High-sensitivity DNA biosensor based on microfiber Sagnac interferometer

Optical fiber biosensors toward in vivo detection

This review takes stock of the various optical fiber-based biosensors that could be used for in vivo applications. We discuss the characteristics that biosensors must have to be suitable for such applications and the corresponding transduction modes. In particular, we focus on optical fiber biosensors based on fluorescence, evanescent wave, plasmonics, interferometry, and Raman phenomenon. The operational principles, implemented solutions, and performances are described and debated. The different sensing configurations, such as the side- and tip-based fiber biosensors, are illustrated, and their adaptation for in vivo measurements is discussed. The required implementation of multiplexed biosensing on optical fibers is shown. In particular, the use of multi-fiber assemblies, one of the most optimal configurations for multiplexed detection, is discussed. Different possibilities for multiple localized functionalizations on optical fibers are presented. A final section is devoted to the practical in vivo use of fiber-based biosensors, covering regulatory, sterilization, and packaging aspects. Finally, the trends and required improvements in this promising and emerging field are analyzed and discussed.

All-fiber label-free optical fiber biosensors: from modern technologies to current applications [Invited]

Biosensors are established as promising analytical tools for detecting various analytes important in biomedicine and environmental monitoring. Using fiber optic technology as a sensing element in biosensors offers low cost, high sensitivity, chemical inertness, and immunity to electromagnetic interference. Optical fiber sensors can be used in in vivo applications and multiplexed to detect several targets simultaneously. Certain configurations of optical fiber technology allow the detection of analytes in a label-free manner. This review aims to discuss recent advances in label-free optical fiber biosensors from a technological and application standpoint. First, modern technologies used to build label-free optical fiber-based sensors will be discussed. Then, current applications where these technologies are applied are elucidated. Namely, examples of detecting soluble cancer biomarkers, hormones, viruses, bacteria, and cells are presented.

Label-Free Biochemical Sensing Using Processed Optical Fiber Interferometry: A Review

Over the last 20 years, optical fiber-based devices have been exploited extensively in the field of biochemical sensing, with applications in many specific areas such as the food processing industry, environmental monitoring, health diagnosis, bioengineering, disease diagnosis, and the drug industry due to their compact, label-free, and highly sensitive detection. The selective and accurate detection of biochemicals is an essential part of biosensing devices, which is to be done through effective functionalization of highly specific recognition agents, such as enzymes, DNA, receptors, etc., over the transducing surface. Among many optical fiber-based sensing technologies, optical fiber interferometry-based biosensors are one of the broadly used methods with the advantages of biocompatibility, compact size, high sensitivity, high-resolution sensing, lower detection limits, operating wavelength tunability, etc. This Review provides a comprehensive review of the fundamentals as well as the current advances in developing optical fiber interferometry-based biochemical sensors. In the beginning, a generic biosensor and its several components are introduced, followed by the fundamentals and state-of-art technology behind developing a variety of interferometry-based fiber optic sensors. These include the Mach-Zehnder interferometer, the Michelson interferometer, the Fabry-Perot interferometer, the Sagnac interferometer, and biolayer interferometry (BLI). Further, several technical reports are comprehensively reviewed and compared in a tabulated form for better comparison along with their advantages and disadvantages. Further, the limitations and possible solutions for these sensors are discussed to transform these in-lab devices into commercial industry applications. At the end, in conclusion, comments on the prospects of field development toward the commercialization of sensor technology are also provided. The Review targets a broad range of audiences including beginners and also motivates the experts helping to solve the real issues for developing an industry-oriented sensing device.

