Agata Wawrzkiewicz-Jałowiecka1, Paulina Trybek2, Beata Dworakowska3, Łukasz Machura2. 1. Department of Physical Chemistry and Technology of Polymers, Faculty of Chemistry, Silesian University of Technology, Gliwice 44-100, Poland. 2. Institute of Physics, University of Silesia in Katowice, Katowice 40-007, Poland. 3. Institute of Biology, Department of Physics and Biophysics, Warsaw University of Life Sciences-SGGW, Warszawa 02-787, Poland.
Abstract
Potassium channels play an important physiological role in glioma cells. In particular, voltage- and Ca2+-activated large-conductance BK channels (gBK in gliomas) are involved in the intensive growth and extensive migrating behavior of the mentioned tumor cells; thus, they may be considered as a drug target for the therapeutic treatment of glioblastoma. To enable appropriate drug design, molecular mechanisms of gBK channel activation by diverse stimuli should be unraveled as well as the way that the specific conformational states of the channel relate to its functional properties (conducting/nonconducting). There is an open debate about the actual mechanism of BK channel gating, including the question of how the channel proteins undergo a range of conformational transitions when they flicker between nonconducting (functionally closed) and conducting (open) states. The details of channel conformational diffusion ought to have its representation in the properties of the experimental signal that describes the ion-channel activity. Nonlinear methods of analysis of experimental nonstationary series can be useful for observing the changes in the number of channel substates available from geometrical and energetic points of view at given external conditions. In this work, we analyze whether the multifractal properties of the activity of glioblastoma BK channels depend on membrane potential, and which states, conducting or nonconducting, affect the total signal to a larger extent. With this aim, we carried out patch-clamp experiments at different levels of membrane hyper- and depolarization. The obtained time series of single channel currents were analyzed using the multifractal detrended fluctuation analysis (MFDFA) method in a standard form and incorporating focus-based multifractal (FMF) formalism. Thus, we show the applicability of a modified MFDFA technique in the analysis of an experimental patch-clamp time series. The obtained results suggest that membrane potential strongly affects the conformational space of the gBK channel proteins and the considered process has nonlinear multifractal characteristics. These properties are the inherent features of the analyzed signals due to the fact that the main tendencies vanish after shuffling the data.
Potassium channels play an important physiological role in glioma cells. In particular, voltage- and Ca2+-activated large-conductance BK channels (gBK in gliomas) are involved in the intensive growth and extensive migrating behavior of the mentioned tumor cells; thus, they may be considered as a drug target for the therapeutic treatment of glioblastoma. To enable appropriate drug design, molecular mechanisms of gBK channel activation by diverse stimuli should be unraveled as well as the way that the specific conformational states of the channel relate to its functional properties (conducting/nonconducting). There is an open debate about the actual mechanism of BK channel gating, including the question of how the channel proteins undergo a range of conformational transitions when they flicker between nonconducting (functionally closed) and conducting (open) states. The details of channel conformational diffusion ought to have its representation in the properties of the experimental signal that describes the ion-channel activity. Nonlinear methods of analysis of experimental nonstationary series can be useful for observing the changes in the number of channel substates available from geometrical and energetic points of view at given external conditions. In this work, we analyze whether the multifractal properties of the activity of glioblastoma BK channels depend on membrane potential, and which states, conducting or nonconducting, affect the total signal to a larger extent. With this aim, we carried out patch-clamp experiments at different levels of membrane hyper- and depolarization. The obtained time series of single channel currents were analyzed using the multifractal detrended fluctuation analysis (MFDFA) method in a standard form and incorporating focus-based multifractal (FMF) formalism. Thus, we show the applicability of a modified MFDFA technique in the analysis of an experimental patch-clamp time series. The obtained results suggest that membrane potential strongly affects the conformational space of the gBK channel proteins and the considered process has nonlinear multifractal characteristics. These properties are the inherent features of the analyzed signals due to the fact that the main tendencies vanish after shuffling the data.
