880 research outputs found

    Wide Field Spectral Imaging with Shifted Excitation Raman Difference Spectroscopy Using the Nod and Shuffle Technique

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    Wide field Raman imaging using the integral field spectroscopy approach was used as a fast, one shot imaging method for the simultaneous collection of all spectra composing a Raman image. For the suppression of autofluorescence and background signals such as room light, shifted excitation Raman difference spectroscopy (SERDS) was applied to remove background artifacts in Raman spectra. To reduce acquisition times in wide field SERDS imaging, we adapted the nod and shuffle technique from astrophysics and implemented it into a wide field SERDS imaging setup. In our adapted version, the nod corresponds to the change in excitation wavelength, whereas the shuffle corresponds to the shifting of charges up and down on a Charge-Coupled Device (CCD) chip synchronous to the change in excitation wavelength. We coupled this improved wide field SERDS imaging setup to diode lasers with 784.4/785.5 and 457.7/458.9 nm excitation and applied it to samples such as paracetamol and aspirin tablets, polystyrene and polymethyl methacrylate beads, as well as pork meat using multiple accumulations with acquisition times in the range of 50 to 200 ms. The results tackle two main challenges of SERDS imaging: gradual photobleaching changes the autofluorescence background, and multiple readouts of CCD detector prolong the acquisition time.Comment: Accepted and Published by "Sensors" Journal, 19 pages, 8 figure

    New methodology to process shifted excitation Raman difference spectroscopy data : a case study of pollen classification

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    Shifted excitation Raman difference spectroscopy (SERDS) is a background correction method for Raman spectroscopy. Here, the difference spectra were directly used as input for SERDS-based classification after an optimization procedure to correct for photobleaching of the autofluorescence. Further processing included a principal component analysis to compensate for the reduced signal to noise ratio of the difference spectra and subsequent classification by linear discriminant analysis. As a case study 6,028 Raman spectra of single pollen originating from plants of eight different genera and four different growth habits were automatically recorded at excitation wavelengths 784 and 786 nm using a high-throughput screening Raman system. Different pollen were distinguished according to their growth habit, i.e. tree versus non-tree with an accuracy of 95.9%. Furthermore, all pollen were separated according to their genus, providing also insight into similarities based on their families. Classification results were compared using spectra reconstructed from the differences and raw spectra after state-of-art baseline correction as input. Similar sensitivities, specificities, accuracies and precisions were found for all spectra with moderately background. Advantages of SERDS are expected in scenarios where Raman spectra are affected by variations due to detector etaloning, ambient light, and high background

    Wide Field Spectral Imaging with Shifted Excitation Raman Difference Spectroscopy Using the Nod and Shuffle Technique

    Get PDF
    Wide field Raman imaging using the integral field spectroscopy approach was used as a fast, one shot imaging method for the simultaneous collection of all spectra composing a Raman image. For the suppression of autofluorescence and background signals such as room light, shifted excitation Raman difference spectroscopy (SERDS) was applied to remove background artifacts in Raman spectra. To reduce acquisition times in wide field SERDS imaging, we adapted the nod and shuffle technique from astrophysics and implemented it into a wide field SERDS imaging setup. In our adapted version, the nod corresponds to the change in excitation wavelength, whereas the shuffle corresponds to the shifting of charges up and down on a Charge-Coupled Device (CCD) chip synchronous to the change in excitation wavelength. We coupled this improved wide field SERDS imaging setup to diode lasers with 784.4/785.5 and 457.7/458.9 nm excitation and applied it to samples such as paracetamol and aspirin tablets, polystyrene and polymethyl methacrylate beads, as well as pork meat using multiple accumulations with acquisition times in the range of 50 to 200 ms. The results tackle two main challenges of SERDS imaging: gradual photobleaching changes the autofluorescence background, and multiple readouts of CCD detector prolong the acquisition time

    Raman Spectroscopy Applications in Agriculture: From Early Plant Stress Diagnostics to Animal Diet Predictions

