.V.
Keywords: Amperometric microbial sensor; Artificial neural network; Chemometrics; Ethanol; Glucose; Selectivity
www.elsevier.com/locate/bios
1. Introduction
1.1. Selecti6ity of biosensors
Soon after biosensors appeared in the 1960s, efforts
began to improve their characteristics. One of the major
remaining problems is to provide highly selective analy-
ses (Riedel et al., 1989). As a general rule, one sensor is
used to determine the concentration of one substrate
contained within a sample (the scheme one sensorone
substrate). In this approach, wide substrate specificity,
or low selectivity, appreciably restricts practical appli-
cations (Turner et al., 1987). The problem of lowselectivity is particularly prevalent in sensors based
upon whole cells, organelles, or tissue cuts and signifi-
cantly compromises the advantages of these sensors.
However, low selectivity can also be a problem for
enzyme electrodes and, in some cases, for immunosen-
sors as well (Smolander et al., 1992, 1993; Weller et al.,
1998). Numerous attempts have been made to increase
the specificity of a single sensor. Approaches have
included substrate adaptation, the use of selective mem-
branes, screening for superior organisms and mutant
isolation (Racek, 1995). In some cases, these methods
have led to a satisfactory solution of the problem.
Names are necessary to report factually on available data; how-
ever, the USDA neither guarantees nor warrants the standard of the
product and the use of the name by USDA implies no approval of the
product to the exclusion of others that may also be suitable.
* Corresponding author. Tel.: +1-309-681-6377; fax: +1-309-681-
6689.E-mail address: [email protected] (T.D. Leathers).
0956-5663/01/$ - see front matter Published by Elsevier Science B.V.
PII: S 0 9 5 6 - 5 6 6 3 ( 0 1 ) 0 0 2 4 6 - 9
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However, a new approach pertaining to the problem
of low selectivity has recently emerged, in which a set
of low-selectivity sensors are used in concert to
provide a highly selective analysis (the scheme N sen-
sors M substances). A prominent example of this
strategy is artificial tongue/nose systems (Vlasov et
al., 1997; Ziegler et al., 1998; Bessant and Saini,
1999). Such analyzers consist of low-selectivity biolog-
ical and/or chemical detectors and a signal processingsystem. In this scheme, it is possible to estimate the
ratio of mixture components and/or their actual con-
centrations by using principles of chemometrics or ar-
tificial neural networks. In practice, multidimensional
calibration dependencies are first obtained for mix-
tures of the analytes in different ratios; then the ra-
tios of components, or the concentrations of selected
components, are estimated from a complex of signals
using chemometric principles. These theoretical princi-
ples were developed for low-selectivity chemical sen-
sors (Schierbaum et al., 1990; Weimar et al., 1990,
1991; Slama et al., 1996).
1.2. Biosensors and the concept of artificial neural
networks
Artificial neural networks represent a comparatively
new trend in the study of artificial intelligence. They
are, in effect, mathematical models of biological neu-
ral systems. Computation strategies based on neural
models facilitate the solution of complex problems
that require a great deal of time and calculation when
solved by traditional methods.In this regard, biosensor response functions are of-
ten characterized by significant deviations from linear-
ity, requiring complex mathematical descriptions.
Accordingly, coupling biosensors with artificial neural
networks is growing in importance as a tool for mul-
ticomponent analyses (Hanaki et al., 1996; Ping and
Jun, 1996; Vlasov et al., 1997; Ziegler et al., 1998).
While an artificial neural network provides a non-lin-
ear approach that needs no a priori knowledge of
functional dependencies, it does require training.
Training or learning is based upon cumulative experi-
mental data.Neural networks consist of simple processing ele-
ments or neurons linked with each other in a partic-
ular configuration (Fig. 1a). Each neuron is a
non-linear transducer of input signals. Input signals
(Xi) are given weight coefficients (Wi), summed and
transferred to a non-linear function of activation
(transfer function, F) that forms an output signal (Y).
Training of the network then consists of the ad-
justment of the weight coefficients of input neuron
signals. Values of the vector of input signals (I) and
the vector of desired output signals (O) are presented
to the network. Weight coefficients are chosen in such
a way that the vector of output signals (O%) maxi-
mally corresponds to the vector O.