The
available chemotherapy and radiology treatments turn out to
be ineffective in the case of gliomas, which are brain tumors arising
from glial cells.[1,2] Gliomas account for the majority
of malignant brain tumors in adults[3] and
are graded from I to IV, with higher grades being more differentiated
and malignant.[2] Grade IV gliomas are called
glioblastoma multiforme (GBM) and exhibit the highest proliferative
potential and almost complete resistance to currently available therapies.[4,5] The great majority of patients with GBM do not survive beyond 2
years even when a combination of novel and conventional therapies,
i.e., surgery, chemotherapy, and radiotherapy, was introduced.[1,4−6] Focal surgical resection is ineffective and adequate
radiotherapy is impossible in glioblastoma due to the fact that GBM
is characterized by extensive invasion, migration, and angiogenesis.[7] To enable the development of a more effective
therapeutic treatment for glioblastoma, one should better understand
all biological processes taking place at the molecular and cellular
levels in this tumor. Several ion channels have been implicated in
glioblastoma proliferation, migration, and invasion.[7]In this work, we focus on the activity of voltage-
and Ca2+-activated large-conductance K+ channels
(BK) obtained
from humanglioblastoma cells (gBK channels). BK channels are overexpressed
in malignant gliomas (in comparison to nonmalignant cortical tissues),
and their expression level correlates positively with the malignancy
grade of the tumor.[8−10] These channels are expressed in specific isoforms
in glioma cells that have slightly different characteristics from
other BK channel exons (e.g., they are more sensitive to cytosolic
concentration of calcium ions[11]); thus,
they are called gBK channels. The gBK channels play an important physiological
role in glioma cells: they program and drive cell growth and extensive
migration (also in glioblastoma stemlike cells),[7,9,10,12,13] so they detrimentally facilitate the invasiveness
of glioblastoma that renders them incurable so far.One can
indicate several processes taking place at the molecular
level, in which gBK channels can contribute to the shape and volume
changes of glioma cells during their invasive migration in a crowded
environment (by triggering and motorizing that process).[12] First, the distribution of ions affects the
water flow across the cell membrane, and consequently, the cell volume,
due to the effective osmotic pressure.[14] Taking into account the overexpression of gBK channels in gliomas,
these channels can detrimentally affect osmosis and regulation of
cell volume. Second, gBK channels are anticipated to provide the electrochemical
driving force for the ion movement needed for the release of cytoplasmic
water and cell shrinkage, which in turn facilitates the extensive
migrating behavior of glioblastoma cells. This was indicated by the
results provided in the works of Wondergem et al.[15,16] Moreover, due to the mechanosensitivity of gBK channels, they may
be involved in the mechanotransduction during cell shape and volume
changes.[17] Also deformation or reorganization
of the cytoskeleton during an alteration in cell volume or shape may
affect the functioning of gBK channels,[17] which, as a consequence, should affect the effectiveness of cell
migration.Here, we go beyond the usual description of the changes
of gating
kinetics resulting from the electrical stimulation of cell membrane
and investigate the effects of membrane depolarization on a channel’s
conformational dynamics. Mechanisms of K+ channel activation
by diverse stimuli like voltage, Ca2+, Mg2+,
H+, HEME, temperature, mechanical strain, etc. still evoke
open discussions among researchers. The authors who model activation
dynamics and gating present many possible scenarios, which differ
by the number of available channel states within both conducting (functionally
open) and nonconducting (functionally closed) states’ manifolds;
also the mechanics of the state transitions are introduced in the
models in a different way.[18−24] A great breakthrough has been made by resolving the molecular structure
of the Ca2+-bound and Ca2+-free BK channels.[25−27] It allowed not only for the inference that voltage and Ca2+ sensors are coupled and they can cooperatively influence the channel
pore gate domain, but also these studies failed to identify a physical
gate that could mechanically block the ion flow in the nonconducting
state.[28] From this point of view, the pore-forming
helices do not form a tight bundle as in some Shaker-like channels
to dam K+ transport through the pore. In ref (25), the authors observed
four different structures for the BK channel when the channel was
neither voltage-activated nor Ca2+-activated. In those
terms, the channel would be expected to be functionally closed. Nevertheless,
the inner pore-forming helices are not so close to each other to prevent
potassium ions to access the selectivity filter. Quite similar observations
are made in the studies on the activation of ligand-gated K+ channel from the Slo family.[29] Namely,
the Na+-dependent K+ channel Slo2.2 exhibited
eight classes that resemble an open state and two classes being classified
as the closed channel structures at 300 mM Na+. But some
open classes can be nonconductive. The authors also obtained results
which allowed for an inference that stable intermediate conformations
between the closed and open states do not exist. Thus, channel opening
is highly concerted and, as a consequence, the open–closed
