1
|
Jehlička J, Edwards HG, Oren A. Analysis of brown, violet and blue pigments of microorganisms by Raman spectroscopy. Trends Analyt Chem 2022; 146:116501. [DOI: 10.1016/j.trac.2021.116501] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
|
2
|
Messmer MW, Dieser M, Smith HJ, Parker AE, Foreman CM. Investigation of Raman Spectroscopic Signatures with Multivariate Statistics: An Approach for Cataloguing Microbial Biosignatures. Astrobiology 2022; 22:14-24. [PMID: 34558961 DOI: 10.1089/ast.2021.0021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Spectroscopic instruments are increasingly being implemented in the search for extraterrestrial life. However, microstructural spectral analyses of alien environments could prove difficult without knowledge on the molecular identification of individual spectral signatures. To bridge this gap, we introduce unsupervised K-means clustering as a statistical approach to discern spectral patterns of biosignatures without prior knowledge of spectral regions of biomolecules. Spectral profiles of bacterial isolates from analogous polar ice sheets were measured with Raman spectroscopy. Raman analysis identified carotenoid and violacein pigments, and key cellular features including saturated and unsaturated fats, triacylglycerols, and proteins. Principal component analysis and targeted spectra integration biplot analysis revealed that the clustering of bacterial isolates was attributed to spectral biosignatures influenced by carotenoid pigments and ratio of unsaturated/saturated fat peaks. Unsupervised K-means clustering highlighted the prevalence of the corresponding spectral peaks, while subsequent supervised permutational multivariate analysis of variance provided statistical validation for spectral differences associated with the identified cellular features. Establishing a validated catalog of spectral signatures of analogous biotic and abiotic materials, in combination with targeted supervised tools, could prove effective at identifying extant biosignatures.
Collapse
Affiliation(s)
- Mitch W Messmer
- Center for Biofilm Engineering, Montana State University, Bozeman, Montana, USA
- Department of Chemical & Biological Engineering, Montana State University, Bozeman, Montana, USA
| | - Markus Dieser
- Center for Biofilm Engineering, Montana State University, Bozeman, Montana, USA
- Department of Chemical & Biological Engineering, Montana State University, Bozeman, Montana, USA
| | - Heidi J Smith
- Center for Biofilm Engineering, Montana State University, Bozeman, Montana, USA
- Department of Microbiology and Cell Biology, and Montana State University, Bozeman, Montana, USA
| | - Albert E Parker
- Center for Biofilm Engineering, Montana State University, Bozeman, Montana, USA
- Department of Mathematical Sciences, Montana State University, Bozeman, Montana, USA
| | - Christine M Foreman
- Center for Biofilm Engineering, Montana State University, Bozeman, Montana, USA
- Department of Chemical & Biological Engineering, Montana State University, Bozeman, Montana, USA
| |
Collapse
|
3
|
Wichmann C, Rösch P, Popp J. Isolation of bacteria from artificial bronchoalveolar lavage fluid using density gradient centrifugation and their accessibility by Raman spectroscopy. Anal Bioanal Chem 2021. [PMID: 34215913 DOI: 10.1007/s00216-021-03488-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2021] [Revised: 06/10/2021] [Accepted: 06/16/2021] [Indexed: 11/20/2022]
Abstract
Raman spectroscopy is an analytical method to identify medical samples of bacteria. Because Raman spectroscopy detects the biochemical properties of a cell, there are many factors that can influence and modify the Raman spectra of bacteria. One possible influence is a proper method for isolation of the bacteria. Medical samples in particular never occur in purified form, so a Raman-compatible isolation method is needed which does not affect the bacteria and thus the resulting spectra. In this study, we present a Raman-compatible method for isolation of bacteria from bronchoalveolar lavage (BAL) fluid using density gradient centrifugation. In addition to measuring the bacteria from a patient sample, the yield and the spectral influence of the isolation on the bacteria were investigated. Bacteria isolated from BAL fluid show additional peaks in comparison to pure culture bacteria, which can be attributed to components in the BAL sample. The isolation gradient itself has no effect on the spectra, and with a yield of 63% and 78%, the method is suitable for isolation of low concentrations of bacteria from a complex matrix. Graphical abstract ![]()