Rapid ultra-sensitive nucleic acid detection using plasmonic fiber-optic spectral combs and gold nanoparticle-tagged targets

Nucleic acid (NA) is a widely-used biomarker for viruses. Accurate quantification of NA can provide a reliable basis for point-of-care diagnosis and treatment. Here, we propose a tilted fiber Bragg grating (TFBG)-based plasmonic fiber-optic spectral comb for fast response and ultralow limit NA detection. The TFBG is coated with a gold film which enables excitation of surface plasmon resonance (SPR), and single-stranded probe NAs with known base sequences are assembled on the gold film. To enhance sensitivity of refractive index (RI) for sensing a chosen combination of probe and target NAs around the TFBG surface, gold nanoparticles (AuNPs) are bonded to the target NA molecules as "RI-labels". The NA combination-induced aggregation of AuNPs induces significant spectral responses in the TFBG that would be below the detection threshold for the NAs in the absence of the AuNPs. The proposed TFBG-SPR NA sensor shows a fast response time of 30 s and an ultra-wide NA detection range from 1 × 10-18 mol/L to 1 × 10-7 mol/L. In the NA concentration range of 1 × 10-12 mol/L (1 pM) to 105 pM, an ultra-high sensitivity of 1.534 dB/lg(pM) is obtained. The sensor achieves an ultra-low limit of detection down to 1.0 × 10-18 mol/L (1 aM), which is more than an order of magnitude lower than the previous reports. The proposed sensor not only shows potentials in practical applications of NA detection, but also provides a new way for TFBG-SPR biochemical sensors to achieve higher RI sensitivity.

Rapid and noninvasive cell assay by microfluidic-integrated intracavity evanescent field absorption in a fiber ring laser

BACKGROUND

Highly sensitive and rapid detection of cell concentration and interfacial molecular events is of great value for biological, biomedical, and chemical research. Most traditional biosensors require large sample volumes and complicated functional modifications of the surface. It is of great significance to develop label-free biosensor platforms with minimal sample consumption for studying cell concentration changes and interfacial molecular events without labor-intensive procedures.

RESULTS

Here, a fiber-optic biosensor based on intracavity evanescent field absorption sensing is designed for sensitive and label-free cell assays for the first time. The interaction between the cells and the evanescent field is enhanced by introducing microfluidic-integrated intracavity absorption in a fiber ring laser. This strategy extends the range of targeted analytes to include quantification of a large number of targets on a surface and improves the detection sensitivity of the fiber-optic biosensor. The level of sensing resolution could be improved from 10-4 RIU to 10-7 RIU using this strategy. The stem cells were studied over a wide concentration range (from 500 to 1.2 × 105 cells/ml) and were measured sequentially. By measuring the output power of the intracavity absorption sensing system, the cell concentration can be directly determined in a label-free manner. The results show that dozens of stem cells can be sensitively detected with a sample consumption of 72 μL. The response was fast (15 s) with a low temperature cross-sensitivity of 0.031 cells·ml-1/°C.

SIGNIFICANCE

The proposed method suggests its capacity for true label-free and noninvasive cell assays with a low limit of detection and small sample consumption. This has the potential to be used as a universal tool for quantitative and qualitative characterization of various cells and other biochemical analytes.

Integrated Approach from Sample-to-Answer for Grapevine Varietal Identification on a Portable Graphene Sensor Chip

Identifying grape varieties in wine, related products, and raw materials is of great interest for enology and to ensure its authenticity. However, these matrices' complexity and low DNA content make this analysis particularly challenging. Integrating DNA analysis with 2D materials, such as graphene, offers an advantageous pathway toward ultrasensitive DNA detection. Here, we show that monolayer graphene provides an optimal test bed for nucleic acid detection with single-base resolution. Graphene's ultrathinness creates a large surface area with quantum confinement in the perpendicular direction that, upon functionalization, provides multiple sites for DNA immobilization and efficient detection. Its highly conjugated electronic structure, high carrier mobility, zero-energy band gap with the associated gating effect, and chemical inertness explain graphene's superior performance. For the first time, we present a DNA-based analytic tool for grapevine varietal discrimination using an integrated portable biosensor based on a monolayer graphene field-effect transistor array. The system comprises a wafer-scale fabricated graphene chip operated under liquid gating and connected to a miniaturized electronic readout. The platform can distinguish closely related grapevine varieties, thanks to specific DNA probes immobilized on the sensor, demonstrating high specificity even for discriminating single-nucleotide polymorphisms, which is hard to achieve with a classical end-point polymerase chain reaction or quantitative polymerase chain reaction. The sensor was operated in ultralow DNA concentrations, with a dynamic range of 1 aM to 0.1 nM and an attomolar detection limit of ∼0.19 aM. The reported biosensor provides a promising way toward developing decentralized analytical tools for tracking wine authenticity at different points of the food value chain, enabling data transmission and contributing to the digitalization of the agro-food industry.