fluctuations occur in a switchlike manner. Due to the fact that the
structures of the Slo 2.2 and Slo 1 channels share some similarities,[25,26,29,30] one can expect that at least some of the aforementioned inferences
may also refer to the BK channel’s conformational dynamics.BK channels pass through multiple kinetic states over time during
gating. It can be assumed that Hite et al.[25,29] have identified some of the structures corresponding to different
kinetic states, providing insight into which conformational states’
functionally closed and open states might be adopted.[28] Still, some questions arise, among others:A possible answer for the
first question is provided by the
hydrophobic gating mechanism postulated in ref (31), where the authors conclude
that the BK channel does not need a physical gate. Spontaneous flickering
between conducting and nonconducting states at fixed conditions can
be realized as wetting and dewetting of the channel pore resulting
from the fact that the pore can constantly undergo changes in shape
and surface hydrophobicity (conformational diffusion). The answers
for the above questions need broader studies and discussion. However,
some clues may be provided here by means of nonlinear analysis of
experimental time series describing single channel activity.Where is the actual channel gate
that allows for conducting/nonconducting
fluctuations at fixed conditions?What
kind of and how many stable structures of the BK
channel protein exist at intermediate Ca2+ and/or voltage
levels?Are there any differences in
system dynamics in functionally
open and closed states, and which ones influence the system as a whole
to a higher extent?As shown in our previous research,[17] application
of nonlinear methods in the analysis of an experimental
nonstationary series describing ion-channel activity can be useful
for estimating the changes in the number of channel states available
from a geometric and energetic point of view at given external conditions.
We claim that channel conformational diffusion has its representation
in the structure of the signal. The most structurally distant conformations
are suspected to affect the complexity of the experimental data at
least. In this paper, we would like to continue and broaden the discussion
about the conformational diffusion of the gBK channel in electrically
stimulated membranes based on the results of the multifractal detrended
fluctuation analysis (MFDFA).[32]For
over 30 years, ion-channel recordings have been analyzed paying
special attention to their nonlinear, fractal properties.[33−38] Here, we not only describe the multifractal nature of the experimental
time series of BK channel activity but also present a biological interpretation
of the obtained characteristics, which gives an additional insight
into the conformational dynamics of the channel protein.
Methods
Detrended Fluctuation
Analysis (DFA)
The DFA method
was first proposed by Peng in 1994 for investigating the correlation
in DNA structure.[39] The last years have
seen a renewed importance in the application of this method to biological
data and also as a technique capable of distinguishing between healthy
subjects and heart failurepatients.[40] This
technique relies on the assumption that the signal is influenced by
both short-term and long-term features. For a proper interpretation
of the effects hidden behind the internal dynamics, the signal is
supposed to be analyzed at multiple time scales.[41] A brief description of the original DFA algorithm is presented
below.The procedure starts with the calculation of the profile y as the cumulative sum of
the data x with the
subtracted mean ⟨x ⟩Next, the
cumulative signal y is
split into n equal nonoverlapping
segments of size s, for which we use powers of 2, s = 2, r =
4,..., 11. For all
segments of size s, v = 1,..., n, and the local trend y is calculated. In the standard
DFA method, the local trend is calculated by means of the least-squares
fit of order m. In this work, a second-order polynomial m = 2 is used. The variance F2(s, v) as a function of the segment
length s is calculated for each segment v separately.As
the last step, the Hurst exponent H can be determined
as the slope of the regression line
of the double-logarithmic dependence log F(s) ∝ H log s of the square root of the average variance . The exponent H is used
as a measure of the long-term memory of a time series.
The standard DFA methodology
presented above can be extended to capture
the qth statistical moment of the calculated variance
in terms of the scaling function[42]A similar power law S(q, s) ∼ s can be utilized to calculate
the q-order generalized Hurst exponent H(q). The latter is required to compute the singularity
spectrum for a time series. In the first step, the mass exponent τ
is determined via the relation τ(q) = qH(q) – 1. Next, the qth-order Hölder exponent h(q), a quantity that characterizes the singularities, is estimated
as a derivative of the mass exponent, . Finally, the qth-order
multifractal singularity spectrum D(h) (mf-spectrum) can be constructed as a Legendre transform of the
mass exponentIt results in the usual concave-shaped
distribution
of the singularity strengths.[43]
Focus-Based
Multifractal Formalism
Multifractal properties
of a time series are reflected in the generalized Hurst exponent H(q). The standard method for the estimation
of those properties often results in a nonmonotonic characteristic
of this function, which causes the degeneracy of a singularity spectrum.[44,45] It is typically a consequence of the finite length of the series.