The action of the neural network is determined not
only by neuron properties and weights of connections
between them, but also by net topology, i.e. the rela-
tive positions of neurons. The development of a par-
ticular training algorithm, called the delta rule of
error back propagation (Werbos, 1974; McClelland
and Rumelhart, 1988), has made multilayer feed for-ward networks the most popular type (Fig. 1b).
1.3. Aim of the study
We previously showed that a low-selectivity whole-
cell biosensor could be used in conjunction with an
enzyme electrode to effectively estimate ethanol con-
tent in ethanol glucose mixtures (Reshetilov et al.,
1998). The parameters of these sensors were charac-
terized and optimal measuring conditions were re-
ported (Reshetilov et al., 1998). The current work
was designed to further develop this approach. Spe-cifically, the potential for differential analysis of etha-
nol glucose mixtures using two whole-cell microbial
sensors was investigated. Sensors based upon bacterial
cells of Gluconobacter oxydans, known to be highly
sensitive to both ethanol and glucose, were con-
structed. Similarly, sensors based on yeast cells of
Pichia methanolica, known to be highly sensitive to
ethanol and not to glucose, were also constructed.
Chemometric principles and an artificial neural net-
work were then used to process signals from these
biosensors. The reliability and accuracy of themethodology are described in this paper.
Fig. 1. Conceptual design of an artificial neural network. (a) Structure
of a single neuron. (b) Structure of a three-layer feed forwardnetwork.
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2. Materials and methods
2.1. Microorganism strains and their culti6ation
G. oxydans strain B-1280 and P. methanolica strain
Y-2621 were obtained from the All-Russian Collection
of Microorganisms, G.K. Skryabin Institute of Bio-
chemistry and Physiology of Microorganisms, Russian
Academy of Sciences.G. oxydans was cultured on a medium containing 100
g/l sorbitol and 10 g/l yeast extract (Difco, Detroit, MI)
at pH 6.0. Growth was monitored by optical density.
Cells from early stationary phase cultures (16 18 h)
were harvested by centrifugation (3000g, 15 min),
washed twice with a sterile physiological solution and
immediately immobilized in receptors.
P. methanolica cells were initially grown in a medium
containing 10 g/l glucose, 1.0% (v/v) methanol, 5.0 g/l
yeast extract (Difco, Detroit, MI), 1.0 g/l KH2PO4, 3.5
g/l (NH4)2SO4, 0.5 g/l MgSO47H2O, 0.1 g/l CaCl2, 40
mg/l adenine, 40 mg/l arginine and 20 mg/l methionine.When cultures reached 0.5 1.0 mg/ml (wet wt.), cells
were harvested by centrifugation, washed and then
placed in fresh medium containing 1.0% ethanol in
place of glucose. After an additional 8 10 h of incuba-
tion at 30 C, cells were harvested and immediately
immobilized in receptors.
2.2. Cell immobilization
Receptor elements for both types of biosensors were
formed by immobilizing cells by adsorption onto chro-matographic paper (Whatman GF/A, UK). A 5 ml
portion of a cell suspension (80 mg/ml dry wt.) were
applied to the paper surface with a micropipet and
dried for 20 min. The receptor element was then placed
onto the measuring surface of a Clark-type amperomet-
ric electrode and was fixed utilizing nylon netting.
2.3. Measurements
An industrially manufactured amperometric trans-
ducer (Ingold 531-04, Ingold Mettler-Toledo, Wilming-
ton, MA) was coupled to the microbial biosensor.Sensor signals were then amplified in conjunction with
a built-in filter for noise suppression (U7-1, ZIP, Rus-
sia) and analog signals were directly converted to digi-
tal form by an ADD device (ADDA-12, Flytech
Technology, Taipei, Taiwan). Digital signals were pro-
cessed on a personal computer using the program Sen-
sor for Windows developed by the authors. The
program recorded sensor responses, performed signal
preprocessing (smoothing, removal of signal peak out-
bursts and zero drift), calculated signal parameters
(amplitude and rate of change), built calibration depen-
dencies and calculated substrate concentrations. The
rate of change of electrode current was used in further
calculations as sensor response. Simultaneously, analog
signals were registered on a two-coordinate recorder
(H-307/1, ZIP, Russia). All measurements were made at
20 C in a continuously stirred open cuvette with a
working volume of 5.0 ml. The working solution was 20
mM potassium-phosphate buffer, pH 7.0. Assays were
initiated by the introduction of the sample (50 ml) into
the cuvette. The measuring time for a single sample wasno more than 2 min. After each measurement, the
electrode was washed with buffer for 10 15 min until
oxygen concentrations were restored to initial levels.
