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. 2017 Jan 27;7:41480. doi: 10.1038/srep41480

Ultrafast nonlinear optical properties of thin-solid DNA film and their application as a saturable absorber in femtosecond mode-locked fiber laser

Reza Khazaeinezhad 1,2,3, Sahar Hosseinzadeh Kassani 1,2,3, Bjorn Paulson 1, Hwanseong Jeong 4, Jiyoon Gwak 4, Fabian Rotermund 4,5,a, Dong-Il Yeom 4,b, Kyunghwan Oh 1,c
PMCID: PMC5269743  PMID: 28128340

Abstract

A new extraordinary application of deoxyribonucleic acid (DNA) thin-solid-film was experimentally explored in the field of ultrafast nonlinear photonics. Optical transmission was investigated in both linear and nonlinear regimes for two types of DNA thin-solid-films made from DNA in aqueous solution and DNA-cetyltrimethylammonium chloride (CTMA) in an organic solvent. Z-scan measurements revealed a high third-order nonlinearity with n2 exceeding 10−9 at a wavelength of 1570 nm, for a nonlinarity about five orders of magnitude larger than that of silica. We also demonstrated ultrafast saturable absorption (SA) with a modulation depth of 0.43%. DNA thin solid films were successfully deposited on a side-polished optical fiber, providing an efficient evanescent wave interaction. We built an organic-inorganic hybrid all-fiber ring laser using DNA film as an ultrafast SA and using Erbium-doped fiber as an efficient optical gain medium. Stable transform-limited femtosecond soliton pulses were generated with full width half maxima of 417 fs for DNA and 323 fs for DNA-CTMA thin-solid-film SAs. The average output power was 4.20 mW for DNA and 5.46 mW for DNA-CTMA. Detailed conditions for DNA solid film preparation, dispersion control in the laser cavity and subsequent characteristics of soliton pulses are discussed, to confirm unique nonlinear optical applications of DNA thin-solid-film.

Since the discovery of the double helix structure of deoxyribonucleic acid (DNA) in 19531,2, DNA has been at the center of interdisciplinary scientific research. Along with ever-increasing biochemical applications, DNA has recently attracted keen attention from physical scientists as a new organic alternatives to current inorganic functional materials for electronics and optoelectronics applications3,4,5,6,7,8,9,10,11,12,13. The unique promise of DNA as a photonic material was first recognized by the use of DNA as a bulk host to an optical dye, demonstrating a significant optical gain in the visible range14,15. In form of nano-crystalline layers, form, DNA has also shown high potential as an electron-blocking layer in organic light-emitting diodes (OLED), producing noticeable luminosity increases by large factors16,17,18. In an optical waveguide structure, DNA solid film has been employed as a cladding layer for polymeric electro-optic modulators19, and all-DNA electro-optic waveguide modulators have also been demonstrated20. However, these prior attempts have used the electro-optic and optical properties of DNA only in a linear optics regime at a moderate switching frequency.

A complex nonlinear refractive index of DNA in aqueous solution has been reported by Samoc et al.21, using the Z-scan method. DNA has been used as a dopant in a polyvinyl alcohol (PVA) host with a concentration of less than 1.5 wt.%, to modify the nonlinear optical response of PVA film22. Recently DNA has also been used as a polymeric host for graphene nano-flakes23 and nonlinear optical dyes24, where their nonlinear optical properties have mainly been attributed to the dopants rather than to the DNA host. Thus far systematic analyses on the nonlinear optical response of DNA solid film itself as a photonics material have not yet been reported; neither has the realization of a DNA-based nonlinear optical device in an ultrafast laser system been attempted.

In the case of DNA, the most abundant biopolymer, nonlinear refractive indices of DNA in water solution were reported21 but the measurements revealed only a moderate nonlinearity with n2 in the range of 10−15~10−14 cm2/W, which is of the same order as n2 in pure water, or 0.5~1 × 10−15 21. The DNA concentration in the aqueous solution was a relatively low 0.0837 wt% 21 and in a higher DNA concentration, the solution became significantly turbid with very high scattering losses, which make it possible to use as an optical medium, especially in the nonlinear regime. In our study, we successfully solidified DNA solutions into an optically transparent thin solid film, achieving an increase in the optical nonlinear index n2 of more than three orders of magnitude compared with prior DNA aqueous solutions21, as well as higher optical transmission over a very broad spectral range from the visible to the infrared.

