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Rafique M, Naveed M, Mumtaz MZ, Niaz A, Alamri S, Siddiqui MH, Waheed MQ, Ali Z, Naman A, Rehman SU, Brtnicky M, Mustafa A. Unlocking the potential of biofilm-forming plant growth-promoting rhizobacteria for growth and yield enhancement in wheat (Triticum aestivum L.). Sci Rep 2024; 14:15546. [PMID: 38969785 PMCID: PMC11226629 DOI: 10.1038/s41598-024-66562-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2023] [Accepted: 07/02/2024] [Indexed: 07/07/2024] Open
Abstract
Plant growth-promoting rhizobacteria (PGPR) boost crop yields and reduce environmental pressures through biofilm formation in natural climates. Recently, biofilm-based root colonization by these microorganisms has emerged as a promising strategy for agricultural enhancement. The current work aims to characterize biofilm-forming rhizobacteria for wheat growth and yield enhancement. For this, native rhizobacteria were isolated from the wheat rhizosphere and ten isolates were characterized for plant growth promoting traits and biofilm production under axenic conditions. Among these ten isolates, five were identified as potential biofilm-producing PGPR based on in vitro assays for plant growth-promoting traits. These were further evaluated under controlled and field conditions for their impact on wheat growth and yield attributes. Surface-enhanced Raman spectroscopy analysis further indicated that the biochemical composition of the biofilm produced by the selected bacterial strains includes proteins, carbohydrates, lipids, amino acids, and nucleic acids (DNA/RNA). Inoculated plants in growth chamber resulted in larger roots, shoots, and increase in fresh biomass than controls. Similarly, significant increases in plant height (13.3, 16.7%), grain yield (29.6, 17.5%), number of tillers (18.7, 34.8%), nitrogen content (58.8, 48.1%), and phosphorus content (63.0, 51.0%) in grains were observed in both pot and field trials, respectively. The two most promising biofilm-producing isolates were identified through 16 s rRNA partial gene sequencing as Brucella sp. (BF10), Lysinibacillus macroides (BF15). Moreover, leaf pigmentation and relative water contents were significantly increased in all treated plants. Taken together, our results revealed that biofilm forming PGPR can boost crop productivity by enhancing growth and physiological responses and thus aid in sustainable agriculture.
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Affiliation(s)
- Munazza Rafique
- Soil Bacteriology Section, Agricultural Biotechnology Research Institute, AARI, Faisalabad, 38000, Pakistan
| | - Muhammad Naveed
- Institute of Soil and Environmental Sciences, University of Agriculture, Faisalabad, 38040, Pakistan.
| | - Muhammad Zahid Mumtaz
- College of Agronomy, Gansu Agricultural University, Lanzhou 730070, China, Lahore, Pakistan
| | - Abid Niaz
- Soil Bacteriology Section, Agricultural Biotechnology Research Institute, AARI, Faisalabad, 38000, Pakistan
| | - Saud Alamri
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh, 11451, Saudi Arabia
| | - Manzer H Siddiqui
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh, 11451, Saudi Arabia
| | - Muhammad Qandeel Waheed
- Wheat Breeding Group, Plant Breeding and Genetics Division, Nuclear Institute for Agriculture and Biology (NIAB), Faisalabad, 38000, Pakistan
| | - Zulfiqar Ali
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, 38040, Pakistan
- Director, Programs and Projects Department, Islamic Organization for Food Security, 019900, Astana, Kazakhstan
| | - Abdul Naman
- Department of Chemistry, University of Agriculture, Faisalabad, 38040, Pakistan
| | - Sajid Ur Rehman
- Agricultural Biotechnology Research Institute, AARI, Faisalabad, 38000, Pakistan
| | - Martin Brtnicky
- Department of Agrochemistry, Soil Science, Microbiology and Plant Nutrition, Faculty of AgriSciences, Mendel University in Brno, Zemedelska 1, 61300, Brno, Czech Republic
| | - Adnan Mustafa
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China.
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Naman A, Tahseen H, Nawaz H, Majeed MI, Ali A, Haque A, Akbar MU, Mehmood N, Nosheen R, Nadeem S, Shahzadi A, Imran M. Surface-enhanced Raman spectroscopy for characterization of supernatant samples of biofilm forming bacterial strains. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 305:123414. [PMID: 37852119 DOI: 10.1016/j.saa.2023.123414] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Revised: 09/07/2023] [Accepted: 09/13/2023] [Indexed: 10/20/2023]
Abstract
Staphylococcus epidermidis is considered major cause of nosocomial infections. Its pathogenicity is mainly due to the ability to form biofilms on different surfaces, particularly indwelling medical devices. This bacterium consists of different strains consisting of non, medium and strong biofilm forming ones. Surface-enhanced Raman spectroscopy (SERS) is a powerful analytical technique that can be used to detect and analyze biochemical composition of the supernatant samples of different strains of bacteria including non, medium and strong biofilm forming bacterial strains. SERS is a powerful technique for the robust, reliable, rapid detection and discrimination of bacteria in the form of characteristic SERS spectral features which can be used for detection and classification. SERS is used to differentiate three classes of bacteria with respect to their biofilm forming ability. Silver nanoparticles (Ag NPs) are used as SERS substrate and synthesized with chemical reduction method. Principal component analysis (PCA) and partial least square discriminant analysis (PLS-DA) are used to discriminate SERS spectral data sets of non, medium and strong biofilm forming bacteria. PLS-DA analysis is a multivariate statistical technique that can be used to analyze data from bacterial sets.
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Affiliation(s)
- Abdul Naman
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Hira Tahseen
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Haq Nawaz
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan.
| | - Muhammad Irfan Majeed
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan.
| | - Aamir Ali
- National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (NIBGE-C, PIEAS), Jhang Road, Faisalabad 38000, Pakistan
| | - Asma Haque
- Department of Bioinformatics and Biotechnology, Government College University Faisalabad (GCUF), Faisalabad 38000, Pakistan
| | - Muhammad Umair Akbar
- Department of Bioinformatics and Biotechnology, Government College University Faisalabad (GCUF), Faisalabad 38000, Pakistan
| | - Nasir Mehmood
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Rashid Nosheen
- Department of Chemistry, University of Education, Faisalabad Campus, Faisalabad 38000, Pakistan.
| | - Sana Nadeem
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Aqsa Shahzadi
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Muhammad Imran
- Department of Chemistry, Faculty of Science, King Khalid University, P.O. Box 9004, Abha 61413, Saudi Arabia
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Tasdurmazli S, Dokuz S, Erdogdu B, Var I, Chen JYS, Ozbek T. The evaluation of biotechnological potential of Gp144, the key molecule of natural predator bacteriophage K in Staphylococcus aureus hunting mechanism. Biotechnol J 2023; 18:e2300145. [PMID: 37300362 DOI: 10.1002/biot.202300145] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Revised: 05/25/2023] [Accepted: 06/07/2023] [Indexed: 06/12/2023]
Abstract
Bacteriophages, which selectively infect bacteria, and phage-derived structures are considered promising agents for the diagnosis and treatment of bacterial infections due to the increasing antibiotic resistance. The binding of phages to their specific receptors on host bacteria is highly specific and irreversible, and therefore, the characterization of receptor-binding proteins(RBPs), which are key determinants of phage specificity, is crucial for the development of new diagnostic and therapeutic products. This study highlights the biotechnological potential of Gp144, an RBP located in the tail baseplate of bacteriophage K and responsible for adsorption of phageK to S. aureus. Once it was established that recombinant Gp144 (rGp144)is biocompatible and does not exhibit lytic effects on bacteria, its interaction with the host, the binding efficiency and performance were assessed in vitro using microscopic and serological methods. Results showed that rGp144 has a capture efficiency (CE) of over 87% and the best CE score is %96 which captured 9 CFU mL-1 out of 10 CFU mL-1 bacteria, indicating that very low number of bacteria could be detected. Additionally, it was shown for the first time in the literature that rGp144 binds to both S. aureus and methicillin-resistant S. aureus (MRSA) cells in vitro, while its affinity to different Gram-positive bacteria (E. faecalis and B. cereus) was not observed. The findings suggest that rGp144 can be effectively used for the diagnosis of S. aureus and MRSA, and that the use of RBPs in host-phage interaction can be a novel and effective strategy for imaging and diagnosing the site of infection.
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Affiliation(s)
- Semra Tasdurmazli
- Department of Molecular Biology and Genetics, Faculty of Arts and Sciences, Yildiz Technical University, Istanbul, Turkey
| | - Senanur Dokuz
- Department of Molecular Biology and Genetics, Faculty of Arts and Sciences, Yildiz Technical University, Istanbul, Turkey
| | - Berna Erdogdu
- Department of Molecular Biology and Genetics, Faculty of Arts and Sciences, Yildiz Technical University, Istanbul, Turkey
| | - Isil Var
- Department of Food Engineering, Faculty of Agricultural, Cukurova University, Sarıcam-Adana, Turkey
| | - John Yu-Shen Chen
- Department of Microbiology and Immunology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore
| | - Tulin Ozbek
- Department of Molecular Biology and Genetics, Faculty of Arts and Sciences, Yildiz Technical University, Istanbul, Turkey
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Kotsifaki DG, Rajiv Singh R, Nic Chormaic S, Truong VG. Asymmetric split-ring plasmonic nanostructures for the optical sensing of Escherichia coli. BIOMEDICAL OPTICS EXPRESS 2023; 14:4875-4887. [PMID: 37791281 PMCID: PMC10545205 DOI: 10.1364/boe.497820] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Revised: 08/10/2023] [Accepted: 08/11/2023] [Indexed: 10/05/2023]
Abstract
Strategies for in-liquid micro-organism detection are crucial for the clinical and pharmaceutical industries. While Raman spectroscopy is a promising label-free technique for micro-organism detection, it remains challenging due to the weak bacterial Raman signals. In this work, we exploit the unique electromagnetic properties of metamaterials to identify bacterial components in liquid using an array of Fano-resonant metamolecules. This Fano-enhanced Raman scattering (FERS) platform is designed to exhibit a Fano resonance close to the protein amide group fingerprint around 6030 nm. Raman signatures of Escherichia coli were recorded at several locations on the metamaterial under off-resonance laser excitation at 530 nm, where the photodamage effect is minimized. As the sizes of the Escherichia coli are comparable to the micro-gaps i.e, 0.41 µm, of the metamaterials, its local immobilisation leads to an increase in the Raman sensitivity. We also observed that the time-dependent FERS signal related to bacterial amide peaks increased during the bacteria's mid-exponential phase while it decreased during the stationary phase. This work provides a new set of opportunities for developing ultrasensitive FERS platforms suitable for large-scale applications and could be particularly useful for diagnostics and environmental studies at off-resonance excitation.
