1
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Karlo J, Gupta A, Singh SP. In situ monitoring of the shikimate pathway: a combinatorial approach of Raman reverse stable isotope probing and hyperspectral imaging. Analyst 2024; 149:2833-2841. [PMID: 38587502 DOI: 10.1039/d4an00203b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/09/2024]
Abstract
Sensing and visualization of metabolites and metabolic pathways in situ are significant requirements for tracking their spatiotemporal dynamics in a non-destructive manner. The shikimate pathway is an important cellular mechanism that leads to the de novo synthesis of many compounds containing aromatic rings of high importance such as phenylalanine, tyrosine, and tryptophan. In this work, we present a cost-effective and extraction-free method based on the principles of stable isotope-coupled Raman spectroscopy and hyperspectral Raman imaging to monitor and visualize the activity of the shikimate pathway. We also demonstrated the applicability of this approach for nascent aromatic amino acid localization and tracking turnover dynamics in both prokaryotic and eukaryotic model systems. This method can emerge as a promising tool for both qualitative and semi-quantitative in situ metabolomics, contributing to a better understanding of aromatic ring-containing metabolite dynamics across various organisms.
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Affiliation(s)
- Jiro Karlo
- Department of Biosciences and Bioengineering, Indian Institute of Technology Dharwad, Dharwad, Karnataka, 580011, India.
| | - Aryan Gupta
- Department of Biosciences and Bioengineering, Indian Institute of Technology Dharwad, Dharwad, Karnataka, 580011, India.
| | - Surya Pratap Singh
- Department of Biosciences and Bioengineering, Indian Institute of Technology Dharwad, Dharwad, Karnataka, 580011, India.
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2
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Mrđenović D, Combes BF, Ni R, Zenobi R, Kumar N. Probing Chemical Complexity of Amyloid Plaques in Alzheimer's Disease Mice using Hyperspectral Raman Imaging. ACS Chem Neurosci 2024; 15:78-85. [PMID: 38096362 PMCID: PMC10767745 DOI: 10.1021/acschemneuro.3c00607] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Revised: 11/11/2023] [Accepted: 11/30/2023] [Indexed: 01/04/2024] Open
Abstract
One of the distinctive pathological features of Alzheimer's disease (AD) is the deposition of amyloid plaques within the brain of affected individuals. These plaques have traditionally been investigated using labeling techniques such as immunohistochemical imaging. However, the use of labeling can disrupt the structural integrity of the molecules being analyzed. Hence, it is imperative to employ label-free imaging methods for noninvasive examination of amyloid deposits in their native form, thereby providing more relevant information pertaining to AD. This study presents compelling evidence that label-free and nondestructive confocal Raman imaging is a highly effective approach for the identification and chemical characterization of amyloid plaques within cortical regions of an arcAβ mouse model of AD. Furthermore, this investigation elucidates how the spatial correlation of Raman signals can be exploited to identify robust Raman marker bands and discern proteins and lipids from amyloid plaques. Finally, this study uncovers the existence of distinct types of amyloid plaques in the arcAβ mouse brain, exhibiting significant disparities in terms of not only shape and size but also molecular composition.
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Affiliation(s)
- Dušan Mrđenović
- Department
of Chemistry and Applied Biosciences, ETH
Zürich, Vladimir-Prelog-Weg 1−5/10, 8093 Zürich, Switzerland
| | - Benjamin F. Combes
- Institute
for Regenerative Medicine, University of
Zürich, Wagistrasse
12, 8952 Schlieren, Switzerland
| | - Ruiqing Ni
- Institute
for Regenerative Medicine, University of
Zürich, Wagistrasse
12, 8952 Schlieren, Switzerland
- Institute
for Biomedical Engineering, University of
Zurich and ETH Zurich, Wolfgang-Pauli-Strasse 27, 8093 Zürich, Switzerland
| | - Renato Zenobi
- Department
of Chemistry and Applied Biosciences, ETH
Zürich, Vladimir-Prelog-Weg 1−5/10, 8093 Zürich, Switzerland
| | - Naresh Kumar
- Department
of Chemistry and Applied Biosciences, ETH
Zürich, Vladimir-Prelog-Weg 1−5/10, 8093 Zürich, Switzerland
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3
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Law SY, Asanuma M, Shou J, Ozeki Y, Kodama Y, Numata K. Deuterium- and Alkyne-Based Bioorthogonal Raman Probes for In Situ Quantitative Metabolic Imaging of Lipids within Plants. JACS AU 2023; 3:1604-1614. [PMID: 37388682 PMCID: PMC10302745 DOI: 10.1021/jacsau.3c00041] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Revised: 04/21/2023] [Accepted: 04/27/2023] [Indexed: 07/01/2023]
Abstract
Plants can rapidly respond to different stresses by activating multiple signaling and defense pathways. The ability to directly visualize and quantify these pathways in real time using bioorthogonal probes would have practical applications, including characterizing plant responses to both abiotic and biotic stress. Fluorescence-based labels are widely used for tagging of small biomolecules but are relatively bulky and with potential effects on their endogenous localization and metabolism. This work describes the use of deuterium- and alkyne-derived fatty acid Raman probes to visualize and track the real-time response of plants to abiotic stress within the roots. Relative quantification of the respective signals could be used to track their localization and overall real-time responses in their fatty acid pools due to drought and heat stress without labor-intensive isolation procedures. Their overall usability and low toxicity suggest that Raman probes have great untapped potential in the field of plant bioengineering.
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Affiliation(s)
- Simon
Sau Yin Law
- Biomacromolecules
Research Team, RIKEN Center for Sustainable
Resource Science, Wako, Saitama 351-0198, Japan
| | - Masato Asanuma
- Graduate
School of Engineering, University of Tokyo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Jingwen Shou
- Graduate
School of Engineering, University of Tokyo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Yasuyuki Ozeki
- Graduate
School of Engineering, University of Tokyo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Yutaka Kodama
- Biomacromolecules
Research Team, RIKEN Center for Sustainable
Resource Science, Wako, Saitama 351-0198, Japan
- Center
for Bioscience Research and Education, Utsunomiya
University, Utsunomiya, Tochigi 321-8505, Japan
| | - Keiji Numata
- Biomacromolecules
Research Team, RIKEN Center for Sustainable
Resource Science, Wako, Saitama 351-0198, Japan
- Department
of Material Chemistry, Kyoto University, Nishikyo-ku, Kyoto 615-8510, Japan
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4
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Xu FX, Rathbone EG, Fu D. Simultaneous Dual-Band Hyperspectral Stimulated Raman Scattering Microscopy with Femtosecond Optical Parametric Oscillators. J Phys Chem B 2023; 127:2187-2197. [PMID: 36883604 PMCID: PMC10144064 DOI: 10.1021/acs.jpcb.2c09105] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/09/2023]
Abstract
Stimulated Raman scattering (SRS) microscopy is a label-free quantitative optical technique for imaging molecular distributions in cells and tissues by probing their intrinsic vibrational frequencies. Despite its usefulness, existing SRS imaging techniques have limited spectral coverage due to either a wavelength tuning constraint or narrow spectral bandwidth. High-wavenumber SRS imaging is commonly used to map lipid and protein distribution in biological cells and visualize cell morphology. However, to detect small molecules or Raman tags, imaging in the fingerprint region or "silent" region, respectively, is often required. For many applications, it is desirable to collect SRS images in two Raman spectral regions simultaneously for visualizing the distribution of specific molecules in cellular compartments or providing accurate ratiometric analysis. In this work, we present an SRS microscopy system using three beams generated by a femtosecond oscillator to acquire hyperspectral SRS image stacks in two arbitrary vibrational frequency bands, between 650-3280 cm-1, simultaneously. We demonstrate potential biomedical applications of the system in investigating fatty acid metabolism, cellular drug uptake and accumulation, and lipid unsaturation level in tissues. We also show that the dual-band hyperspectral SRS imaging system can be adapted for the broadband fingerprint region hyperspectral imaging (1100-1800 cm-1) by simply adding a modulator.