Applications of Optical Fiber in Label-Free Biosensors and Bioimaging: A Review

Biosensing and bioimaging are essential in understanding biological and pathological processes in a living system, for example, in detecting and understanding certain diseases. Optical fiber has made remarkable contributions to the biosensing and bioimaging areas due to its unique advantages of compact size, immunity to electromagnetic interference, biocompatibility, fast response, etc. This review paper will present an overview of seven common types of optical fiber biosensors and optical fiber-based ultrasound detection in photoacoustic imaging (PAI) and the applications of these technologies in biosensing and bioimaging areas. Of course, there are many types of optical fiber biosensors. Still, this paper will review the most common ones: optical fiber grating, surface plasmon resonance, Sagnac interferometer, Mach-Zehnder interferometer, Michelson interferometer, Fabry-Perot Interferometer, lossy mode resonance, and surface-enhanced Raman scattering. Furthermore, different optical fiber techniques for detecting ultrasound in PAI are summarized. Finally, the main challenges and future development direction are briefly discussed.

Highly sensitive RI and temperature sensor based on an asymmetric fiber coupler

We propose and demonstrate a highly sensitive refractive index (RI) and temperature sensor based on an asymmetric fiber coupler (AFC). The AFC was fabricated by weak fusion of a pre-stretched single-mode fiber and a few-mode fiber. An ultra-sensitivity RI can be achieved near the dispersion turning point (DTP). The proposed RI sensor achieves a high RI sensitivity of -10,662.4nm/RIU within the RI range of 1.31-1.35. By packaging the AFC into polydimethylsiloxane (PDMS), the temperature sensitivity reaches 11.44 nm/°C. The proposed AFC with high RI and temperature sensitivity can be potentially used in the field of chemical monitoring, biochemical detection, and clinical diagnosis.

A Novel Airborne Molecular Contaminants Sensor Based on Sagnac Microfiber Structure

The impact of airborne molecular contaminants (AMCs) on the lifetime of fused silica UV optics in high power lasers (HPLs) is a critical issue. In this work, we demonstrated the on-line monitoring method of AMCs concentration based on the Sagnac microfiber structure. In the experiment, a Sagnac microfiber loop with mesoporous silica coating was fabricated by the microheater brushing technique and dip coating. The physical absorption of AMCs in the mesoporous coating results in modification of the surrounding refractive index (RI). By monitoring the spectral shift in the wavelength domain, the proposed structure can operate as an AMCs concentration sensor. The sensitivity of the AMCs sensor can achieve 0.11 nm (mg/m³). By evaluating the gas discharge characteristic of four different low volatilization greases in a coarse vacuum environment, we demonstrated the feasibility of the proposed sensors. The use of these sensors was shown to be very promising for meeting the requirements of detecting trace amounts of contaminants.