Saturable absorbers (SAs) have been one key type of nonlinear optical devices, and are being used for both passive mode-locking and Q-switching of lasers to generate short optical pulse trains25. Ultrafast pulsed lasers have found a wide range of applications, including materials processing26, optical communications27, and biomedical instrumentation28. Conventional bulk SAs have been realized in various forms, such as organic dyes29,30, color filter glasses31, and ion-doped crystals32. However, prior SAs have shown their own fundamental limitations in terms of optical damage threshold33, response time33, spectral range of operation34, and seamless integration into existing compact solid state laser cavities33. As an alternative to these bulk SAs, semiconductor saturable absorber mirrors (SESAMs) have been developed using quantum well technologies35. SESAMs offer a very small form factor and high efficiency but their spectral response range adjustments require a highly sophisticated band gap engineering and fabrication process. In recent years, SAs have been demonstrated using not only carbon nano-materials such as carbon nanotubes (CNTs) and graphene, but also using nano-sheet materials including MoS2 and WS2 in fiber laser cavities36,37,38,39,40,41. There was extensive investigation during the last two years based on nano-sheet materials, following the first innovating implementation of MoS2 as a saturable absorber in ultrafast photonics37. Moreover, black phosphorous has recently attracted attention as a natural candidate for broadband optical applications such as ultra-fast photonics devices, and it can be considered as a biocompatible material, as it can degrade in human blood due to the acidic environment42. These nano-material based SAs provide a wide spectral range of operation, along with high integration capability. However, there have been increasing concerns that these nano-materials might affect human health after long term exposure43. Therefore a bio-compatible alternative would be highly desirable for developing environmentally-friendly and non-hazardous photonic devices that could find rapidly increasing applications in in-vivo or in-situ biomedical laser processing and sensing. A few photonic applications have been demonstrated in recent years using bio-compatible materials, such as single-cell biological lasers44, optofluidic biolasers45, and silk fibroin lasers46. These efforts in bio-compatible photonics have been confined only to lasers and light emitting devices in relatively low power domain and in the linear regimes. Nonlinear optics has recently been applied to biomaterials for various applications such as high resolution imaging47, supercontinum generation48, and an alternative nonlinear optical material49, to name a few. However, one important application of nonlinear optics, ultrafast pulse generation in fiber laser cavities, has not yet been fully explored in biocompatible materials including DNA, despite its high importance and potential.

In the present study, the authors report a new side of DNA’s physical properties, unique nonlinear optical behavior of DNA thin solid film in the femtosecond regime, and the application of DNA as a biocompatible SA to realize an ultrafast Er-doped fiber laser, for the first time to the best knowledge of the authors. This research explores the potential of DNA as a functional photonic material to form a novel biocompatible hybrid photonic device. In this investigation, we focused on two types of DNA thin solid films made from: 1) DNA dissolved in water and 2) DNA-cetyltrimethylammonium chloride (CTMA) in an organic solvent, without any optically functional additives, in order to quantify the optical nonlinearity of DNA solid thin film itself, for the first time. Using a well-established femtosecond Z-scan technique50, we experimentally quantified the nonlinear absorption coefficient, nonlinear refractive index, and third-order nonlinear susceptibility of DNA and DNA-CTMA solid thin films at 800 and 1570 nm. We further investigated intensity-dependent optical transmission to observe saturable absorption and ultrafast pump-probe spectroscopy to confirm the potential of DNA as an efficient SA. Note that prior dye lasers used an organic gain medium and an organic saturable absorber in the visible range51 as in Fig. 1a, while conventional solid state lasers consisted of inorganic counterparts52 as in Fig. 1b. In this study, we combined a DNA-based organic SA with an Erbium doped fiber as an inorganic gain medium in a compact all-fiber ring cavity as shown in Fig. 1c, and we successfully mode-locked a ring cavity to generate stable transform-limited femtosecond soliton pulse trains in the anomalous dispersion regime at an eye-safe wavelength of 1.5 μm, for the first time.

Figure 1.

Figure 1

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(a) Linear laser cavity including organic gain medium and organic saturable absorber (SA). (b) Laser cavity based on inorganic gain medium and inorganic SA. (c) Organic and inorganic hybrid all-fiber ring laser.

Materials and Methods

The double-helix structure of DNA consists of two linear strands wound around each other1,2, as shown in Fig. 2a. This double helical structure with π electron-rich base pair stacking is preserved in both the “wet” and “dry” forms53. DNA solid films have been deposited on various substrates by slowly evaporating a relatively high concentration DNA-water solution, and their linear refractive index dispersions have been reported in the UV-visible-near IR region54. In order to further extend well-established thin film techniques, a chemical complex composed of DNA and cetyltrimethylammonium chloride (CTMA) has been used in organic solvents for spin coating processes15. DNA-CTMA films have shown potential for photonics and optoelectronics applications in the linear and relatively low-intensity optical regimes55,56.

