Quantitative and sensitive detection of rare mutations using droplet-based microfluidics

Somatic mutations within tumoral DNA can be used as highly specific biomarkers to distinguish cancer cells from their normal counterparts. These DNA biomarkers are potentially useful for the diagnosis, prognosis, treatment and follow-up of patients. In order to have the required sensitivity and specificity to detect rare tumoral DNA in stool, blood, lymph and other patient samples, a simple, sensitive and quantitative procedure to measure the ratio of mutant to wild-type genes is required. However, techniques such as dual probe TaqMan(?) assays and pyrosequencing, while quantitative, cannot detect less than ～1% mutant genes in a background of non-mutated DNA from normal cells. Here we describe a procedure allowing the highly sensitive detection of mutated DNA in a quantitative manner within complex mixtures of DNA. The method is based on using a droplet-based microfluidic system to perform digital PCR in millions of picolitre droplets. Genomic DNA (gDNA) is compartmentalized in droplets at a concentration of less than one genome equivalent per droplet together with two TaqMan(?) probes, one specific for the mutant and the other for the wild-type DNA, which generate green and red fluorescent signals, respectively. After thermocycling, the ratio of mutant to wild-type genes is determined by counting the ratio of green to red droplets. We demonstrate the accurate and sensitive quantification of mutated KRAS oncogene in gDNA. The technique enabled the determination of mutant allelic specific imbalance (MASI) in several cancer cell-lines and the precise quantification of a mutated KRAS gene in the presence of a 200,000-fold excess of unmutated KRAS genes. The sensitivity is only limited by the number of droplets analyzed. Furthermore, by one-to-one fusion of drops containing gDNA with any one of seven different types of droplets, each containing a TaqMan(?) probe specific for a different KRAS mutation, or wild-type KRAS, and an optical code, it was possible to screen the six common mutations in KRAS codon 12 in parallel in a single experiment.     

Enhancing protease activity assay in droplet-based microfluidics using a biomolecule concentrator

We introduce an integrated microfluidic device consisting of a biomolecule concentrator and a microdroplet generator, which enhances the limited sensitivity of low-abundance enzyme assays by concentrating biomolecules before encapsulating them into droplet microreactors. We used this platform to detect ultralow levels of matrix metalloproteinases (MMPs) from diluted cellular supernatant and showed that it significantly (~10-fold) reduced the time required to complete the assay and the sample volume used.     

Concentration and binary separation of micro particles for droplet-based digital microfluidics

This paper describes a concept of concentration and binary separation of particles and its experimental confirmations for digital microfluidics where droplets are driven by the mechanism of electrowetting-on-dielectric (EWOD). As a fundamental separation unit, a binary separation scheme is developed, separating two different types of particles in one droplet into two droplets, one type each. The separation scheme consists of three distinctive steps, each with their own challenges: (1) isolate two different types of particles by electrophoresis into two regions inside a mother droplet, (2) physically split the mother droplet into two daughter droplets by EWOD actuation so that each type of particle is concentrated in each daughter droplet, and (3) free the daughter droplets from the separation site by EWOD to ready them for follow-up microfluidic operations. By applying a similar procedure to a droplet containing only one type of particle, two daughter droplets of different particle concentrations can be created. Using negatively charged carboxylate modified latex (CML) particles, 83% of the total particles are concentrated in a daughter droplet. Successful binary separation is also demonstrated using negatively charged CML particles and no-charge-treated polystyrene particles. Despite the undesired vortex developed inside the mother droplet, about 70% of the total CML particles are concentrated in one daughter droplet while about 70% of the total polystyrene particles are concentrated in the other daughter droplet.     

Lab-chip HPLC with integrated droplet-based microfluidics for separation and high frequency compartmentalisation

We demonstrate the integration of a droplet-based microfluidic device with high performance liquid chromatography (HPLC) in a monolithic format. Sequential operations of separation, compartmentalisation and concentration counter were conducted on a monolithic chip. This describes the use of droplet-based microfluidics for the preservation of chromatographic separations, and its potential application as a high frequency fraction collector.     