The scaling function S constructed from different
moments q of the measure depends on the scale of
observation—see eq . However, if one considers the full length of the time series, the
dependency on the moment q disappears. It means that
regardless of the moment, there exists only one value for the fluctuation
function S(q, L) = S(L) = S. It defines a single pair of values (log S, log s) to which the function log S(q, s) for any moment q supposes
to converge with a growing scale s. We will call
this pair of values the focus point. The existence of this point is
the central idea of the focus-based multifractal (FMF) formalism.[46]The traditional approach to find a singularity
spectrum is based on finding a linear representation of the calculated
log S versus log s characteristics for each moment q. An algorithm,
however, does not guarantee that the such-determined q–dependent linear functions will cross with each other at
the focus point or even will not cross at all (see the blue solid
lines in Figure for
details). Instead of calculating separate fits for selected moments q at a time, one can try to fit the whole family of functions S(q, s) keeping the requirement
of sustaining one focus point (see Figure . The usual way is to construct a cost (loss)
function that would capture the properties of both the focus point
and the whole family of the qth-order scaling functions.
This function can be deduced from the power lawIf we mark an iteratively updated scaling
function with a hat, then the total mean squared error cost function
MSE to be minimized reads[46]where n is the total
number of segments of size s and n stands for the
number of scaling factors q. Next, the scaling functions
are found for the data. In the subsequent step, the iterative optimization
algorithm, e.g., the first-order gradient descent, is utilized to
find the minimum of the cost function.
Figure 1
Presentation of the FMF
method. The solid gray lines with dots
denote the S(q, s) characteristics obtained with the standard DFA technique. The solid
blue lines stand for the linear fit calculated with the classic least-squares
method. The dashed orange lines represent the set of lines determined
using the gradient descent method with a focus point. Note that all
of the dashed lines cross at the focus point (L, S) marked with a circle, while
the standard individually fitted lines miss the focus for the majority
of moments q.
Presentation of the FMF
method. The solid gray lines with dots
denote the S(q, s) characteristics obtained with the standard DFA technique. The solid
blue lines stand for the linear fit calculated with the classic least-squares
method. The dashed orange lines represent the set of lines determined
using the gradient descent method with a focus point. Note that all
of the dashed lines cross at the focus point (L, S) marked with a circle, while
the standard individually fitted lines miss the focus for the majority
of moments q.The newly obtained family of the linear representation of the scaling
functions can be later used to calculate a new generalized moment-wise
Hurst exponent function Ĥ(q), which in turn directly yields the singular spectrum D(h). From this point onward, the procedure for the
calculation of the singular spectrum is the same as that for the classic
MFDFA algorithm.[42] The analysis by means
of the standard MFDFA and focus-based method was performed using our
own authorial Python software, where we implemented the methodology
developed by Mukli et al.[46]The parameters
of the singularity spectra (viz., spectral width
Δ, half-width Δ1/2, maximum of a spectrum Hmax, spectral symmetry) obtained for the experimental
time series of single channel currents describe the complexity and
multifractal properties of these data. Such characteristics can be,
in turn, interpreted in terms of the process underlying the observed
current fluctuations, which is the conformational dynamics of a channel
protein. An appropriate discussion will be provided in the Results and Discussion section.
Material
Cell Line
and Solutions
For all of the measurements,
humanglioblastoma cells (U-87 MG cell line) were used. The cells
were cultured on Petri dishes in Dulbecco’s modified Eagle’s
medium (HyClone) supplemented with 2 mM l-glutamine (Gibco),
10% fetal bovine serum (Gibco), 100 units/mL penicillin, and 100 μg/mL
streptomycin (Sigma). The cultures were incubated at 37 °C in
5% CO2-enriched air.