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Affiliation(s)
- Fiona Xi Xu
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
| | - Emily G Rathbone
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
| | - Dan Fu
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
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5
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Allakhverdiev ES, Khabatova VV, Kossalbayev BD, Zadneprovskaya EV, Rodnenkov OV, Martynyuk TV, Maksimov GV, Alwasel S, Tomo T, Allakhverdiev SI. Raman Spectroscopy and Its Modifications Applied to Biological and Medical Research. Cells 2022; 11:cells11030386. [PMID: 35159196 PMCID: PMC8834270 DOI: 10.3390/cells11030386] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2021] [Revised: 01/17/2022] [Accepted: 01/22/2022] [Indexed: 02/06/2023] Open
Abstract
Nowadays, there is an interest in biomedical and nanobiotechnological studies, such as studies on carotenoids as antioxidants and studies on molecular markers for cardiovascular, endocrine, and oncological diseases. Moreover, interest in industrial production of microalgal biomass for biofuels and bioproducts has stimulated studies on microalgal physiology and mechanisms of synthesis and accumulation of valuable biomolecules in algal cells. Biomolecules such as neutral lipids and carotenoids are being actively explored by the biotechnology community. Raman spectroscopy (RS) has become an important tool for researchers to understand biological processes at the cellular level in medicine and biotechnology. This review provides a brief analysis of existing studies on the application of RS for investigation of biological, medical, analytical, photosynthetic, and algal research, particularly to understand how the technique can be used for lipids, carotenoids, and cellular research. First, the review article shows the main applications of the modified Raman spectroscopy in medicine and biotechnology. Research works in the field of medicine and biotechnology are analysed in terms of showing the common connections of some studies as caretenoids and lipids. Second, this article summarises some of the recent advances in Raman microspectroscopy applications in areas related to microalgal detection. Strategies based on Raman spectroscopy provide potential for biochemical-composition analysis and imaging of living microalgal cells, in situ and in vivo. Finally, current approaches used in the papers presented show the advantages, perspectives, and other essential specifics of the method applied to plants and other species/objects.
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Affiliation(s)
- Elvin S. Allakhverdiev
- Russian National Medical Research Center of Cardiology, 3rd Cherepkovskaya St., 15A, 121552 Moscow, Russia; (E.S.A.); (O.V.R.); (T.V.M.)
- Biology Faculty, Lomonosov Moscow State University, Leninskie Gory 1/12, 119991 Moscow, Russia;
| | - Venera V. Khabatova
- K.A. Timiryazev Institute of Plant Physiology, RAS, Botanicheskaya str., 35, 127276 Moscow, Russia; (V.V.K.); (E.V.Z.)
| | - Bekzhan D. Kossalbayev
- Geology and Oil-gas Business Institute Named after K. Turyssov, Satbayev University, Satpaeva, 22, Almaty 050043, Kazakhstan;
- Department of Biotechnology, Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Al-Farabi Avenue 71, Almaty 050038, Kazakhstan
| | - Elena V. Zadneprovskaya
- K.A. Timiryazev Institute of Plant Physiology, RAS, Botanicheskaya str., 35, 127276 Moscow, Russia; (V.V.K.); (E.V.Z.)
| | - Oleg V. Rodnenkov
- Russian National Medical Research Center of Cardiology, 3rd Cherepkovskaya St., 15A, 121552 Moscow, Russia; (E.S.A.); (O.V.R.); (T.V.M.)
| | - Tamila V. Martynyuk
- Russian National Medical Research Center of Cardiology, 3rd Cherepkovskaya St., 15A, 121552 Moscow, Russia; (E.S.A.); (O.V.R.); (T.V.M.)
| | - Georgy V. Maksimov
- Biology Faculty, Lomonosov Moscow State University, Leninskie Gory 1/12, 119991 Moscow, Russia;
- Department of Physical Materials Science, Technological University “MISiS”, Leninskiy Prospekt 4, Office 626, 119049 Moscow, Russia
| | - Saleh Alwasel
- Zoology Department, College of Science, King Saud University, Riyadh 12372, Saudi Arabia;
| | - Tatsuya Tomo
- Department of Biology, Faculty of Science, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo 162-8601, Japan;
| | - Suleyman I. Allakhverdiev
- K.A. Timiryazev Institute of Plant Physiology, RAS, Botanicheskaya str., 35, 127276 Moscow, Russia; (V.V.K.); (E.V.Z.)
- Zoology Department, College of Science, King Saud University, Riyadh 12372, Saudi Arabia;
- Institute of Basic Biological Problems, RAS, Pushchino, 142290 Moscow, Russia
- Correspondence:
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6
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Deniset-Besseau A, Coat R, Moutel B, Rebois R, Mathurin J, Grizeau D, Dazzi A, Gonçalves O. Revealing Lipid Body Formation and its Subcellular Reorganization in Oleaginous Microalgae Using Correlative Optical Microscopy and Infrared Nanospectroscopy. APPLIED SPECTROSCOPY 2021; 75:1538-1547. [PMID: 34608808 DOI: 10.1177/00037028211050659] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The purpose of this work is to develop an integrated imaging approach to characterize without labeling at the sub-cellular level the formation of lipid body droplets (LBs) in microalgae undergoing nitrogen starvation. First conventional optical microscopy approaches, gas chromatography, and turbidimetry measurements allowed to monitor the biomass and the total lipid content in the oleaginous microalgae Parachlorella kesslerii during the starvation process. Then a local analysis of the LBs was proposed using an innovative infrared nanospectroscopy technique called atomic force microscopy-based infrared spectroscopy (AFM-IR). This label-free technique assessed the formation of LBs and allowed to look into the LB composition thanks to the acquisition of local infrared spectra. Last correlative measurements using fluorescence microscopy and AFM-IR were performed to investigate the subcellular reorganization of LB and the chloroplasts.
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Affiliation(s)
| | - Rémy Coat
- LUNAM Université, Université de Nantes, GEPEA, UMR CNRS-6144, Saint-Nazaire Cedex, France
| | - Benjamin Moutel
- LUNAM Université, Université de Nantes, GEPEA, UMR CNRS-6144, Saint-Nazaire Cedex, France
| | - Rolando Rebois
- Université Paris-Saclay, CNRS, Institut de Chimie Physique, UMR 8000, Orsay, France
| | - Jérémie Mathurin
- Université Paris-Saclay, CNRS, Institut de Chimie Physique, UMR 8000, Orsay, France
| | - Dominique Grizeau
- LUNAM Université, Université de Nantes, GEPEA, UMR CNRS-6144, Saint-Nazaire Cedex, France
| | - Alexandre Dazzi
- Université Paris-Saclay, CNRS, Institut de Chimie Physique, UMR 8000, Orsay, France
| | - Olivier Gonçalves
- LUNAM Université, Université de Nantes, GEPEA, UMR CNRS-6144, Saint-Nazaire Cedex, France
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7
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A polyyne toxin produced by an antagonistic bacterium blinds and lyses a Chlamydomonad alga. Proc Natl Acad Sci U S A 2021; 118:2107695118. [PMID: 34389682 PMCID: PMC8379975 DOI: 10.1073/pnas.2107695118] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
Algae live in association with microbes that interact by a variety of chemical mediators, resulting in mutualistic or antagonistic relationships. Although algae are key contributors to carbon fixation and are fundamental for food webs, we still know little about the underlying molecular mechanisms affecting their fitness. This study investigates the interaction between an antagonistic bacterium and a unicellular alga. It demonstrates multiple roles of a polyyne, protegencin, that is used by the bacteria to attack green algal cells. It is a highly effective toxin that alters a subcellular algal compartment used for vision, bleaches, and lyses the algal cells. These results expand our knowledge of the arsenal of chemical mediators in bacteria and their modes of action in algal communities. Algae are key contributors to global carbon fixation and form the basis of many food webs. In nature, their growth is often supported or suppressed by microorganisms. The bacterium Pseudomonas protegens Pf-5 arrests the growth of the green unicellular alga Chlamydomonas reinhardtii, deflagellates the alga by the cyclic lipopeptide orfamide A, and alters its morphology [P. Aiyar et al., Nat. Commun. 8, 1756 (2017)]. Using a combination of Raman microspectroscopy, genome mining, and mutational analysis, we discovered a polyyne toxin, protegencin, which is secreted by P. protegens, penetrates the algal cells, and causes destruction of the carotenoids of their primitive visual system, the eyespot. Together with secreted orfamide A, protegencin thus prevents the phototactic behavior of C. reinhardtii. A mutant of P. protegens deficient in protegencin production does not affect growth or eyespot carotenoids of C. reinhardtii. Protegencin acts in a direct and destructive way by lysing and killing the algal cells. The toxic effect of protegencin is also observed in an eyeless mutant and with the colony-forming Chlorophyte alga Gonium pectorale. These data reveal a two-pronged molecular strategy involving a cyclic lipopeptide and a conjugated tetrayne used by bacteria to attack select Chlamydomonad algae. In conjunction with the bloom-forming activity of several chlorophytes and the presence of the protegencin gene cluster in over 50 different Pseudomonas genomes [A. J. Mullins et al., bioRxiv [Preprint] (2021). https://www.biorxiv.org/content/10.1101/2021.03.05.433886v1 (Accessed 17 April 2021)], these data are highly relevant to ecological interactions between Chlorophyte algae and Pseudomonadales bacteria.