2.4. Chemometric approach
2.4.1. Calibration surfaces
An unambiguous description of a sample consisting
of m components requires either direct knowledge of
the concentrations of all m components, or an indirect
expression of these values, such as the actual concentra-
tion value of one substrate and the ratio of concentra-tions of all substrates. Objects characterized by several
values can be mathematically described as vectors.
Thus, each sample will correspond to a vector with
coordinates equal to the concentration of components
comprising the sample. The vector is graphically de-
picted as a line segment in m-dimensional space con-
necting the origin of coordinates with a point whose
coordinates are equal to the vector components. For a
mixture of two components, the locus of all possible
concentrations forms a plane (i.e. a two-dimensional
space), called the concentration plane. A point on thisplane represents each particular sample. The calibration
dependence is a surface in three-dimensional space,
with the concentration values of constituent compo-
nents as abscissa and ordinate and the sensor response
value as applicate.
Since the overall sensor response to a sample repre-
sents the sum total of individual responses to each
constituent substrate, there may be equivalent overall
responses to samples containing substrates in different
ratios. A curved line that connects all points corre-
sponding to different samples inducing an identical
sensor response value is called an isocline. An isocline isthus the projection to the plane of substrate concentra-
tions of the curved line formed by a sensor response
plane intersecting the calibration surface. Individual
component concentrations can be determined using the
isoclines derived from two different sensors. The point
at which these isoclines intersect on the concentration
plane describes the concentration values for each
component.
2.4.2. Building of calibration surfaces
Amperometric sensors based upon whole cells of G.
oxydans were previously described as being sensitive to
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Fig. 2. Calibration surface for the sensor based on Gluconobacter
oxydans cells, showing the normalized response (nA/s) to mixtures of
glucose and ethanol over the range of 0.010.0 mM. Interpolation
was performed using a polynomial of the second degree.
3. To simplify the mathematical processing, calibration
surfaces were approximated by piecewise or other
dependencies (Table 1).
4. The responses of both sensors to the unknown
sample were measured.
5. The possible ratios of substrate concentrations in
the sample were determined by the calibration de-
pendence and sensor response value (described in
more detail in Reshetilov et al., 1998).6. The final estimated substrate values were deter-
mined as those congruent for both sensors.
Sensors suffered from slight losses in response values
over time. This was overcome by normalization to a
control sample (10 mM glucose and 10 mM ethanol).
2.5. Artificial neural networks
There are several variations on the back propagation
algorithm. In batch back propagation, the weights are
changed after presentation of all patterns of the train-
ing set. However, in the case of large training samples,
the network may be adjusted more rapidly by incorpo-
rating a weight change upon presentation of every
forward and backward pass of the network. Other
frequently used training methods include Quickprop
(Fahlman, 1988) and the method of resilient back
propagation (Rprop) (Riedmiller and Braun, 1993).
Rprop has a number of advantages over other training
methods. Rprop institutes a change in weight at every
change of the sign of a partial derivative of the error
function of the corresponding weight of connection
(Wij ) between neurons i and j. The value of the partial
both glucose and ethanol, resulting from highly active
aldose- and alcohol dehydrogenases in the cytoplasmic
membrane (Kitagawa et al., 1987; Smolander et al.,
1993). Sensors based upon whole cells of P. methanolica
are sensitive to ethanol but not to glucose (Morozova et
al., 1996). Although it would have been sufficient to
calibrate the P. methanolica sensor using only ethanolstandards, for convenience, a single set of glucose eth-
anol mixtures was used to calibrate both the P.
methanolica and G. oxydans sensors.
The sensors were calibrated over a range of substrate
concentrations from 0.0 to 10.0 mM, for both glucose
and ethanol. Preliminary studies showed that saturating
substrate levels did not impede the subsequent analysis
of data. The calibration surface for the response of the
G. oxydans sensor to glucose and ethanol is shown in
Fig. 2. The response of the P. methanolica sensor to
ethanol is shown in Fig. 3. As noted, the latter sensor
exhibits no response to glucose.