Collapse
|
4
|
Moroz TN, Edwards HGM, Zhmodik SM. Detection of carbonate, phosphate minerals and cyanobacteria in rock from the Tomtor deposit, Russia, by Raman spectroscopy. Spectrochim Acta A Mol Biomol Spectrosc 2021; 250:119372. [PMID: 33422877 DOI: 10.1016/j.saa.2020.119372] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2020] [Revised: 11/09/2020] [Accepted: 12/18/2020] [Indexed: 06/12/2023]
Abstract
Samples of rock from the Tomtor Nb - REE (rare-earth elements) deposit (Russia) have been investigated by Raman micro-spectroscopy using visible 532 nm wavelength excitation. Raman spectra of different samples of this rock confirm their composition as calcites and other carbonates such as rhodochrosite, and mixed solid solution phases (Ca, Mn, Fe, Mg, Ba, Sr, REE)(CO3). An association between cyanobacteria and the apatite crystals has been noted Cyanobacteria exhibited Raman modes at 1520-1517 cm-1 located in the double bonds of the central part of the polyene chain of carotenoids. A slight shift of this mode in the apatite-containing samples are dependent upon the compositions of carotenoids, the ratio of the rare earth elements adsorbed by cyanobacteria as well as their interaction with the environment. Laser-induced photoluminescence of REE and Mn+2, obtained as an analytical artifact in the Raman spectra, has been observed in most cases with significant spectral intensity. The luminescence emission of Mn 2+, Sm3+, Eu 3+, Pr3+, Ho3+, Er 3+ in the spectra of the apatite-containing samples obtained with 532 nm excitation can be attributed both to apatite and to other mineral phases with a low concentration which contain these elemental ions. The results obtained in this study allowed us to confirm that the biogenic presence of the cyanobacterial mat had a significant impact on the formation of the unique Nb-REE Tomtor deposit.
Collapse
Affiliation(s)
- T N Moroz
- Sobolev Institute of Geology and Mineralogy SB RAS, 630090 Novosibirsk, Russia.
| | - H G M Edwards
- School of Chemistry and Biosciences, Faculty of Life Sciences, University of Bradford, Bradford BD7 1DP, West Yorkshire, United Kingdom.
| | - S M Zhmodik
- Sobolev Institute of Geology and Mineralogy SB RAS, 630090 Novosibirsk, Russia
| |
Collapse
|
5
|
Abstract
Violacein is a pigment synthesized by Gram-negative bacteria such as Chromobacterium violaceum. It has garnered significant interest owing to its unique physiological and biological activities along with its synergistic effects with various antibiotics. In addition to C. violaceum, several microorganisms, including: Duganella sp., Pseudoalteromonas sp., Iodobacter sp., and Massilia sp., are known to produce violacein. Along with the identification of violacein-producing strains, the genetic regulation, quorum sensing mechanism, and sequence of the vio-operon involved in the biosynthesis of violacein have been elucidated. From an engineering perspective, the heterologous production of violacein using the genetically engineered Escherichia coli or Citrobacter freundii host has also been attempted. Genetic engineering of host cells involves the heterologous expression of genes involved in the vio operon and the optimization of metabolic pathways and gene regulation. Further, the crystallography of VioD and VioE was revealed, and mass production by enzyme engineering has been accelerated. In this review, we highlight the biologically assisted end-use applications of violacein (such as functional fabric development, nanoparticles, functional polymer composites, and sunscreen ingredients) and violacein activation mechanisms, production strains, and the results of mass production with engineered methods. The prospects for violacein research and engineering applications have also been discussed.
