Researchers have created the first large-scale simulation of cells’ response to electrical pulses.
Electroporation is a process in which an electrical field is applied to cells to increase the permeability of the cell membrane. It’s already in experimental use to deliver chemotherapy into cancerous cells, but such treatments are in their infancy and involve a great deal of trial and error.
It is likely that in the not-distant future electroporation could help wounds heal faster. The same kind of electrical pulses could offer more efficient and effective delivery of drugs to fight disease.
“Mathematical research enables us to study the bioelectric effects of cells in order to develop new anti-cancer strategies,” says Joseph Myers, mathematical sciences division chief of the US Army Research Office. “This new research will enable more accurate and capable virtual experiments of the evolution and treatment of cells—cancerous or healthy—in response to a variety of candidate drugs. Eventually, electric pulsation might also be used to accelerate the healing of combat wounds.”
“This is an exciting but mainly unexplored area that stems from a deeper discussion at the frontier of developmental biology, namely how electricity influences morphogenesis, the biological process that causes an organism to develop its shape,” says Frederic Gibou, chair of the mechanical engineering department at the University of California, Santa Barbara.
A bigger electroporation simulation
Until now, simulations of the effects of electroporation have been conducted on, at most, a few individual cells at a time. But an entire collective system of cells functions much differently than simply the sum of its cellular parts. Not only is it currently not possible to observe the cells as a system in situ, but variables such as environmental temperature and pressure, as well as the strength, duration, and pattern of an introduced electrical field, affect the behavior not only of individual cells but, more importantly, of the system as a whole.
“When you consider a large number of cells together, the aggregate exhibits novel coherent behaviors,” says first author Pouria Mistani, a PhD student in Gibou’s group. “It is this emergent phenomenon—novel behaviors that emerge from the coupling of many individual elements—that is crucial for developing effective theories at the tissue-scale.”
What has been missing to arrive at such a system-scale understanding are the computational algorithms that Gibou’s group created.
“There is quite a lot of computational science that goes into the design of algorithms that can consider tens of thousands of well-resolved cells,” Gibou notes. “We devised the parallel algorithms for describing the physics at the cell membranes and then implemented them into a super computer at the Texas Advanced Computing Center. The simulations gave us the data from the summation of the individual cells, and that data gave us access to the emergent phenomenon of the cluster, which we can now mine to develop a theory.”
The team began with a phenomenological model for a single cell that the research group of Gibou’s longtime colleague, Clair Poignard, a research scientist at the Université de Bordeaux in France, developed.
“This model, which describes the evolution of the transmembrane potential on an isolated cell, had been compared and validated with the response of a single cell in experiments,” Gibou says. “We were then able to do a similar simulation for a substantial cluster of cells, applying a large electric field around the entire ball of cells. You can imagine that the cells at the surface are going to get a lot of the current and will shadow what the cells further from the surface get.”
One of the main reasons for the absence of an effective theory at the tissue scale, Gibou and Mistani explain, is a lack of data. Specifically, the missing data in the case of electroporation is the time evolution of the transmembrane potential of each individual cell in a tissue environment. Experiments can’t make those measurements.
“Currently, experimental limitations prevent the development of an effective tissue-level electroporation theory,” Mistani says. “Our work has developed a computational approach that can simulate the response of each individual cell in a spheroid comprising tens of thousands of cells to an electric field, as well as the millions of mutual interactions. This has been, by far, the largest simulation of cell aggregate electroporation to date. It has successfully provided terabytes of high-fidelity measurements of electroporation processes on tens of thousands of highly resolved cells in a 3D multicellular spheroid configuration.”
According to Mistani, the work could result in an effective theory that helps the scientists better understand the tissue response to these parameters and thus optimize such treatments.
“Previously, the largest existing simulations of cell-aggregate electroporation considered only about one hundred cells in 3D, or were limited to 2D simulations,” he says. “Those simulations either ignored the real 3D nature of spheroids or considered too few cells for tissue-scale emergent behaviors to manifest.”
“Our simulation provides the kind of data you need to build a theory,” Gibou explains. “This is not merely a ‘cheaper way’ to do an experiment. Rather, it delivers information you cannot get from an experiment, because using current experimental techniques, it is not possible to measure the relevant physical features of each and every individual cell. And if you try to perform some measurement by placing an electrode or whatever, you change the entire system.”
A theory to come
In their research, Gibou adds, his group mines the data within the framework of statistical physics, a theoretical tool that has been used successfully to describe the simulation results of materials.
“That allows us to view the cluster as a material and develop the theory,” he says. “The theory will then give us is a simpler equation for how the cluster behaves and, thus, a tool to understand and control bioelectricity.
“We did the simulation, we are building the framework of the theory to understand the system, and then we’re going to add some complexity to the model to get closer and closer to the behavior of, perhaps, cancer cells,” Gibou continues. “And at the end, when the experiments that can probe average behaviors are performed, they will be more directed because they’re informed by the model.”
The research appears in the Journal of Computational Physics. Funding for the research came from the US Army Research Office’s Combat Capabilities Development Command Army Research Lab,
Source: UC Santa Barbara