Locally excited surface plasmon resonance for refractive index sensing with high sensitivity and high resolution

An angle-interrogated surface plasmon resonance (SPR) sensor based on a prism-coupled configuration has been extensively applied in biomedicine, environment monitoring, and food safety. Yet, the low sensitivity and low spatial resolution impede its further development. In this Letter, we investigated objective-coupled locally excited SPR for refractive index (RI) sensing with high sensitivity and high resolution. Through theoretical analysis, the SPR angle was retrieved from back focal plane imaging, which was highly correlated to the RI of the surrounding medium. Experimentally, a RI sensitivity of 77.41° refractive index unit (RIU)^-1 was achieved with a detection range of 0.068 RIU when using glucose solutions for the demonstration. Furthermore, we acquired the spatial resolution of the configuration being 290 nm, and the RI measurement to a polydimethylsiloxane droplet with high spatial resolution was implemented. As a result, compared with the classical prism-coupled configuration, the locally excited SPR provides a method to achieve RI sensing with high sensitivity and high resolution.

In Situ Temperature-Compensated DNA Hybridization Detection Using a Dual-Channel Optical Fiber Sensor

A multifunction, high-sensitivity, and temperature-compensated optical fiber DNA hybridization sensor combining surface plasmon resonance (SPR) and Mach-Zehnder interference (MZI) has been designed and implemented. We demonstrate, for the first time to our knowledge, the dual-parameter measurement of temperature and refractive index (RI) by simultaneously using SPR and MZI in a simple single-mode fiber (SMF)-no-core fiber (NCF)-SMF structure. The experimental results show RI sensitivities of 930 and 1899 nm/RIU and temperature sensitivities of 0.4 and -1.4 nm/°C for the MZI and SPR, respectively. We demonstrate a sensitivity matrix used to simultaneously detect both parameters, solving the problem of temperature interference of RI variation-based biosensors. In addition, the sensor can also distinguish biological binding events by detecting the localized RI changes at the fiber's surface. We realize label-free sensing of DNA hybridization detection by immobilizing probe DNA (pDNA) onto the fiber as the probe to capture complementary DNA (cDNA). The experimental results show that the sensor can qualitatively detect cDNA after temperature compensation, and the limit of detection (LOD) of the sensor reaches 80 nM. The proposed sensor has advantages of high sensitivity, real time, low cost, temperature compensation, and low detection limit and is suitable for in situ monitoring, high-precision sensing of DNA molecules, and other related fields, such as gene diagnosis, kinship judgment, environmental monitoring, and so on.

A review of specialty fiber biosensors based on interferometer configuration

Optical fiber biosensors have attracted extensive research attention in fields such as public health research, environmental science, bioengineering, disease diagnosis and drug research. Accurate detection of biomolecules is essential to limit the extent of disease outbreaks and provide valuable guidance for regulatory agencies to take timely measures. Among many optical fiber sensors, optical fiber biosensors based on specialty fibers have the advantages of biocompatibility, small size, high measurement resolution, high stability and immunity to electromagnetic interference. In this paper, four types interferometer biosensors based on specialty fiber, namely Mach-Zehnder interferometer, Michelson interferometer, Fabry - Perot interferometer and Sagnac interferometer, are reviewed in terms of operating principles, sensing structure and application fields. The fiber types are further divided into micro-nano optical fiber, thin core fiber, polarization maintaining fiber, polymer fiber, microstructure optical fiber. Furthermore, this paper evaluates the advantages and disadvantages of these interferometer biosensors. Finally, main challenging problems and expectational development direction of specialty fiber interferometer biosensors are summarized. This text clearly shows the huge development potential of optical fiber biosensors in biomedical.

Shallow-Tapered Chirped Fiber Bragg Grating Sensors for Dual Refractive Index and Temperature Sensing

In this work, we present a gold-coated shallow-tapered chirped fiber Bragg grating (stCFBG) for dual refractive index (RI) and temperature sensing. The stCFBG has been fabricated on a 15-mm long chirped FBG, by tapering a 7.29-mm region with a waist of 39 μm. The spectral analysis shows two distinct regions: a pre-taper region, in which the stCFBG is RI-independent and can be used to detect thermal changes, and a post-taper region, in which the reflectivity increases significantly when the RI increments. We estimate the RI and thermal sensitivities as 382.83 dB/RIU and 9.893 pm/°C, respectively. The cross-talk values are low (−1.54 × 10⁻³ dB/°C and 568.1 pm/RIU), which allows an almost ideal separation between RI and thermal characteristics. The stCFBG is a compact probe, suitable for long-term and temperature-compensated biosensing and detection of chemical analytes.