Electrophysiology
Experimental results were recorded
from inside-out patches. The measurements were performed at room temperature
(20–23 °C). In all experiments, symmetrical solutions
on either side of the cell membrane were used, which contained the
following: 130 mM potassium gluconate, 5 mM KCl, 8 mM 4-(2-hydroxyethyl)-1-piperazineethanesulfonic
acid (HEPES), 10 mM glucose, 2 mM CaCl2, 1 mM MgCl2, and 2 mM ethylene glycol-bis(β-aminoethyl ether)-N,N,N′,N′-tetraacetic acid (EGTA), and pH was adjusted to
7.3. The ion currents were recorded using an Axopatch 200B amplifier
(Axon Instruments). The experimental data were low-pass-filtered at
5 kHz and transferred to a computer at a sampling frequency of 10
kHz using Clampex 7 software (Axon Instruments).Channel current
recordings were analyzed at fixed pipette potentials of −60,
−40, −20, 20, 40, and 60 mV. From all (3–7) experimental
time series of channel currents, we selected and further analyzed
only those where a single active BK channel was present in a patch.
The channel current was measured at time intervals of Δt = 10–4 s. The ionic current measurement
error was ΔI = 5 × 10–4 pA. Each experimental time series comprised N =
5 × 105 current values at the applied time resolution
of the measurement. Figures and 3 present the exemplary data together
with the respective histograms. As one can see in Figure , the probability of conducting
state (O) increases with membrane depolarization, which is typical
for voltage-dependent channels. Single-channel current amplitude increases
as the difference in membrane potential increases; thus, local maxima
in Figure become
well separated at both deep depolarization and hyperpolarization.
Figure 2
Samples
of the original signal of ionic current recorded from a
single gBK channel over the range of electric potential U = −60, −40, and −20 mV on the left side (a)
and U = +60, +40, +20 mV on the right-hand side (b).
The dotted lines indicate functionally open, i.e., conducting (O)
and functionally closed, i.e., nonconducting (C) states of the channel.
Figure 3
Histograms of the original signal of ionic current recorded
from
a single gBK channel over the range of electric potential U = +60, +40, +20 mV (top panels) and U = −60, −40, −20 mV (bottom panels).
Samples
of the original signal of ionic current recorded from a
single gBK channel over the range of electric potential U = −60, −40, and −20 mV on the left side (a)
and U = +60, +40, +20 mV on the right-hand side (b).
The dotted lines indicate functionally open, i.e., conducting (O)
and functionally closed, i.e., nonconducting (C) states of the channel.Histograms of the original signal of ionic current recorded
from
a single gBK channel over the range of electric potential U = +60, +40, +20 mV (top panels) and U = −60, −40, −20 mV (bottom panels).
Event Detection
The MFDFA is carried out on a raw experimental
data series—time series of single-channel currents and also
on preprocessed results—series of ionic currents recorded during
the conducting (open) state of a channel and some current fluctuations
recorded during the nonconducting state of a channel. The threshold
current value used to identify transitions between the subsequent
states is evaluated as given in ref (36). The analysis of single-state data sets was
performed to indicate the complexity of the signal within currents
corresponding to a single manifold of states and any differences between
the properties of the conducting and nonconducting states, as well
as to determine which kind of signal—corresponding to conducting
or nonconducting states—determines the characteristics of the
total experimental time series of single-channel currents.
Results
and Discussion
The necessity of applying a modified MFDFA
technique in the form
of an FMF analysis is presented in Figure . The obtained spectra were calculated by
both the methods: standard MFDFA (blue dots) and the focus-based modification
(orange crosses) (see Figure ). In the standard method, the degeneration of the spectrum
(zigzag type) is found. In other words, a large number of cases are
characterized by the inversed singularity spectrum. The nonmonotonic
relationship of the generalized Hurst exponent as a function of q precedes obtaining this type of spectrum shape. This situation
causes difficulties in the interpretation of multifractality of the
data and also the proper estimation of spectrum parameters such as
maximum of spectrum or the spectrum width.
Figure 4
Comparison of mf-spectra
for standard multifractal formalism (blue
dots) and modified focus-based method (orange crosses) calculated
for the representative measurement obtained at membrane hyperpolarization, U = −20 mV. The black and red dots mark, respectively,
the maximum of the spectrum and the generalized Hurst exponent for
the nondegenerated case.
Comparison of mf-spectra
for standard multifractal formalism (blue
dots) and modified focus-based method (orange crosses) calculated
for the representative measurement obtained at membrane hyperpolarization, U = −20 mV. The black and red dots mark, respectively,
the maximum of the spectrum and the generalized Hurst exponent for
the nondegenerated case.