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Affiliation(s)
- Domna G. Kotsifaki
- Light-Matter Interactions for Quantum Technologies Unit, Okinawa Institute of Science and Technology Graduate University, Onna 904-0495 Okinawa, Japan
- Division of Natural and Applied Sciences, Duke Kunshan University, Kunshan, 215316 Jiangsu Province, China
| | - Ranjan Rajiv Singh
- Information Processing Biology Unit, Okinawa Institute of Science and Technology Graduate University, Onna 904-0495 Okinawa, Japan
| | - Síle Nic Chormaic
- Light-Matter Interactions for Quantum Technologies Unit, Okinawa Institute of Science and Technology Graduate University, Onna 904-0495 Okinawa, Japan
| | - Viet Giang Truong
- Light-Matter Interactions for Quantum Technologies Unit, Okinawa Institute of Science and Technology Graduate University, Onna 904-0495 Okinawa, Japan
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Mandal S, Tannert A, Ebert C, Guliev RR, Ozegowski Y, Carvalho L, Wildemann B, Eiserloh S, Coldewey SM, Löffler B, Bastião Silva L, Hoerr V, Tuchscherr L, Neugebauer U. Insights into S. aureus-Induced Bone Deformation in a Mouse Model of Chronic Osteomyelitis Using Fluorescence and Raman Imaging. Int J Mol Sci 2023; 24:ijms24119762. [PMID: 37298718 DOI: 10.3390/ijms24119762] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2023] [Revised: 05/25/2023] [Accepted: 05/31/2023] [Indexed: 06/12/2023] Open
Abstract
Osteomyelitis is an infection of the bone that is often difficult to treat and causes a significant healthcare burden. Staphylococcus aureus is the most common pathogen causing osteomyelitis. Osteomyelitis mouse models have been established to gain further insights into the pathogenesis and host response. Here, we use an established S. aureus hematogenous osteomyelitis mouse model to investigate morphological tissue changes and bacterial localization in chronic osteomyelitis with a focus on the pelvis. X-ray imaging was performed to follow the disease progression. Six weeks post infection, when osteomyelitis had manifested itself with a macroscopically visible bone deformation in the pelvis, we used two orthogonal methods, namely fluorescence imaging and label-free Raman spectroscopy, to characterise tissue changes on a microscopic scale and to localise bacteria in different tissue regions. Hematoxylin and eosin as well as Gram staining were performed as a reference method. We could detect all signs of a chronically florid tissue infection with osseous and soft tissue changes as well as with different inflammatory infiltrate patterns. Large lesions dominated in the investigated tissue samples. Bacteria were found to form abscesses and were distributed in high numbers in the lesion, where they could occasionally also be detected intracellularly. In addition, bacteria were found in lower numbers in surrounding muscle tissue and even in lower numbers in trabecular bone tissue. The Raman spectroscopic imaging revealed a metabolic state of the bacteria with reduced activity in agreement with small cell variants found in other studies. In conclusion, we present novel optical methods to characterise bone infections, including inflammatory host tissue reactions and bacterial adaptation.
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Affiliation(s)
- Shibarjun Mandal
- Leibniz Institute of Photonic Technology (Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research, LPI), 07745 Jena, Germany
| | - Astrid Tannert
- Leibniz Institute of Photonic Technology (Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research, LPI), 07745 Jena, Germany
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
| | - Christina Ebert
- Leibniz Institute of Photonic Technology (Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research, LPI), 07745 Jena, Germany
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
| | - Rustam R Guliev
- Leibniz Institute of Photonic Technology (Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research, LPI), 07745 Jena, Germany
| | - Yvonne Ozegowski
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
- Institute for Medical Microbiology, Jena University Hospital, 07747 Jena, Germany
| | - Lina Carvalho
- Institute of Anatomical and Molecular Pathology, Faculty of Medicine, University of Coimbra, 3004-504 Coimbra, Portugal
| | - Britt Wildemann
- Experimental Trauma Surgery, Jena University Hospital, 07747 Jena, Germany
| | - Simone Eiserloh
- Leibniz Institute of Photonic Technology (Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research, LPI), 07745 Jena, Germany
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
| | - Sina M Coldewey
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
- Department of Anaesthesiology and Intensive Care Medicine, Jena University Hospital, 07747 Jena, Germany
| | - Bettina Löffler
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
- Institute for Medical Microbiology, Jena University Hospital, 07747 Jena, Germany
| | | | - Verena Hoerr
- Institute for Medical Microbiology, Jena University Hospital, 07747 Jena, Germany
- Heart Center Bonn, Department of Internal Medicine II, University Hospital Bonn, 53127 Bonn, Germany
| | - Lorena Tuchscherr
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
- Institute for Medical Microbiology, Jena University Hospital, 07747 Jena, Germany
| | - Ute Neugebauer
- Leibniz Institute of Photonic Technology (Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research, LPI), 07745 Jena, Germany
- Center for Sepsis Control and Care, Jena University Hospital, 07747 Jena, Germany
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University Jena, 07743 Jena, Germany
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6
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Saleem M, Nawaz H, Majeed MI, Rashid N, Anjum F, Tahir M, Shahzad R, Sehar A, Sabir A, Rafiq N, Ishtiaq S, Shahid M. Surface-enhanced Raman spectroscopy (SERS) for the characterization of supernatants of bacterial cultures of bacterial strains causing sinusitis. Photodiagnosis Photodyn Ther 2023; 41:103278. [PMID: 36627069 DOI: 10.1016/j.pdpdt.2023.103278] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Revised: 12/29/2022] [Accepted: 01/04/2023] [Indexed: 01/08/2023]
Abstract
BACKGROUND Sinusitis is defined as inflammation of the paranasal sinus mucous membrane lining caused by bacteria which usually invade the sinus by upper respiratory tract viral infections (UTI). OBJECTIVES In the present study, Surface-enhanced Raman spectroscopy (SERS) has been applied to differentiate and characterize supernatant samples, in triplicate, of three different types of bacteria which are considered leading cause of sinusitis disease. METHODS For this purpose, supernatant samples of three different strains of bacteria namely Staphylococcus aureus, Klebsiella pneumoniae and Enterococcus faecalis. The SERS has identified significant changes as a result of secretions of biomolecules by these bacteria in their supernatants which can be helpful to explore the potential of this technique for the identification and characterization of different strains of bacteria causing same disease. RESULTS These differentiating characteristic SERS spectral features including 552 cm-1 (C-S-S-C bonds), 951 cm-1 (CN stretching), 1008 cm-1 (Phenylalanine), 1032 cm-1 (In plane CH bending mode Phenylalanine), 1280 cm-1, 1320 cm-1, 1329 cm-1 (Amide III band), 1368 cm-1, 1400 cm-1, 1420 cm-1 (COO-sym. stretching and CH bending), 1583 cm-1 (Tyrosine) correspond to Proteins and 1051 cm-1 (C-C, C-O, -C-OH def.) correspond to carbohydrates contents of these three different types of bacterial secretions in their respective supernatants. Furthermore, multivariate data analysis techniques like principal component analysis (PCA) and a supervised method partial least squares-discriminant analysis (PLS-DA) were found to be useful for the identification and characterization of different bacterial supernatants. CONCLUSIONS Surface-enhanced Raman spectroscopy is proven to be a helpful approach for the characterization and discrimination of three bacterial supernatants including S. aureus, K. pneumonia and E. faecalis.
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Affiliation(s)
- Mudassar Saleem
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Haq Nawaz
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan.
| | - Muhammad Irfan Majeed
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan.
| | - Nosheen Rashid
- Department of Chemistry, University of Education, Faisalabad Campus, Faisalabad 38000, Pakistan
| | - Fozia Anjum
- Department of Chemistry, Government College University Faisalabad, Faisalabad 38000, Pakistan
| | - Muhammad Tahir
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Rida Shahzad
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Aafia Sehar
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Amina Sabir
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Nighat Rafiq
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Shazra Ishtiaq
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
| | - Muhammad Shahid
- Department of Biochemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
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Mycelial differentiation linked avermectin production in Streptomyces avermitilis studied with Raman imaging. Appl Microbiol Biotechnol 2022; 107:369-378. [DOI: 10.1007/s00253-022-12314-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2022] [Revised: 11/21/2022] [Accepted: 11/24/2022] [Indexed: 12/12/2022]
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8
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Antimicrobial Efficiency of Chitosan and Its Methylated Derivative against Lentilactobacillus parabuchneri Biofilms. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27248647. [PMID: 36557784 PMCID: PMC9786053 DOI: 10.3390/molecules27248647] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/08/2022] [Revised: 12/02/2022] [Accepted: 12/04/2022] [Indexed: 12/12/2022]
Abstract
Antimicrobial materials are considered potential alternatives to prevent the development of biofilm-associated contaminations. Concerns regarding synthetic preservatives necessitate the development of innovative and safe natural antimicrobials. In the present study, we discuss the in situ infrared attenuated total reflection spectroscopy (IR-ATR) investigations of the selective antimicrobial efficiency of chitosan in controlling the growth of Lentilactobacillus parabuchneri biofilms. The protonated charges of chitosan were additionally amplified by structural modification via methylation, yielding quaternized derivative TMC (i.e., N, N, N-trimethyl chitosan). To evaluate antimicrobial effectiveness against L. parab. biofilms, IR-ATR spectroscopy provided information on molecular mechanisms and insights into chemical changes during real-time biofilm inhibition studies. The integrated fiberoptic oxygen microsensors enabled monitoring oxygen (O2) concentration gradients within biofilms, thereby confirming the metabolic oxygen depletion dropping from 4.5 to 0.7 mg L-1. IR studies revealed strong electrostatic interactions between chitosan/its water-soluble derivative and bacteria, indicating that a few hours were sufficient to affect biofilm disruption. The significant decrease in the IR bands is related to the characteristic spectral information of amide I, II, III, nucleic acid, and extracellular polymeric matrix (EPS) produced by L. parabuchneri biofilms. Cell clusters of biofilms, microcolonies, and destabilization of the EPS matrix after the addition of biopolymers were visualized using optical microscopy. In addition, scanning electron microscopy (SEM) of biofilms grown on polystyrene and stainless-steel surfaces was used to examine morphological changes, indicating the disintegration of the biofilm matrix into individual cells. Quantification of the total biofilm formation correlated with the CV assay results, indicating cell death and lysis. The electrostatic interactions between chitosan and the bacterial cell wall typically occur between protonated amino groups and negatively charged phospholipids, which promote permeabilization. Biofilm growth inhibition was assessed by a viability assay for a period of 72 h and in the range of low MIC values (varying 0.01-2%). These results support the potential of chitosan and TMC for bacterial growth prevention of the foodborne contaminant L. parabuchneri in the dairy industry and for further implementation in food packaging.