2.4.3. Chemometric determination of mixture
component concentrations
Chemometric principles were used to estimate the
concentrations of substrates in samples by the following
scheme:
1. Both sensors were calibrated as described in Section
2.4.2.
2. A calibration surface reflecting the dependence of
the obtained response value on the concentrations
of substrates in a sample was built for each sensor
(Figs. 2 and 3).
Fig. 3. Calibration surface for the sensor based on Pichia methanolica
cells, showing the normalized response (nA/s) to ethanol over therange of 0.010.0 mM, in the presence or absence of glucose.
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Table 1
Approximation function coefficients
Parameter AG. oxydansgl AG. oxydans
et BG. oxydansgl, et KG. oxydans
gl KG. oxydanset RG. oxydans
0 KP. methanolicaet RP. methanolic
a 0
0.008 0.001 0.082 0.128 0.096 0.025Value 0.0160.003
derivative itself is not taken into account, avoiding the
problem of blurred adaptivity. Compared with thegradient descent algorithm, weight coefficients are
changed evenly throughout the network, independent
of the distance to the output layer. Another important
advantage of this method is the algorithm stability in
relation to the choice of training parameters. The
choice of training rate and momentum parameter is
often of critical importance when using standard back
propagation. In practice, Rprop generally provides bet-
ter solutions for most problems, with fewer training
cycles.
The Stuttgart Neural Network Simulator ver. 4.1(SNNS Group, IPVR, University of Stuttgart) was used
to create an artificial neural network. Calculations were
performed on a personal computer based on a Pen-
tium 233MHz processor. Different learning rules
(Rprop, Quickprop, Backprop) and transfer functions
of activation (sigmoid, binary) were tested. A neural
network with one internal layer was used.
3. Results and discussion
3.1. Approximation of calibration surfaces anddetermination of mixture component concentrations
Calibration surfaces were approximated with polyno-
mials of different degrees in order to simplify the
determination of mixture component concentrations.
The simplest subprograms for finding the roots of
polynomials were used for building isoclines, in place of
complex mathematical programs.
The calibration dependence for the sensor based
upon the strain P. methanolica (Fig. 3) was adequately
described by the following equation:
RP. methanolica=KP. methanolicaet [et]+RP. methanolica
0 ,
where RP. methanolica is the sensor response value,
KP. methanolicaet is the sensor sensitivity to ethanol, [et] is
the ethanol concentration in the analyzed sample, and
RP. methanolica0 is the sensor response value in the absence
of ethanol. Effects of the second order (dependence of
the sensor response value on the square of the ethanol
concentration) can be ignored in describing the calibra-
tion surface.
The calibration surface for the sensor based upon the
strain G. oxydans (Fig. 2) was described by the follow-
ing polynomial of the second degree:
RG. oxydans=AG. oxydansgl [gl]2+AG. oxydans
et [et]2
+BG. oxydansgl, et [gl][et]+KG. oxydans
gl [gl]
+KG. oxydanset [et]+RG. oxydans
0
where RG. oxydans is sensor response value; KG. oxydansgl and
KG. oxydanset are sensor sensitivities to glucose and etha-
nol, respectively; [gl] and [et] are glucose and ethanol
concentrations in the analyzed sample; AG. oxydansgl and
AG. oxydanset are coefficients reflecting the second order
non-linearity of the sensor response dependence on
substrate concentration; BG. oxydansgl,et is a parameter show-
ing the degree of interaction of glucose and ethanoleffects on the sensor response value; RG. oxydans0 is the
sensor response value in the absence of both substrates.
The solution of the first degree equation is substituted
into the second degree equation, which is then solved
by finding the root of the second degree polynomial.
It should be noted that the polynomial of the second
degree restricts the useful range of this analysis. For
example, due to a nonzero value of the parameter
RG. oxydans0 , the approximation gives large errors with
low concentrations (B0.5 mM) of either substrate.
Furthermore, the useful range must be restricted to
substrate concentrations that do not result in two possi-ble values of component concentrations. In this case,
this restriction means that glucose concentrations must
be B8 mM. The values of parameters obtained are
given in Table 1.
3.2. Determination of mixture component
concentrations using artificial neural networks
A neural network with one internal layer and sig-
moid transfer functions of activation was used in this
study. Analytical signals of the two biosensors,RG. oxydans and RP. methanolica, arrived at the input layer.