Comparison of mf-Spectra
at Different Membrane Potentials
A comparison of mf-spectra
calculated by the FMF method is presented
in Figure . For the
investigation of the long time series (500 000 data points),
the range of scales s ⊂ [24,213] was selected. The comprehensive analysis of the nature
of the BK channel’s multifractality requires the calculation
of the spectra for the following cases: (i) raw data and (ii) data
after the shuffling operation.
Figure 5
Raw data calculations: comparison of channel
activity characteristics
for (a) total recording, (b) functionally open states, and (c) closed
states. The black and red dots mark the maximum of the spectrum and
the generalized Hurst exponent, respectively.
Raw data calculations: comparison of channel
activity characteristics
for (a) total recording, (b) functionally open states, and (c) closed
states. The black and red dots mark the maximum of the spectrum and
the generalized Hurst exponent, respectively.Figure summarizes
the spectra obtained for all subsequent channel states (total signal
composed of the experimentally recorded ionic currents), series of
potassium currents corresponding to the conducting state of a channel,
and series of some “leak” currents that correspond to
the nonconducting states of a channel at different stages of depolarization
and hyperpolarization. During the analysis of the total signal, one
can note a marked tendency between the different values of membrane
potentials in both cases, at hyperpolarization and depolarization.
The average spectra of the data obtained when the value of membrane
potential was closest to zero in each group (20 and −20 mV)
are clearly shifted to the smaller values of h(q). In other words, the spectral maximum is most extended
to left at this specific condition, and then along with increasing
applied potential at membrane depolarization and decreasing applied
potential at membrane depolarization successively moves toward larger
values of h(q) (Figure a,b). Considering the results
of the multifractal analysis dedicated to the currents recorded during
the open (conducting) and closed (nonconducting) states of the channel,
one can observe that the results obtained during the channel’s
closures are completely consistent with those corresponding to the
total signals.The results characterizing open states are the
opposite of the
remaining ones. First, the variability of their spectral width is
substantially smaller. Second, the general trend shows an increase
in spectral width when the membrane potential decreases (only for
−40 mV, there is a local minimum). Such results suggest that
the total signal’s characteristics are mainly determined by
the recordings obtained during the nonconducting states of a channel.
The recognized differences in spectral distributions allow us to infer
that the dynamics of conformational changes within the conducting
and nonconducting states’ manifolds differ significantly. Roughly
speaking, single-channel currents recorded when the channel pore exhibits
possibly high conductance retain a self-similar structure over a range
of scales regardless of the membrane potential (Figure b) (which is also notable by the trend-reinforcing
behavior, as measured by Hurst exponents). Whereas current fluctuations
recorded when the channel is supposed to not conduct potassium ions
as well as the total signal significantly lose their multifractal
self-similarity (and the recorded time series become uncorrelated
or even anticorrelated, as shown by values of the Hurst exponents)
(Figure a,c).It is also visible in the case of functionally open states that
multifractal spectra have a right truncation. A long left tail suggests
that the time series of channel currents have a multifractal structure
that is insensitive to the local fluctuations with small magnitudes.After the shuffling operation (Figure ), the spectral distribution is quite different,
but the most important aspect here is that the spectra are about twice
narrower. The effect of the reduced multifractality after mixing of
the data has a large consequence in the proper interpretation of the
source of the fractal nature of the examined signals.
Figure 6
Shuffled data calculations:
comparison of channel activity characteristics
for (a) total recording and (b) functionally open states and (c) closed
states.
Shuffled data calculations:
comparison of channel activity characteristics
for (a) total recording and (b) functionally open states and (c) closed
states.There exist two general sources
of multifractality which have influence
on the shape of the mf-spectrum: (i) the broad probability density
function (pdf), which lies behind the data, and (ii) different behaviors
of the (auto)correlation function for large and small fluctuations.
Furthermore, both situations are possible simultaneously. In case
(i), shuffling will not change the mf-spectrum; for (ii), it will
destroy the effect completely as the shuffling will erase the possible
correlations. When cases (i) and (ii) are present simultaneously,
the spectrum will differ from the original one, and the weaker multifractality
can be identified. In our case, we can observe exactly the last mixed
situation, and thus we suspect that the multifractality of the data
is caused by both the correlation and the broad pdf.To interpret
these results in terms of the considered biological
system, one has to note the following facts:Taking into consideration the facts mentioned above,
multifractal
properties of the analyzed time series of channel currents (total
signal) are an inherent feature of the system connected to the dynamics
of switching between the channel states, which change with membrane
potential but does not depend strictly on the value of current amplitude.
