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Düzel A, Bora B, Özgen GÖ, Evran S. Selection of DNA aptamers for the aptamer-assisted magnetic capture of the purified xylanase from Aspergillus niger. Int J Biol Macromol 2024; 257:128540. [PMID: 38061523 DOI: 10.1016/j.ijbiomac.2023.128540] [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: 08/02/2023] [Revised: 11/12/2023] [Accepted: 11/30/2023] [Indexed: 01/26/2024]
Abstract
Xylanases are a group of enzymes that catalyze the hydrolysis of xylan. Xylanases have wide industrial applications, and they can produced by various organisms. In this study, we aimed to develop aptamers for the capture of xylanase produced by a wild-type Aspergillus niger strain. Xylanase was produced by Aspergillus niger in a 5-liter stirred-tank bioreactor and then purified by column chromatography. Magnetic bead-based SELEX (Systematic Evolution of Ligands by Exponential Enrichment) was performed to select DNA aptamers specific to the purified xylanase. After nine rounds of selection, next-generation sequencing (NGS) analysis was performed. Four aptamers, namely AXYL-1, AXYL-2, AXYL-3, and AXYL-4, were identified for further characterization. The binding properties of the selected aptamers were characterized by fluorescence quenching (FQ) analysis and an enzyme-linked aptamer assay (ELAA). The Kd values were found to be in the low μM range. Then, each aptamer was immobilized on streptavidin-coated magnetic particles, and the recovery ratio of xylanase was determined. Although AXYL-1 wasn't effective, AXYL-2, AXYL-3, and AXYL-4 were proven to capture the xylanase. The maximum recovery rate of xylanase was found to be approximately 54 %.
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Affiliation(s)
- Ahmet Düzel
- Department of Bioengineering, Faculty of Engineering and Architecture, Sinop University, 57000 Sinop, Türkiye.
| | - Burhan Bora
- Department of Biochemistry, Faculty of Science, Ege University, 35100 İzmir, Türkiye
| | - Gaye Öngen Özgen
- Department of Bioengineering, Faculty of Engineering, Ege University, 35100 İzmir, Türkiye
| | - Serap Evran
- Department of Biochemistry, Faculty of Science, Ege University, 35100 İzmir, Türkiye
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2
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Le TD, Suttikhana I, Ashaolu TJ. State of the art on the separation and purification of proteins by magnetic nanoparticles. J Nanobiotechnology 2023; 21:363. [PMID: 37794459 PMCID: PMC10548632 DOI: 10.1186/s12951-023-02123-7] [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: 04/15/2023] [Accepted: 09/21/2023] [Indexed: 10/06/2023] Open
Abstract
The need for excellent, affordable, rapid, reusable and biocompatible protein purification techniques is justified based on the roles of proteins as key biomacromolecules. Magnetic nanomaterials nowadays have become the subject of discussion in proteomics, drug delivery, and gene sensing due to their various abilities including rapid separation, superparamagnetism, and biocompatibility. These nanomaterials also referred to as magnetic nanoparticles (MNPs) serve as excellent options for traditional protein separation and analytical methods because they have a larger surface area per volume. From ionic metals to carbon-based materials, MNPs are easily functionalized by modifying their surface to precisely recognize and bind proteins. This review excavates state-of-the-art MNPs and their functionalizing agents, as efficient protein separation and purification techniques, including ionic metals, polymers, biomolecules, antibodies, and graphene. The MNPs could be reused and efficaciously manipulated with these nanomaterials leading to highly improved efficiency, adsorption, desorption, and purity rate. We also discuss the binding and selectivity parameters of the MNPs, as well as their future outlook. It is concluded that parameters like charge, size, core-shell, lipophilicity, lipophobicity, and surface energy of the MNPs are crucial when considering protein selectivity, chelation, separation, and purity.
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Affiliation(s)
- Thanh-Do Le
- Institute for Global Health Innovations, Faculty of Medicine, Duy Tan University, Da Nang, 550000, Vietnam
| | - Itthanan Suttikhana
- Department of Multifunctional Agriculture, Faculty of Agriculture and Technology, University of South Bohemia, České Budějovice, Czech Republic
| | - Tolulope Joshua Ashaolu
- Institute for Global Health Innovations, Faculty of Medicine, Duy Tan University, Da Nang, 550000, Vietnam.
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3
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Almeida C, Pedro AQ, Tavares APM, Neves MC, Freire MG. Ionic-liquid-based approaches to improve biopharmaceuticals downstream processing and formulation. Front Bioeng Biotechnol 2023; 11:1037436. [PMID: 36824351 PMCID: PMC9941158 DOI: 10.3389/fbioe.2023.1037436] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 01/23/2023] [Indexed: 02/10/2023] Open
Abstract
The emergence of biopharmaceuticals, including proteins, nucleic acids, peptides, and vaccines, revolutionized the medical field, contributing to significant advances in the prophylaxis and treatment of chronic and life-threatening diseases. However, biopharmaceuticals manufacturing involves a set of complex upstream and downstream processes, which considerably impact their cost. In particular, despite the efforts made in the last decades to improve the existing technologies, downstream processing still accounts for more than 80% of the total biopharmaceutical production cost. On the other hand, the formulation of biological products must ensure they maintain their therapeutic performance and long-term stability, while preserving their physical and chemical structure. Ionic-liquid (IL)-based approaches arose as a promise alternative, showing the potential to be used in downstream processing to provide increased purity and recovery yield, as well as excipients for the development of stable biopharmaceutical formulations. This manuscript reviews the most important progress achieved in both fields. The work developed is critically discussed and complemented with a SWOT analysis.