Collapse
Affiliation(s)
- HyunA Park
- Department of Environmental Engineering, College of Engineering, Ajou University, Suwon, South Korea
| | - SeoA Park
- Department of Environmental Engineering, College of Engineering, Ajou University, Suwon, South Korea
| | - Yung-Hun Yang
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, South Korea
| | - Kwon-Young Choi
- Department of Environmental Engineering, College of Engineering, Ajou University, Suwon, South Korea.,Department of Environmental and Safety Engineering, College of Engineering, Ajou University, Suwon, South Korea
| |
Collapse
|
6
|
Yin X, Li X. Computational study of oxidation mechanism of mineral green pigments. J Mol Model 2021; 27:108. [PMID: 33723664 DOI: 10.1007/s00894-021-04718-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2020] [Accepted: 02/21/2021] [Indexed: 10/21/2022]
Abstract
The molecular structures, electronic properties, and the UV-vis absorption spectra of the oxides of mineral green pigment (MGP) have been theoretically calculated by using the density-functional theory (DFT) method. Our results reveal that the ground-state structure (isomer-I) of the oxides takes on an O-bridged bond with the polycyclic ring. The chemical stabilities of the oxides (I-V) are gradually reduced, of which the I isomer has the largest gap (2.50 eV). Moreover, the adsorption of the two oxygen atoms tailors the electronic structures of oxides, and the electronic properties are keys to understand the structural stabilization of the complexes. Additionally, the strongest UV-vis absorption band of the I isomer has been assigned; e.g., the crucial excitation originates from a HOMO-17→LUMO (32%) transition at ~ 187.3 nm.
Collapse
|
7
|
|
8
|
Muya FN, Baker PGL, Iwuoha EI. Polysulfone Hydrogel Nanocomposite Alkaline Phosphatase Biosensor for the Detection of Vanadium. Electrocatalysis (N Y) 2020; 11:374-82. [DOI: 10.1007/s12678-020-00592-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
|
9
|
Zhou X, Li X. The influence of water molecules on the stability of mineral green pigments in Chinese ancient painting. Chem Phys Lett 2019. [DOI: 10.1016/j.cplett.2019.136592] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
10
|
Jehlička J, Culka A, Mana L, Oren A. Comparison of Miniaturized Raman Spectrometers for Discrimination of Carotenoids of Halophilic Microorganisms. Front Microbiol 2019; 10:1155. [PMID: 31191483 PMCID: PMC6548819 DOI: 10.3389/fmicb.2019.01155] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2019] [Accepted: 05/07/2019] [Indexed: 01/30/2023] Open
Abstract
We present a comparison of the performance of four miniature portable Raman spectrometers for the discrimination of carotenoids in samples of carotene-producing microorganisms. Two spectrometers using a green laser allowing to obtain Resonance Raman (or pre-Resonance Raman) signals, one instrument with a 785 nm laser, and a recently developed Portable Sequentially Shifted Excitation Raman spectrometer (PSSERS) were used for identifying major pigments of different halophilic (genera Halobacterium, Halorubrum, Haloarcula, Salinibacter, Ectothiorhodospira, Dunaliella) and non-halophilic microorganisms (Micrococcus luteus, Corynebacterium glutamicum). Using all the tested instruments including the PSSERS, strong carotenoids signals corresponding to the stretching vibrations in the polyene chain and in-plane rocking modes of the attached CH3 groups were found at the correct positions. Raman spectra of carotenoids can be obtained from different types of microbiological samples (wet pellets, lyophilized culture biomass and pigment extracts in organic solvents), and can be collected fast and without time-consuming procedures.
Collapse
Affiliation(s)
- Jan Jehlička
- Faculty of Science, Institute of Geochemistry, Mineralogy and Mineral Resources, Charles University, Prague, Czechia
| | - Adam Culka
- Faculty of Science, Institute of Geochemistry, Mineralogy and Mineral Resources, Charles University, Prague, Czechia
| | - Lily Mana
- The Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Aharon Oren
- The Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel
| |
Collapse
|
11
|
Bodelón G, Montes-García V, Costas C, Pérez-Juste I, Pérez-Juste J, Pastoriza-Santos I, Liz-Marzán LM. Imaging Bacterial Interspecies Chemical Interactions by Surface-Enhanced Raman Scattering. ACS Nano 2017; 11:4631-4640. [PMID: 28460167 DOI: 10.1021/acsnano.7b00258] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Microbes produce bioactive chemical compounds to influence the physiology and growth of their neighbors, and our understanding of their biological activities may be enhanced by our ability to visualize such molecules in vivo. We demonstrate here the application of surface-enhanced Raman scattering spectroscopy for simultaneous detection of quorum-sensing-regulated pyocyanin and violacein, produced respectively by Pseudomonas aeruginosa and Chromobacterium violaceum bacterial colonies, grown as a coculture on agar-based plasmonic substrates. Our plasmonic approach allowed us to visualize the expression and spatial distribution of the microbial metabolites in the coculture taking place as a result of interspecies chemical interactions. By combining surface-enhanced Raman scattering spectroscopy with analysis of gene expression we provide insight into the chemical interplay occurring between the interacting bacterial species. This highly sensitive, cost-effective, and easy to implement approach allows spatiotemporal imaging of cellular metabolites in live microbial colonies grown on agar with no need for sample preparation, thereby providing a powerful tool for the analysis of microbial chemotypes.