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Mrđenović D, Ge W, Kumar N, Zenobi R. Nanoscale Chemical Imaging of Human Cell Membranes Using Tip-Enhanced Raman Spectroscopy. Angew Chem Int Ed Engl 2022; 61:e202210288. [PMID: 36057139 PMCID: PMC9826433 DOI: 10.1002/anie.202210288] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2022] [Indexed: 01/11/2023]
Abstract
Lack of appropriate tools for visualizing cell membrane molecules at the nanoscale in a non-invasive and label-free fashion limits our understanding of many vital cellular processes. Here, we use tip-enhanced Raman spectroscopy (TERS) to visualize the molecular distribution in pancreatic cancer cell (BxPC-3) membranes in ambient conditions without labelling, with a spatial resolution down to ca. 2.5 nm. TERS imaging reveals segregation of phenylalanine-, histidine-, phosphatidylcholine-, protein-, and cholesterol-rich BxPC-3 cell membrane domains at the nm length-scale. TERS imaging also showed a cell membrane region where cholesterol is mixed with protein. Interestingly, the higher resolution TERS imaging revealed that the molecular domains observed on the BxPC-3 cell membrane are not chemically "pure" but also contain other biomolecules. These results demonstrate the potential of TERS for non-destructive and label-free imaging of cell membranes with nanoscale resolution.
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Affiliation(s)
- Dušan Mrđenović
- Department of Chemistry and Applied BiosciencesETH ZürichVladimir-Prelog-Weg 1–5/108093ZürichSwitzerland
| | - Wenjie Ge
- Department of BiologyETH ZurichOtto-Stern-Weg 78093ZürichSwitzerland
| | - Naresh Kumar
- Department of Chemistry and Applied BiosciencesETH ZürichVladimir-Prelog-Weg 1–5/108093ZürichSwitzerland
| | - Renato Zenobi
- Department of Chemistry and Applied BiosciencesETH ZürichVladimir-Prelog-Weg 1–5/108093ZürichSwitzerland
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10
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Bari RZA, Nawaz H, Majeed MI, Rashid N, Tahir M, ul Hasan HM, Ishtiaq S, Sadaf N, Raza A, Zulfiqar A, Rehman AU, Shahid M. Characterization of Bacteria Inducing Chronic Sinusitis Using Surface-Enhanced Raman Spectroscopy (SERS) with Multivariate Data Analysis. ANAL LETT 2022. [DOI: 10.1080/00032719.2022.2130349] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022]
Affiliation(s)
- Rana Zaki Abdul Bari
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Haq Nawaz
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | | | - Nosheen Rashid
- Department of Chemistry, University of Education, Faisalabad, Pakistan
| | - Muhammad Tahir
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | | | - Shazra Ishtiaq
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Nimra Sadaf
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Ali Raza
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Anam Zulfiqar
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Aziz ur Rehman
- Department of Chemistry, Government College University Lahore, Lahore, Pakistan
| | - Muhammad Shahid
- Department of Biochemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
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11
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Saikia D, Jadhav P, Hole AR, Krishna CM, Singh SP. Growth Kinetics Monitoring of Gram-Negative Pathogenic Microbes Using Raman Spectroscopy. APPLIED SPECTROSCOPY 2022; 76:1263-1271. [PMID: 35694822 DOI: 10.1177/00037028221109624] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Optical density based measurements are routinely performed to monitor the growth of microbes. These measurements solely depend upon the number of cells and do not provide any information about the changes in the biochemical milieu or biological status. An objective information about these parameters is essential for evaluation of novel therapies and for maximizing the metabolite production. In the present study, we have applied Raman spectroscopy to monitor growth kinetics of three different pathogenic Gram-negative microbes Escherichia coli, Pseudomonas aeruginosa, and Acinetobacter baumannii. Spectral measurements were performed under 532 nm excitation with 5 seconds of exposure time. Spectral features suggest temporal changes in the "peptide" and "nucleic acid" content of cells under different growth stages. Using principal component analysis (PCA), successful discrimination between growth phases was also achieved. Overall, the findings are supportive of the prospective adoption of Raman based approaches for monitoring microbial growth.
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Affiliation(s)
- Dimple Saikia
- Department of Biosciences and Bioengineering, 477529Indian Institute of Technology Dharwad, Dharwad, India
| | - Priyanka Jadhav
- Tata Memorial Centre, 29435Advanced Centre for Treatment Research and Education in Cancer, Navi Mumbai, India
- Training School Complex, Homi Bhabha National Institute, Anushakti Nagar, India
| | - Arti R Hole
- Tata Memorial Centre, 29435Advanced Centre for Treatment Research and Education in Cancer, Navi Mumbai, India
| | - Chilakapati Murali Krishna
- Tata Memorial Centre, 29435Advanced Centre for Treatment Research and Education in Cancer, Navi Mumbai, India
- Training School Complex, Homi Bhabha National Institute, Anushakti Nagar, India
| | - Surya P Singh
- Department of Biosciences and Bioengineering, 477529Indian Institute of Technology Dharwad, Dharwad, India
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12
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Nanoscale chemical imaging of human cell membrane using Tip‐enhanced Raman spectroscopy. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202210288] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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13
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Jayan H, Pu H, Sun DW. Analyzing macromolecular composition of E. Coli O157:H7 using Raman-stable isotope probing. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 276:121217. [PMID: 35427921 DOI: 10.1016/j.saa.2022.121217] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Revised: 03/23/2022] [Accepted: 03/28/2022] [Indexed: 06/14/2023]
Abstract
Metabolic dynamics of bacterial cells is needed for understanding the correlation between changes in environmental conditions and cell metabolic activity. In this study, Raman spectroscopy combined with deuterium labelling was used to analyze the metabolic activity of a single Escherichia coli O157:H7 cell. The incorporation of deuterium from heavy water into cellular biomolecules resulted in the formation of carbon-deuterium (CD) peaks in the Raman spectra, indicating the cell metabolic activity. The broad vibrational peaks corresponding to CD and CH peaks encompassed different specific shifts of macromolecules such as protein, lipids, and nucleic acid. The utilization of tryptophan and oleic acid by the cell as the sole carbon source led to changes in cell lipid composition, as indicated by new peaks in the second derivative spectra. Thus, the proposed method could semi-quantitatively determine total metabolic activity, macromolecule specific identification, and lipid and protein metabolism in a single cell.
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Affiliation(s)
- Heera Jayan
- School of Food Science and Engineering, South China University of Technology, Guangzhou 510641, China; Academy of Contemporary Food Engineering, South China University of Technology, Guangzhou Higher Education Mega Center, Guangzhou 510006, China; Engineering and Technological Research Centre of Guangdong Province on Intelligent Sensing and Process Control of Cold Chain Foods, & Guangdong Province Engineering Laboratory for Intelligent Cold Chain Logistics Equipment for Agricultural Products, Guangzhou Higher Education Mega Centre, Guangzhou 510006, China
| | - Hongbin Pu
- School of Food Science and Engineering, South China University of Technology, Guangzhou 510641, China; Academy of Contemporary Food Engineering, South China University of Technology, Guangzhou Higher Education Mega Center, Guangzhou 510006, China; Engineering and Technological Research Centre of Guangdong Province on Intelligent Sensing and Process Control of Cold Chain Foods, & Guangdong Province Engineering Laboratory for Intelligent Cold Chain Logistics Equipment for Agricultural Products, Guangzhou Higher Education Mega Centre, Guangzhou 510006, China
| | - Da-Wen Sun
- School of Food Science and Engineering, South China University of Technology, Guangzhou 510641, China; Academy of Contemporary Food Engineering, South China University of Technology, Guangzhou Higher Education Mega Center, Guangzhou 510006, China; Engineering and Technological Research Centre of Guangdong Province on Intelligent Sensing and Process Control of Cold Chain Foods, & Guangdong Province Engineering Laboratory for Intelligent Cold Chain Logistics Equipment for Agricultural Products, Guangzhou Higher Education Mega Centre, Guangzhou 510006, China; Food Refrigeration and Computerized Food Technology (FRCFT), Agriculture and Food Science Centre, University College Dublin, National University of Ireland, Belfield, Dublin 4, Ireland.
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14
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Saleem M, Majeed MI, Nawaz H, Iqbal MA, Hassan A, Rashid N, Tahir M, Raza A, ul Hassan HM, Sabir A, Ashfaq R, Sharif S. Surface-Enhanced Raman Spectroscopy for the Characterization of the Antibacterial Properties of Imidazole Derivatives against Bacillus subtilis with Principal Component Analysis and Partial Least Squares–Discriminant Analysis. ANAL LETT 2022. [DOI: 10.1080/00032719.2022.2047997] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022]
Affiliation(s)
- Mudassar Saleem
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | | | - Haq Nawaz
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Muhammad Adnan Iqbal
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Ahmad Hassan
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Nosheen Rashid
- Department of Chemistry, University of Education, Faisalabad Campus, Faisalabad, Pakistan
| | - Muhammad Tahir
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Ali Raza
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | | | - Amina Sabir
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Rayha Ashfaq
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Sana Sharif
- Department of Chemistry, University of Agriculture Faisalabad, Faisalabad, Pakistan
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15
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Sportelli MC, Kranz C, Mizaikoff B, Cioffi N. Recent advances on the spectroscopic characterization of microbial biofilms: A critical review. Anal Chim Acta 2022; 1195:339433. [DOI: 10.1016/j.aca.2022.339433] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2021] [Revised: 12/30/2021] [Accepted: 01/02/2022] [Indexed: 02/07/2023]
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16
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Liao X, Cui FC, He JH, Ren WM, Lu XB, Zhang YT. Sustainable Approach for Synthesis and Completely Recycle of Cyclic CO 2-based Polycarbonates. Chem Sci 2022; 13:6283-6290. [PMID: 35733884 PMCID: PMC9159078 DOI: 10.1039/d2sc01387h] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Accepted: 04/21/2022] [Indexed: 11/23/2022] Open
Abstract
It is highly desirable to reduce the environmental pollution related to the disposal of end-of-life plastics. Polycarbonates derived from the copolymerization of CO2 and epoxides have attracted much attention since they can enable CO2-fixation and furnish biorenewable and degradable polymeric materials. So far, only linear CO2-based polycarbonates have been reported and typically degraded to cyclic carbonates. Here we synthesize a homogeneous dinuclear methyl zinc catalyst ((BDI-ZnMe)2, 1) to rapidly copolymerize meso-CHO and CO2 into poly(cyclohexene carbonate) (PCHC) with an unprecedentedly cyclic structure. Moreover, in the presence of trace amounts of water, a heterogeneous multi-nuclear zinc catalyst ((BDI-(ZnMe2·xH2O))n, 2) is prepared and shows up to 99% selectivity towards the degradation of PCHC back to meso-CHO and CO2. This strategy not only achieves the first case of cyclic CO2-based polycarbonate but also realizes the complete chemical recycling of PCHC back to its monomers, representing closed-loop recycling of CO2-based polycarbonates. It is highly desirable to reduce the environmental pollution related to the disposal of end-of-life plastics.![]()
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Affiliation(s)
- Xi Liao
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University 130012 Changchun P. R. China
| | - Feng-Chao Cui
- Faculty of Chemistry, Northeast Normal University 130024 Changchun P. R. China
| | - Jiang-Hua He
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University 130012 Changchun P. R. China
| | - Wei-Min Ren
- State Key Laboratory of Fine Chemicals, Dalian University of Technology 116024 Dalian P. R. China
| | - Xiao-Bing Lu
- State Key Laboratory of Fine Chemicals, Dalian University of Technology 116024 Dalian P. R. China
| | - Yue-Tao Zhang
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University 130012 Changchun P. R. China
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17
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Paccotti N, Chiadò A, Novara C, Rivolo P, Montesi D, Geobaldo F, Giorgis F. Real-Time Monitoring of the In Situ Microfluidic Synthesis of Ag Nanoparticles on Solid Substrate for Reliable SERS Detection. BIOSENSORS 2021; 11:bios11120520. [PMID: 34940277 PMCID: PMC8699179 DOI: 10.3390/bios11120520] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2021] [Revised: 12/10/2021] [Accepted: 12/13/2021] [Indexed: 05/12/2023]
Abstract
A sharpened control over the parameters affecting the synthesis of plasmonic nanostructures is often crucial for their application in biosensing, which, if based on surface-enhanced Raman spectroscopy (SERS), requires well-defined optical properties of the substrate. In this work, a method for the microfluidic synthesis of Ag nanoparticles (NPs) on porous silicon (pSi) was developed, focusing on achieving a fine control over the morphological characteristics and spatial distribution of the produced nanostructures to be used as SERS substrates. To this end, a pSi membrane was integrated in a microfluidic chamber in which the silver precursor solution was injected, allowing for the real-time monitoring of the reaction by UV-Vis spectroscopy. The synthesis parameters, such as the concentration of the silver precursor, the temperature, and the flow rate, were varied in order to study their effects on the final silver NPs' morphology. Variations in the flow rate affected the size distribution of the NPs, whereas both the temperature and the concentration of the silver precursor strongly influenced the rate of the reaction and the particle size. Consistently with the described trends, SERS tests using 4-MBA as a probe showed how the flow rate variation affected the SERS enhancement uniformity, and how the production of larger NPs, as a result of an increase in temperature or of the concentration of the Ag precursor, led to an increased SERS efficiency.