The changes in channel currents with voltage pertain mainly to the
conducting states of a channel since the nonconducting states form
a baseline during the experimental recording and they underlie smaller
fluctuations in the examined range of the membrane. Single-channel
currents recorded at the conducting states of the channel have multifractal
characteristics over a range of scales regardless of the membrane
potential (Figure b); in contrast, the multifractality within closed states and the
total signal vary significantly with voltage. As the picture of multifractal
properties of the total signal fits to the one obtained for functionally
closed states, one can infer that the channel dynamics is mainly influenced
by the dynamics of conformational transitions within the nonconducting
states. This inference is compatible with some popular kinetic models
of the ion-channel activity,[22,49,50] where more kinetic substates correspond to functional closures than
openings of a channel. It is possible that the scheme of switching
between functionally closed conformations becomes more complex with
the increase of the difference in electric potential on both sides
of the membrane, which leads to an eventual widening of the mf-spectrum
at these conditions.BK channels are voltage-activated, which means they
exhibit more often the conducting state than the functionally closed
one at membrane depolarization and tend to retain a nonconducting
state at hyperpolarization of the cell membrane. Nevertheless, even
at a negative potential, there is a nonzero probability that the channel
rapidly opens for a relatively short time (as shown in Figure ),the actual single-channel conductance is determined
by two factors. The first, and the most detrimental effect, is exerted
by the membrane potential. The absolute value of a single-channel
current increases as the difference of the electric potential on both
sides of the channel membrane increases (both toward highly positive
values and toward negative ones), as shown in Figure a. Higher amplitudes of channel currents
at deep-membrane depolarization or hyperpolarization result in broader
probability density functions (Figure b). Second, the conductance of the channel pore in
the open state varies with voltage as a result of the structural changes
that a given channel undergoes during voltage activation.[25,26,47,48] But these slight changes in geometry can significantly influence
the kinetics of switching between conducting and nonconducting states.The confirmed existence of the second source
of multifractality
of the investigated data, namely, correlations for large and small
fluctuations, is also worth noting. The analyzed time series are long-term
correlated at all experimental conditions—for channel currents
at the conducting states of a channel and at high differences of electric
potential on both sides of the membrane—for nonconducting states,
and total signal, as shown by the values of Hurst exponent (Figures and 6).A strong analogy exists between the multifractal
and thermodynamical
characteristics. In particular, multifractal spectra can be related
to entropy.[51−53] In total signal as well as in the series of channel
currents in functionally closed states, one can observe shifting of
the maximum of multifractal spectra toward higher values when the
difference in electric potential on both sides of the membrane increases
(both at depolarization and hyperpolarization). It indicates greater
complexity of the signal at highly positive and negative potentials
comparing with the data obtained at membrane potentials close to zero,
which may suggest an increase in the number of attainable channel
substates (mainly within the nonconducting manifold) with absolute
value of voltage. The symmetry of the changes in signal multifractality
(and, consequently, entropy) occurring both at membrane depolarization
and hyperpolarization may be counterintuitive in the case of a voltage-activated
channel. The findings from refs (22, 49, 50), and (54) suggest nonsymmetric nets of conducting and
nonconducting states, but there is no information about probabilities
of switching between different substates at different voltages and
consequently the complexity of conformational switching. Thus, there
are no clear presumptions to expect that a channel’s activation
should result in a monotonic dependence of multifractal characteristics
on the applied voltage (in a whole range of analyzed membrane potentials,
i.e., from −60 to 60 mV).
Conclusions
In
this work, a novel approach of multifractal signal analysis
is presented. To the authors’ best knowledge, very few publications
can be found that discuss the issue of the multifractal character
of a time series by implementing an FMF methodology. An implementation
of this unique technique, which is capable of handling empirical signals
with a varying degree of heterogeneity, brings a lot of valuable information
to the investigation of an ion channel’s activity. This work
concludes that the multifractality can be regarded as an inherent
feature of the single-channel currents obtained by patch-clamp measurements.