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Affiliation(s)
- Catarina Almeida
- CICECO-Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, Aveiro, Portugal
| | - Augusto Q. Pedro
- CICECO-Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, Aveiro, Portugal
| | - Ana P. M. Tavares
- CICECO-Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, Aveiro, Portugal
| | - Márcia C. Neves
- CICECO-Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, Aveiro, Portugal
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4
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Farsani AM, Rahimi F, Taebnia N, Salimi M, Arpanaei A. Tailored design and preparation of magnetic nanocomposite particles for the isolation of exosomes. NANOTECHNOLOGY 2023; 34:155603. [PMID: 36638529 DOI: 10.1088/1361-6528/acb2d2] [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: 10/27/2022] [Accepted: 01/10/2023] [Indexed: 06/17/2023]
Abstract
Here, we prepared a magnetic nanocomposite system composed of a cluster of magnetite nanoparticles coated with silica shell (MSNPs) with an average diameter of 140 ± 20 nm and conjugated with CD9 antibody (AntiCD9) using different strategies including adsorption or chemical conjugation of antibody molecules to either aminated MSNPs (AMSNPs) or carboxylated MSNPs (CMSNPs). Then, MSNPs were employed to isolate exosomes from ultracentrifuge-enriched solution, PC3 cell-culture medium, or exosome-spiked simulated plasma samples. Quantitative tests using nanoparticle-tracking analysis confirmed antibody-covalently conjugated MSNPs, i.e. the AntiCD9-AMSNPs and AntiCD9-CMSNPs enabled >90% recovery of exosomes. Additionally, the exosomes isolated with AntiCD9-CMSNPs showed higher recovery efficiency compared to the AntiCD9-AMSNPs. For both nanoadsorbents, lower protein impurities amounts were obtained as compared to that of exosomes isolated by ultracentrifugation and Exocib kit. The mean diameter assessment of the isolated exosomes indicates that particles isolated by using AntiCD9-AMSNPs and AntiCD9-CMSNPs have smaller sizes (136 ± 2.64 nm and 113 ± 11.53 nm, respectively) than those obtained by UC-enriched exosomes (140.9 ± 1.6 nm) and Exocib kit (167 ± 10.53 nm). Such promising results obtained in the isolation of exosomes recommend magnetic nanocomposite as an efficient tool for the simple and fast isolation of exosomes for diagnosis applications.
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Affiliation(s)
- Arezoo Mohammadian Farsani
- Department of Industrial and Environmental Biotechnology, National Institute of Genetic Engineering and Biotechnology (NIGEB), PO Box: 14965/161, Tehran, Iran
| | - Fatemeh Rahimi
- Department of Industrial and Environmental Biotechnology, National Institute of Genetic Engineering and Biotechnology (NIGEB), PO Box: 14965/161, Tehran, Iran
| | - Nayere Taebnia
- Department of Physiology and Pharmacology, Karolinska Institute, SE171 77 Stockholm, Sweden
| | - Mahdieh Salimi
- Department of Medical Genetics, Institute of Medical Biotechnology, National Institute of Genetic Engineering and Biotechnology (NIGEB), PO Box: 14965/161, Tehran, Iran
| | - Ayyoob Arpanaei
- Department of Industrial and Environmental Biotechnology, National Institute of Genetic Engineering and Biotechnology (NIGEB), PO Box: 14965/161, Tehran, Iran
- Scion, Private Bag 3020, Rotorua 3046, New Zealand
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5
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Holohan C, Feely N, Li P, Curran G, Lee GU. Role of detergents and nuclease inhibitors in the extraction of RNA from eukaryotic cells in complex matrices. NANOSCALE 2022; 14:12153-12161. [PMID: 35968721 DOI: 10.1039/d2nr02850f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
The potential for liquid biopsy samples to be used in place of more invasive tissue biopsies has become increasingly revalent as it has been found that nucleic acids (NAs) present in the blood of cancer patients originate from tumors. Nanomagnetic extraction has proven to be a highly effective means to rapidly prepare NA from clinical samples for molecular diagnostics. In this article, the lysis reaction used to extract RNA from the human epithelial melanoma cells have been optimized using silica coated superparamagnetic nanoparticles (SPM NP). The lysis buffer (LB) is composed of several agents that denature cells, i.e., surfactant and guanidinium isothiocyanate (GITC), and agents that inhibit the degradation of circulated nucleic acids (cfNAs). The surfactant Triton X-100 has been widely used in LB but has been placed on the European Union REACH list. We have compared the qRT-PCR sensitivity resulting from LBs composed of Triton X-100 to several sustainable surfactants, i.e., Tergitol 15-S-7, Tergitol 15-S-9 and Tween-20. Surprisingly, the inclusion of these surfactants in the LB was not found to significantly improve cell lysis, and subsequently the sensitivity of qRT-PCR. The role of the sample matrix was also examined by performing extractions from solutions containing up to 30 mg mL-1 serum albumin. The qRT-PCR sensitivity was found to decrease as the concentration of this protein was increased; however, this was linked to an increased RNase activity and not the concentration of the protein itself. These results lead us to recommend a reformulation of LB for clinical samples, and to conclude that sensitive qRT-PCR RNA analysis can be performed in serum with the timely addition of an RNase inhibitor.
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Affiliation(s)
- Cian Holohan
- Conway Institute for Biomedical Research and School of Chemistry, University College Dublin, Ireland.
| | - Nathan Feely
- Conway Institute for Biomedical Research and School of Chemistry, University College Dublin, Ireland.
| | - Peng Li
- Magnostics Ltd, 2 Clifton Lane, Monkstown, Co Dublin, Ireland
| | - Gerard Curran
- Magnostics Ltd, 2 Clifton Lane, Monkstown, Co Dublin, Ireland
| | - Gil U Lee
- Conway Institute for Biomedical Research and School of Chemistry, University College Dublin, Ireland.