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Affiliation(s)
- Niccolò Paccotti
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Torino, Italy; (N.P.); (A.C.); (P.R.); (D.M.); (F.G.); (F.G.)
| | - Alessandro Chiadò
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Torino, Italy; (N.P.); (A.C.); (P.R.); (D.M.); (F.G.); (F.G.)
- Center for Sustainable Future Technologies @Polito, Istituto Italiano di Tecnologia, Corso Trento 21, 10129 Torino, Italy
| | - Chiara Novara
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Torino, Italy; (N.P.); (A.C.); (P.R.); (D.M.); (F.G.); (F.G.)
- Correspondence:
| | - Paola Rivolo
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Torino, Italy; (N.P.); (A.C.); (P.R.); (D.M.); (F.G.); (F.G.)
| | - Daniel Montesi
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Torino, Italy; (N.P.); (A.C.); (P.R.); (D.M.); (F.G.); (F.G.)
| | - Francesco Geobaldo
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Torino, Italy; (N.P.); (A.C.); (P.R.); (D.M.); (F.G.); (F.G.)
| | - Fabrizio Giorgis
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Torino, Italy; (N.P.); (A.C.); (P.R.); (D.M.); (F.G.); (F.G.)
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18
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Azemtsop Matanfack G, Pistiki A, Rösch P, Popp J. Raman 18 O-labeling of bacteria in visible and deep UV-ranges. JOURNAL OF BIOPHOTONICS 2021; 14:e202100013. [PMID: 33773041 DOI: 10.1002/jbio.202100013] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2021] [Revised: 03/23/2021] [Accepted: 03/24/2021] [Indexed: 06/12/2023]
Abstract
Raman stable isotope labeling with 2 H, 13 C or 15 N has been reported as an elegant approach to investigate cellular metabolic activity, which is of great importance to reveal the functions of microorganisms in native environments. A new strategy termed Raman 18 O-labeling was developed to probe the metabolic activity of bacteria. Raman 18 O-labeling refers to the combination of Raman microspectroscopy with 18 O-labeling using H218 O. At an excitation wavelength of 532 nm, the incorporation of 18 O into the amide I group of proteins and DNA/RNA bases was observed in Escherichia coli cells, while for an excitation wavelength electronically resonant with DNA or aromatic amino acid absorption at 244 nm 18 O assimilation was detected using chemometric tools rather than visual inspection. Raman 18 O-labeling at 532 nm combined with 2D correlation analysis confirmed the assimilation of 18 O in proteins and nucleic acids and revealed the growth strategy of E. coli cells; they underwent protein synthesis followed by nucleic acid synthesis. Independent cultural replicates at different incubation times corroborated the reproducibility of these results. The variations in spectral features of 18 O-labeled cells revealed changes in physiological information of cells. Hence, Raman 18 O-labeling could provide a powerful tool to identify metabolically active bacterial cells.
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Affiliation(s)
- Georgette Azemtsop Matanfack
- Institute of Physical Chemistry and Abbe Center of Photonics (IPC), Friedrich-Schiller-University Jena, Jena, Germany
- Leibniz Institute of Photonic Technology a member of the Leibniz Research Alliance Leibniz Health Technology (Leibniz-IPHT), Jena, Germany
- Research Campus Infectognostics e.v. Jena, Jena, Germany
| | - Aikaterini Pistiki
- Institute of Physical Chemistry and Abbe Center of Photonics (IPC), Friedrich-Schiller-University Jena, Jena, Germany
- Leibniz Institute of Photonic Technology a member of the Leibniz Research Alliance Leibniz Health Technology (Leibniz-IPHT), Jena, Germany
- Research Campus Infectognostics e.v. Jena, Jena, Germany
| | - Petra Rösch
- Institute of Physical Chemistry and Abbe Center of Photonics (IPC), Friedrich-Schiller-University Jena, Jena, Germany
- Research Campus Infectognostics e.v. Jena, Jena, Germany
| | - Jürgen Popp
- Institute of Physical Chemistry and Abbe Center of Photonics (IPC), Friedrich-Schiller-University Jena, Jena, Germany
- Leibniz Institute of Photonic Technology a member of the Leibniz Research Alliance Leibniz Health Technology (Leibniz-IPHT), Jena, Germany
- Research Campus Infectognostics e.v. Jena, Jena, Germany
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19
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Wichmann C, Bocklitz T, Rösch P, Popp J. Bacterial phenotype dependency from CO 2 measured by Raman spectroscopy. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 248:119170. [PMID: 33296748 DOI: 10.1016/j.saa.2020.119170] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Revised: 10/26/2020] [Accepted: 10/30/2020] [Indexed: 06/12/2023]
Abstract
In recent years, Raman spectroscopy has become an established method to study medical, biological or environmental samples. Since Raman spectroscopy is a phenotypic method, many parameters can influence the spectra. One of these parameters is the concentration of CO2, as this never remains stable in nature, but always adjusts itself in a dynamic equilibrium. So, it is obvious that the concentration of CO2 cannot be controlled but it might have a big impact on the bacteria and bacterial composition in medical samples. When using a phenotypic method like Raman spectroscopy it is also important to know the influence of CO2 to the dataset. To investigate the influence of CO2 towards Raman spectra we cultivated E. coli at different concentration of CO2 since this bacterium is able to switch metabolism from aerobic to microaerophilic conditions. After applying statistic methods small changes in the spectra became visible and it was even possible to observe the change of metabolism in this species according to the concentration of CO2.
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Affiliation(s)
- Christina Wichmann
- Leibniz Institute of Photonic Technology Jena - Member of the Research Alliance "Leibniz Health Technologies", Albert-Einstein-Str. 9, 07745 Jena, Germany; Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany; Research Campus Infectognostics, Philosophenweg 7, 07743 Jena, Germany
| | - Thomas Bocklitz
- Leibniz Institute of Photonic Technology Jena - Member of the Research Alliance "Leibniz Health Technologies", Albert-Einstein-Str. 9, 07745 Jena, Germany
| | - Petra Rösch
- Leibniz Institute of Photonic Technology Jena - Member of the Research Alliance "Leibniz Health Technologies", Albert-Einstein-Str. 9, 07745 Jena, Germany; Research Campus Infectognostics, Philosophenweg 7, 07743 Jena, Germany.
| | - Jürgen Popp
- Leibniz Institute of Photonic Technology Jena - Member of the Research Alliance "Leibniz Health Technologies", Albert-Einstein-Str. 9, 07745 Jena, Germany; Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany; Research Campus Infectognostics, Philosophenweg 7, 07743 Jena, Germany
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20
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Ankamwar B, Gharpure S. Gold and silver nanoparticles used for SERS detection of S. aureus and E. coli. NANO EXPRESS 2020. [DOI: 10.1088/2632-959x/ab85b4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Abstract
Surface enhanced Raman scattering (SERS) is emerging as a robust analytical method used in sensing applications in chemical as well as biological systems. SERS has been reported to be used in fast detection of micro-organisms up to the specificity of strain identification. However, use of SERS is tricky because of difficulties involved in selection of SERS active substrate so as to give uniform, sensitive as well as reproducible results. We have synthesized silver and gold nanoparticles using chemical, electrochemical and microwave-assisted methods followed by their characterization. Uses of these nanoparticles in association with micro-organisms such as S. aureus and E. coli have been analyzed using SERS to generate signature spectra. This demonstrates use of so synthesized gold and silver nanoparticles as SERS active substrates for rapid detection of micro-organisms which pave way to find applications in disease diagnostics.
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21
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A Machine Learning-Based Raman Spectroscopic Assay for the Identification of Burkholderia mallei and Related Species. Molecules 2019; 24:molecules24244516. [PMID: 31835527 PMCID: PMC6943587 DOI: 10.3390/molecules24244516] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2019] [Revised: 12/03/2019] [Accepted: 12/04/2019] [Indexed: 11/25/2022] Open
Abstract
Burkholderia (B.) mallei, the causative agent of glanders, and B. pseudomallei, the causative agent of melioidosis in humans and animals, are genetically closely related. The high infectious potential of both organisms, their serological cross-reactivity, and similar clinical symptoms in human and animals make the differentiation from each other and other Burkholderia species challenging. The increased resistance against many antibiotics implies the need for fast and robust identification methods. The use of Raman microspectroscopy in microbial diagnostic has the potential for rapid and reliable identification. Single bacterial cells are directly probed and a broad range of phenotypic information is recorded, which is subsequently analyzed by machine learning methods. Burkholderia were handled under biosafety level 1 (BSL 1) conditions after heat inactivation. The clusters of the spectral phenotypes and the diagnostic relevance of the Burkholderia spp. were considered for an advanced hierarchical machine learning approach. The strain panel for training involved 12 B. mallei, 13 B. pseudomallei and 11 other Burkholderia spp. type strains. The combination of top- and sub-level classifier identified the mallei-complex with high sensitivities (>95%). The reliable identification of unknown B. mallei and B. pseudomallei strains highlighted the robustness of the machine learning-based Raman spectroscopic assay.