Figure 2.

Figure 2

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(a) Schematic representation of the DNA molecule and its preparation process for the aqueous DNA solution and DNA-CTMA dissolved in butanol. (b) Absorption spectra of the spin-coated solutions on the quartz substrate, (inset: the prepared DNA solutions). (c) Refractive index of the two thin films, measured by an ellipsometer.

In this research, we used B-type DNA processed from salmon roe14,15, which had an average molecular weight of >8 MDa, or a fragment size of longer than 40 microns. DNA-based solutions were prepared similar to a prior procedure54,56, as depicted in Fig. 2a. Purified DNA derived from salmon was filtered and mixed into deionized water. The 1 wt.% DNA aqueous solution was used to form pure DNA thin solid films by a slow evaporation technique54. The 0.2 wt.% DNA aqueous solution was further complexed into an aqueous solution of CTMA to form DNA-CTMA precipitates56. Dried DNA-CTMA precipitates were mixed into a 1 wt.% butanol solution. The inset of Fig. 2b shows the colorless aqueous solution of DNA and DNA-CTMA dissolved in butanol. These solutions were spin-coated onto plasma treated quartz substrates to form thin solid DNA films, whose thicknesses were 710 nm and 145 nm for DNA and DNA-CTMA, respectively. All the DNA films were vacuum dried at an elevated temperature for 24 hours before optical measurements in order to minimize the impact of humidity54. Optical transmission through the films was measured from the UV to the IR and the results are summarized in Fig. 2b. The characteristic 260 nm absorption peak of DNA was clearly identified in both films, and corresponds to the electronic transitions of the four heterocyclic bases in the nucleic acids57,58. We found the DNA film slowly evaporated from 1 wt.% water solution did have a stronger absorption peak than DNA CTMA film which started from 0.2 wt.% water solution. We also fabricated DNA thin solid films on silicon wafer substrates with almost the same thicknesses to measure the linear refractive indices using an ellipsometer, and the results are summarized in Fig. 2c. DNA film prepared from aqueous solution showed a higher refractive index than DNA-CTMA film, consistent with prior reports54,55. Knowledge of these linear refractive indices, n0(λ), is an essential prerequisite to further characterize the nonlinear optical characteristics of DNA in terms of n2 and χ3, and will be discussed in the following sections.

Nonlinear optical properties characterized by femtosecond Z-scan measurements

In principle, one can measure intensity- or fluence-dependent nonlinear transmission change with an open-aperture Z-scan. However, this method has shown limitations in measurement precision, especially for nanomaterials whose spatial distribution varies within a sample. The incident beam diameter substantially changes to vary the light fluences, and consequently the non-uniform sample area within the beam diameter can result in measurement errors. To overcome this problem, we developed a nonlinear transmission measurement setup with the high resolution of about 0.1% to changes in transmission intensity, while the incident beam diameter is kept constant. This method has been successfully implemented to the characterization of nonlinear optical properties of nano-materials whose surface morphology were not sufficiently homogeneous59, and we also implemented this technique in our DNA thin solid films in order to enhance the measurement precision.

Nonlinear optical properties of Salmon DNA in aqueous solution have been measured using a similar Z-scan technique21. However, the DNA concentration was a relatively low 0.0837 wt% 21 and the measurements showed only a moderate nonlinearity with n2 in the range of 10−15 ~ 10−14 cm2/W, which is the same order as n2 of pure water 0.5 ~ 1 × 10−15. In this paper, the nonlinear refractive index of solid thin film of DNA and DNA-CTMA were fully investigated for the first time, which revealed the unexpectedly efficient and versatile nonlinear optic nature of DNA solid thin film. We used an accurate single-beam Z-scan technique to characterize the nonlinear refractive index (n2) and nonlinear absorption coefficient (β) of DNA and DNA-CTMA thin solid films, and data were analyzed following prior reports50. We used a Ti:sapphire laser operating at λ = 800 nm with a pulse duration of 110 fs, repetition rate of 79.8 MHz and an average power of 172 mW. The laser was focused to a beam waist of 12.83 μm with an intensity of 6.69 GW/cm2. In addition, a synchronously pumped optical parametric oscillator (SPOPO) was used for the measurements at λ = 1570 nm with a pulse duration of 110 fs, repetition rate of 79.8 MHz and an average power of 17 mW. The laser was focused to a beam waist of 5.17 μm with an intensity of 4.06 GW/cm2. For the Z-scan measurements at both wavelengths, the peak intensity at the focus was kept at a similar level for better comparison. After focusing the laser beam, the DNA thin solid film samples were then translated near the focal point using a motorized stage. The transmitted laser beam power was measured through either an open aperture (OA) or a closed aperture (CA) by a single photo-detector. A schematic diagram of the Z-scan measurements is shown in Fig. 3a. Here we used the prepared DNA and DNA-CTMA thin solid films on quartz substrates with thicknesses of 710 nm and 145 nm, respectively.