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6
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Xue A, Fan S. Matrices and Affinity Ligands for Antibody Purification and Corresponding Applications in Radiotherapy. Biomolecules 2022; 12:biom12060821. [PMID: 35740946 PMCID: PMC9221399 DOI: 10.3390/biom12060821] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Revised: 06/09/2022] [Accepted: 06/10/2022] [Indexed: 02/05/2023] Open
Abstract
Antibodies have become an important class of biological products in cancer treatments such as radiotherapy. The growing therapeutic applications have driven a demand for high-purity antibodies. Affinity chromatography with a high affinity and specificity has always been utilized to separate antibodies from complex mixtures. Quality chromatographic components (matrices and affinity ligands) have either been found or generated to increase the purity and yield of antibodies. More importantly, some matrices (mainly particles) and affinity ligands (including design protocols) for antibody purification can act as radiosensitizers or carriers for therapeutic radionuclides (or for radiosensitizers) either directly or indirectly to improve the therapeutic efficiency of radiotherapy. This paper provides a brief overview on the matrices and ligands used in affinity chromatography that are involved in antibody purification and emphasizes their applications in radiotherapy to enrich potential approaches for improving the efficacy of radiotherapy.
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7
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Sajjad U, Klingbeil F, Block F, Holländer RB, Bhatti S, Lage E, McCord J. Efficient flowless separation of mixed microbead populations on periodic ferromagnetic surface structures. LAB ON A CHIP 2021; 21:3174-3183. [PMID: 34190746 DOI: 10.1039/d1lc00161b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The simultaneous separational control of motion of individual objects is vital to achieve high efficiency separation for biological analytes in biomedical applications. Here, we show the selective and directed movement of different populations of microbeads depending on their size in a flowless environment by means of a hexagonally structured soft-magnetic microchip platform. By adjusting strength and asymmetry of a modulated in-plane magnetic field, discrete and switchable movement patterns of two different types of beads above a magnetic surface structure are achieved. Starting from a heterogeneous mixture of bead populations and depending on the type of field sequences, directional forward transport of one type of beads is achieved, while the other bead population is immobilized. Despite significant size and magnetic content distributions within each population of microbeads, high separation efficiencies are demonstrated. The selection and movement processes are supported by full-scale magnetofluidic numerical simulations. The magnetic platform allowing multidirectional and selective microbead movement can greatly contribute to the progress of functional lab-on-chip and future diagnostics devices.
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Affiliation(s)
- Umer Sajjad
- Institute for Materials Science, Kiel University, Kaiserstraße 2, D-24143 Kiel, Germany.
| | - Finn Klingbeil
- Institute for Materials Science, Kiel University, Kaiserstraße 2, D-24143 Kiel, Germany.
| | - Findan Block
- Institute for Materials Science, Kiel University, Kaiserstraße 2, D-24143 Kiel, Germany.
| | - Rasmus B Holländer
- Institute for Materials Science, Kiel University, Kaiserstraße 2, D-24143 Kiel, Germany.
| | - Shehroz Bhatti
- Institute for Materials Science, Kiel University, Kaiserstraße 2, D-24143 Kiel, Germany.
| | - Enno Lage
- Institute for Materials Science, Kiel University, Kaiserstraße 2, D-24143 Kiel, Germany.
| | - Jeffrey McCord
- Institute for Materials Science, Kiel University, Kaiserstraße 2, D-24143 Kiel, Germany.
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8
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Eivazzadeh-Keihan R, Bahreinizad H, Amiri Z, Aliabadi HAM, Salimi-Bani M, Nakisa A, Davoodi F, Tahmasebi B, Ahmadpour F, Radinekiyan F, Maleki A, Hamblin MR, Mahdavi M, Madanchi H. Functionalized magnetic nanoparticles for the separation and purification of proteins and peptides. Trends Analyt Chem 2021. [DOI: 10.1016/j.trac.2021.116291] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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9
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Iminodiacetic Acid (IDA) Cation-Exchange Nonwoven Membranes for Efficient Capture of Antibodies and Antibody Fragments. MEMBRANES 2021; 11:membranes11070530. [PMID: 34357180 PMCID: PMC8305546 DOI: 10.3390/membranes11070530] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/17/2021] [Revised: 07/08/2021] [Accepted: 07/11/2021] [Indexed: 11/30/2022]
Abstract
There is strong need to reduce the manufacturing costs and increase the downstream purification efficiency of high-value therapeutic monoclonal antibodies (mAbs). This paper explores the performance of a weak cation-exchange membrane based on the coupling of IDA to poly(butylene terephthalate) (PBT) nonwoven fabrics. Uniform and conformal layers of poly(glycidyl methacrylate) (GMA) were first grafted to the surface of the nonwovens. Then IDA was coupled to the polyGMA layers under optimized conditions, resulting in membranes with very high permeability and binding capacity. This resulted in IgG dynamic binding capacities at very short residence times (0.1–2.0 min) that are much higher than those achieved by the best cation-exchange resins. Similar results were obtained in the purification of a single-chain (scFv) antibody fragment. As is customary with membrane systems, the dynamic binding capacities did not change significantly over a wide range of residence times. Finally, the excellent separation efficiency and potential reusability of the membrane were confirmed by five consecutive cycles of mAb capture from its cell culture harvest. The present work provides significant evidence that this weak cation-exchange nonwoven fabric platform might be a suitable alternative to packed resin chromatography for low-cost, higher productivity manufacturing of therapeutic mAbs and antibody fragments.