Electrochemical droplet-based microfluidics using chip-based carbon paste electrodes for high-throughput analysis in pharmaceutical applications

This paper presents the first example of a pharmaceutical application of droplet-based microfluidics coupled with chronoamperometric detection using chip-based carbon paste electrodes (CPEs) for determination of dopamine (DA) and ascorbic acid (AA). Droplets were generated using an oil flow rate of 1.80 μL min⁻¹, whereas a flow rate of 0.80 μL min⁻¹ was applied to the aqueous phase, which resulted in a water fraction of 0.31. The optimum applied potential for chronoamperometric measurements in droplets was found to be 150 mV. Highly reproducible analysis of DA and AA was achieved with relative standard deviations of less than 5% for both intra-day and inter-day measurements. The limit of detection (LOD) and limit of quantitation (LOQ) were found to be 20 and 70 μM for DA and 41 and 137 μM for AA, respectively. Linearity of this method was in the ranges of 0.02–3.0 mM for DA and 0.04–3.0 mM for AA. This system was successfully applied to determine the amounts of DA and AA in intravenous drugs. Calibration curves of DA and AA for quantitative analysis were obtained with good linearity with R² values of 0.9984 and 0.9988, respectively. Compared with the labeled amounts, the measured concentrations of DA and AA obtained from this system were insignificantly different, with error percentages of less than ±3.0%, indicating a high accuracy of the developed method.     

Optically addressed droplet-based protein assay

We demonstrate a new method for performing protein assays with very small volumes ( approximately 1.7 muL to 14 pL). Using a laser to modify local surface energy, we manipulate, fuse, and mix droplets containing horseradish peroxidase and its substrates. A detection limit of approximately 30 attomoles of reacting enzyme was measured by optical absorption. We discuss the possibility of extending this lower limit to zeptomoles of enzyme.     

Fourier microfluidics

We present a new experimental technique for the separation of dynamic chemical signals based on their frequency domain characteristics. Such a technique can be used to create filters that separate slow signals from fast signals from a common input flow stream. The propagation of time-varying chemical waves through networks of microfluidic channels is first examined. Mathematical models and a set of simple experiments are developed that demonstrate that short microfluidic channels behave as linear delay lines. The observed dispersive broadening and delay behavior can be explained in Fourier space in terms of corresponding phase delay, amplitude decay and characteristic transfer functions. Such delay components can be utilized to implement frequency dependent interference filters. An 8th order PDMS bandpass filter chip demonstrating these ideas was constructed. The filter chip has a central frequency of 0.17 Hz and a bandwith of 0.04 Hz at a flow rate of 4 microL h(-1).     

Dielectrophoresis in microfluidics technology

Dielectrophoresis (DEP) is the movement of a particle in a non-uniform electric field due to the interaction of the particle's dipole and spatial gradient of the electric field. DEP is a subtle solution to manipulate particles and cells at microscale due to its favorable scaling for the reduced size of the system. DEP has been utilized for many applications in microfluidic systems. In this review, a detailed analysis of the modeling of DEP-based manipulation of the particles is provided, and the recent applications regarding the particle manipulation in microfluidic systems (mainly the published works between 2007 and 2010) are presented.     

Droplet microfluidics

Droplet-based microfluidic systems have been shown to be compatible with many chemical and biological reagents and capable of performing a variety of "digital fluidic" operations that can be rendered programmable and reconfigurable. This platform has dimensional scaling benefits that have enabled controlled and rapid mixing of fluids in the droplet reactors, resulting in decreased reaction times. This, coupled with the precise generation and repeatability of droplet operations, has made the droplet-based microfluidic system a potent high throughput platform for biomedical research and applications. In addition to being used as microreactors ranging from the nano- to femtoliter range; droplet-based systems have also been used to directly synthesize particles and encapsulate many biological entities for biomedicine and biotechnology applications. This review will focus on the various droplet operations, as well as the numerous applications of the system. Due to advantages unique to droplet-based systems, this technology has the potential to provide novel solutions to today's biomedical engineering challenges for advanced diagnostics and therapeutics.     