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Boschetto F, Adachi T, Horiguchi S, Marin E, Paccotti N, Asai T, Zhu W, McEntire BJ, Yamamoto T, Kanamura N, Mazda O, Ohgitani E, Pezzotti G. In situ molecular vibration insights into the antibacterial behavior of silicon nitride bioceramic versus gram-negative Escherichia coli. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 223:117299. [PMID: 31277027 DOI: 10.1016/j.saa.2019.117299] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/08/2019] [Revised: 06/11/2019] [Accepted: 06/20/2019] [Indexed: 06/09/2023]
Abstract
Gram-negative bacteria represent a substantial fraction of pathogens responsible for periprosthetic infections. Given the increasing resistance of such bacteria to antibiotics, significant efforts are nowadays paid in developing new biomaterial surfaces, which offer resistance against bacterial adhesion and/or possess inherent antibacterial effects. Non-oxide silicon nitride (Si3N4) bioceramic in its polycrystalline form is a biomaterial with inherent antibacterial properties. Building upon previous phenomenological findings, the present study focuses on vibrational analyses of the metabolic response of Escherichia coli at the molecular level. A time-lapse study is conducted upon exposing the bacteria in vitro to Si3N4 bioceramic surfaces. A comparison is carried out with the as-cultured bacterial strain and with bacteria exposed to other commercially available biomaterials, namely, Ti-alloy (Ti6Al4V-ELI) and zirconia-toughened alumina (ZTA) oxide bioceramic tested under exactly the same experimental conditions. The metabolic pathways before and after exposure to different substrates were monitored by means of Raman and FTIR spectroscopies. Results indicated the development of significant osmotic stress in the bacterial strain and constant concentration decreases of its cellular compounds markers over time upon exposure to Si3N4. This ultimately led to bacterial lysis (also confirmed by conventional fluorescence microscopy assays). The main antibacterial effect was of chemical origin and driven by the elution of nitrogen ions from the Si3N4 surface, successively converted into ammonia (NH3) or ammonium (NH4)+ in aqueous solution, depending on environmental pH. The presence of these nitrogen species created osmotic stress in the cytoplasmic space. In answer to the osmotic stress, metabolic rates changed rapidly, the bacterial membrane was damaged, and lysis occurred almost completely within 48 h exposure. The antibacterial behavior exerted by the Si3N4 substrate on E. coli was more effective than that observed on the biomedical Ti6Al4V alloy. Conversely, no lysis but bacterial proliferation was recorded for E. coli exposed to ZTA bioceramic oxide substrates.
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Affiliation(s)
- Francesco Boschetto
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan; Department of Immunology, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Tetsuya Adachi
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Satoshi Horiguchi
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Elia Marin
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan; Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Niccolò Paccotti
- Department of Applied Science and Technology, Politecnico di Torino, C.so Duca degli Abruzzi 24, 10129 Turin, Italy
| | - Tenma Asai
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan
| | - Wenliang Zhu
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan
| | - Bryan J McEntire
- SINTX, Technologies, Co. 1885 West 2100 South, Salt Lake City, UT 84119, USA
| | - Toshiro Yamamoto
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Narisato Kanamura
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Osam Mazda
- Department of Immunology, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Eriko Ohgitani
- Department of Immunology, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Giuseppe Pezzotti
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan; Department of Immunology, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan; Department of Orthopedic Surgery, Tokyo Medical University, 6-7-1 Nishi-Shinjuku, Shinjuku-ku, 160-0023 Tokyo, Japan; The Center for Advanced Medical Engineering and Informatics, Osaka University, Yamadaoka, Suita, 565-0871 Osaka, Japan.
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23
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Peng MW, Wei XY, Yu Q, Yan P, Chen YP, Guo JS. Identification of ceftazidime interaction with bacteria in wastewater treatment by Raman spectroscopic mapping. RSC Adv 2019; 9:32744-32752. [PMID: 35529746 PMCID: PMC9073089 DOI: 10.1039/c9ra06006e] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2019] [Accepted: 10/03/2019] [Indexed: 01/02/2023] Open
Abstract
Raman spectroscopy yields a fingerprint spectrum and is of great importance in medical and biological sciences as it is non-destructive, non-invasive, and available in the aqueous environment. In this study, Raman spectroscopy and Raman mapping were used to explore the dynamic biochemical processes in screened bacteria under ceftazidime stress. The Raman spectral difference between bacteria with and without antibiotic stress was analyzed by principal component analysis and characteristic peaks were obtained. The results showed that amino acids changed first and lipids were reduced when bacteria were exposed to ceftazidime stress. Furthermore, in Raman mapping, when bacteria were subjected to antibiotic stress, the peak at 1002 cm-1 (phenylalanine) increased, while the peak at 1172 cm-1 (lipids) weakened. This indicates that when bacteria were stimulated by antibiotics, the intracellular lipids decreased and the content of specific amino acids increased. The reduction of intracellular lipids may suggest a change of membrane permeability. The increase of specific amino acids suggests that bacteria resist external stimuli of antibiotics by regulating the activities of related enzymes. This study explored the processes of the action between bacteria and antibiotics by Raman spectroscopy, and provides a foundation for the further study of the dynamics of microbial biochemical processes in the future.
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Affiliation(s)
- Meng-Wen Peng
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environments of MOE, Chongqing University Chongqing 400045 China +86-23-65935818 +86-23-65935818
| | - Xiang-Yang Wei
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environments of MOE, Chongqing University Chongqing 400045 China +86-23-65935818 +86-23-65935818
| | - Qiang Yu
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environments of MOE, Chongqing University Chongqing 400045 China +86-23-65935818 +86-23-65935818
| | - Peng Yan
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environments of MOE, Chongqing University Chongqing 400045 China +86-23-65935818 +86-23-65935818
| | - You-Peng Chen
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environments of MOE, Chongqing University Chongqing 400045 China +86-23-65935818 +86-23-65935818
| | - Jin-Song Guo
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environments of MOE, Chongqing University Chongqing 400045 China +86-23-65935818 +86-23-65935818
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24
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Lin Z, Zhao X, Huang J, Liu W, Zheng Y, Yang X, Zhang Y, Lamy de la Chapelle M, Fu W. Rapid screening of colistin-resistant Escherichia coli, Acinetobacter baumannii and Pseudomonas aeruginosa by the use of Raman spectroscopy and hierarchical cluster analysis. Analyst 2019; 144:2803-2810. [PMID: 30882113 DOI: 10.1039/c8an02220h] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Colistin is recognized as the last therapeutic option for multidrug-resistant Gram-negative bacteria infection. In addition, bacterial resistance to colistin could be transmitted between different species through plasmid-mediated mcr-1 gene transfer. Therefore, rapid screening of colistin-resistant isolates will play a key role in controlling the spread of resistance and improving patient outcomes. We developed a rapid method for the detection of colistin-resistance in Escherichia coli, Acinetobacter baumannii, and Pseudomonas aeruginosa bacteria based on Raman spectroscopy and hierarchical cluster analysis. Bacteria were incubated with and without colistin using CAMHB as the liquid culture medium. They were then centrifuged and dried on a glass slide. Five Raman spectra of each of the samples were recorded and analyzed by the hierarchical cluster analysis method to determine whether the bacteria were resistant. To evaluate this method, 123 clinical bacterial isolates (42 isolates of E. coli, 41 isolates of A. baumannii and 40 isolates of P. aeruginosa) were tested. The detection sensitivity and specificity were 90.9% and 91.1%, respectively, compared with the reference broth microdilution method. The screening is easy to perform and can be completed in 1.5 h, suggesting that it holds great potential to be an initial screening method in countries and areas where colistin becomes the last resort antibiotic.
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Affiliation(s)
- Zhongquan Lin
- Department of Laboratory Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing 400038, China.
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25
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Li X, Zhang D, Bai Y, Wang W, Liang J, Cheng JX. Fingerprinting a Living Cell by Raman Integrated Mid-Infrared Photothermal Microscopy. Anal Chem 2019; 91:10750-10756. [DOI: 10.1021/acs.analchem.9b02286] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Xiaojie Li
- State Key Laboratory of Applied Optics, Changchun Institute of Optics, Fine Mechanics and Physics, Chinese Academy of Sciences, Changchun, Jilin 130033, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | | | - Yeran Bai
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Weibiao Wang
- State Key Laboratory of Applied Optics, Changchun Institute of Optics, Fine Mechanics and Physics, Chinese Academy of Sciences, Changchun, Jilin 130033, China
| | - Jingqiu Liang
- State Key Laboratory of Applied Optics, Changchun Institute of Optics, Fine Mechanics and Physics, Chinese Academy of Sciences, Changchun, Jilin 130033, China
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26
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27
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Puchkov EO. Quantitative Methods for Single-Cell Analysis of Microorganisms. Microbiology (Reading) 2019. [DOI: 10.1134/s0026261719010120] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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28
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M Y, Chawla K, Bankapur A, Acharya M, D’Souza JS, Chidangil S. A micro-Raman and chemometric study of urinary tract infection-causing bacterial pathogens in mixed cultures. Anal Bioanal Chem 2019; 411:3165-3177. [DOI: 10.1007/s00216-019-01784-4] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Revised: 03/07/2019] [Accepted: 03/15/2019] [Indexed: 01/30/2023]
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29
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Enhancing Disease Diagnosis: Biomedical Applications of Surface-Enhanced Raman Scattering. APPLIED SCIENCES-BASEL 2019. [DOI: 10.3390/app9061163] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Surface-enhanced Raman scattering (SERS) has recently gained increasing attention for the detection of trace quantities of biomolecules due to its excellent molecular specificity, ultrasensitivity, and quantitative multiplex ability. Specific single or multiple biomarkers in complex biological environments generate strong and distinct SERS spectral signals when they are in the vicinity of optically active nanoparticles (NPs). When multivariate chemometrics are applied to decipher underlying biomarker patterns, SERS provides qualitative and quantitative information on the inherent biochemical composition and properties that may be indicative of healthy or diseased states. Moreover, SERS allows for differentiation among many closely-related causative agents of diseases exhibiting similar symptoms to guide early prescription of appropriate, targeted and individualised therapeutics. This review provides an overview of recent progress made by the application of SERS in the diagnosis of cancers, microbial and respiratory infections. It is envisaged that recent technology development will help realise full benefits of SERS to gain deeper insights into the pathological pathways for various diseases at the molecular level.