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10
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Rampini S, Li P, Gandhi D, Mutas M, Ran YF, Carr M, Lee GU. Design of micromagnetic arrays for on-chip separation of superparamagnetic bead aggregates and detection of a model protein and double-stranded DNA analytes. Sci Rep 2021; 11:5302. [PMID: 33674645 PMCID: PMC7935980 DOI: 10.1038/s41598-021-84395-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2020] [Accepted: 02/10/2021] [Indexed: 01/17/2023] Open
Abstract
Magnetically actuated lab-on-a-chip (LOC) technologies have enabled rapid, highly efficient separation of specific biomarkers and cells from complex biological samples. Nonlinear magnetophoresis (NLM) is a technique that uses a microfabricated magnet array (MMA) and a time varying external magnetic field to precisely control the transport of superparamagnetic (SPM) beads on the surface of a chip based on their size and magnetization. We analyze the transport and separation behavior of SPM monomers and dimers on four MMA geometries, i.e., circular, triangular, square and rectangular shaped micromagnets, across a range of external magnetic field rotation frequencies. The measured critical frequency of the SPM beads on an MMA, i.e., the velocity for which the hydrodynamic drag on a bead exceeds the magnetic force, is closely related to the local magnetic flux density landscape on a micromagnet in the presence of an external magnetic field. A set of design criteria has been established for the optimization of MMAs for NLM separation, with particular focus on the shape of the micromagnets forming the array. The square MMA was used to detect a model protein biomarker and gene fragment based on a magnetic bead assembly (MBA) assay. This assay uses ligand functionalized SPM beads to capture and directly detect an analyte through the formation of SPM bead aggregates. These beads aggregates were detected through NLM separation and microscopic analysis resulting in a highly sensitive assay that did not use carrier fluid.
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Affiliation(s)
- Stefano Rampini
- School of Chemistry, University College Dublin, Belfield, Dublin, Ireland
| | - Peng Li
- School of Chemistry, University College Dublin, Belfield, Dublin, Ireland
| | - Dhruv Gandhi
- School of Chemistry, University College Dublin, Belfield, Dublin, Ireland
| | - Marina Mutas
- School of Chemistry, University College Dublin, Belfield, Dublin, Ireland
| | - Ying Fen Ran
- School of Chemistry, University College Dublin, Belfield, Dublin, Ireland
| | - Michael Carr
- National Virus Reference Laboratory, University College Dublin, Belfield, Dublin, Ireland.,Global Institution for Collaborative Research and Education (GI-CoRE), Hokkaido University, Kita-ku, Sapporo, Japan
| | - Gil U Lee
- School of Chemistry, University College Dublin, Belfield, Dublin, Ireland. .,Conway Institute for Biomolecular and Biomedical Research, University College Dublin, Dublin, Ireland.
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11
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Shrivastav AM, Cvelbar U, Abdulhalim I. A comprehensive review on plasmonic-based biosensors used in viral diagnostics. Commun Biol 2021; 4:70. [PMID: 33452375 PMCID: PMC7810758 DOI: 10.1038/s42003-020-01615-8] [Citation(s) in RCA: 122] [Impact Index Per Article: 40.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2020] [Accepted: 12/09/2020] [Indexed: 01/29/2023] Open
Abstract
The proliferation and transmission of viruses has become a threat to worldwide biosecurity, as exemplified by the current COVID-19 pandemic. Early diagnosis of viral infection and disease control have always been critical. Virus detection can be achieved based on various plasmonic phenomena, including propagating surface plasmon resonance (SPR), localized SPR, surface-enhanced Raman scattering, surface-enhanced fluorescence and surface-enhanced infrared absorption spectroscopy. The present review covers all available information on plasmonic-based virus detection, and collected data on these sensors based on several parameters. These data will assist the audience in advancing research and development of a new generation of versatile virus biosensors.
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Affiliation(s)
- Anand M Shrivastav
- Department of Electrooptics and Photonics Engineering, School of Electrical and Computer Engineering, The Ilse-Katz Nanoscale and Technology Center, Ben Gurion University of the Negev, Beer Sheva, 84105, Israel
| | - Uroš Cvelbar
- Jožef Stefan Institute, Jamova cesta 30, SI-1000, Ljubljana, Slovenia.
| | - Ibrahim Abdulhalim
- Department of Electrooptics and Photonics Engineering, School of Electrical and Computer Engineering, The Ilse-Katz Nanoscale and Technology Center, Ben Gurion University of the Negev, Beer Sheva, 84105, Israel.