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8
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Lima C, Muhamadali H, Goodacre R. The Role of Raman Spectroscopy Within Quantitative Metabolomics. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2021; 14:323-345. [PMID: 33826853 DOI: 10.1146/annurev-anchem-091420-092323] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Ninety-four years have passed since the discovery of the Raman effect, and there are currently more than 25 different types of Raman-based techniques. The past two decades have witnessed the blossoming of Raman spectroscopy as a powerful physicochemical technique with broad applications within the life sciences. In this review, we critique the use of Raman spectroscopy as a tool for quantitative metabolomics. We overview recent developments of Raman spectroscopy for identification and quantification of disease biomarkers in liquid biopsies, with a focus on the recent advances within surface-enhanced Raman scattering-based methods. Ultimately, we discuss the applications of imaging modalities based on Raman scattering as label-free methods to study the abundance and distribution of biomolecules in cells and tissues, including mammalian, algal, and bacterial cells.
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Affiliation(s)
- Cassio Lima
- Department of Biochemistry and Systems Biology, Institute of Systems, Molecular, and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, United Kingdom;
| | - Howbeer Muhamadali
- Department of Biochemistry and Systems Biology, Institute of Systems, Molecular, and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, United Kingdom;
| | - Royston Goodacre
- Department of Biochemistry and Systems Biology, Institute of Systems, Molecular, and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, United Kingdom;
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9
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Kundu R, Chandra A, Datta A. Fluorescent Chemical Tools for Tracking Anionic Phospholipids. Isr J Chem 2021. [DOI: 10.1002/ijch.202100003] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Rajasree Kundu
- Department of Chemical Sciences Tata Institute of Fundamental Research 1 Homi Bhabha Road, Colaba Mumbai 400005 India
| | - Amitava Chandra
- Department of Chemical Sciences Tata Institute of Fundamental Research 1 Homi Bhabha Road, Colaba Mumbai 400005 India
| | - Ankona Datta
- Department of Chemical Sciences Tata Institute of Fundamental Research 1 Homi Bhabha Road, Colaba Mumbai 400005 India
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10
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Real-Time and In Situ Evaluation of Phycocyanin Concentration in Spirulina platensis Cultivation System by Using Portable Raman Spectroscopy. J CHEM-NY 2021. [DOI: 10.1155/2021/8857984] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Spirulina platensis can synthesize a large amount of phycocyanin, which had been developed as a health food. At the same time, Spirulina can absorb the nitrogen and phosphorus in wastewater and provide for its own growth. Here, we studied the optimal nitrogen and phosphorus supply for the Spirulina production process. For the first time, 405 nm portable Raman spectrometer was used to estimate phycocyanin content for real-time industrial applications. We obtained three Raman characteristic peaks of phycocyanin through density functional theory combined with home-built Raman spectrometer, which were 1272, 1337, and 1432
. There was a good linear correlation between the sum of the three peak intensities and the PCL concentration (y = 18.887x + 833.530,
). The least squares support vector machine model based on the characteristic peaks was used to estimate the concentration of phycocyanin and obtained good results with a correlation coefficient of prediction of 0.907 and residual predictive deviation of 3.357. The results can provide decision-making for integration of Spirulina effluent treatment and phycocyanin production and provide references for real-time Spirulina-based biorefinery applications.
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11
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Igonina TN, Okotrub KA, Brusentsev EY, Chuyko EA, Ragaeva DS, Ranneva SV, Amstislavsky SY. Alteration of the lipid phase transition during mouse embryos freezing after in vitro culture with linoleic acid. Cryobiology 2021; 99:55-63. [PMID: 33485897 DOI: 10.1016/j.cryobiol.2021.01.014] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2020] [Revised: 01/06/2021] [Accepted: 01/18/2021] [Indexed: 01/03/2023]
Abstract
Lipids significantly affect embryo cryopreservation in some mammalian species depending on the cell lipidome quantity and composition. One of the ways to study the relationship between lipid content and cryotolerance of cells is to study the effect of lipidome modification on laboratory mice. The objective of this research was to study how in vitro culture of mouse embryos with linoleic acid (LA) will affect lipid phase transition (LPT) during cooling and subsequent embryo development after cryopreservation. Embryos obtained in vivo at the 2-cell stage were cultured with 200 μM LA for 46 h up to the morula/blastocyst stage. Thereafter, one portion of embryos was slowly frozen to reveal the effect of LA on survival after cryopreservation, another portion was used to characterize the lipid composition and to determine the temperature of the LPT onset. Confocal fluorescence microscopy of Nile Red stained embryos showed a significant increase in lipid content of the LA treated group compared to the controls. Raman measurements showed that the onset of LPT in LA treated embryos is lower than in untreated ones: -5 °C vs +2 °C. However, these changes in the LPT onset did not affect the survival rates of embryos after cryopreservation. In summary, in vitro culture with LA changes the biophysical characteristics of embryos' lipidome and is realized in lower LPT onset, but this does not affect embryo survival after cryopreservation.
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Affiliation(s)
- T N Igonina
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prosp. Lavrent'eva 10, Novosibirsk, 630090, Russia
| | - K A Okotrub
- Institute of Automation and Electrometry, Siberian Branch of the Russian Academy of Sciences, Prosp. Koptyuga 1, Novosibirsk, 630090, Russia
| | - E Yu Brusentsev
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prosp. Lavrent'eva 10, Novosibirsk, 630090, Russia
| | - E A Chuyko
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prosp. Lavrent'eva 10, Novosibirsk, 630090, Russia
| | - D S Ragaeva
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prosp. Lavrent'eva 10, Novosibirsk, 630090, Russia
| | - S V Ranneva
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prosp. Lavrent'eva 10, Novosibirsk, 630090, Russia; Novosibirsk State University, Pirogova 2, Novosibirsk, 630090, Russia
| | - S Ya Amstislavsky
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prosp. Lavrent'eva 10, Novosibirsk, 630090, Russia.
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12
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Moudříková Š, Ivanov IN, Vítová M, Nedbal L, Zachleder V, Mojzeš P, Bišová K. Comparing Biochemical and Raman Microscopy Analyses of Starch, Lipids, Polyphosphate, and Guanine Pools during the Cell Cycle of Desmodesmus quadricauda. Cells 2021; 10:cells10010062. [PMID: 33401566 PMCID: PMC7824393 DOI: 10.3390/cells10010062] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2020] [Revised: 12/24/2020] [Accepted: 12/29/2020] [Indexed: 11/30/2022] Open
Abstract
Photosynthetic energy conversion and the resulting photoautotrophic growth of green algae can only occur in daylight, but DNA replication, nuclear and cellular divisions occur often during the night. With such a light/dark regime, an algal culture becomes synchronized. In this study, using synchronized cultures of the green alga Desmodesmus quadricauda, the dynamics of starch, lipid, polyphosphate, and guanine pools were investigated during the cell cycle by two independent methodologies; conventional biochemical analyzes of cell suspensions and confocal Raman microscopy of single algal cells. Raman microscopy reports not only on mean concentrations, but also on the distribution of pools within cells. This is more sensitive in detecting lipids than biochemical analysis, but both methods—as well as conventional fluorescence microscopy—were comparable in detecting polyphosphates. Discrepancies in the detection of starch by Raman microscopy are discussed. The power of Raman microscopy was proven to be particularly valuable in the detection of guanine, which was traceable by its unique vibrational signature. Guanine microcrystals occurred specifically at around the time of DNA replication and prior to nuclear division. Interestingly, guanine crystals co-localized with polyphosphates in the vicinity of nuclei around the time of nuclear division.