Au-NPs signal amplification ultra-sensitivity optical microfiber interferometric biosensor

An optical microfiber interferometric biosensor for the low concentration detection of sequence-specific deoxyribonucleic acid (DNA) based on signal amplification technology via oligonucleotides linked to gold nanoparticles (Au-NPs) is proposed and experimentally analyzed. The sensor uses a "sandwich" detection strategy, in which capture probe DNA (DNA-c) is immobilized on the surface of the optical microfiber interferometer, the reporter probe DNA (DNA-r) is immobilized on the surface of Au-NPs, and the DNA-c and DNA-r are hybridized to the target probe DNA (DNA-t) in a sandwich arrangement. The dynamic detection of the DNA-t was found to range from 1.0×10^-15 M to 1.0×10^-8 M, and the limit of detection (LOD) concentration was 1.32 fM. This sensor exhibited not only a low LOD but also excellent selectivity against mismatched DNA-t, and it can be further developed for application in various sensing platforms.

Fiber Optic Refractive Index Sensors Based on a Ball Resonator and Optical Backscatter Interrogation

In this work, we introduced fabrication and interrogation of simple and highly sensitive fiber-optic refractive index (RI) sensors based on ball resonators built on the tip of single-mode fibers. The probes have been fabricated through a CO₂ fiber splicer, with a fast (~600 s) and repeatable method. The ball resonator acted as a weak interferometer with a return loss below −50 dB and was interrogated with an optical backscatter reflectometer measuring the reflection spectrum. The ball resonators behaved as weak interferometers with a shallow fringe and a spectrum that appeared close to a random signal, and RI sensitivity could be measured either through wavelength shift or amplitude change. In this work, we reported four samples having sensitivity ranges 48.9–403.3 nm/RIU and 256.0–566.2 dB/RIU (RIU = refractive index unit). Ball resonators appeared as a sensitive and robust platform for RI sensing in liquid and can be further functionalized for biosensing.

In-situ DNA hybridization detection based on a reflective microfiber probe

A label-free biosensor based on a reflective microfiber probe for in-situ real-time DNA hybridization detection is proposed and experimentally demonstrated. The microfiber probe is simply fabricated by snapping a non-adiabatic biconical microfiber through closing the oxyhydrogen flame during fiber stretching. Assisted with the Fresnel reflection at the end of microfiber, a reflective microfiber modal interferometer is realized. The in-situ DNA hybridization relies on the surface functionalization of a monolayer of Poly-L-lysine (PLL) and synthetic DNA sequences that bind to a given target with high specificity. The detection processes of DNA hybridization in various concentration of target DNA solutions are monitored in real-time and the experimental results present a minimum detectable concentration of 10pM with good repeatability. Additionally, the detection specificity is also investigated by immersing the microfiber probe into the non-complementary ssDNA solutions and observing the spectral variation. The proposed biosensor has advantages of high sensitivity, compact size, ease of use and simple fabrication, which makes it has great potential to be applied in a lot of fields such as disease diagnosis, medicine, and environmental science.

Fiber optic refractive index sensors through spectral detection of Rayleigh backscattering in a chemically etched MgO-based nanoparticle-doped fiber

We demonstrate and experimentally validate a fiber optic refractive index (RI) sensor obtained by simply etching a high-scattering MgO-based nanoparticle-doped single-mode fiber in hydrofluoric acid (HF). The fiber has 32.3 dB stronger Rayleigh scattering than a standard fiber, allowing a detection of scattering spectral signatures with an optical backscatter reflectometer, even when the core is exposed to the outer RI. The obtained sensitivity is 1.53 nm/RIU (RI units), measured by correlating the scattering spectra. We prove the possibility of implementing a distributed RI detection (seven locations spaced by 1 mm). The fabrication method for this RI sensor is simplified, since it simply requires etching in an HF bath, without the need of inscribing reflective elements or fabricating microstructures in the fiber.