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30
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Label-Free SERS Discrimination and In Situ Analysis of Life Cycle in Escherichia coli and Staphylococcus epidermidis. BIOSENSORS-BASEL 2018; 8:bios8040131. [PMID: 30558342 PMCID: PMC6315751 DOI: 10.3390/bios8040131] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Revised: 12/11/2018] [Accepted: 12/13/2018] [Indexed: 11/17/2022]
Abstract
Surface enhanced Raman spectroscopy (SERS) has been proven suitable for identifying and characterizing different bacterial species, and to fully understand the chemically driven metabolic variations that occur during their evolution. In this study, SERS was exploited to identify the cellular composition of Gram-positive and Gram-negative bacteria by using mesoporous silicon-based substrates decorated with silver nanoparticles. The main differences between the investigated bacterial strains reside in the structure of the cell walls and plasmatic membranes, as well as their biofilm matrix, as clearly noticed in the corresponding SERS spectrum. A complete characterization of the spectra was provided in order to understand the contribution of each vibrational signal collected from the bacterial culture at different times, allowing the analysis of the bacterial populations after 12, 24, and 48 h. The results show clear features in terms of vibrational bands in line with the bacterial growth curve, including an increasing intensity of the signals during the first 24 h and their subsequent decrease in the late stationary phase after 48 h of culture. The evolution of the bacterial culture was also confirmed by fluorescence microscope images.
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31
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Fanesi A, Zegeye A, Mustin C, Cébron A. Soil Particles and Phenanthrene Interact in Defining the Metabolic Profile of Pseudomonas putida G7: A Vibrational Spectroscopy Approach. Front Microbiol 2018; 9:2999. [PMID: 30564224 PMCID: PMC6288191 DOI: 10.3389/fmicb.2018.02999] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Accepted: 11/20/2018] [Indexed: 01/21/2023] Open
Abstract
In soil, organic matter and mineral particles (soil particles; SPs) strongly influence the bio-available fraction of organic pollutants, such as polycyclic aromatic hydrocarbons (PAHs), and the metabolic activity of bacteria. However, the effect of SPs as well as comparative approaches to discriminate the metabolic responses to PAHs from those to simple carbon sources are seldom considered in mineralization experiments, limiting our knowledge concerning the dynamics of contaminants in soil. In this study, the metabolic profile of a model PAH-degrading bacterium, Pseudomonas putida G7, grown in the absence and presence of different SPs (i.e., sand, clays and humic acids), using either phenanthrene or glucose as the sole carbon and energy source, was characterized using vibrational spectroscopy (i.e., FT-Raman and FT-IR spectroscopy) and multivariate classification analysis (i.e., PLS-DA). The different type of SPs specifically altered the metabolic profile of P. putida, especially in combination with phenanthrene. In comparison to the cells grown in the absence of SPs, sand induced no remarkable change in the metabolic profile of the cells, whereas clays and humic acids affected it the most, as revealed by the higher discriminative accuracy (R2, RMSEP and sensitivity) of the PLS-DA for those conditions. With respect to the carbon-source (phenanthrene vs. glucose), no effect on the metabolic profile was evident in the absence of SPs or in the presence of sand. On the other hand, with clays and humic acids, more pronounced spectral clusters between cells grown on glucose or on phenanthrene were evident, suggesting that these SPs modify the way cells access and metabolize PAHs. The macromolecular changes regarded mainly protein secondary structures (a shift from α-helices to β-sheets), amino acid levels, nucleic acid conformation and cell wall carbohydrates. Our results provide new interesting evidences that SPs specifically interact with PAHs in defining bacteria metabolic profiles and further emphasize the importance of studying the interaction of bacteria with their surrounding matrix to deeply understand PAHs degradation in soils.
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Affiliation(s)
- Andrea Fanesi
- Laboratoire Interdisciplinaire des Environnements Continentaux, CNRS, Université de Lorraine, Nancy, France
| | - Asfaw Zegeye
- Laboratoire Interdisciplinaire des Environnements Continentaux, CNRS, Université de Lorraine, Nancy, France
| | - Christian Mustin
- Laboratoire Interdisciplinaire des Environnements Continentaux, CNRS, Université de Lorraine, Nancy, France
| | - Aurélie Cébron
- Laboratoire Interdisciplinaire des Environnements Continentaux, CNRS, Université de Lorraine, Nancy, France
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32
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Wijesooriya CS, Nyamekye CKA, Smith EA. Optical Imaging of the Nanoscale Structure and Dynamics of Biological Membranes. Anal Chem 2018; 91:425-440. [DOI: 10.1021/acs.analchem.8b04755] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
| | - Charles K. A. Nyamekye
- Department of Chemistry, Iowa State University, Ames, Iowa 50011, United States
- The Ames Laboratory, U.S. Department of Energy, Ames, Iowa 50011, United States
| | - Emily A. Smith
- Department of Chemistry, Iowa State University, Ames, Iowa 50011, United States
- The Ames Laboratory, U.S. Department of Energy, Ames, Iowa 50011, United States
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33
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Chisanga M, Muhamadali H, Ellis DI, Goodacre R. Surface-Enhanced Raman Scattering (SERS) in Microbiology: Illumination and Enhancement of the Microbial World. APPLIED SPECTROSCOPY 2018; 72:987-1000. [PMID: 29569946 DOI: 10.1177/0003702818764672] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The microbial world forms a huge family of organisms that exhibit the greatest phylogenetic diversity on Earth and thus colonize virtually our entire planet. Due to this diversity and subsequent complex interactions, the vast majority of microorganisms are involved in innumerable natural bioprocesses and contribute an absolutely vital role toward the maintenance of life on Earth, whilst a small minority cause various infectious diseases. The ever-increasing demand for environmental monitoring, sustainable ecosystems, food security, and improved healthcare systems drives the continuous search for inexpensive but reproducible, automated and portable techniques for detection of microbial isolates and understanding their interactions for clinical, environmental, and industrial applications and benefits. Surface-enhanced Raman scattering (SERS) is attracting significant attention for the accurate identification, discrimination and characterization and functional assessment of microbial cells at the single cell level. In this review, we briefly discuss the technological advances in Raman and Fourier transform infrared (FT-IR) instrumentation and their application for the analysis of clinically and industrially relevant microorganisms, biofilms, and biological warfare agents. In addition, we summarize the current trends and future prospects of integrating Raman/SERS-isotopic labeling and cell sorting technologies in parallel, to link genotype-to-phenotype in order to define community function of unculturable microbial cells in mixed microbial communities which possess admirable traits such as detoxification of pollutants and recycling of essential metals.
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Affiliation(s)
- Malama Chisanga
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, UK
| | - Howbeer Muhamadali
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, UK
| | - David I Ellis
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, UK
| | - Royston Goodacre
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, UK
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34
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Carey PR, Whitmer GR, Yoon MJ, Lombardo MN, Pusztai-Carey M, Heidari-Torkabadi H, Che T. Measuring Drug-Induced Changes in Metabolite Populations of Live Bacteria: Real Time Analysis by Raman Spectroscopy. J Phys Chem B 2018; 122:6377-6385. [PMID: 29792435 DOI: 10.1021/acs.jpcb.8b03279] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Raman difference spectroscopy is shown to provide a wealth of molecular detail on changes within bacterial cells caused by infusion of antibiotics or hydrogen peroxide. Escherichia coli strains paired with chloramphenicol, dihydrofolate reductase propargyl-based inhibitors, meropenem, or hydrogen peroxide provide details of the depletion of protein and nucleic acid populations in real time. Additionally, other reproducible Raman features appear and are attributed to changes in cell metabolite populations. An initial candidate for one of the metabolites involves population increases of citrate, an intermediate within the tricarboxyclic acid cycle. This is supported by the observation that a strain of E. coli without the ability to synthesize citrate, gltA, lacks an intense feature in the Raman difference spectrum that has been ascribed to citrate. The methodology for obtaining the Raman data involves infusing the drug into live cells, then washing, freezing, and finally lyophilizing the cells. The freeze-dried cells are then examined under a Raman microscope. The difference spectra [cells treated with drug] - [cells without treatment] are time-dependent and can yield population kinetics for intracellular species in vivo. There is a strong resemblance between the Raman difference spectra of E. coli cells treated with meropenem and those treated with hydrogen peroxide.
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Affiliation(s)
- Paul R Carey
- Department of Biochemistry , Case Western Reserve University School of Medicine , 10900 Euclid Avenue , Cleveland Ohio 44106 , United States
| | - Grant R Whitmer
- Department of Biochemistry , Case Western Reserve University School of Medicine , 10900 Euclid Avenue , Cleveland Ohio 44106 , United States
| | - Michael J Yoon
- Department of Biochemistry , Case Western Reserve University School of Medicine , 10900 Euclid Avenue , Cleveland Ohio 44106 , United States
| | - Michael N Lombardo
- Department of Pharmaceutical Sciences , University of Connecticut , 69 North Eagleville Road , Storrs Connecticut 06269 , United States
| | - Marianne Pusztai-Carey
- Department of Biochemistry , Case Western Reserve University School of Medicine , 10900 Euclid Avenue , Cleveland Ohio 44106 , United States
| | - Hossein Heidari-Torkabadi
- Department of Biochemistry , Case Western Reserve University School of Medicine , 10900 Euclid Avenue , Cleveland Ohio 44106 , United States
| | - Tao Che
- Department of Biochemistry , Case Western Reserve University School of Medicine , 10900 Euclid Avenue , Cleveland Ohio 44106 , United States
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35
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Gao L, Zhao H, Li T, Huo P, Chen D, Liu B. Atomic Force Microscopy Based Tip-Enhanced Raman Spectroscopy in Biology. Int J Mol Sci 2018; 19:E1193. [PMID: 29652860 PMCID: PMC5979470 DOI: 10.3390/ijms19041193] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2018] [Revised: 04/09/2018] [Accepted: 04/10/2018] [Indexed: 12/15/2022] Open
Abstract
Most biological phenomena occur at the nanometer scale, which is not accessible by the conventional optical techniques because of the optical diffraction limitation. Tip-enhanced Raman spectroscopy (TERS), one of the burgeoning probing techniques, not only can provide the topography characterization with high resolution, but also can deliver the chemical or molecular information of a sample beyond the optical diffraction limitation. Therefore, it has been widely used in various structural analyses pertaining to materials science, tissue engineering, biological processes and so on. Based on the different feedback mechanisms, TERS can be classified into three types: atomic force microscopy based TERS system (AFM-TERS), scanning tunneling microscopy based TERS system (STM-TERS) and shear force microscopy based TERS system (SFM-TERS). Among them, AFM-TERS is the most widely adopted feedback system by live biosamples because it can work in liquid and this allows the investigation of biological molecules under native conditions. In this review, we mainly focus on the applications of AFM-TERS in three biological systems: nucleic acids, proteins and pathogens. From the TERS characterization to the data analysis, this review demonstrates that AFM-TERS has great potential applications to visually characterizing the biomolecular structure and crucially detecting more nano-chemical information of biological systems.
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Affiliation(s)
- Lizhen Gao
- Institute of Photo-biophysics, School of Physics and Electronics, Henan University, Kaifeng 475004, China.
| | - Huiling Zhao
- Institute of Photo-biophysics, School of Physics and Electronics, Henan University, Kaifeng 475004, China.
| | - Tianfeng Li
- Institute of Photo-biophysics, School of Physics and Electronics, Henan University, Kaifeng 475004, China.
| | - Peipei Huo
- Laboratory of Functional Molecules and Materials, School of Physics and Optoelectronic Engineering, Shandong University of Technology, Xincun West Road 266, Zibo 255000, China.
| | - Dong Chen
- Institute of Photo-biophysics, School of Physics and Electronics, Henan University, Kaifeng 475004, China.
| | - Bo Liu
- Institute of Photo-biophysics, School of Physics and Electronics, Henan University, Kaifeng 475004, China.