Collapse
Affiliation(s)
- Gustavo Bodelón
- Departamento de Química Física and Biomedical Research Center (CINBIO), Universidade de Vigo , 36310 Vigo, Spain
| | - Verónica Montes-García
- Departamento de Química Física and Biomedical Research Center (CINBIO), Universidade de Vigo , 36310 Vigo, Spain
| | - Celina Costas
- Departamento de Química Física and Biomedical Research Center (CINBIO), Universidade de Vigo , 36310 Vigo, Spain
| | - Ignacio Pérez-Juste
- Departamento de Química Física and Biomedical Research Center (CINBIO), Universidade de Vigo , 36310 Vigo, Spain
| | - Jorge Pérez-Juste
- Departamento de Química Física and Biomedical Research Center (CINBIO), Universidade de Vigo , 36310 Vigo, Spain
| | - Isabel Pastoriza-Santos
- Departamento de Química Física and Biomedical Research Center (CINBIO), Universidade de Vigo , 36310 Vigo, Spain
| | - Luis M Liz-Marzán
- Departamento de Química Física and Biomedical Research Center (CINBIO), Universidade de Vigo , 36310 Vigo, Spain
- Bionanoplasmonics Laboratory, CIC biomaGUNE , Paseo de Miramón 182, 20014 Donostia-San Sebastián, Spain
- Ikerbasque, Basque Foundation for Science , 48013 Bilbao, Spain
- Biomedical Research Networking Center in Bioengineering, Biomaterials, and Nanomedicine (CIBER-BBN) , 20014 Donostia-San Sebastián, Spain
| |
Collapse
|
12
|
Lorenz B, Wichmann C, Stöckel S, Rösch P, Popp J. Cultivation-Free Raman Spectroscopic Investigations of Bacteria. Trends Microbiol 2017; 25:413-24. [DOI: 10.1016/j.tim.2017.01.002] [Citation(s) in RCA: 132] [Impact Index Per Article: 18.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2016] [Revised: 01/06/2017] [Accepted: 01/11/2017] [Indexed: 01/22/2023]
|
13
|
Li F, Xue F, Yu X. GC-MS, FTIR and Raman Analysis of Antioxidant Components of Red Pigments from Stemphylium lycopersici. Curr Microbiol 2017; 74:532-9. [PMID: 28255784 DOI: 10.1007/s00284-017-1220-3] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2016] [Accepted: 02/15/2017] [Indexed: 02/01/2023]
Abstract
Many microorganisms can generate pigments with different colours and structures during the growth process. In this study, an endophytic fungus producing red pigments was isolated from Cynanchum auriculatum Royle ex Wight tissue. PCR amplification sequencing was conducted, and phylogenetic analysis was performed on the ITS region sequences. Combined with morphological observation, the fungus was identified as Stemphylium lycopersici. The antioxidant activities of the pigments were evaluated in vitro and showed good antioxidant properties. Ultraviolet (UV), Raman, and Fourier transform infrared (FTIR) spectroscopy and gas chromatography-mass spectroscopy (GC-MS) were used to analyse the pigments' components, which were shown to contain phenolics and anthraquinones. Most of these components have not been previously reported in Stemphylium lycopersici, especially physcione. This study is the first report of Stemphylium lycopersici secondary metabolites and their potential use as red pigments and antioxidants. Further optimisation of the culture conditions of this fungal strain might permit its application for pigment production.
Collapse
|