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Affiliation(s)
- Šárka Moudříková
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, CZ-12116 Prague 2, Czech Republic; (Š.M.); (P.M.)
- Institute of Bio- and Geosciences/Plant Sciences (IBG-2), Forschungszentrum Jülich, Wilhelm-Johnen-Straße, D-52428 Jülich, Germany;
| | - Ivan Nedyalkov Ivanov
- Laboratory of Cell Cycles of Algae, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, Novohradská 237, CZ-37981 Třeboň, Czech Republic; (I.N.I.); (M.V.); (V.Z.)
- Faculty of Science, University of South Bohemia, Branišovská 1760, CZ-37005 České Budějovice, Czech Republic
| | - Milada Vítová
- Laboratory of Cell Cycles of Algae, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, Novohradská 237, CZ-37981 Třeboň, Czech Republic; (I.N.I.); (M.V.); (V.Z.)
| | - Ladislav Nedbal
- Institute of Bio- and Geosciences/Plant Sciences (IBG-2), Forschungszentrum Jülich, Wilhelm-Johnen-Straße, D-52428 Jülich, Germany;
| | - Vilém Zachleder
- Laboratory of Cell Cycles of Algae, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, Novohradská 237, CZ-37981 Třeboň, Czech Republic; (I.N.I.); (M.V.); (V.Z.)
| | - Peter Mojzeš
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, CZ-12116 Prague 2, Czech Republic; (Š.M.); (P.M.)
- Institute of Bio- and Geosciences/Plant Sciences (IBG-2), Forschungszentrum Jülich, Wilhelm-Johnen-Straße, D-52428 Jülich, Germany;
| | - Kateřina Bišová
- Laboratory of Cell Cycles of Algae, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, Novohradská 237, CZ-37981 Třeboň, Czech Republic; (I.N.I.); (M.V.); (V.Z.)
- Correspondence: ; Tel.: +420-384-340-485
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13
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Van Bruggen C, Punihaole D, Keith AR, Schmitz AJ, Tolar J, Frontiera RR, Reineke TM. Quinine copolymer reporters promote efficient intracellular DNA delivery and illuminate a protein-induced unpackaging mechanism. Proc Natl Acad Sci U S A 2020; 117:32919-32928. [PMID: 33318196 PMCID: PMC7777095 DOI: 10.1073/pnas.2016860117] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023] Open
Abstract
Polymeric vehicles that efficiently package and controllably release nucleic acids enable the development of safer and more efficacious strategies in genetic and polynucleotide therapies. Developing delivery platforms that endogenously monitor the molecular interactions, which facilitate binding and release of nucleic acids in cells, would aid in the rational design of more effective vectors for clinical applications. Here, we report the facile synthesis of a copolymer containing quinine and 2-hydroxyethyl acrylate that effectively compacts plasmid DNA (pDNA) through electrostatic binding and intercalation. This polymer system poly(quinine-co-HEA) packages pDNA and shows exceptional cellular internalization, transgene expression, and low cytotoxicity compared to commercial controls for several human cell lines, including HeLa, HEK 293T, K562, and keratinocytes (N/TERTs). Using quinine as an endogenous reporter for pDNA intercalation, Raman imaging revealed that proteins inside cells facilitate the unpackaging of polymer-DNA complexes (polyplexes) and the release of their cargo. Our work showcases the ability of this quinine copolymer reporter to not only facilitate effective gene delivery but also enable diagnostic monitoring of polymer-pDNA binding interactions on the molecular scale via Raman imaging. The use of Raman chemical imaging in the field of gene delivery yields unprecedented insight into the unpackaging behavior of polyplexes in cells and provides a methodology to assess and design more efficient delivery vehicles for gene-based therapies.
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Affiliation(s)
- Craig Van Bruggen
- Department of Chemistry, University of Minnesota, Minneapolis, MN 55455
| | - David Punihaole
- Department of Chemistry, University of Minnesota, Minneapolis, MN 55455
| | - Allison R Keith
- Department of Pediatrics, Stem Cell Institute, University of Minnesota Medical School, Minneapolis, MN 55455
| | - Andrew J Schmitz
- Department of Chemistry, University of Minnesota, Minneapolis, MN 55455
| | - Jakub Tolar
- Department of Pediatrics, Stem Cell Institute, University of Minnesota Medical School, Minneapolis, MN 55455
| | - Renee R Frontiera
- Department of Chemistry, University of Minnesota, Minneapolis, MN 55455;
| | - Theresa M Reineke
- Department of Chemistry, University of Minnesota, Minneapolis, MN 55455;
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14
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Shao Y, Gu W, Qiu YA, Wang S, Peng Y, Zhu Y, Zhuang S. Lipids monitoring in Scenedesmus obliquus based on terahertz technology. BIOTECHNOLOGY FOR BIOFUELS 2020; 13:161. [PMID: 32944077 PMCID: PMC7493189 DOI: 10.1186/s13068-020-01801-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/13/2020] [Accepted: 09/08/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND Microalgae are considered as a source of low pollution and renewable fuel due to their ability to synthesize an abundance of lipids. Conventional methods for lipid quantification are time-consuming and chemically contaminated, while spectroscopic method combined with mathematical model is much more attractive due to its ability of qualitative and quantitative analysis of material composition, in this sense, terahertz technology provides not only timely and non-destructive testing without chemical pollution, but also provides information on the functional group vibration mode and structure of the measured components. Therefore, terahertz technology is utilized in our investigation and proposed for microalgae metabolism detection. RESULTS The aim of this study was to use terahertz spectroscopy to observe lipid content in Scenedesmus obliquus (S. obliquus). We collected the THz spectra of S. obliquus which were cultivated under nitrogen stress and terahertz spectroscopy was used to analyze changes in substance components (lipids, proteins, carbohydrates and β-carotene). The PLS algorithm was used to model the terahertz data to distinguish the different lipid content of S. obliquus under nitrogen stress. The correlation coefficient of the prediction results of the lipid characteristic band modeling was above 0.991, and the root mean square error was less than 0.132. It indicated that terahertz technology can be used to discriminate S. obliquus cells under different nitrogen stress effectively. The correlation between the terahertz characteristic peak (9.3 THz) and the total lipid content determined by gravimetry reaches 0.960. The final results were compared with the commonly used spectroscopic methods for lipid observation (Raman spectroscopy). CONCLUSIONS In this article, we demonstrated the effectiveness of terahertz spectroscopy to monitor changes in microalgae lipid content under nitrogen stress. Terahertz spectroscopy is more suitable for industrial production or ordinary laboratories which require intermediate result with low-frequency screening. When quantifying microalgae lipids, the constraint of terahertz spectroscopy is far less than that of Raman spectroscopy, and it is easier for operator to accurately quantify microalgae lipid. In addition, it is still in early stage for the study of microalgae using terahertz spectroscopy technology, there is still much potential for us to explore.
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Affiliation(s)
- Yongni Shao
- Terahertz Technology Innovation Research Institute, Terahertz Spectrum and Imaging Technology Cooperative Innovation Center, Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, Shanghai, 200093 China
- Shanghai Institute of Intelligent Science and Technology, Tongji University, Shanghai, 200092 China
| | - Weimin Gu
- Terahertz Technology Innovation Research Institute, Terahertz Spectrum and Imaging Technology Cooperative Innovation Center, Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, Shanghai, 200093 China
| | - Y ating Qiu
- Terahertz Technology Innovation Research Institute, Terahertz Spectrum and Imaging Technology Cooperative Innovation Center, Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, Shanghai, 200093 China
| | - Shengfeng Wang
- Terahertz Technology Innovation Research Institute, Terahertz Spectrum and Imaging Technology Cooperative Innovation Center, Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, Shanghai, 200093 China
| | - Yan Peng
- Terahertz Technology Innovation Research Institute, Terahertz Spectrum and Imaging Technology Cooperative Innovation Center, Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, Shanghai, 200093 China
- Shanghai Institute of Intelligent Science and Technology, Tongji University, Shanghai, 200092 China
| | - YiMing Zhu
- Terahertz Technology Innovation Research Institute, Terahertz Spectrum and Imaging Technology Cooperative Innovation Center, Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, Shanghai, 200093 China
- Shanghai Institute of Intelligent Science and Technology, Tongji University, Shanghai, 200092 China
| | - Songlin Zhuang
- Terahertz Technology Innovation Research Institute, Terahertz Spectrum and Imaging Technology Cooperative Innovation Center, Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, Shanghai, 200093 China
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15
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Abstract
This is a review of relevant Raman spectroscopy (RS) techniques and their use in structural biology, biophysics, cells, and tissues imaging towards development of various medical diagnostic tools, drug design, and other medical applications. Classical and contemporary structural studies of different water-soluble and membrane proteins, DNA, RNA, and their interactions and behavior in different systems were analyzed in terms of applicability of RS techniques and their complementarity to other corresponding methods. We show that RS is a powerful method that links the fundamental structural biology and its medical applications in cancer, cardiovascular, neurodegenerative, atherosclerotic, and other diseases. In particular, the key roles of RS in modern technologies of structure-based drug design are the detection and imaging of membrane protein microcrystals with the help of coherent anti-Stokes Raman scattering (CARS), which would help to further the development of protein structural crystallography and would result in a number of novel high-resolution structures of membrane proteins—drug targets; and, structural studies of photoactive membrane proteins (rhodopsins, photoreceptors, etc.) for the development of new optogenetic tools. Physical background and biomedical applications of spontaneous, stimulated, resonant, and surface- and tip-enhanced RS are also discussed. All of these techniques have been extensively developed during recent several decades. A number of interesting applications of CARS, resonant, and surface-enhanced Raman spectroscopy methods are also discussed.