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12
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Guzman NA, Guzman DE. A Two-Dimensional Affinity Capture and Separation Mini-Platform for the Isolation, Enrichment, and Quantification of Biomarkers and Its Potential Use for Liquid Biopsy. Biomedicines 2020; 8:biomedicines8080255. [PMID: 32751506 PMCID: PMC7459796 DOI: 10.3390/biomedicines8080255] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2020] [Revised: 07/22/2020] [Accepted: 07/26/2020] [Indexed: 02/07/2023] Open
Abstract
Biomarker detection for disease diagnosis, prognosis, and therapeutic response is becoming increasingly reliable and accessible. Particularly, the identification of circulating cell-free chemical and biochemical substances, cellular and subcellular entities, and extracellular vesicles has demonstrated promising applications in understanding the physiologic and pathologic conditions of an individual. Traditionally, tissue biopsy has been the gold standard for the diagnosis of many diseases, especially cancer. More recently, liquid biopsy for biomarker detection has emerged as a non-invasive or minimally invasive and less costly method for diagnosis of both cancerous and non-cancerous diseases, while also offering information on the progression or improvement of disease. Unfortunately, the standardization of analytical methods to isolate and quantify circulating cells and extracellular vesicles, as well as their extracted biochemical constituents, is still cumbersome, time-consuming, and expensive. To address these limitations, we have developed a prototype of a portable, miniaturized instrument that uses immunoaffinity capillary electrophoresis (IACE) to isolate, concentrate, and analyze cell-free biomarkers and/or tissue or cell extracts present in biological fluids. Isolation and concentration of analytes is accomplished through binding to one or more biorecognition affinity ligands immobilized to a solid support, while separation and analysis are achieved by high-resolution capillary electrophoresis (CE) coupled to one or more detectors. When compared to other existing methods, the process of this affinity capture, enrichment, release, and separation of one or a panel of biomarkers can be carried out on-line with the advantages of being rapid, automated, and cost-effective. Additionally, it has the potential to demonstrate high analytical sensitivity, specificity, and selectivity. As the potential of liquid biopsy grows, so too does the demand for technical advances. In this review, we therefore discuss applications and limitations of liquid biopsy and hope to introduce the idea that our affinity capture-separation device could be used as a form of point-of-care (POC) diagnostic technology to isolate, concentrate, and analyze circulating cells, extracellular vesicles, and viruses.
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Affiliation(s)
- Norberto A. Guzman
- Princeton Biochemicals, Inc., Princeton, NJ 08816, USA
- Correspondence: ; Tel.: +1-908-510-5258
| | - Daniel E. Guzman
- Princeton Biochemicals, Inc., Princeton, NJ 08816, USA
- Department of Internal Medicine, University of California at San Francisco, San Francisco, CA 94143, USA; or
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13
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Gandhi D, Li P, Rampini S, Parent C, Lee GU. Optical detection of the magnetophoretic transport of superparamagnetic beads on a micromagnetic array. Sci Rep 2020; 10:12876. [PMID: 32733006 PMCID: PMC7392889 DOI: 10.1038/s41598-020-69757-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2019] [Accepted: 07/13/2020] [Indexed: 11/09/2022] Open
Abstract
Micromagnetic arrays (MMAs) have proven to be powerful tools for controlling the transport and separation of bioanalytes, i.e., they allow bioanalyte-superparamagnetic (SPM) bead complexes of specific size and magnetization to be moved in a synchronized manner that is precisely controlled with the orientation of an external magnetic field. This article presents a laser-photodetector system for the simple detection of individual SPM beads moving on a specific region of an MMA. This system detects the SPM beads through the change in intensity of reflective light as they move from the highly reflective micromagnetics to the supporting substrate. We demonstrate that this opti-MMA system allowed the size, number, and magnetic and optical properties of the SPM beads to be rapidly determined for regions > 49 µm2 in size. The response of the opti-MMA system was characterized in several optical configurations to develop a theoretical description of its sensitivity and dynamic range. The speed, low-cost, and sensitivity of this system promises to allow MMAs to be readily applied in in vitro diagnostics and biosensing.
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Affiliation(s)
- Dhruv Gandhi
- School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Peng Li
- School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland.
| | - Stefano Rampini
- School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Charlotte Parent
- School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Gil U Lee
- School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland.
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14
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Zhang X, Wang Y, Zhong T, Feng X. Optimal spacer arm microenvironment for the immobilization of recombinant Protein A on heterofunctional amino-epoxy agarose supports. Process Biochem 2020. [DOI: 10.1016/j.procbio.2019.11.037] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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15
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Matos MJB, Pina AS, Roque ACA. Rational design of affinity ligands for bioseparation. J Chromatogr A 2020; 1619:460871. [PMID: 32044126 DOI: 10.1016/j.chroma.2020.460871] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2019] [Revised: 01/05/2020] [Accepted: 01/08/2020] [Indexed: 11/25/2022]
Abstract
Affinity adsorbents have been the cornerstone in protein purification. The selective nature of the molecular recognition interactions established between an affinity ligands and its target provide the basis for efficient capture and isolation of proteins. The plethora of affinity adsorbents available in the market reflects the importance of affinity chromatography in the bioseparation industry. Ligand discovery relies on the implementation of rational design techniques, which provides the foundation for the engineering of novel affinity ligands. The main goal for the design of affinity ligands is to discover or improve functionality, such as increased stability or selectivity. However, the methodologies must adapt to the current needs, namely to the number and diversity of biologicals being developed, and the availability of new tools for big data analysis and artificial intelligence. In this review, we offer an overview on the development of affinity ligands for bioseparation, including the evolution of rational design techniques, dating back to the years of early discovery up to the current and future trends in the field.
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Affiliation(s)
- Manuel J B Matos
- UCIBIO, Chemistry Department, School of Sciences and Technology, NOVA University of Lisbon, 2829-516 Caparica, Portugal
| | - Ana S Pina
- UCIBIO, Chemistry Department, School of Sciences and Technology, NOVA University of Lisbon, 2829-516 Caparica, Portugal
| | - A C A Roque
- UCIBIO, Chemistry Department, School of Sciences and Technology, NOVA University of Lisbon, 2829-516 Caparica, Portugal.