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    This work is mainly devoted to development of Raman spectroscopic techniques for in vivo detection of abiotic plant stress and animal diet prediction by Raman spectra of their feces. The ability to measure plant stress in vivo responses is becoming increasingly vital as we consider human population growth and climate change reports. In the first study, Raman spectroscopy was utilized to nondestructively detect abiotic stress responses during 48 hours of plant response to multiple stresses. Coleus Solenostemon scutellarioides plants were subjected to four common abiotic stress conditions, individually: high soil salinity, drought, chilling exposure, and light saturation and examined post stress induction by Raman microscopic and spectroscopic systems, and chemical analytical methods. While anthocyanin levels increased, carotenoid levels decreased under exposure to these stress conditions by in vivo Raman measurements and the chemical analysis. This unique negative correlated relationship shows that plant stress response is fine-tuned to protect against stress-induced damage. In the next study, we utilized a Raman spectroscopy as detection tool to predict cow diets by their feces. The objective of this study was to compare near infrared reflectance spectroscopy (NIRS) to Raman spectroscopy of fecal samples for predicting the percentage of Honey mesquite Prosopis glandulosa Torr. in the diet of ruminally fistulated cattle fed three different base hay diets and to compare them for their ability to discriminate among the three base diets. Spectra were collected from fecal materials from a feeding trial with mesquite fed at 0, 1, 3 and 5% of the diet and base hay diets of timothy hay Phleum pratense L., Sudan hay Sorghum sudanense (Piper) Stapf, or a 50 : 50 combination of Bermudagrass hay Cynodon dactylon (L.) Pers. and beardless wheat hay Triticum aestivum L.. NIRS and Raman spectra were used for partial least squares regression calibrations with the timothy and Sudan hays and validated with the Bermudagrass beardless wheat hay diets. NIRS spectra provided useful calibrations (R²=0.88, slope=1.03, intercept=1.88, root mean square error=2.09, bias=1.95, ratio of performance to deviation=2.6), but Raman spectra did not. Stepwise discriminant analysis was used to select wavenumbers for discriminant among the three hays. Fifteen of 350 possible wavenumbers for NIRS spectra and 29 of 300 possible wavenumbers for Raman spectra met the P≤0.05 entry and staying criteria. Canonical discriminant analysis using these wavenumbers resulted in 100% correct classification for all three base diets and the Raman spectra provided greater separation than NIRS spectra. Discrimination using Raman spectra was primarily associated with wavenumbers associated with undigestible constituents of the diet, i.e., lignin. In contrast, discrimination using NIRS spectra was primarily associated with wavenumbers associated with digestible constituents in the diet, i.e., protein, starch and lipid. At last, coherent Raman scattering spectroscopy is studied specifically, with the Gaussian ultrashort pulses as a hands-on elucidatory extraction tool of the clean coherent Raman resonant spectra from the overall measured data contaminated with the non-resonant four wave mixing background. The integral formulae for both the coherent anti- Stokes and Stokes Raman scattering are given in the semiclassical picture, and the closed-form solutions in terms of a complex error function are obtained. An analytic form of maximum enhancement of pure coherent Raman spectra at threshold time delay depending on bandwidth of probe pulse is also obtained. The observed experimental data for pyridine in liquid-phase are quantitatively elucidated and the inferred time-resolved coherent Raman resonant results are reconstructed with a new insight

    Time-gated Raman spectroscopy – a review

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    Light Microscopy: An ongoing contemporary revolution

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    Optical microscopy is one of the oldest scientific instruments that is still used in forefront research. Ernst Abbe's nineteenth century formulation of the resolution limit in microscopy let generations of scientists believe that optical studies of individual molecules and resolving sub-wavelength structures were not feasible. The Nobel Prize in 2014 for super-resolution fluorescence microscopy marks a clear recognition that the old beliefs have to be revisited. In this article, we present a critical overview of various recent developments in optical microscopy. In addition to the popular super-resolution fluorescence methods, we discuss the prospects of various other techniques and imaging contrasts and consider some of the fundamental and practical challenges that lie ahead.Comment: 37 pages, 13 figure