Figure 3.

Figure 3

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(a) Experimental set-up for Z-scan measurements (L: Lens, O. A.: Open aperture, C. A.: Closed aperture, P. D.: Photodetector). (b)–(e) Measured Z-scan data overlaid with theoretical fittings. The top four figures show measurements taken at λ = 800 nm, while the bottom four figures show measurements at λ = 1570 nm. The figures in the left column are open-aperture Z-scan data, while the right column shows closed-aperture Z-scans.

In OA Z-scan, we measured the transmission ratio (Δψo), which is the ratio between the transmission at an axial position z near the focal point and that of the far field. In CA Z-scan measurements, we measured the phase shift (ΔФo) by translating the sample. From Δψo and ΔФo we calculated the nonlinear constants: the nonlinear absorption coefficient Inline graphic, the nonlinear refractive index coefficient Inline graphic, and the real and imaginary parts of the third order nonlinear susceptibility, Inline graphic and Inline graphic. Here Leff = (1 − e−αL)/α, with the sample thickness L and the linear absorption coefficient α shown in Fig. 2b. I0, c, and n0 are the on-axis irradiance at the focal point, speed of light in vacuum, and the linear refractive index as shown in Fig. 2c, respectively. To eliminate contributions of the quartz substrate to the nonlinear optical response, we measured a pristine quartz substrate and we confirmed these nonlinear responses were solely attributable to the DNA thin solid films.

OA and CA Z-scan traces are summarized in Fig. 3b–e along with theoretical fittings50. Nonlinear optical constants of DNA thin solid films are presented in Table 1, along with corresponding measurements in DNA-water solution21. In prior DNA aqueous solution21 laser-induced micro-bubbles in water resulted in nonlinear scattering, which inevitably increased experimental errors and uncertainty in the measurements. In our study, we optimized the spin-coating and drying processes to fabricate optically transparent thin solid DNA films, which ensured a high measurement repeatability, and consistently low experimental errors, which are comparable to those of conventional solid film samples. The DNA and DNA-CTMA thin solid films showed nonlinear refractive index (n2) and nonlinear absorption coefficient (β) several orders of magnitude larger than those of the low concentration DNA in water solutions. In contrast to prior DNA aqueous solutions21, both n2 and β of DNA thin solid films decreased as the laser frequency increased. In comparison with the prior report, few-layer graphene showed a nonlinear refractive index of 10−7 cm2 W−1, which was 9 orders of magnitude larger than that of the bulk dielectric60, DNA thin film also needs to be optimized and studied in more depth.

Table 1. Nonlinear absorption coefficient, nonlinear refractive index, and third order nonlinear susceptibility of DNA and DNA-CTMA thin solid films at 800 and 1570 nm.

Wavelength Material β (m/W) n2 (cm2/W) χ3 (esu)
800 nm DNA film 1.51 × 10−10 3.63 × 10−13 4.15 × 10−11
DNA-CTMA film 7.71 × 10−10 1.81 × 10−12 2.05 × 10−10
1570 nm DNA film 1.78 × 10−9 3.44 × 10−12 8.42 × 10−10
DNA-CTMA film 8.89 × 10−9 1.82 × 10−11 4.11 × 10−9
530~1300 nm [ref. 21] DNA in Water 2 × 10−11 (@530 nm) 1 × 10−14~2 × 10−15 —
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The thin film thicknesses were 710 nm and 145 nm for DNA and DNA-CTMA, respectively.

Saturable absorption measurements

We further pursued intensity-dependent nonlinear transmission measurements using the same lasers from the Z-scan, as shown in Fig. 4a. The measurements were taken from the DNA and DNA-CTMA thin films on quartz substrates whose physical parameters were identical to those used in the Z-scan experiments.

Figure 4.