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Sánta-Bell E, Molnár Z, Varga A, Nagy F, Hornyánszky G, Paizs C, Balogh-Weiser D, Poppe L. "Fishing and Hunting"-Selective Immobilization of a Recombinant Phenylalanine Ammonia-Lyase from Fermentation Media. Molecules 2019; 24:E4146. [PMID: 31731791 PMCID: PMC6891789 DOI: 10.3390/molecules24224146] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2019] [Revised: 11/12/2019] [Accepted: 11/13/2019] [Indexed: 02/07/2023] Open
Abstract
This article overviews the numerous immobilization methods available for various biocatalysts such as whole-cells, cell fragments, lysates or enzymes which do not require preliminary enzyme purification and introduces an advanced approach avoiding the costly and time consuming downstream processes required by immobilization of purified enzyme-based biocatalysts (such as enzyme purification by chromatographic methods and dialysis). Our approach is based on silica shell coated magnetic nanoparticles as solid carriers decorated with mixed functions having either coordinative binding ability (a metal ion complexed by a chelator anchored to the surface) or covalent bond-forming ability (an epoxide attached to the surface via a proper linker) enabling a single operation enrichment and immobilization of a recombinant phenylalanine ammonia-lyase from parsley fused to a polyhistidine affinity tag.
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Affiliation(s)
- Evelin Sánta-Bell
- Department of Organic Chemistry and Technology, Budapest University of Technology and Economics, 1111 Budapest, Hungary; (E.S.-B.); (Z.M.); (F.N.); (G.H.)
| | - Zsófia Molnár
- Department of Organic Chemistry and Technology, Budapest University of Technology and Economics, 1111 Budapest, Hungary; (E.S.-B.); (Z.M.); (F.N.); (G.H.)
- Fermentia Microbiological Ltd., 1405 Budapest, Hungary
- Institute of Enzymology, Research Center for Natural Sciences, Hungarian Academy of Science, 1117 Budapest, Hungary
| | - Andrea Varga
- Biocatalysis and Biotransformation Research Centre, Faculty of Chemistry and Chemical Engineering, Babeş-Bolyai University of Cluj-Napoca, 400028 Cluj-Napoca, Romania; (A.V.); (C.P.)
| | - Flóra Nagy
- Department of Organic Chemistry and Technology, Budapest University of Technology and Economics, 1111 Budapest, Hungary; (E.S.-B.); (Z.M.); (F.N.); (G.H.)
| | - Gábor Hornyánszky
- Department of Organic Chemistry and Technology, Budapest University of Technology and Economics, 1111 Budapest, Hungary; (E.S.-B.); (Z.M.); (F.N.); (G.H.)
- SynBiocat Ltd., 1172 Budapest, Hungary
| | - Csaba Paizs
- Biocatalysis and Biotransformation Research Centre, Faculty of Chemistry and Chemical Engineering, Babeş-Bolyai University of Cluj-Napoca, 400028 Cluj-Napoca, Romania; (A.V.); (C.P.)
| | - Diána Balogh-Weiser
- Department of Organic Chemistry and Technology, Budapest University of Technology and Economics, 1111 Budapest, Hungary; (E.S.-B.); (Z.M.); (F.N.); (G.H.)
- SynBiocat Ltd., 1172 Budapest, Hungary
- Department of Physical Chemistry and Materials Science, Budapest University of Technology and Economics, 1111 Budapest, Hungary
| | - László Poppe
- Department of Organic Chemistry and Technology, Budapest University of Technology and Economics, 1111 Budapest, Hungary; (E.S.-B.); (Z.M.); (F.N.); (G.H.)
- Biocatalysis and Biotransformation Research Centre, Faculty of Chemistry and Chemical Engineering, Babeş-Bolyai University of Cluj-Napoca, 400028 Cluj-Napoca, Romania; (A.V.); (C.P.)
- SynBiocat Ltd., 1172 Budapest, Hungary
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17
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Schwaminger SP, Fraga-García P, Eigenfeld M, Becker TM, Berensmeier S. Magnetic Separation in Bioprocessing Beyond the Analytical Scale: From Biotechnology to the Food Industry. Front Bioeng Biotechnol 2019; 7:233. [PMID: 31612129 PMCID: PMC6776625 DOI: 10.3389/fbioe.2019.00233] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2019] [Accepted: 09/09/2019] [Indexed: 12/25/2022] Open
Abstract
Downstream processing needs more innovative ideas to advance and overcome current bioprocessing challenges. Chromatography is by far the most prevalent technique used by a conservative industrial sector. Chromatography has many advantages but also often represents the most expensive step in a pharmaceutical production process. Therefore, alternative methods as well as further processing strategies are urgently needed. One promising candidate for new developments on a large scale is magnetic separation, which enables the fast and direct capture of target molecules in fermentation broths. There has been a small revolution in this area in the last 10–20 years and a few papers dealing with the use of magnetic separation in bioprocessing examples beyond the analytical scale have been published. Since each target material is purified with a different magnetic separation approach, the comparison of processes is not trivial but would help to understand and improve magnetic separation and thus making it attractive for the technical scale. To address this issue, we report on the latest achievements in magnetic separation technology and offer an overview of the progress of the capture and separation of biomolecules derived from biotechnology and food technology. Magnetic separation has great potential for high-throughput downstream processing in applied life sciences. At the same time, two major challenges need to be overcome: (1) the development of a platform for suitable and flexible separation devices and (2) additional investigations of advantageous processing conditions, especially during recovery. Concentration and purification factors need to be improved to pave the way for the broader use of magnetic applications. The innovative combination of magnetic gradients and multipurpose separations will set new magnetic-based trends for large scale downstream processing.