A High-Birefringence Microfiber Sagnac-Interferometer Biosensor Based on the Vernier Effect

We propose a high-sensitive Sagnac-interferometer biosensor based on theVernier effect (VE) with a high-birefringence microfiber. The sensitivity enhancement is achieved by utilizing two cascaded Sagnac interferometers. One of the two interference loops consists of a panda polarization-maintaining fiber as a filter, whilst the other is comprised of high-birefringent microfiber coated Graphene oxide (GO) as a sensing channel. We theoretically analyzed the sensitivity of the sensor and verified it with experiments. The results of the simulation show that the refractive index sensitivity is more than five times that of the fiber sensor based on a single Sagnac loop. The sensitivity of the refractive index in the experiments can reach 2429 nm/refractive index unit (RIU), which is basically in accordance with the simulation. We also use electrostatic adsorption to coat GO on the surface of the sensing channel. GO is employed to adsorb bovine serum albumin (BSA) molecules to achieve the desired detection results, which has good biocompatibility and large specific surface area. The sensitivity to detect BSA can reach 9.097 nm/(mg×mL⁻¹).

Sensitive Leptospira DNA detection using tapered optical fiber sensor

This paper presents the development of tapered optical fiber sensor to detect a specific Leptospira bacteria DNA. The bacteria causes Leptospirosis, a deadly disease but with common early flu-like symptoms. Optical single mode fiber (SMF) of 125 μm diameter is tapered to produce 12 μm waist diameter and 15 cm length. The novel DNA-based optical fiber sensor is functionalized by incubating the tapered region with sodium hydroxide (NaOH), (3-Aminopropyl) triethoxysilane and glutaraldehyde. Probe DNA is immobilized onto the tapered region and subsequently hybridized by its complementary DNA (cDNA). The transmission spectra of the DNA-based optical fiber sensor are measured in the 1500 to 1600 nm wavelength range. It is discovered that the shift of the wavelength in the SMF sensor is linearly proportional with the increase in the cDNA concentrations from 0.1 to 1.0 nM. The sensitivity of the sensor toward DNA is measured to be 1.2862 nm/nM and able to detect as low as 0.1 fM. The sensor indicates high specificity when only minimal shift is detected for non-cDNA testing. The developed sensor is able to distinguish between actual DNA of Leptospira serovars (Canicola and Copenhageni) against Clostridium difficile (control sample) at very low (femtomolar) target concentrations.

Ultra-sensitive chemical and biological analysis via specialty fibers with built-in microstructured optofluidic channels

All-in-fiber optofluidics is an analytical tool that provides enhanced sensing performance with simplified analyzing system design. Currently, its advance is limited either by complicated liquid manipulation and light injection configuration or by low sensitivity resulting from inadequate light-matter interaction. In this work, we design and fabricate a side-channel photonic crystal fiber (SC-PCF) and exploit its versatile sensing capabilities in in-line optofluidic configurations. The built-in microfluidic channel of the SC-PCF enables strong light-matter interaction and easy lateral access of liquid samples in these analytical systems. In addition, the sensing performance of the SC-PCF is demonstrated with methylene blue for absorptive molecular detection and with human cardiac troponin T protein by utilizing a Sagnac interferometry configuration for ultra-sensitive and specific biomolecular specimen detection. Owing to the features of great flexibility and compactness, high-sensitivity to the analyte variation, and efficient liquid manipulation/replacement, the demonstrated SC-PCF offers a generic solution to be adapted to various fiber-waveguide sensors to detect a wide range of analytes in real time, especially for applications from environmental monitoring to biological diagnosis.