Figure 4

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(a) Schematic of the nonlinear transmission measurement setup (Pol.: Polarizer, B. S.: Beam splitter, L.: Lens, P. D.: Photodetector). (b)–(c) Nonlinear transmission measurement results and fits for DNA and DNA-CTMA at 800 and 1570 nm, as labeled (Tns: Non-saturable transmission, Tlin: Linear transmission, Fsat: Saturation fluence).

In the nonlinear transmission experiment, the fluence of the incident beam was controlled by crossing two polarizers and the transmission change through the DNA films was measured by photo detector. The laser beam was divided into two equal paths using a 50:50 beam splitter, the reference quartz substrate was mounted on one path, and the DNA-deposited quartz substrate on the other to subtract the substrate contributions. In order to achieve data with a high resolution of less than 0.1% for changes in transmission, the configuration of both paths was kept the same as the transmitted beam was measured with one photo detector. We used an electrical chopper as a high-speed optical shutter and measured transmissions through the reference and sample paths. The intensity-dependent transmission measurements are summarized in Fig. 4b and c at λ = 800 nm and 1570 nm, respectively, and experimental data were fitted to a two-level saturable absorber model56. We experimentally obtained the modulation depth, nonlinear saturable loss, and saturation fluence for DNA and DNA-CTMA thin solid films and the results are summarized in Table 2. Note that the magnitude of the modulation depth of DNA films was similar to that of Graphene layers first reported by Bao et al.39. The modulation depth can be further increased by optimization of DNA thin film processing technologies with an optimal DNA concentration, silica-DNA surface adhesion and the effective light-DNA interaction length, which are being pursued by the authors. We did not observe significant signs of any roll-over in the transmission, even at the maximum available pump power. Moreover, very low nonlinear saturable loss confirmed the high potential of DNA thin solid films as saturable absorbers for high peak power mode-locked lasers. Note that these nonlinear optical properties were directly obtained from DNA thin solid film without any functional additives, and this is the first report to quantify the nonlinear properties of pristine DNA thin solid films.

Table 2. Nonlinear saturable loss and saturation fluence of DNA and DNA-CTMA thin solid film at λ = 800 and 1570 nm.

Wavelength Material Nonlinear saturable loss (%) Saturation fluence(μJ/cm2)
800 nm DNA film 0.71 72.19
DNA-CTMA film 1.01 64.00
1570 nm DNA film 0.46 42.20
DNA-CTMA film 1.26 32.38
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The thin film thicknesses were 710 nm and 145 nm for DNA and DNA-CTMA, respectively.

All fiber DNA saturable absorber for mode-locking of an Erbium-doped fiber ring laser

The Z-scan and nonlinear transmission measurements of DNA thin solid films revealed a unique combination of a low non-saturable loss and a sufficiently high modulation depth, which are especially well-suited for a saturable absorber (SA) enabling a stable passive mode-locking without Q-switching instabilities61. In this report, we focused on the SA application of DNA thin solid film to realize femtosecond mode-locking of a fiber laser cavity combining optical gain from inorganic Er ions in silica glass and saturable absorption from DNA thin solid films, for the first time to the best knowledge of the authors.

We deposited DNA and DNA-CTMA thin solid film on a side-polished fiber (SPF) to make an all-fiber DNA-based SA as shown in Fig. 5a. SPF can provide an efficient evanescent wave interaction (EWI) between the overlaid material and the propagating light. SPF-type SA can provide a longer optical interaction length, a higher optical damage threshold, and lower insertion loss than ferrule-type SAs62. The SPF was fabricated by polishing down the cladding of a buried single mode optical fiber in a V-groove silica block. DNA-aqueous solution and DNA-CTMA-butanol solution were dropped on the polished surface of SPF and then spin coated with optimal conditions, to make an all-fiber SA. The nonlinear optical response of the DNA-integrated fiber devices has been investigated and included in Supplemetary Information. The average thickness of the deposited film was measured to be ~1.43 μm for DNA and 0.87 μm for DNA-CTMA, as shown in Fig. 5bI and bII. Spin coated DNA-CTMA thin film formed more uniform layers than DNA thin film, due to the higher evaporation rate of butanol. Figure 5cI and cII show the field emission scanning electron microscopy (SEM) images of the deposited DNA thin films on SPF. Films showed a homogeneous distribution of surface morphology without any observable grain boundaries. The insertion loss of the pristine SPF was ~0.1 dB before the thin film deposition process. After deposition, DNA film SPF-SA had an insertion loss (IL) of ~5.5 dB, and a polarization dependent loss (PDL) of ~6.4 dB. DNA-CTMA film SFP-SA had an IL of ~4.3 dB and a PDL of ~3.9 dB. We could not measure any noticeable changes in these physical parameters as we increased the incident pump laser power. No pulse generation was observable for the blank SPF without DNA films, which confirmed that the ultrafast optical nonlinearity in the laser cavity did originate directly from the DNA thin solid film, and originated neither from nonlinear polarization rotation nor from nonlinear dispersion of the cavity.