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36
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Kirchhoff J, Glaser U, Bohnert JA, Pletz MW, Popp J, Neugebauer U. Simple Ciprofloxacin Resistance Test and Determination of Minimal Inhibitory Concentration within 2 h Using Raman Spectroscopy. Anal Chem 2018; 90:1811-1818. [DOI: 10.1021/acs.analchem.7b03800] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | - Uwe Glaser
- Leibniz Institute of Photonic Technology, Jena, Germany
| | - Jürgen A. Bohnert
- Friedrich
Loeffler Institute of Medical Microbiology, Greifswald University Hospital, Greifswald, Germany
| | | | - Jürgen Popp
- Leibniz Institute of Photonic Technology, Jena, Germany
- Institute
of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University Jena, Jena, Germany
- Research Campus InfectoGnostics Jena, Jena, Germany
| | - Ute Neugebauer
- Leibniz Institute of Photonic Technology, Jena, Germany
- Institute
of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University Jena, Jena, Germany
- Research Campus InfectoGnostics Jena, Jena, Germany
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37
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Boschetto F, Toyama N, Horiguchi S, Bock RM, McEntire BJ, Adachi T, Marin E, Zhu W, Mazda O, Bal BS, Pezzotti G. In vitroantibacterial activity of oxide and non-oxide bioceramics for arthroplastic devices: II. Fourier transform infrared spectroscopy. Analyst 2018; 143:2128-2140. [DOI: 10.1039/c8an00234g] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The metabolic response of Gram-positiveStaphylococcus epidermidisbacteria to bioceramic substrates was probed by Fourier transform infrared spectroscopy.
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Affiliation(s)
- Francesco Boschetto
- Ceramic Physics Laboratory
- Kyoto Institute of Technology
- Kyoto
- Japan
- Department of Immunology
| | - Nami Toyama
- Ceramic Physics Laboratory
- Kyoto Institute of Technology
- Kyoto
- Japan
| | - Satoshi Horiguchi
- Department of Dental Medicine
- Graduate School of Medical Science
- Kyoto Prefectural University of Medicine
- Kyoto 602-8566
- Japan
| | | | | | - Tetsuya Adachi
- Department of Dental Medicine
- Graduate School of Medical Science
- Kyoto Prefectural University of Medicine
- Kyoto 602-8566
- Japan
| | - Elia Marin
- Ceramic Physics Laboratory
- Kyoto Institute of Technology
- Kyoto
- Japan
- Department of Dental Medicine
| | - Wenliang Zhu
- Ceramic Physics Laboratory
- Kyoto Institute of Technology
- Kyoto
- Japan
| | - Osam Mazda
- Department of Immunology
- Kyoto Prefectural University of Medicine
- Kyoto 602-8566
- Japan
| | - B. Sonny Bal
- Amedica Corporation
- Salt Lake City
- USA
- Department of Orthopaedic Surgery
- University of Missouri
| | - Giuseppe Pezzotti
- Ceramic Physics Laboratory
- Kyoto Institute of Technology
- Kyoto
- Japan
- Department of Immunology
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38
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Bonhommeau S, Lecomte S. Tip-Enhanced Raman Spectroscopy: A Tool for Nanoscale Chemical and Structural Characterization of Biomolecules. Chemphyschem 2017; 19:8-18. [DOI: 10.1002/cphc.201701067] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2017] [Revised: 11/04/2017] [Indexed: 11/06/2022]
Affiliation(s)
- Sébastien Bonhommeau
- University of Bordeaux; Institut des Sciences Moléculaires; CNRS UMR 5255; 351 cours de la Libération 33405 Talence cedex France
| | - Sophie Lecomte
- University of Bordeaux; Institut de Chimie et Biologie des Membranes et des Nano-objets; CNRS UMR 5248; Allée Geoffroy Saint Hilaire 33600 Pessac France
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39
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Schröder UC, Kirchhoff J, Hübner U, Mayer G, Glaser U, Henkel T, Pfister W, Fritzsche W, Popp J, Neugebauer U. On-chip spectroscopic assessment of microbial susceptibility to antibiotics within 3.5 hours. JOURNAL OF BIOPHOTONICS 2017; 10:1547-1557. [PMID: 28464521 DOI: 10.1002/jbio.201600316] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2016] [Revised: 03/06/2017] [Accepted: 03/07/2017] [Indexed: 06/07/2023]
Abstract
In times of rising antibiotic resistances, there is a high need for fast, sensitive and specific methods to determine antibiotic susceptibilities of bacterial pathogens. Here, we present an integrated microfluidic device in which bacteria from diluted suspensions are captured in well-defined regions using on-chip dielectrophoresis and further analyzed in a label-free and non-destructive manner using Raman spectroscopy. Minimal sample preparation and automated sample processing ensure safe handling of infectious material with minimal hands-on time for the operator. Clinical applicability of the presented device is demonstrated by antibiotic susceptibility testing of Escherichia coli towards the commonly prescribed second generation fluoroquinolone ciprofloxacin. Ciprofloxacin resistant E. coli were differentiated from sensitive E. coli with high accuracy within roughly three hours total analysis time paving the way for future point-of-care devices. Spectral changes leading to the discrimination between sensitive and resistant bacteria are in excellent agreement with expected metabolic changes in the bacteria due to the mode of action of the drug. The robustness of the method was confirmed with experiments involving different chip devices with different designs, both electrode as well as microfluidics design, and material. Furthermore, general applicability was demonstrated with different operators over an extended time period of half a year.
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Affiliation(s)
- Ulrich-Christian Schröder
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
- Center for Sepsis Control and Care (CSCC), Jena University Hospital, Jena, Germany
| | - Johanna Kirchhoff
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
- Center for Sepsis Control and Care (CSCC), Jena University Hospital, Jena, Germany
| | - Uwe Hübner
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
| | - Günter Mayer
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
| | - Uwe Glaser
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
- Center for Sepsis Control and Care (CSCC), Jena University Hospital, Jena, Germany
| | - Thomas Henkel
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
| | - Wolfgang Pfister
- Institute of Medical Microbiology, Jena University Hospital, Jena, Germany
| | | | - Jürgen Popp
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
- Center for Sepsis Control and Care (CSCC), Jena University Hospital, Jena, Germany
- Institute of Physical Chemistry and Abbe Center of Photonics, University Jena, Jena, Germany
- InfectoGnostics Forschungscampus Jena e.V., Zentrum für Angewandte Forschung, Jena, Germany
| | - Ute Neugebauer
- Leibniz Institute of Photonic Technology (IPHT), Jena, Germany
- Center for Sepsis Control and Care (CSCC), Jena University Hospital, Jena, Germany
- Institute of Medical Microbiology, Jena University Hospital, Jena, Germany
- InfectoGnostics Forschungscampus Jena e.V., Zentrum für Angewandte Forschung, Jena, Germany
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40
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Syed A, Smith EA. Raman Imaging in Cell Membranes, Lipid-Rich Organelles, and Lipid Bilayers. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2017; 10:271-291. [PMID: 28301746 DOI: 10.1146/annurev-anchem-061516-045317] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]
Abstract
Raman-based optical imaging is a promising analytical tool for noninvasive, label-free chemical imaging of lipid bilayers and cellular membranes. Imaging using spontaneous Raman scattering suffers from a low intensity that hinders its use in some cellular applications. However, developments in coherent Raman imaging, surface-enhanced Raman imaging, and tip-enhanced Raman imaging have enabled video-rate imaging, excellent detection limits, and nanometer spatial resolution, respectively. After a brief introduction to these commonly used Raman imaging techniques for cell membrane studies, this review discusses selected applications of these modalities for chemical imaging of membrane proteins and lipids. Finally, recent developments in chemical tags for Raman imaging and their applications in the analysis of selected cell membrane components are summarized. Ongoing developments toward improving the temporal and spatial resolution of Raman imaging and small-molecule tags with strong Raman scattering cross sections continue to expand the utility of Raman imaging for diverse cell membrane studies.
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Affiliation(s)
- Aleem Syed
- Department of Chemistry, Iowa State University, Ames, Iowa 50011; ,
- Ames Laboratory, US Department of Energy, Ames, Iowa 50011
| | - Emily A Smith
- Department of Chemistry, Iowa State University, Ames, Iowa 50011; ,
- Ames Laboratory, US Department of Energy, Ames, Iowa 50011
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41
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Han Q, Song X, Zhang Z, Fu J, Wang X, Malakar PK, Liu H, Pan Y, Zhao Y. Removal of Foodborne Pathogen Biofilms by Acidic Electrolyzed Water. Front Microbiol 2017. [PMID: 28638370 PMCID: PMC5461821 DOI: 10.3389/fmicb.2017.00988] [Citation(s) in RCA: 61] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
Abstract
Biofilms, which are complex microbial communities embedded in the protective extracellular polymeric substances (EPS), are difficult to remove in food production facilities. In this study, the use of acidic electrolyzed water (AEW) to remove foodborne pathogen biofilms was evaluated. We used a green fluorescent protein-tagged Escherichia coli for monitoring the efficiency of AEW for removing biofilms, where under the optimal treatment conditions, the fluorescent signal of cells in the biofilm disappeared rapidly and the population of biofilm cells was reduced by more than 67%. Additionally, AEW triggered EPS disruption, as indicated by the deformation of the carbohydrate C-O-C bond and deformation of the aromatic rings in the amino acids tyrosine and phenylalanine. These deformations were identified by EPS chemical analysis and Raman spectroscopic analysis. Scanning electron microscopy (SEM) images confirmed that the breakup and detachment of biofilm were enhanced after AEW treatment. Further, AEW also eradicated biofilms formed by both Gram-negative bacteria (Vibrio parahaemolyticus) and Gram-positive bacteria (Listeria monocytogenes) and was observed to inactivate the detached cells which are a potential source of secondary pollution. This study demonstrates that AEW could be a reliable foodborne pathogen biofilm disrupter and an eco-friendly alternative to sanitizers traditionally used in the food industry.