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16
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Ramanome technology platform for label-free screening and sorting of microbial cell factories at single-cell resolution. Biotechnol Adv 2019; 37:107388. [DOI: 10.1016/j.biotechadv.2019.04.010] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2018] [Revised: 04/08/2019] [Accepted: 04/23/2019] [Indexed: 01/09/2023]
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17
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Brusentsev EY, Mokrousova VI, Igonina TN, Rozhkova IN, Amstislavsky SY. Role of Lipid Droplets in the Development of Oocytes and Preimplantation Embryos in Mammals. Russ J Dev Biol 2019. [DOI: 10.1134/s1062360419050102] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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18
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Vidavsky N, Kunitake JAMR, Diaz-Rubio ME, Chiou AE, Loh HC, Zhang S, Masic A, Fischbach C, Estroff LA. Mapping and Profiling Lipid Distribution in a 3D Model of Breast Cancer Progression. ACS CENTRAL SCIENCE 2019; 5:768-780. [PMID: 31139713 PMCID: PMC6535773 DOI: 10.1021/acscentsci.8b00932] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2018] [Indexed: 05/28/2023]
Abstract
Aberrant lipid accumulation and marked changes in cellular lipid profiles are related to breast cancer metabolism and disease progression. In vitro, these phenomena are primarily studied using cells cultured in monolayers (2D). Here, we employ multicellular spheroids, generated using the MCF10A cell line series of increasing malignancy potential, to better recapitulate the 3D microenvironmental conditions that cells experience in vivo. Breast cancer cell lipid compositions were assessed in 2D and 3D culture models as a function of malignancy using liquid chromatography coupled with mass spectrometry. Further, the spatial distribution of lipids was examined using Raman chemical imaging and lipid staining. We show that with changes in the cellular microenvironment when moving from 2D to 3D cell cultures, total lipid amounts decrease significantly, while the ratio of acylglycerols to membrane lipids increases. This ratio increase could be associated with the formation of large lipid droplets (>10 μm) that are spatially evident throughout the spheroids but absent in 2D cultures. Additionally, we found a significant difference in lipid profiles between the more and less malignant spheroids, including changes that support de novo sphingolipid production and a reduction in ether-linked lipid fractions in the invasive spheroids. These differences in lipid profiles as a function of cell malignancy and microenvironment highlight the importance of coupled spatial and lipidomic studies to better understand the connections between lipid metabolism and cancer.
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Affiliation(s)
- Netta Vidavsky
- Department
of Materials Science and Engineering, Cornell
University, Ithaca, New York 14850, United States
| | - Jennie A. M. R. Kunitake
- Department
of Materials Science and Engineering, Cornell
University, Ithaca, New York 14850, United States
| | - Maria Elena Diaz-Rubio
- Metabolomics
Facility, Institute of Biotechnology, Cornell
University, Ithaca, New York 14850, United States
| | - Aaron E. Chiou
- Nancy
E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, New York 14850, United States
| | - Hyun-Chae Loh
- Department
of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Sheng Zhang
- Metabolomics
Facility, Institute of Biotechnology, Cornell
University, Ithaca, New York 14850, United States
| | - Admir Masic
- Department
of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Claudia Fischbach
- Nancy
E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, New York 14850, United States
- Kavli
Institute at Cornell for Nanoscale Science, Ithaca, New York 14850, United States
| | - Lara A. Estroff
- Department
of Materials Science and Engineering, Cornell
University, Ithaca, New York 14850, United States
- Kavli
Institute at Cornell for Nanoscale Science, Ithaca, New York 14850, United States
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19
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An Expandable Mechanopharmaceutical Device (3): a Versatile Raman Spectral Cytometry Approach to Study the Drug Cargo Capacity of Individual Macrophages. Pharm Res 2018; 36:2. [PMID: 30402713 DOI: 10.1007/s11095-018-2540-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2018] [Accepted: 10/31/2018] [Indexed: 12/25/2022]
Abstract
PURPOSE To improve cytometric phenotyping abilities and better understand cell populations with high interindividual variability, a novel Raman-based microanalysis was developed to characterize macrophages on the basis of chemical composition, specifically to measure and characterize intracellular drug distribution and phase separation in relation to endogenous cellular biomolecules. METHODS The microanalysis was developed for the commercially-available WiTec alpha300R confocal Raman microscope. Alveolar macrophages were isolated and incubated in the presence of pharmaceutical compounds nilotinib, chloroquine, or etravirine. A Raman data processing algorithm was specifically developed to acquire the Raman signals emitted from single-cells and calculate the signal contributions from each of the major molecular components present in cell samples. RESULTS Our methodology enabled analysis of the most abundant biochemicals present in typical eukaryotic cells and clearly identified "foamy" lipid-laden macrophages throughout cell populations, indicating feasibility for cellular lipid content analysis in the context of different diseases. Single-cell imaging revealed differences in intracellular distribution behavior for each drug; nilotinib underwent phase separation and self-aggregation while chloroquine and etravirine accumulated primarily via lipid partitioning. CONCLUSIONS This methodology establishes a versatile cytometric analysis of drug cargo loading in macrophages requiring small numbers of cells with foreseeable applications in toxicology, disease pathology, and drug discovery.
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20
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Classification of samples from NMR-based metabolomics using principal components analysis and partial least squares with uncertainty estimation. Anal Bioanal Chem 2018; 410:6305-6319. [PMID: 30043113 DOI: 10.1007/s00216-018-1240-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2018] [Revised: 06/14/2018] [Accepted: 07/02/2018] [Indexed: 12/18/2022]
Abstract
Recent progress in metabolomics has been aided by the development of analysis techniques such as gas and liquid chromatography coupled with mass spectrometry (GC-MS and LC-MS) and nuclear magnetic resonance (NMR) spectroscopy. The vast quantities of data produced by these techniques has resulted in an increase in the use of machine algorithms that can aid in the interpretation of this data, such as principal components analysis (PCA) and partial least squares (PLS). Techniques such as these can be applied to biomarker discovery, interlaboratory comparison, and clinical diagnoses. However, there is a lingering question whether the results of these studies can be applied to broader sets of clinical data, usually taken from different data sources. In this work, we address this question by creating a metabolomics workflow that combines a previously published consensus analysis procedure ( https://doi.org/10.1016/j.chemolab.2016.12.010 ) with PCA and PLS models using uncertainty analysis based on bootstrapping. This workflow is applied to NMR data that come from an interlaboratory comparison study using synthetic and biologically obtained metabolite mixtures. The consensus analysis identifies trusted laboratories, whose data are used to create classification models that are more reliable than without. With uncertainty analysis, the reliability of the classification can be rigorously quantified, both for data from the original set and from new data that the model is analyzing. Graphical abstract ᅟ.