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Affiliation(s)
- Sebastian P Schwaminger
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich, Garching, Germany
| | - Paula Fraga-García
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich, Garching, Germany
| | - Marco Eigenfeld
- Research Group Beverage and Cereal Biotechnology, Institute of Brewing and Beverage Technology, Technical University of Munich, Freising, Germany
| | - Thomas M Becker
- Research Group Beverage and Cereal Biotechnology, Institute of Brewing and Beverage Technology, Technical University of Munich, Freising, Germany
| | - Sonja Berensmeier
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich, Garching, Germany
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18
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Gurevich Messina JM, Giudicessi SL, Martínez Ceron MC, Urtasun N, Forno G, Mauro L, Cascone O, Camperi SA. Recombinant human follicle stimulating hormone purification by a short peptide affinity chromatography. J Pept Sci 2018; 24:e3128. [DOI: 10.1002/psc.3128] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Revised: 09/05/2018] [Accepted: 09/07/2018] [Indexed: 11/09/2022]
Affiliation(s)
- Juan M. Gurevich Messina
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica, Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires. Instituto de Nanobiotecnología (NANOBIOTEC), Facultad de Farmacia y Bioquímica; Junín 956 1113 Buenos Aires Argentina
| | - Silvana L. Giudicessi
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica, Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires. Instituto de Nanobiotecnología (NANOBIOTEC), Facultad de Farmacia y Bioquímica; Junín 956 1113 Buenos Aires Argentina
| | - María C. Martínez Ceron
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica, Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires. Instituto de Nanobiotecnología (NANOBIOTEC), Facultad de Farmacia y Bioquímica; Junín 956 1113 Buenos Aires Argentina
| | - Nicolás Urtasun
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica, Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires. Instituto de Nanobiotecnología (NANOBIOTEC), Facultad de Farmacia y Bioquímica; Junín 956 1113 Buenos Aires Argentina
| | - Guillermina Forno
- R&D Zelltek S.A., Universidad Nacional del Litoral, Facultad de Bioquímica y Ciencias Biológicas, Ciudad Universitaria, Paraje el Pozo; CC 242 Santa Fe Argentina
| | - Laura Mauro
- R&D Zelltek S.A., Universidad Nacional del Litoral, Facultad de Bioquímica y Ciencias Biológicas, Ciudad Universitaria, Paraje el Pozo; CC 242 Santa Fe Argentina
| | - Osvaldo Cascone
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica, Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires. Instituto de Nanobiotecnología (NANOBIOTEC), Facultad de Farmacia y Bioquímica; Junín 956 1113 Buenos Aires Argentina
| | - Silvia A. Camperi
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica, Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires. Instituto de Nanobiotecnología (NANOBIOTEC), Facultad de Farmacia y Bioquímica; Junín 956 1113 Buenos Aires Argentina
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Li W, Yang L, Dong T, Xing H, Wang W, Yang Y, Liu H. Gas-assisted low-field magnetic separation for large scale continuous magnetic bio-separation process. AIChE J 2018. [DOI: 10.1002/aic.16389] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Wensong Li
- College of Chemical Engineering; Xiangtan University; Hunan P.R. China
| | - Liangrong Yang
- CAS Key Laboratory of Green Process and Engineering; Institute of Process Engineering, Chinese Academy of Sciences; Beijing P.R. China
| | - Tingting Dong
- CAS Key Laboratory of Green Process and Engineering; Institute of Process Engineering, Chinese Academy of Sciences; Beijing P.R. China
| | - Huifang Xing
- CAS Key Laboratory of Green Process and Engineering; Institute of Process Engineering, Chinese Academy of Sciences; Beijing P.R. China
| | - Weiyan Wang
- College of Chemical Engineering; Xiangtan University; Hunan P.R. China
| | - Yunquan Yang
- College of Chemical Engineering; Xiangtan University; Hunan P.R. China
| | - Huizhou Liu
- CAS Key Laboratory of Green Process and Engineering; Institute of Process Engineering, Chinese Academy of Sciences; Beijing P.R. China
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20
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Schwaminger SP, Blank-Shim SA, Scheifele I, Pipich V, Fraga-García P, Berensmeier S. Design of Interactions Between Nanomaterials and Proteins: A Highly Affine Peptide Tag to Bare Iron Oxide Nanoparticles for Magnetic Protein Separation. Biotechnol J 2018; 14:e1800055. [DOI: 10.1002/biot.201800055] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2018] [Revised: 04/16/2018] [Indexed: 12/12/2022]
Affiliation(s)
- Sebastian P. Schwaminger
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich; 85748 Garching bei München Germany
| | - Silvia A. Blank-Shim
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich; 85748 Garching bei München Germany
| | - Isabell Scheifele
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich; 85748 Garching bei München Germany
| | - Vitaliy Pipich
- Jülich Centre for Neutron Science (JCNS) at Heinz Maier-Leibnitz Zentrum (MLZ), Forschungszentrum Jülich GmbH; 85748 Garching bei München Germany
| | - Paula Fraga-García
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich; 85748 Garching bei München Germany
| | - Sonja Berensmeier
- Bioseparation Engineering Group, Department of Mechanical Engineering, Technical University of Munich; 85748 Garching bei München Germany
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21
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Samoilova N, Krayukhina M, Naumkin A, Yamskov I. Eco-friendly preparation of a magnetic catalyst for glucose oxidation combining the properties of nanometal particles and specific enzyme. MONATSHEFTE FUR CHEMIE 2018. [DOI: 10.1007/s00706-018-2156-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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22
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Abud JE, Luque EH, Ramos JG, Rodriguez HA. Production of monoclonal antibodies and development of a quantitative immuno-polymerase chain reaction assay to detect and quantify recombinant Glutathione S-transferase. Protein Expr Purif 2017; 135:16-23. [PMID: 28458052 DOI: 10.1016/j.pep.2017.04.014] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2017] [Revised: 04/25/2017] [Accepted: 04/25/2017] [Indexed: 12/26/2022]
Abstract
GST-tagged proteins are important tools for the production of recombinant proteins. Removal of GST tag from its fusion protein, frequently by harsh chemical treatments or proteolytic methods, is often required. Thus, the monitoring of the proteins in tag-free form requires a significant effort to determine the remnants of GST during purification process. In the present study, we developed both a conventional enzyme-linked immunosorbent assay (ELISA) and an immuno-polymerase chain reaction (IPCR) assay, both specific for detection of recombinant GST (rGST). rGST was expressed in Escherichia coli JM109, using a pGEX4T-3 vector, and several anti-rGST monoclonal antibodies were generated using hybridoma technology. Two of these were rationally selected as capture and detection antibodies, allowing the development of a sandwich ELISA with a limit of detection (LOD) of 0.01 μg/ml. To develop the rGST-IPCR assay, we selected "Universal-IPCR" format, comprising the biotin-avidin binding as the coupling system. In addition, the rGST-IPCR was developed in standard PCR tubes, and the surface adsorption of antibodies on PCR tubes, the optimal neutravidin concentrations, the generation of a reporter DNA and the concentration effect were studied and determined. Under optimized assay conditions, the rGST-IPCR assay provided a 100-fold increase in the LOD as well as an expanded working range, in comparison with rGST-ELISA. The proposed method exhibited great potentiality for application in several fields in which measurement of very low levels of GST is necessary, and might provide a model for other IPCR assays.