    Methods and instrumentation for raman characterization of bladder cancer tumor

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    High incidence and recurrence rates make bladder cancer the most common malignant tumor in the urinary system. Cystoscopy is the gold standard test used for diagnosis, nevertheless small flat tumors might be missed, and the procedure still represents discomfort to patients and high recurrence can result from of urethral injuries. During cystoscopy, suspicious tumors are detected through white light endoscopy and resected tissue is further examined by histopathology. after resection, the pathologist provides information on the differentiation of the cells and the penetration depth of the tumor in the tissue, known as grading and staging of tumor, respectively. During cystoscopy, information on tumor grading and morphological depth characterization can assist onsite diagnosis and significantly reduce the amount of unnecessarily resected tissue. Recently, new developments in optical imaging and spectroscopic approaches have been demonstrated to improve the results of standard techniques by providing real-time detection of macroscopic and microscopic biomedical information. Different applications to detect anomalies in tissues and cells based on the chemical composition and structure at the microscopic level have been successfully tested. There is, nevertheless, the need to cope with the demands for clinical translation. This doctoral thesis presents the investigations, clinical studies and approaches applied to filling the main open research questions when applying Raman spectroscopy as a diagnostic tool for bladder cancer tumor grading and general Raman spectroscopy-based oncological clinical studies

    Development of Molecular Contrast-enhanced Imaging for Optical Coherence Tomography

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    Biological imaging techniques that are able to detect a contrast-enhanced signal from the target molecules have been widely applied to various techniques in the imaging field. The complex biological environment provides numerous and more efficient pathways along which the chromophores (light absorber) may release its energy. This energy can provide not only morphological information, but also specific molecular information such as a biochemical map of a sample. All diseases correlate with both morphological and biochemical changes. Optical coherence tomography (OCT) system is one of the biological imaging techniques. OCT has widely been applied to many medical/clinical fields, giving benefit from a penetration depth of a few millimeters while maintaining a spatial resolution on the order of a micron. Unfortunately, OCT lacks the straightforward functional molecular imaging extensions available for other technologies, e.g. confocal fluorescence microscopy and fluorescence diffuse optical tomography. This is largely because incoherent processes such as fluorescence emission and Raman scattering are not readily detectable with low coherence interferometry that is the central technique that underlies all OCT systems. Despite a drawback of molecular imaging with OCT, it is highly desirable to measure not only morphological, but also molecular information from either endogenous or exogenous molecules. In order to overcome the limitation of molecular contrast imaging for OCT, our group has been researched the hybrid OCT imaging technique and a new exogenous contrast agent. Our contrast-enhanced imaging technique integrates OCT with a well-researched and well-established technique: two-colored pump-probe absorption spectroscopy. Our novel imaging technique is called Pump-Probe OCT (PPOCT). Based upon current successful results, molecular imaging with OCT potentially gives us the ability to identify pathologies. In order to expand the capacity of PPOCT, this dissertation focuses on development of molecular contrast-enhanced imaging for optical coherence tomography (OCT). In the first phase of the research, we developed and optimized for sensitivity a two-color ground state recovery Pump-Probe Optical Coherence Tomography (gsrPPOCT) system and signal algorithm to measure the contrast-enhanced signal of endogenous and exogenous contrast agents such as Hemoglobin (Hb) and Methylene blue (MB) from in vivo samples. Depending on the absorption peak of a target molecule, the pump light sources for PPOCT used 532nm Q-switched laser or 663nm diode laser. Based on different experimental application, Ti:sapp or SLD of 830nm center wavelength were utilized. The PPCOT system was firstly used to image Hb of in vivo vasulature in a Xenopus laevis as the endogenous contrast agent and a larval stage zebrafish using MB as the exogenous contrast agent via transient changes in light absorption. Their morphological in addition to molecular specific information from a live animal was described. The incorporation of a pump laser in an otherwise typical spectrometer based OCT system is sufficient to enable molecular imaging with PPOCT. In the second phase of this research, based on endoscopic molecular contrast-enhanced applications for OCT, we invented an ultra-wideband lensless fiber optic rotary joint based on co-aligning two optical fibers has excellent performance (~0.38 dB insertion loss). The developed rotary joint can cover a wavelength range of at least 355- 1360 nm with single mode, multimode, and double clad fibers with rotational velocities up to 8800 rpm (146 Hz). In the third phase of this research, we developed and manufactured a microencapsulated methylene blue (MB) contrast agent for PPOCT. The poly lactic coglycolic acid (PLGA) microspheres loaded with MB offer several advantages over bare MB. The microsphere encapsulation improves the PPOCT signal both by enhancing the scattering and preventing the reduction of MB to leucomethylene blue. The surface of the microsphere can readily be functionalized to enable active targeting of the contrast agent without modifying the excited state dynamics of MB that enable PPOCT imaging. Both MB and PLGA are used clinically. PLGA is FDA approved and used in drug delivery and tissue engineering applications. 2.5 µm diameter microspheres were synthesized with an inner core containing 0.01% (w/v) aqueous MB. As an initial demonstration the MB microspheres were imaged in a 100 µm diameter capillary tube submerged in a 1% intralipid emulsion. By varying the oxygen concentration both 0% and 21%, we observed he lifetime of excited triple state using time-resolved Pump-Probe spectroscopy and also the relative phase shift between the pump and probe is a reliable indicator of the oxygen concentration. Furthermore, these results are in good agreement with our theoretical predictions. This development opens up the possibility of using MB for 3-D oxygen sensing with PPOCT