The observed multifractal spectra suggest that the characteristics
of system dynamics are substantially different in functionally open
and closed states, and the total signal recorded during experiments
is influenced to a higher extent by the nonconducting states than
the conducting ones. It is quite interesting that the symmetric increase
of spectrum width and shifting of maximum of mf-spectrum of both the
total signal and channel currents recorded during the functionally
closed states toward higher values as the difference in electric potential
on both sides of the membrane patch increases. It suggests a higher
complexity and entropy of the signal recorded at both strong membrane
depolarization and hyperpolarization comparing with the ones obtained
at moderate membrane potentials. According to Boltzmann’s definition
of entropy, these results ought to indicate an increase of the attainable
substates
(stable conformations) mainly in the nonconducting domain with the
absolute value of applied voltage. Regardless of the applied voltage,
the time series of channel currents recorded at the channel’s
conducting conformations are nonrandom but caused by the orderly process
exhibiting long-range correlation features.To sum up, channel
dynamics are qualitatively and quantitatively
different in the case of conducting and nonconducting states of a
channel. Assuming that the most distant conformational states from
energetic point of view have their representation in the recorded
signal (single-channel current), it can be noted that the states obstructing
ionic flow through a channel pore are more complex and influence the
multifractality of the total signal to a higher extent than the ones
allowing for K+ transport. One should remember that our
analysis does not discern between mechanically closed and nonconducting
open states—so both groups, physically blocked conformations
and sufficiently narrow ones (implying hydrophobic gating), predominate
in shaping the channel’s activity patterns. An interesting
task for future investigation can be to carry out a comparative MFDFA
analysis of a patch-clamp time series of a single-channel current
on a wild-type and genetically modified BK channel that cannot exhibit
relatively narrow conformations of the pore enabling for hydrophobic
gating. Such analysis could be used to discriminate between the impacts
of both the aforementioned groups of nonconducting states on the total
signal. Moreover, the presented multifractal analysis can be a tool
of supplemental analysis procedures, e.g., in cases when one should
determine to what extent different regulatory β subunits can
modulate the complexity of channel behavior. The results of such analysis
could help answer the question whether they modulate the relative
stabilities of preexisting conformations[27] or create new ones.In cases of glioblastoma, current medical
approaches turn out to
be almost powerless. Among the challenges to curing primary brain
tumors, one can list the development of a precision medicine approach
to treating brain tumors. In that aspect, novel approaches should
be introduced, which could be based on artificial intelligence (AI)
(e.g., deep learning, neural networks). The AI methods can be used
for diagnosing, managing, and designing drugs against gliomas. In
the literature, there already exist some reports like ref (55), where the authors present
novel AI approaches to predict the grading and genomics from imaging,
automate the diagnosis from histopathology, and provide insight into
prognosis. Taking into account the therapeutic potential of gBK channel
modulators in the treatment of glioblastoma, one could propose some
AI methods to determine a group of active substances that could act
as a drug against gliomas. Machine learning might be developed with
the aim to determine patterns within the experimental data describing
ion-channel activity, where some of the classification algorithms
could be based on the results of an MFDFA analysis. (Our preliminary
analyses suggest that multifractal analysis better discriminates single-channel
current from different exons of the BK channel than do the kinetic
characteristics.) Complexity and multifractality of a signal describing
different BK channel exons bound or unbound to ligand molecules (specific
modulators) could be one of the factors used in optimizing the structures
of potential BK channel modulators used as a drug against glioblastoma.
Authors: C K Peng; S V Buldyrev; S Havlin; M Simons; H E Stanley; A L Goldberger Journal: Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics Date: 1994-02
Authors: Kenneth Aldape; Kevin M Brindle; Louis Chesler; Rajesh Chopra; Amar Gajjar; Mark R Gilbert; Nicholas Gottardo; David H Gutmann; Darren Hargrave; Eric C Holland; David T W Jones; Johanna A Joyce; Pamela Kearns; Mark W Kieran; Ingo K Mellinghoff; Melinda Merchant; Stefan M Pfister; Steven M Pollard; Vijay Ramaswamy; Jeremy N Rich; Giles W Robinson; David H Rowitch; John H Sampson; Michael D Taylor; Paul Workman; Richard J Gilbertson Journal: Nat Rev Clin Oncol Date: 2019-08 Impact factor: 66.675