Interfacial organic synthesis in a simple droplet-based microfluidic system

A spherical liquid-liquid interface can be obtained by dispersing one liquid phase into another to form droplets, which will facilitate the two-phase reactions between the immiscible participating fluids. The phase transfer catalysts assembled at the droplet "wall" catalyze the reactions between the aqueous and organic phases. The study illustrates an interfacial synthetic approach which is ideal for the biphasic reaction by taking advantage of the droplet-based microdevice. The improved reaction efficiency can be attributed to the high surface-to-volume ratio and internal flow circulation in the droplets.     

Nanomaterials meet microfluidics

Nanomaterials and lab-on-a-chip platforms have undergone enormous development during the past decade. Here, we present an overview of how microfluidics benefited from the use of nanomaterials for the enhanced separation and detection of analytes. We also discuss how nanomaterials benefit from microfluidics in terms of synthesis and in terms of the simulation of environments for nanomotors and nanorobots. In our opinion, the "marriage" of nanomaterials and microfluidics is highly beneficial and is expected to solve vital challenges in related fields.     

Magnetism and microfluidics

Magnetic forces are now being utilised in an amazing variety of microfluidic applications. Magnetohydrodynamic flow has been applied to the pumping of fluids through microchannels. Magnetic materials such as ferrofluids or magnetically doped PDMS have been used as valves. Magnetic microparticles have been employed for mixing of fluid streams. Magnetic particles have also been used as solid supports for bioreactions in microchannels. Trapping and transport of single cells are being investigated and recently, advances have been made towards the detection of magnetic material on-chip. The aim of this review is to introduce and discuss the various developments within the field of magnetism and microfluidics.     

Air-bubble-triggered drop formation in microfluidics

In microfluidic devices, droplets are normally formed using T-junction or flow focus mechanisms. While both afford a high degree of control over drop formation, they are limited in maximum production rate by the jetting transition. Here, we introduce a new drop formation mechanism that is not limited by jetting, allowing much faster drop production.     

Inhibiting protein biofouling using graphene oxide in droplet-based microfluidic microsystems

Biofouling or adsorption of biomolecules onto surfaces in microfluidic devices limits the type of samples which can be handled. In this paper, we take advantage of the high adsorption capacity of graphene oxide (GO) for proteins as a strategy to limit biofouling, while preserving their activity for droplet-based lab-on-chip applications.     

Tuneable separation in elastomeric microfluidics devices

We describe how the elastomeric properties of PDMS (polydimethylsiloxane) can be utilised to achieve tuneable particle separation in Deterministic Lateral Displacement devices via strain controlled alteration of inter-obstacle distances, a development that opens up new avenues toward more effective separation of particles in microfluidics devices.     

Advances in microfluidics for environmental analysis

During the past few years, a growing number of groups have recognized the utility of microfluidic devices for environmental analysis. Microfluidic devices offer a number of advantages and in many respects are ideally suited to environmental analyses. Challenges faced in environmental monitoring, including the ability to handle complex and highly variable sample matrices, lead to continued growth and research. Additionally, the need to operate for days to months in the field requires further development of robust, integrated microfluidic systems. This review examines recently published literature on the applications of microfluidic systems for environmental analysis and provides insight in the future direction of the field.     

Timing controllable electrofusion device for aqueous droplet-based microreactors

This paper describes an electrofusion device for controlling the precise moment of fusion between droplets by applying an electric field. This device allows (i) accurate determination of the start of chemical/biological reactions, (ii) minimum contact of reactants with channel walls--eliminating surface absorption problems, (iii) easy fabrication and (iv) continuous observation of initiated reaction. We demonstrated the fusion of beta-galactosidase and fluorescein di-beta-D-galactopyranoside (FDG) droplets, and observed the enzymatic reaction using fluorescence microscopy. In addition, sequential fusion of pico-litre droplets was also accomplished.     

Measuring rapid kinetics by a potentiometric method in droplet-based microfluidic devices

Droplets containing RNA and Mg(2+) were generated in microfluidic channels. By integrating a group of pneumatic valves and phase separation channels in the microfluidic system, the rapid RNA-Mg(2+) binding kinetics was studied by measuring the Mg(2+) ion concentration using an ion-selective electrode.