    Development of Molecular Contrast-enhanced Imaging for Optical Coherence Tomography

    Get PDF
    Biological imaging techniques that are able to detect a contrast-enhanced signal from the target molecules have been widely applied to various techniques in the imaging field. The complex biological environment provides numerous and more efficient pathways along which the chromophores (light absorber) may release its energy. This energy can provide not only morphological information, but also specific molecular information such as a biochemical map of a sample. All diseases correlate with both morphological and biochemical changes. Optical coherence tomography (OCT) system is one of the biological imaging techniques. OCT has widely been applied to many medical/clinical fields, giving benefit from a penetration depth of a few millimeters while maintaining a spatial resolution on the order of a micron. Unfortunately, OCT lacks the straightforward functional molecular imaging extensions available for other technologies, e.g. confocal fluorescence microscopy and fluorescence diffuse optical tomography. This is largely because incoherent processes such as fluorescence emission and Raman scattering are not readily detectable with low coherence interferometry that is the central technique that underlies all OCT systems. Despite a drawback of molecular imaging with OCT, it is highly desirable to measure not only morphological, but also molecular information from either endogenous or exogenous molecules. In order to overcome the limitation of molecular contrast imaging for OCT, our group has been researched the hybrid OCT imaging technique and a new exogenous contrast agent. Our contrast-enhanced imaging technique integrates OCT with a well-researched and well-established technique: two-colored pump-probe absorption spectroscopy. Our novel imaging technique is called Pump-Probe OCT (PPOCT). Based upon current successful results, molecular imaging with OCT potentially gives us the ability to identify pathologies. In order to expand the capacity of PPOCT, this dissertation focuses on development of molecular contrast-enhanced imaging for optical coherence tomography (OCT). In the first phase of the research, we developed and optimized for sensitivity a two-color ground state recovery Pump-Probe Optical Coherence Tomography (gsrPPOCT) system and signal algorithm to measure the contrast-enhanced signal of endogenous and exogenous contrast agents such as Hemoglobin (Hb) and Methylene blue (MB) from in vivo samples. Depending on the absorption peak of a target molecule, the pump light sources for PPOCT used 532nm Q-switched laser or 663nm diode laser. Based on different experimental application, Ti:sapp or SLD of 830nm center wavelength were utilized. The PPCOT system was firstly used to image Hb of in vivo vasulature in a Xenopus laevis as the endogenous contrast agent and a larval stage zebrafish using MB as the exogenous contrast agent via transient changes in light absorption. Their morphological in addition to molecular specific information from a live animal was described. The incorporation of a pump laser in an otherwise typical spectrometer based OCT system is sufficient to enable molecular imaging with PPOCT. In the second phase of this research, based on endoscopic molecular contrast-enhanced applications for OCT, we invented an ultra-wideband lensless fiber optic rotary joint based on co-aligning two optical fibers has excellent performance (~0.38 dB insertion loss). The developed rotary joint can cover a wavelength range of at least 355- 1360 nm with single