Figure 5.

Figure 5

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(a) Cross sectional and skew schematics of the side polished fiber (SPF) and its light interaction region. (b) (top) AFM morphologies of the DNA and DNA-CTMA thin films on SPF, and (below) their height profiles. (c) SEM morphologies of the DNA and DNA-CTMA thin films on SPF.

We constructed two ring cavities using DNA and DNA-CTMA SPF-SA, as schematically shown in Fig. 6a. One meter of erbium-doped optical fiber (ER80-8/125) was used as a gain medium common to both lasers. The total length of the ring resonator with the DNA SPF-SA was approximately 7.06 m and the total net cavity dispersion was adjusted to be −1.134 ps2 at λ = 1550 nm. The cavity with the DNA-CTMA SPF-SA had a length of 6.65 m with a net dispersion of −1.137 ps2. The ring cavities were pumped by a laser diode (LD) at λ = 976 nm through a 980/1550 nm wavelength division multiplexing (WDM) coupler. A polarization controller (PC) was inserted to control the polarization state inside the laser cavity. A polarization-insensitive optical isolator was used to eliminate back-reflection and to maintain the unidirectional light propagation. A directional tap coupler with an output coupling ratio of 10% was inserted to monitor the spectral and temporal characteristics of the laser using an optical spectrum analyzer (Yokogawa AQ6370 B), an autocorrelator (Femtochrome; FR-103HS), a digital oscilloscope (Tektronix TDS 784D), and a radio-frequency (RF) spectrum analyzer (Agilent technologies N9000A).

Figure 6.

Figure 6

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(a) Schematic diagram of the proposed all-fiber ring laser cavity using Erbium-doped fiber (EDF) as an optical gain medium and DNA film on side polished fiber as a SA. (b) Mode-locked soliton optical spectra (c) Autocorrelation traces of laser output. (d) Fundamental frequency of RF spectral profiles.

Self-started ultrafast pulses were successfully generated and the output characteristics of the fiber lasers are summarized in Fig. 6b–d. In the optical spectral domain, typical soliton-like pulse shapes with characteristic Kelly-bandside peaks were obtained for the cavity with DNA SPF-SA at a pump LD power of 169 mW and for the cavity with DNA-CTMA SPF-SA at 238 mW, as shown in Fig. 6bI and bII, respectively. The spectra had their center wavelengths at λ = 1567 nm with a 3-dB bandwidth of 6.66 nm for the DNA SPF-SA cavity, and at λ = 1562 nm with a bandwidth of 8.80 nm for the DNA-CTMA SPF-SA cavity. The repetition rates of the pulse trains were measured using both an oscilloscope and an RF spectrum analyzer, and the results are summarized in Supplementary Figure 2. The pulse repetition rate was 29.29 MHz for the DNA and 28.73 MHz for DNA-CTMA SPF-SA cavity, which corresponded well to their cavity lengths. In the temporal domain, the measured pulse trace was well-fitted with a Sech2-profile and their full width half maximums (FWHMs) were 417 fs for the DNA SPF-SA cavity and 323 fs for the DNA-CTMA SPF-SA cavity, as shown in Fig. 6CI and 6CII, respectively. In the frequency domain, the output pulse showed a very high signal-to-noise ratio of 69.3 dB for the DNA cavity and 87 dB for the DNA-CTMA cavity, as shown in Fig. 6dI and dII. The average output power of the cavities was 4.20 mW for the DNA cavity and 5.46 mW for the DNA-CTMA cavity, which can be improved with further optimization of the optical gain and the output coupling ratio. We could not observe any optical damage such as melting or fragmentation of DNA films, even at the highest available LD pump power.

All the measurements in Fig. 6 confirmed highly stable operation of the mode-locked lasers to generate soliton pulse trains without Q-switching instabilities. The differences between the two types of lasers might have originated from how the DNA solution wetted the SPF surface in the spin-coating process, and how the liquid film was solidified into a thin solid film. DNA-CTMA films were fabricated from DNA-CTMA dissolved in butanol solvent. Due to its low viscosity Butanol wets the surface of the side-polished fiber block substrate sufficiently well, and it evaporates much faster than water, which might have provided a more uniform film deposition than DNA-water solution.