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21
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Microwell-assisted filtration with anodic aluminum oxide membrane for Raman analysis of algal cells. ALGAL RES 2018. [DOI: 10.1016/j.algal.2018.06.022] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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22
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Okotrub KA, Mokrousova VI, Amstislavsky SY, Surovtsev NV. Lipid Droplet Phase Transition in Freezing Cat Embryos and Oocytes Probed by Raman Spectroscopy. Biophys J 2018; 115:577-587. [PMID: 30099990 DOI: 10.1016/j.bpj.2018.06.019] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2018] [Revised: 06/08/2018] [Accepted: 06/14/2018] [Indexed: 12/15/2022] Open
Abstract
Embryo and oocyte cryopreservation is a widely used technology for cryopreservation of genetic resources. One limitation of cryopreservation is the low tolerance to freezing observed for oocytes and embryos rich in lipid droplets. We apply Raman spectroscopy to investigate freezing of lipid droplets inside cumulus-oocyte complexes, mature oocytes, and early embryos of a domestic cat. Raman spectroscopy allows one to characterize the degree of lipid unsaturation, the lipid phase transition from the liquid-like disordered to solid-like ordered state, and the triglyceride polymorphic state. For all cells examined, the average degree of lipid unsaturation is estimated as ∼1.3 (with ±20% deviation) double bonds per acyl chain. The onset of the lipid phase transition occurs in a temperature range from -10 to +4°C and does not depend on the cell type. Lipid droplets in cumulus-oocyte complexes are found to undergo abrupt lipid crystallization shifted in temperature from the ordering of the lipid conformational state. In the case of mature oocytes and early embryos obtained in vitro, the lipid crystallization is broadened. In the frozen state, lipid droplets inside cumulus-oocyte complexes have a higher content of triglyceride polymorphic β and β' phases than estimated for mature oocytes and early embryos. For the first time, to our knowledge, the temperature evolution of the phase state of lipid droplets is examined. Raman spectroscopy is proved to be a promising tool for in situ monitoring of the lipid phase state in a single embryo/oocyte during its freezing.
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Affiliation(s)
- Konstantin A Okotrub
- Institute of Automation and Electrometry, Russian Academy of Sciences, Novosibirsk, Russia.
| | - Valentina I Mokrousova
- Institute of Cytology and Genetics, Russian Academy of Sciences, Novosibirsk, Russia; Department of Natural Sciences, Novosibirsk State University, Novosibirsk, Russia
| | | | - Nikolay V Surovtsev
- Institute of Automation and Electrometry, Russian Academy of Sciences, Novosibirsk, Russia; Department of Physics, Novosibirsk State University, Novosibirsk, Russia
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23
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Chen L, Ma N, Park Y, Jin S, Hwang H, Jiang D, Jung YM. Highly sensitive determination of iron (III) ion based on phenanthroline probe: Surface-enhanced Raman spectroscopy methods. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 197:43-46. [PMID: 29273300 DOI: 10.1016/j.saa.2017.12.043] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2017] [Revised: 12/11/2017] [Accepted: 12/13/2017] [Indexed: 06/07/2023]
Abstract
In this paper, we introduced Raman spectroscopy techniques that were based on the traditional Fe3+ determination method with phenanthroline as a probe. Interestingly, surface-enhanced Raman spectroscopy (SERS)-based approach exhibited excellent sensitivities to phenanthroline. Different detection mechanisms were observed for the RR and SERS techniques, in which the RR intensity increased with increasing Fe3+ concentration due to the observation of the RR effect of the phenanthroline-Fe2+ complex, whereas the SERS intensity increased with decreasing Fe3+ concentration due to the observation of the SERS effect of the uncomplexed phenanthroline. More importantly, the determination sensitivity was substantially improved in the presence of a SERS-active substrate, giving a detection limit as low as 0.001μg/mL, which is 20 times lower than the limit of the UV-vis and RR methods. Furthermore, the proposed SERS method was free from other ions interference and can be used quality and sensitivity for the determination of the city tap water.
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Affiliation(s)
- Lei Chen
- Key Laboratory of Preparation and Applications of Environmental Friendly Materials (Jilin Normal University), Ministry of Education, Changchun 130103, PR China; Department of Chemistry, Institute for Molecular Science and Fusion Technology, Kangwon National University, Chunchon 24341, Republic of Korea
| | - Ning Ma
- Key Laboratory of Preparation and Applications of Environmental Friendly Materials (Jilin Normal University), Ministry of Education, Changchun 130103, PR China
| | - Yeonju Park
- Department of Chemistry, Institute for Molecular Science and Fusion Technology, Kangwon National University, Chunchon 24341, Republic of Korea
| | - Sila Jin
- Department of Chemistry, Institute for Molecular Science and Fusion Technology, Kangwon National University, Chunchon 24341, Republic of Korea
| | - Hoon Hwang
- Department of Chemistry, Institute for Molecular Science and Fusion Technology, Kangwon National University, Chunchon 24341, Republic of Korea
| | - Dayu Jiang
- Key Laboratory of Preparation and Applications of Environmental Friendly Materials (Jilin Normal University), Ministry of Education, Changchun 130103, PR China.
| | - Young Mee Jung
- Department of Chemistry, Institute for Molecular Science and Fusion Technology, Kangwon National University, Chunchon 24341, Republic of Korea.
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24
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Shao Y, Fang H, Zhou H, Wang Q, Zhu Y, He Y. Detection and imaging of lipids of Scenedesmus obliquus based on confocal Raman microspectroscopy. BIOTECHNOLOGY FOR BIOFUELS 2017; 10:300. [PMID: 29255483 PMCID: PMC5728014 DOI: 10.1186/s13068-017-0977-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Accepted: 11/26/2017] [Indexed: 05/25/2023]
Abstract
In this study, confocal Raman microspectroscopy was used to detect lipids in microalgae rapidly and non-destructively. Microalgae cells were cultured under nitrogen deficiency. The accumulation of lipids in Scenedesmus obliquus was observed by Nile red staining, and the total amount of lipids accumulated in the cells was measured by gravimetric method. The signals from different microalgae cells were collected by confocal Raman microspectroscopy to establish a prediction model of intracellular lipid content, and surface scanning signals for drawing pseudo color images of lipids distribution. The images can show the location of pyrenoid and lipid accumulation in cells. Analyze Raman spectrum data and build PCA-LDA model using four different bands (full bands, pigments, lipids, and mixed features). Models of full bands or pigment characteristic bands were capable of identifying S. obliquus cells under different nitrogen stress culture time. The prediction accuracy of model of lipid characteristic bands is relatively low. The correlation between the fatty acid content measured by the gravimetric method and the integral Raman intensity of the oil characteristic peak (1445 cm-1) measured by Raman spectroscopy was analyzed. There was significant correlation (R2 = 0.83), which means that Raman spectroscopy is applicable to semi-quantitative detection of microalgal lipid content.
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Affiliation(s)
- Yongni Shao
- Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, No. 516, Jungong Road, Shanghai, 200093 China
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058 China
| | - Hui Fang
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058 China
| | - Hong Zhou
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058 China
| | - Qi Wang
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058 China
| | - Yiming Zhu
- Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, No. 516, Jungong Road, Shanghai, 200093 China
| | - Yong He
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058 China
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25
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Okotrub K, Amstislavsky S, Surovtsev N. Raman spectroscopy reveals the lipid phase transition in preimplantation mouse embryos during freezing. Arch Biochem Biophys 2017; 635:37-43. [DOI: 10.1016/j.abb.2017.10.001] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2017] [Revised: 10/02/2017] [Accepted: 10/04/2017] [Indexed: 11/27/2022]
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26
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Moudříková Š, Sadowsky A, Metzger S, Nedbal L, Mettler-Altmann T, Mojzeš P. Quantification of Polyphosphate in Microalgae by Raman Microscopy and by a Reference Enzymatic Assay. Anal Chem 2017; 89:12006-12013. [PMID: 29099580 DOI: 10.1021/acs.analchem.7b02393] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Polyphosphates have occurred in living cells early in evolution and microalgae contain these important polymers in their cells. Progress in research of polyphosphate metabolism of these ecologically as well as biotechnologically important microorganisms is hampered by the lack of rapid quantification methods. Experiments with the green alga Chlorella vulgaris presented here compared polyphosphate extraction in water, methanol-chloroform, and phenol-chloroform followed by polyphosphate purification by binding to silica columns or ethanol precipitation. The phenol-chloroform extraction of C. vulgaris followed by ethanol precipitation of polyphosphate was shown to be superior to the other tested method variants. Recovery test of added polyphosphate standard to algal biomass showed that the method is accurate. Using this biochemical assay as a validated reference, we show that 2-dimensional, confocal Raman microscopy can serve as a linear proxy for polyphosphate in C. vulgaris with R2 up to 0.956. With this, polyphosphate quantification can be shortened by use of Raman microscopy from days to hours and, additionally, information about intracellular distribution of polyphosphate and heterogeneity among individual cells in algal culture can be obtained. This offers new insights into the dynamics and role of these polymers crucial for phosphorus uptake and storage. This analytical capability is of particular practical importance because algae aid phosphorus sequestration from wastewater and the thus enriched biomass may serve as organic fertilizer. Both these applications have a strong potential in a future sustainable, circular bioeconomy.