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Affiliation(s)
- Qiao Han
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China
| | - Xueying Song
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China
| | - Zhaohuan Zhang
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China
| | - Jiaojiao Fu
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China
| | - Xu Wang
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China
| | - Pradeep K Malakar
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China
| | - Haiquan Liu
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China.,Laboratory of Quality and Safety Risk Assessment for Aquatic Products on Storage and Preservation, Ministry of AgricultureShanghai, China.,Shanghai Engineering Research Center of Aquatic-Product Processing and PreservationShanghai, China.,Engineering Research Center of Food Thermal-processing Technology, Shanghai Ocean UniversityShanghai, China
| | - Yingjie Pan
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China.,Laboratory of Quality and Safety Risk Assessment for Aquatic Products on Storage and Preservation, Ministry of AgricultureShanghai, China.,Shanghai Engineering Research Center of Aquatic-Product Processing and PreservationShanghai, China
| | - Yong Zhao
- College of Food Science and Technology, Shanghai Ocean UniversityShanghai, China.,Laboratory of Quality and Safety Risk Assessment for Aquatic Products on Storage and Preservation, Ministry of AgricultureShanghai, China.,Shanghai Engineering Research Center of Aquatic-Product Processing and PreservationShanghai, China
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42
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Keleştemur S, Çulha M. Understanding and Discrimination of Biofilms of Clinically Relevant Microorganisms Using Surface-Enhanced Raman Scattering. APPLIED SPECTROSCOPY 2017; 71:1180-1188. [PMID: 27708179 DOI: 10.1177/0003702816670916] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Biofilm formation is a defense mechanism for microorganisms to survive under both natural and stress conditions. Clinically relevant microorganisms threaten patient health through biofilm formation on medical devices and implants. It is very important to identify biofilm formation in order to suppress their pathogenic activities in early stages. With the aim for better understanding biofilm formation and possibility of detection, in this study, biofilm formation of clinically important microorganisms, Pseudomonas aeruginosa, Staphylococcus epidermidis, and Candida albicans are monitored with surface-enhanced Raman scattering (SERS). The SERS spectra were collected by mapping a dried droplet area where a volume of colloidal silver nanoparticle (AgNP) suspension is placed on microorganism culture plate. The spectral changes on the SERS spectra with increasing incubation time of the model microorganisms from 4 to 120 h are monitored. The unique spectra originating from the biofilms of three pathogenic microorganisms and the spectral changes as a result of time-dependent concentration fluctuations of biomolecular species in their biofilms including carbohydrates, lipids, proteins, and genetic materials allow not only identification but also discrimination of biofilms using principal component analysis.
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Affiliation(s)
- Seda Keleştemur
- Department of Genetics and Bioengineering, Faculty of Engineering, Yeditepe University, Atasehir, Istanbul, Turkey
| | - Mustafa Çulha
- Department of Genetics and Bioengineering, Faculty of Engineering, Yeditepe University, Atasehir, Istanbul, Turkey
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43
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Raman microspectroscopy, surface-enhanced Raman scattering microspectroscopy, and stable-isotope Raman microspectroscopy for biofilm characterization. Anal Bioanal Chem 2017; 409:4353-4375. [DOI: 10.1007/s00216-017-0303-0] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2016] [Revised: 01/31/2017] [Accepted: 03/08/2017] [Indexed: 12/27/2022]
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44
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Kawata S, Ichimura T, Taguchi A, Kumamoto Y. Nano-Raman Scattering Microscopy: Resolution and Enhancement. Chem Rev 2017; 117:4983-5001. [PMID: 28337915 DOI: 10.1021/acs.chemrev.6b00560] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Raman scattering microscopy is becoming one of the hot topics in analytical microscopy as a tool for analyzing advanced nanomaterials, such as biomolecules in a live cell for the study of cellular dynamics, semiconductor devices for characterizing strain distribution and contamination, and nanocarbons and nano-2D materials. In this paper, we review the recent progress in the development of Raman scattering microscopy from the viewpoint of spatial resolution and scattering efficiency. To overcome the extremely small cross section of Raman scattering, we discuss three approaches for the enhancement of scattering efficiency and show that the scattering enhancement synergistically increases the spatial resolution. We discuss the mechanisms of tip-enhanced Raman scattering, deep-UV resonant Raman scattering, and coherent nonlinear Raman scattering for micro- and nanoscope applications. The combinations of these three approaches are also shown as nanometer-resolution Raman scattering microscopy. The critical issues of the structures, materials, and reproducibility of tips and three-dimensionality for TERS; photodegradation for resonant Raman scattering; and laser availability for coherent nonlinear Raman scattering are also discussed.
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Affiliation(s)
- Satoshi Kawata
- Department of Applied Physics, Osaka University , Osaka 565-0871, Japan
| | - Taro Ichimura
- Quantitative Biology Center, RIKEN , Osaka 565-0874, Japan
| | - Atsushi Taguchi
- Department of Applied Physics, Osaka University , Osaka 565-0871, Japan
| | - Yasuaki Kumamoto
- Department of Pathology and Cell Regulation, Kyoto Prefectural University of Medicine , Kyoto 602-8566, Japan
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45
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Abstract
Bacterial sensing is important for understanding the numerous roles bacteria play in nature and in technology, understanding and managing bacterial populations, detecting pathogenic bacterial infections, and preventing the outbreak of illness. Current analytical challenges in bacterial sensing center on the dilemma of rapidly acquiring quantitative information about bacteria with high detection efficiency, sensitivity, and specificity, while operating within a reasonable budget and optimizing the use of ancillary tools, such as multivariate statistics. This review starts from a general description of bacterial sensing methods and challenges, and then focuses on bacterial characterization using optical methods including Raman spectroscopy and imaging, infrared spectroscopy, fluorescence spectroscopy and imaging, and plasmonics, including both extended and localized surface plasmon resonance spectroscopy. The advantages and drawbacks of each method in relation to the others are discussed, as are their applications. A particularly promising direction in bacterial sensing lies in combining multiple approaches to achieve multiplex analysis, and examples where this has been achieved are highlighted.
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Affiliation(s)
- Jiayun Hu
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, IN 46556, USA
| | - Paul W Bohn
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, IN 46556, USA.,Department of Chemical and Biomolecular Engineering, University of Notre Dame, Notre Dame, IN 46556, USA
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46
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Kogermann K, Putrinš M, Tenson T. Single-cell level methods for studying the effect of antibiotics on bacteria during infection. Eur J Pharm Sci 2016; 95:2-16. [PMID: 27577009 DOI: 10.1016/j.ejps.2016.08.042] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2016] [Revised: 08/17/2016] [Accepted: 08/23/2016] [Indexed: 12/11/2022]
Abstract
Considerable evidence about phenotypic heterogeneity among bacteria during infection has accumulated during recent years. This heterogeneity has to be considered if the mechanisms of infection and antibiotic action are to be understood, so we need to implement existing and find novel methods to monitor the effects of antibiotics on bacteria at the single-cell level. This review provides an overview of methods by which this aim can be achieved. Fluorescence label-based methods and Raman scattering as a label-free approach are discussed in particular detail. Other label-free methods that can provide single-cell level information, such as impedance spectroscopy and surface plasmon resonance, are briefly summarized. The advantages and disadvantages of these different methods are discussed in light of a challenging in vivo environment.
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Affiliation(s)
- Karin Kogermann
- Institute of Pharmacy, University of Tartu, Nooruse 1, 50411 Tartu, Estonia.
| | - Marta Putrinš
- Institute of Technology, University of Tartu, Nooruse 1, 50411 Tartu, Estonia.
| | - Tanel Tenson
- Institute of Technology, University of Tartu, Nooruse 1, 50411 Tartu, Estonia.
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47
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Haisch C. Raman-based microarray readout: a review. Anal Bioanal Chem 2016; 408:4535-45. [PMID: 26973235 DOI: 10.1007/s00216-016-9444-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2015] [Revised: 02/16/2016] [Accepted: 02/23/2016] [Indexed: 11/26/2022]
Abstract
For a quarter of a century, microarrays have been part of the routine analytical toolbox. Label-based fluorescence detection is still the commonest optical readout strategy. Since the 1990s, a continuously increasing number of label-based as well as label-free experiments on Raman-based microarray readout concepts have been reported. This review summarizes the possible concepts and methods and their advantages and challenges. A common label-based strategy is based on the binding of selective receptors as well as Raman reporter molecules to plasmonic nanoparticles in a sandwich immunoassay, which results in surface-enhanced Raman scattering signals of the reporter molecule. Alternatively, capture of the analytes can be performed by receptors on a microarray surface. Addition of plasmonic nanoparticles again leads to a surface-enhanced Raman scattering signal, not of a label but directly of the analyte. This approach is mostly proposed for bacteria and cell detection. However, although many promising readout strategies have been discussed in numerous publications, rarely have any of them made the step from proof of concept to a practical application, let alone routine use. Graphical Abstract Possible realization of a SERS (Surface-Enhanced Raman Scattering) system for microarray readout.
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Affiliation(s)
- Christoph Haisch
- Technische Universität München, Marchioninistrasse 17, 81377, Munich, Germany.
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48
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Cowcher DP, Deckert-Gaudig T, Brewster VL, Ashton L, Deckert V, Goodacre R. Detection of Protein Glycosylation Using Tip-Enhanced Raman Scattering. Anal Chem 2016; 88:2105-12. [DOI: 10.1021/acs.analchem.5b03535] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- David P. Cowcher
- School
of Chemistry and Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, U.K
| | - Tanja Deckert-Gaudig
- Leibniz-Institute of Photonic Technology−IPHT, Albert-Einstein-Strasse 9, 07745 Jena, Germany
| | - Victoria L. Brewster
- School
of Chemistry and Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, U.K
| | - Lorna Ashton
- School
of Chemistry and Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, U.K
- Department
of Chemistry, Faraday Building, Lancaster University, Lancaster, LA1 4YB, U.K
| | - Volker Deckert
- Leibniz-Institute of Photonic Technology−IPHT, Albert-Einstein-Strasse 9, 07745 Jena, Germany
- Institut
für Physikalische Chemie and Abbe Center of Photonics, Friedrich-Schiller Universität, Helmholtzweg 4, 07743 Jena, Germany
| | - Royston Goodacre
- School
of Chemistry and Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, U.K
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49
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Temenouga V, Charitidis T, Avgidou M, Karayannakidis P, Dimopoulou M, Kalogianni E, Panayiotou C, Ritzoulis C. Novel emulsifiers as products from internal Maillard reactions in okra hydrocolloid mucilage. Food Hydrocoll 2016. [DOI: 10.1016/j.foodhyd.2015.08.026] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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50
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Langelüddecke L, Singh P, Deckert V. Exploring the Nanoscale: Fifteen Years of Tip-Enhanced Raman Spectroscopy. APPLIED SPECTROSCOPY 2015; 69:1357-71. [PMID: 26554759 DOI: 10.1366/15-08014] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
Spectroscopic methods with high spatial resolution are essential to understand the physical and chemical properties of nanoscale materials including biological and chemical materials. Tip-enhanced Raman spectroscopy (TERS) is a combination of surface-enhanced Raman spectroscopy (SERS) and scanning probe microscopy (SPM), which can provide high-resolution topographic and spectral information simultaneously below the diffraction limit of light. Even examples of sub-nanometer resolution have been demonstrated. This review intends to give an introduction to TERS, focusing on its basic principle and the experimental setup, the strengths followed by recent applications, developments, and perspectives in this field.
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Affiliation(s)
- Lucas Langelüddecke
- Institute of Physical Chemistry and Abbe Center of Photonics, University of Jena, Helmholtzweg 4, D-07743 Jena, Germany
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