Results and Disscusion

High optical nonlinearity of DNA film in the infrared region, as summarized in Tables 1 and 2 was a rather unexpected discovery, because DNA only has a distinctive UV absorption band63 near λ = 260 nm, as shown in Fig. 2b, and there are no direct optical transitions in DNA either at λ = 800 nm or λ = 1570 nm. The intensity-dependent optical nonlinearity of a material has been attributed to the saturation of the material’s absorption band61. Saturable absorbers have been phenomenologically modeled as a nonlinear optical process between a pair of two specific electronic states, a ground state and an excited state, whose energy difference matches the incident photon energy64. We adopted this qualitative model to explain the nonlinear optical process in DNA thin solid film.

DNA is a bio-polymer and its optical absorption is affected by a complex configuration of the highest occupied molecular orbital (HOMO) and the lowest unoccupied molecular orbital (LUMO). The energy gap between HOMO and LUMO in an amorphous polymer can result in an extended absorption tail toward the longer wavelength, analogous to Urbach tail in disordered materials65. The Urbach absorption tail is a universal phenomenon in amorphous materials, and such spectral extension of the absorption band into the spectral region of wavelength longer than that of the band gap is known to be related with the defect states66,67,68,69,70,71. In recent studies on the photo-conductivity of DNA, water in DNA has been reported to generate temporal or structural defects, which led to an electronic contribution to low-frequency absorption53. In our film preparation as shown in Fig. 2a, the process inevitably required direct contact between water molecules and the DNA, and there could be various types of defects related with water and other ions, which might provide an extended absorption into the visible and IR regions. Owing to the amorphous and wide band-gap nature of DNA thin solid film, an extended absorption reaching to the near IR region was seen. We measured UV-VIS-IR transmission of a DNA solid film with an average thickness of 60 μm, and the absorption band extended from UV to IR range in a monotonically decreasing manner. This absorption tail might be analogous to the Urbach tail observed in amorphous materials72, although it may also be due to scattering losses observed at higher frequencies in DNA. Due to this wavelength dependent transmission, the nonlinearity also showed a spectral dependence at λ = 850 nm and 1550 nm. Further investigation of DNA’s optical nonlinearity in a wider spectral range could give more information on the origin of saturable absorption and is being pursued by the authors.

The optical nonlinearities of DNA films are compared with other organic chemicals and inorganic counterparts in Table 3. It is noteworthy that DNA showed nonlinearities comparable to prior organic SA chemicals and the initially reported modulation depth of Graphene39. Recently Graphene provided an order of magnitude larger modulation depth than our DNA thin solid films. However, DNA showed equivalent performance to Graphene in terms of SA performance in a fiber laser cavity to generate short pulse train, demonstrating stable mode-locking of soliton pulses with a duration of a few hundred femtoseconds. Furthermore, DNA demonstrates significant advantages over conventional SAs materials, such as carbon nano-materials and 2D nano-sheets. First, due to rapidly maturing DNA synthesis technologies, virtually unlimited variations and modifications can be made to DNA, including changes to the nucleobase sequences, the backbone, and the chain length as well as the functional dopants73. Further optimization of nonlinear and linear optical properties in DNA, therefore, can be efficiently achieved utilizing custom-made, mass-producible DNA technologies. Prior SA materials have been supplied mainly in a flake colloidal suspension, which requires complicated processes to provide optical quality thin films. CVD grown films are available for these materials, yet additional processes to remove the film from the substrate and transfer it on the target devices cannot be omitted. In comparison, DNA can be directly spin-coated on the device surface drastically reducing process requirements. Finally, DNA thin solid film is inherently biocompatible, which can allow new bio-integrable, environmentally-friendly biophotonic applications.

Table 3. Nonlinear optical properties of DNA, DNA-CTMA, organic chemical, and graphene.