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Affiliation(s)
- Šárka Moudříková
- Institute of Bio- and Geosciences/Plant Sciences (IBG-2), Forschungszentrum Jülich , Wilhelm-Johnen-Straße, D-52428 Jülich, Germany.,Institute of Physics, Faculty of Mathematics and Physics, Charles University , Ke Karlovu 5, CZ-12116 Prague 2, Czech Republic
| | - Andres Sadowsky
- CEPLAS Plant Metabolism and Metabolomics Laboratory, Institute of Plant Biochemistry, Heinrich Heine University Düsseldorf , Universitätsstraße 1, D-40225 Düsseldorf, Germany
| | - Sabine Metzger
- CEPLAS Plant Metabolism and Metabolomics Laboratory, Botanical Institute, University of Cologne , Zülpicher Str. 47b, D-50674 Cologne, Germany
| | - Ladislav Nedbal
- Institute of Physics, Faculty of Mathematics and Physics, Charles University , Ke Karlovu 5, CZ-12116 Prague 2, Czech Republic
| | - Tabea Mettler-Altmann
- CEPLAS Plant Metabolism and Metabolomics Laboratory, Institute of Plant Biochemistry, Heinrich Heine University Düsseldorf , Universitätsstraße 1, D-40225 Düsseldorf, Germany
| | - Peter Mojzeš
- Institute of Bio- and Geosciences/Plant Sciences (IBG-2), Forschungszentrum Jülich , Wilhelm-Johnen-Straße, D-52428 Jülich, Germany.,Institute of Physics, Faculty of Mathematics and Physics, Charles University , Ke Karlovu 5, CZ-12116 Prague 2, Czech Republic
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27
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Li K, Cheng J, Ye Q, He Y, Zhou J, Cen K. In vivo kinetics of lipids and astaxanthin evolution in Haematococcus pluvialis mutant under 15% CO 2 using Raman microspectroscopy. BIORESOURCE TECHNOLOGY 2017; 244:1439-1444. [PMID: 28533068 DOI: 10.1016/j.biortech.2017.04.116] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/20/2017] [Revised: 04/22/2017] [Accepted: 04/24/2017] [Indexed: 06/07/2023]
Abstract
In vivo spatiotemporal dynamics of lipids and astaxanthin evolution in Haematococcus pluvialis mutant induced with 15% CO2 and high light intensity were monitored with high spatial resolution in a non-destructive and label-free manner using single-cell Raman imaging. Astaxanthin intensity increased by 3.5 times within 12h under 15% CO2, and the accumulation rate was 5.8 times higher than that under air. Lipids intensity under 15% CO2 was 27% higher than that under air. The lipids initially concentrated in chloroplast under 15% CO2 due to an increase of directly photosynthetic fatty acid, which was different from the whole-cell dispersed lipids under air. Astaxanthin produced in chloroplast first accumulated around nucleus and then spread in cytoplasmic lipids under both air and 15% CO2. The calculation results of kinetic models for lipids and astaxanthin evolutions showed that accumulation rate of lipids was much higher than that of astaxanthin in cells.
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Affiliation(s)
- Ke Li
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, China
| | - Jun Cheng
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, China.
| | - Qing Ye
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, China
| | - Yong He
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, China
| | - Junhu Zhou
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, China
| | - Kefa Cen
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, China
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Chiu LD, Ho SH, Shimada R, Ren NQ, Ozawa T. Rapid in vivo lipid/carbohydrate quantification of single microalgal cell by Raman spectral imaging to reveal salinity-induced starch-to-lipid shift. BIOTECHNOLOGY FOR BIOFUELS 2017; 10:9. [PMID: 28066510 PMCID: PMC5210293 DOI: 10.1186/s13068-016-0691-y] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2016] [Accepted: 12/16/2016] [Indexed: 05/02/2023]
Abstract
BACKGROUND Lipid/carbohydrate content and ratio are extremely important when engineering algal cells for liquid biofuel production. However, conventional methods for such determination and quantification are not only destructive and tedious, but also energy consuming and environment unfriendly. In this study, we first demonstrate that Raman spectroscopy is a clean, fast, and accurate method to simultaneously quantify the lipid/carbohydrate content and ratio in living microalgal cells. RESULTS The quantification results of both lipids and carbohydrates obtained by Raman spectroscopy showed a linear correspondence with that obtained by conventional methods, indicating Raman can provide a similar accuracy to conventional methods, with a significantly shorter detection time. Furthermore, the subcellular resolution of Raman spectroscopy enabled not only the concentration mapping of lipid/carbohydrate content in single living cells, but also the evaluation of standard deviation between the biomass accumulation levels of individual algal cells. CONCLUSIONS In this study, we first demonstrate that Raman spectroscopy can be used for starch quantification in addition to lipid quantification in algal cells. Due to the easiness and non-destructive nature of Raman spectroscopy, it makes a perfect tool for the further study of starch-lipid shift mechanism.
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Affiliation(s)
- Liang-da Chiu
- Department of Chemistry, the University of Tokyo, Tokyo, 113-0033 Japan
| | - Shih-Hsin Ho
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, Harbin, 150090 People’s Republic of China
| | - Rintaro Shimada
- Department of Chemistry, the University of Tokyo, Tokyo, 113-0033 Japan
| | - Nan-Qi Ren
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, Harbin, 150090 People’s Republic of China
| | - Takeaki Ozawa
- Department of Chemistry, the University of Tokyo, Tokyo, 113-0033 Japan
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He Y, Zhang P, Huang S, Wang T, Ji Y, Xu J. Label-free, simultaneous quantification of starch, protein and triacylglycerol in single microalgal cells. BIOTECHNOLOGY FOR BIOFUELS 2017; 10:275. [PMID: 29177009 PMCID: PMC5693592 DOI: 10.1186/s13068-017-0967-x] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2017] [Accepted: 11/10/2017] [Indexed: 05/20/2023]
Abstract
BACKGROUND Current approaches for quantification of major energy-storage forms in microalgae, including starch, protein and lipids, generally require cell cultivation to collect biomass followed by tedious and time-consuming analytical procedures. Thus, label-free, non-destructive and simultaneous quantification of such macromolecules at single-cell resolution is highly desirable in microalgal feedstock development and bioprocess control. RESULTS Here, we established a method based on single-cell Raman spectra (SCRS) that simultaneously quantifies the contents of starch, protein, triacylglycerol (TAG) and lipid unsaturation degree in individual Chlamydomonas reinhardtii cells. Measurement accuracy for the contents based on full SCRS spectrum each reached 96.86-99.24%, all significantly higher than single peak-based models. However, accuracy and reliability of measurement are dependent on the number of cells sampled, thus a formal mathematical framework was proposed and validated to rationally define "minimal sampling depth" for a given state of cellular population. Furthermore, a barcode consisting of 13 marker Raman peaks was proposed to characterize the temporal dynamics of these energy-storage products, which revealed that the average contents of starch and TAG increased, while their heterogeneity indices decreased, with those of protein being exactly the opposite. Finally, our method is widely applicable, as measurements among cells from liquid suspension culture, wet paste and frozen dried powder all exhibited excellent consistency. CONCLUSIONS When sampled at proper depth, SCRS can serve as a quantitative and generally applicable tool for characterization and screening of strains and bioprocesses based on the profile of energy-storage macromolecules and their among-cell heterogeneity.