The third input signal T, characterizing the time from
the start of measurement, was used to increase the
accuracy of determination. Network outputs were val-
ues of glucose and ethanol concentrations normalized
by the formula Cnorm=C/Cmax. The best results were
achieved with Rprop training (Riedmiller and Braun,
1993). Fig. 4 shows examples of dependencies of the
sum of square errors (SSE) at output neurons on the
number of training cycles at different distributions of
the weights of connections between neurons. Expect-
edly, since the weights were initialized at random, the
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training proceeded in different ways. The training pro-
cess was often stopped after reaching one of the local
minima of the error function (Fig. 4). To solve the
problem of local minima in some modifications of the
back propagation algorithm, a dynamic change of the
training rate was used. Local minima could also be
avoided (after the values of weight coefficients are
stabilized) by the addition of a random constituent to
start the gradient descent from a new point. Fig. 4shows that 8000 cycles provided sufficient training. No
significant decrease of the error was observed upon
further training.
Fig. 5 shows a plot of SSE dependence at output
neurons of the network on the number of neurons in
the internal layer. Due to the above described peculiar-
ities of weights initialization, the errors in each point
were measured three times to choose the least value.
The dependence analysis showed that 12 neurons in the
internal layer were sufficient for optimal training. Fur-
ther increases in the number of neurons did not result
in a significant decrease of SSE and required moretraining time. Under the optimal conditions established
above, the minimal SSE was 0.039.
3.3. Error of determination of concentrations
The accuracy of determining concentrations using the
Fig. 5. Dependence of the sum of squared errors (SSE) on the number
of neurons (n) in the internal layer.
chemometric approach and artificial neural networks
was estimated by the coefficient of determination (R 2)
described by the formula:
where
Yobs= %n
i=1
wiYi, %n
i=1
wi
is the weighed mean value of substrate concentration
(Yobsi), wi is weight coefficient for each measurement,Ycal are concentration values obtained from data pro-
cessing and n is number of measurements. The coeffi-
cient of determination describes the degree of data
deviation from standard values. Thus, when R 2=1 the
model provides a precise determination of the substrate
concentration.
3.4. Comparison of the efficiency of mixture analysis
using chemometric methods and artificial neural
networks
The analyses of experimental data processed by
chemometric and artificial neural network methods are
summarized in Table 2. These results testify to the
potential of using a system consisting of two microbial
R 2= %ni=1
wi(YobsiYobs)
2 %n
i=1
wi(YobsiYcal
i)2, %n
i=1
wi(YobsiYobs)
2,
Fig. 4. Examples of dependence of the logarithm of the sum of
squared errors (log(SSE)) on the number of training cycles (N).
Curves ad correspond to different initial distributions of weights onthe number of connections between neurons.
Table 2
Coefficient of determination
Analyte Value of R 2 for artificialValue of R 2 for
polynomial approximation neural networks
Glucose 0.9950.976
0.9920.993Ethanol
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sensors to analyze a two-component mixture. Data
processing was successful using either traditional chemo-
metric methods or an artificial neural network. Indeed,
differences in the accuracy of determinations were not
found to be significant. Since polynomial approximations
restricted the range of substrate concentrations that
could be analyzed, however, processing of data using the
neural network was preferable. The choice of a method
for experimental data processing should consider suchfactors as the availability of sufficient data for neural
network training and the difficulty of designing a
portable device using the polynomial approximation
dependence, as well.
4. Conclusions
Results demonstrated that a system consisting of only
two microbial sensors can be used in the quantitative
analysis of ethanol glucose mixtures. An artificial neural
network was shown to be highly efficient for the analysisof data from this system. The accuracy of the artificial
neural network was compared with that of a traditional
chemometric method. The coefficients of determination
(R 2) were 0.99 for ethanol and 0.98 for glucose in data
processed by polynomial approximation and 0.99 for
each substrate in data processed by the artificial neural
network.
Acknowledgements
This work was conducted under Specific Cooperative
Agreement 58-3620-8-F005 between the Institute of Bio-
chemistry and Physiology of Microorganisms,
Pushchino, Moscow Region, Russia and the Agricultural
Research Service of the US Department of Agriculture.
The authors thank N.O. Morozova for providing data
on measurements with the sensor on the basis of P.
methanolica.
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