SA Material Modulation depth (%) Saturation intensity (MW/cm2) Pulse width
DNA film (@ 1.55 μm) 0.4 281 417 fs
DNA-CTMA film (@ 1.55 μm) 0.5 216 323 fs
Organic Dye (DODCI) (@ 530 nm) 1.3 ref. 75 125 ref. 76 10 ps ref. 75
Graphene ref. 39 (@ 1.55 μm) 6.2~66.5 0.61~0.71 756 fs
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We further investigated the temporal response of solid DNA film by employing a time-resolved pump-probe spectroscopy set-up, which is similar to prior reports on two-dimensional nano-sheets39. The measurements were carried out using identical femtosecond lasers at λ = 800 and 1570 nm used in Z-scan experiments. Figure 7a schematically demonstrates the pump-probe measurement setup. The laser beam is divided at a 10:1 intensity ratio by a beam splitter and the two beams are focused on the sample by a plano-convex lens with a focal length of 7 cm. One beam is the pump-beam for exciting the sample and the other one is a probe-beam for observing carrier dynamics. The time delay between the pump- and probe-beams is controlled by a motorized stage in the path of the pump-beam. The results are summarized in Fig. 7b and c. It has been reported that the pump-probe experiments for graphene layers showed two decay components, the faster one with a decay time of ~90 femtoseconds and the slower one with a decay time of ~60 picoseconds74. In the case of DNA thin solid films, the temporal responses were well-fitted by exponential functions only with only a single fast decay component on the order of 100 femtoseconds. This fast decay component of DNA is comparable to those of prior 2D nano-sheets and is attributed to the stable mode locking capability of DNA saturable absorber, generating femtosecond pulses. The pump-probe results in Fig. 7 clearly show that the temporal overlap between two short pulses does exist in the IR spectral range within the DNA thin solid film, which is attributable to the ultrafast optical nonlinearity of DNA films. The observed properties can further open a new avenue of DNA solid thin film applications, such as broad spectral band mode-lockers, nonlinear optical switches, and optical limiters in combination with inorganic optical components to provide novel organic-inorganic hybrid photonic solutions.

Figure 7.

Figure 7

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(a) Schematic of the Pump-probe measurement setup (B. S.: Beam splitter, L.: Lens, P. D.: Photodetector, PC: Personal computer). (b,c) Pump-probe measurement results and fits for DNA and DNA-CTMA thin solid film on quartz substrate at λ = 800 and 1570 nm, as labeled.

Conclusions

We have experimentally discovered that deoxyribonucleic acid (DNA) serves as a nonlinear optical material suitable for the development of hybrid organic-inorganic ultrafast fiber lasers. By measuring the linear and nonlinear optical transmission of DNA and DNA-CTMA thin solid films, high third order nonlinearity with nonlinear refractive index modulation depth sufficiently high for practical ultrafast saturable absorption were observed, which differs significantly from aqueous solution of DNA. Side-polished fibers (SPFs) were employed as a template to deposit DNA thin solid films which provided efficient evanescent wave interaction over a long distance. All-fiber ring laser cavities were fabricated including an erbium-doped optical fiber (EDF) gain medium and the DNA and DNA-CTMA films deposited on SPFs as saturable absorbers. Robust femtosecond soliton pulses were obtained with a pulse duration of 417 fs and 323 fs for DNA and DNA-CTMA SPF-SAs, respectively. Output pulses with very high signal-to-noise ratios over 69 dB were obtained using both DNA and DNA-CTMA SAs showing their capability to generate ultrafast pulse trains with high stability. The average output power was 4.20 mW for DNA and 5.46 mW for DNA-CTMA, but the power was limited only by the EDF optical gain and the output coupling ratio, which can be further optimized for higher output power. DNA thin solid films can open a new avenue of nonlinear optic device applications using biocompatible organic-inorganic hybridization.

Additional Information

How to cite this article: Khazaeinezhad, R. et al. Ultrafast nonlinear optical properties of thin-solid DNA film and their application as a saturable absorber in femtosecond mode-locked fiber laser. Sci. Rep. 7, 41480; doi: 10.1038/srep41480 (2017).

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Supplementary Material

Supplementary Information
srep41480-s1.doc (174KB, doc)

Acknowledgments

This work was supported in part by Institute of Physics and Applied Physics, Yonsei University, in part by ICT R&D Program of MSIP/IITP (2014-044-014-002), in part by Nano Material Technology Development Program through NRF funded by the MSIP (NRF-2012M3A7B4049800). H. Jeong and D.-I. Yeom have been supported by NRF of Korea (NRF-2016R1A2B20122 81, 2011-0027920). J. Gwak and F. Rotermund acknowledge supports from NRF of Korea (NRF-2016R1A2A1A05005381, 2011-0017494).

Footnotes

The authors declare no competing financial interests.

Author Contributions R.K. conceived and designed the experiments and wrote the manuscript. S.H.K. participated in experiment and helped to prepare the schematic figures. B.P. helped to prepare the DNA solutions. H.J. was involved in the laser measurement. J.G. helped in the nonlinear measurements. F.R., D.Y., and K.O. supervised the project. All authors reviewed the manuscript.

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