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Affiliation(s)
- Yuehui He
- Single-Cell Center, CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Sciences, Beijing, China
| | - Peng Zhang
- Single-Cell Center, CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Sciences, Beijing, China
| | - Shi Huang
- Single-Cell Center, CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Sciences, Beijing, China
| | - Tingting Wang
- Single-Cell Center, CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yuetong Ji
- Single-Cell Center, CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Sciences, Beijing, China
| | - Jian Xu
- Single-Cell Center, CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Sciences, Beijing, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, Shandong China
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30
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Label-free in vivo analysis of intracellular lipid droplets in the oleaginous microalga Monoraphidium neglectum by coherent Raman scattering microscopy. Sci Rep 2016; 6:35340. [PMID: 27767024 PMCID: PMC5073319 DOI: 10.1038/srep35340] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2016] [Accepted: 09/28/2016] [Indexed: 01/01/2023] Open
Abstract
Oleaginous photosynthetic microalgae hold great promise as non-food feedstocks for the sustainable production of bio-commodities. The algal lipid quality can be analysed by Raman micro-spectroscopy, and the lipid content can be imaged in vivo in a label-free and non-destructive manner by coherent anti-Stokes Raman scattering (CARS) microscopy. In this study, both techniques were applied to the oleaginous microalga Monoraphidium neglectum, a biotechnologically promising microalga resistant to commonly applied lipid staining techniques. The lipid-specific CARS signal was successfully separated from the interfering two-photon excited fluorescence of chlorophyll and for the first time, lipid droplet formation during nitrogen starvation could directly be analysed. We found that the neutral lipid content deduced from CARS image analysis strongly correlated with the neutral lipid content measured gravimetrically and furthermore, that the relative degree of unsaturation of fatty acids stored in lipid droplets remained similar. Interestingly, the lipid profile during cellular adaption to nitrogen starvation showed a two-phase characteristic with initially fatty acid recycling and subsequent de novo lipid synthesis. This works demonstrates the potential of quantitative CARS microscopy as a label-free lipid analysis technique for any microalgal species, which is highly relevant for future biotechnological applications and to elucidate the process of microalgal lipid accumulation.
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31
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Sharma SK, Nelson DR, Abdrabu R, Khraiwesh B, Jijakli K, Arnoux M, O’Connor MJ, Bahmani T, Cai H, Khapli S, Jagannathan R, Salehi-Ashtiani K. An integrative Raman microscopy-based workflow for rapid in situ analysis of microalgal lipid bodies. BIOTECHNOLOGY FOR BIOFUELS 2015; 8:164. [PMID: 26442756 PMCID: PMC4595058 DOI: 10.1186/s13068-015-0349-1] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2015] [Accepted: 09/25/2015] [Indexed: 05/24/2023]
Abstract
BACKGROUND Oils and bioproducts extracted from cultivated algae can be used as sustainable feedstock for fuels, nutritional supplements, and other bio-based products. Discovery and isolation of new algal species and their subsequent optimization are needed to achieve economical feasibility for industrial applications. Here we describe and validate a workflow for in situ analysis of algal lipids through confocal Raman microscopy. We demonstrate its effectiveness to characterize lipid content of algal strains isolated from the environment as well as algal cells screened for increased lipid accumulation through UV mutagenesis combined with Fluorescence Activated Cell Sorting (FACS). RESULTS To establish and validate our workflow, we refined an existing Raman platform to obtain better discrimination in chain length and saturation of lipids through ratiometric analyses of mixed fatty acid lipid standards. Raman experiments were performed using two different excitation lasers (λ = 532 and 785 nm), with close agreement observed between values obtained using each laser. Liquid chromatography coupled with mass spectrometry (LC-MS) experiments validated the obtained Raman spectroscopic results. To demonstrate the utility and effectiveness of the improved Raman platform, we carried out bioprospecting for algal species from soil and marine environments in both temperate and subtropical geographies to obtain algal isolates from varied environments. Further, we carried out two rounds of mutagenesis screens on the green algal model species, Chlamydomonas reinhardtii, to obtain cells with increased lipid content. Analyses on both environmental isolates and screened cells were conducted which determined their respective lipids. Different saturation states among the isolates as well as the screened C. reinhardtii strains were observed. The latter indicated the presence of cell-to cell variations among cells grown under identical condition. In contrast, non-mutagenized C. reinhardtii cells showed no significant heterogeneity in lipid content. CONCLUSIONS We demonstrate the utility of confocal Raman microscopy for lipid analysis on novel aquatic and soil microalgal isolates and for characterization of lipid-expressing cells obtained in a mutagenesis screen. Raman microscopy enables quantitative determination of the unsaturation level and chain lengths of microalgal lipids, which are key parameters in selection and engineering of microalgae for optimal production of biofuels.
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Affiliation(s)
- Sudhir Kumar Sharma
- />Division of Engineering, New York University Abu Dhabi, P. O. Box 129188, Abu Dhabi, UAE
| | - David R. Nelson
- />Laboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
- />Center for Genomics and Systems Biology (CGSB), New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Rasha Abdrabu
- />Laboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
- />Center for Genomics and Systems Biology (CGSB), New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Basel Khraiwesh
- />Laboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
- />Center for Genomics and Systems Biology (CGSB), New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Kenan Jijakli
- />Laboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Marc Arnoux
- />Center for Genomics and Systems Biology (CGSB), New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Matthew J. O’Connor
- />Core Technology Platform, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Tayebeh Bahmani
- />Laboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Hong Cai
- />Laboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
| | - Sachin Khapli
- />Division of Engineering, New York University Abu Dhabi, P. O. Box 129188, Abu Dhabi, UAE
| | - Ramesh Jagannathan
- />Division of Engineering, New York University Abu Dhabi, P. O. Box 129188, Abu Dhabi, UAE
| | - Kourosh Salehi-Ashtiani
- />Laboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
- />Center for Genomics and Systems Biology (CGSB), New York University Abu Dhabi, P.O. Box 129188, Abu Dhabi, UAE
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32
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Carey PR, Heidari-Torkabadi H. New techniques in antibiotic discovery and resistance: Raman spectroscopy. Ann N Y Acad Sci 2015; 1354:67-81. [PMID: 26275225 DOI: 10.1111/nyas.12847] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2015] [Revised: 06/15/2015] [Accepted: 06/18/2015] [Indexed: 11/29/2022]
Abstract
Raman spectroscopy can play a role in both antibiotic discovery and understanding the molecular basis of resistance. A major challenge in drug development is to measure the population of the drug molecules inside a cell line and to follow the chemistry of their reactions with intracellular targets. Recently, a protocol based on Raman microscopy has been developed that achieves these goals. Drug candidates are soaked into live bacterial cells and subsequently the cells are frozen and freeze-dried. The samples yield exemplary (nonresonance) Raman data that provide a measure of the number of drug molecules within each cell, as well as details of drug-target interactions. Results are discussed for two classes of compounds inhibiting either β-lactamase or dihydrofolate reductase enzymes in a number of Gram-positive or Gram-negative cell lines. The advantages of the present protocol are that it does not use labels and it can measure the kinetics of cell-compound uptake on the time scale of minutes. Spectroscopic interpretation is supported by in vitro Raman experiments. Studying drug-target interactions in aqueous solution and in single crystals can provide molecular level insights into drug-target interactions, which, in turn, provide the underpinnings of our understanding of data from bacterial cells. Thus, the applicability of X-ray crystallographic-derived data to in-cell chemistry can be tested.
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Affiliation(s)
- Paul R Carey
- Department of Biochemistry.,Department of Chemistry, Case Western Reserve University, Cleveland, Ohio
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33
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Zheng X, Zong C, Xu M, Wang X, Ren B. Raman Imaging from Microscopy to Nanoscopy, and to Macroscopy. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2015; 11:3395-3406. [PMID: 25873340 DOI: 10.1002/smll.201403804] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2014] [Revised: 02/08/2015] [Indexed: 06/04/2023]
Abstract
Raman spectroscopy can not only provide intrinsic fingerprint information about a sample, but also utilize the merits of the narrow bandwidth and low background of Raman spectra, offering itself as a promising multiplex analytical technique. Raman microscopy has become particularly attractive recently because it has demonstrated itself as an important imaging technique for various samples, from biological samples and chemical systems to industrially important silicon-based wafers. In this Concept article, some of the most recent advances in Raman imaging techniques are critically reviewed, and the advantages and problems associated with the current techniques are discussed. Particular emphasis is placed on its future directions, from both the technical and application sides.
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Affiliation(s)
- Xiaoshan Zheng
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
| | - Cheng Zong
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
| | - Mengxi Xu
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
| | - Xiang Wang
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
| | - Bin Ren
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
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