mode, multimode, and double clad fibers with rotational velocities up to 8800 rpm (146 Hz). In the third phase of this research, we developed and manufactured a microencapsulated methylene blue (MB) contrast agent for PPOCT. The poly lactic coglycolic acid (PLGA) microspheres loaded with MB offer several advantages over bare MB. The microsphere encapsulation improves the PPOCT signal both by enhancing the scattering and preventing the reduction of MB to leucomethylene blue. The surface of the microsphere can readily be functionalized to enable active targeting of the contrast agent without modifying the excited state dynamics of MB that enable PPOCT imaging. Both MB and PLGA are used clinically. PLGA is FDA approved and used in drug delivery and tissue engineering applications. 2.5 µm diameter microspheres were synthesized with an inner core containing 0.01% (w/v) aqueous MB. As an initial demonstration the MB microspheres were imaged in a 100 µm diameter capillary tube submerged in a 1% intralipid emulsion. By varying the oxygen concentration both 0% and 21%, we observed he lifetime of excited triple state using time-resolved Pump-Probe spectroscopy and also the relative phase shift between the pump and probe is a reliable indicator of the oxygen concentration. Furthermore, these results are in good agreement with our theoretical predictions. This development opens up the possibility of using MB for 3-D oxygen sensing with PPOCT

    Multimodal Spectroscopy and Imaging of Chabazite Zeolite

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    Zeolites are a type of crystalline aluminosilicate material that when produced synthetically find use in a variety of contexts, many of which are directly beneficial to society at large. One such application, which is of interest not only from the perspective of commercial profitability but perhaps more pertinently in today’s climate from an environmental point of view, is catalysis. Two important examples of commercialised catalytic reactions are selective catalytic reduction (SCR) and the methanol-to-olefins (MTO) reaction, which, respectively, involve the catalytic conversion of noxious NOx gases to nitrogen & water, and waste methanol to higher value petrochemicals. A central challenge in catalysis is the development of characterisation techniques capable of navigating the structurally and compositionally complex internal landscapes of zeolitic catalysts. While the bulk scale information gleaned through techniques like mass spectroscopy, XRD, and NMR provide an established benchmark against which zeolite behaviour is currently assessed, gaining spatially resolved insight into catalytic activity on a nanometric, single-catalyst length scale is highly desirable in current research efforts focused on optimising and improving existing catalytic systems. Laser-based characterisation, being non-destructive and capable of molecular excitation, is identified here as a viable but underexplored option for studying zeolites in a catalytic chemistry context. Time-resolved photoluminescence spectroscopy (TRPS) and confocal-lifetime microscopy are applied to zeolite systems, providing fresh insight into aspects of the zeolite’s synthesis process. TRPS is further combined with in situ setups to provide new information on zeolite behaviour during an active catalytic reaction as a function of time and temperature. Finally, combined IR spectroscopy and X-ray microscopy studies were conducted on Cu-containing forms of the high silica form (SSZ-13) of the zeolite chabazite (CHA)
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