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Affiliation(s)
- J E Abud
- Instituto de Salud y Ambiente del Litoral (ISAL, CONICET-UNL), Ciudad Universitaria, Paraje El Pozo s/n, Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, CP3000 Santa Fe, Argentina
| | - E H Luque
- Instituto de Salud y Ambiente del Litoral (ISAL, CONICET-UNL), Ciudad Universitaria, Paraje El Pozo s/n, Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, CP3000 Santa Fe, Argentina
| | - J G Ramos
- Instituto de Salud y Ambiente del Litoral (ISAL, CONICET-UNL), Ciudad Universitaria, Paraje El Pozo s/n, Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, CP3000 Santa Fe, Argentina; Departamento de Bioquímica Clínica y Cuantitativa, Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, Santa Fe, Argentina
| | - H A Rodriguez
- Instituto de Salud y Ambiente del Litoral (ISAL, CONICET-UNL), Ciudad Universitaria, Paraje El Pozo s/n, Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, CP3000 Santa Fe, Argentina.
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23
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Zhao L, Zhu K, Huang Y, Li Q, Li X, Zhang R, Su Z, Wang Q, Ma G. Enhanced binding by dextran-grafting to Protein A affinity chromatographic media. J Sep Sci 2017; 40:1493-1499. [PMID: 28234424 DOI: 10.1002/jssc.201601196] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2016] [Revised: 12/28/2016] [Accepted: 01/25/2017] [Indexed: 12/24/2022]
Abstract
Dextran-grafted Protein A affinity chromatographic medium was prepared by grafting dextran to agarose-based matrix, followed by epoxy-activation and Protein A coupling site-directed to sulfhydryl groups of cysteine molecules. An enhancement of both the binding performance and the stability was achieved for this dextran-grafted Protein A chromatographic medium. Its dynamic binding capacity was 61 mg immunoglobulin G/mL suction-dried gel, increased by 24% compared with that of the non-grafted medium. The binding capacity of dextran-grafted medium decreased about 7% after 40 cleaning-in-place cycles, much lower than that of the non-grafted medium as decreased about 15%. Confocal laser scanning microscopy results showed that immunoglobulin G was bound to both the outside and the inside of dextran-grafted medium faster than that of non-grafted one. Atomic force microscopy showed that this dextran-grafted Protein A medium had much rougher surface with a vertical coordinate range of ±80 nm, while that of non-grafted one was ±10 nm. Grafted dextran provided a more stereo surface morphology and immunoglobulin G molecules were more easily to be bound. This high-performance dextran-grafted Protein A affinity chromatographic medium has promising applications in large-scale antibody purification.
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Affiliation(s)
- Lan Zhao
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, P.R. China
| | - Kai Zhu
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, P.R. China.,School of Chemical and Environmental Engineering, China University of Mining and Technology, Beijing, P.R. China
| | - Yongdong Huang
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, P.R. China
| | - Qiang Li
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, P.R. China
| | - Xiunan Li
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, P.R. China
| | - Rongyue Zhang
- Department of Chemical Engineering, Beijing Institute of Petro-chemical Technology, Beijing, P.R. China
| | - Zhiguo Su
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, P.R. China
| | - Qibao Wang
- School of Chemical and Environmental Engineering, China University of Mining and Technology, Beijing, P.R. China
| | - Guanghui Ma
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, P.R. China.,Jiangsu National Synergetic Innovation, Center for Advance Materials (SICAM), Nanjing, P.R. China
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24
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Zocco D, Zarovni N. Extraction and Analysis of Extracellular Vesicle-Associated miRNAs Following Antibody-Based Extracellular Vesicle Capture from Plasma Samples. Methods Mol Biol 2017; 1660:269-285. [PMID: 28828664 DOI: 10.1007/978-1-4939-7253-1_22] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Extracellular vesicle (EV)-associated RNAs (EV-RNA) are under intense investigation due to their potential role in health and disease. Several approaches are currently employed to isolate blood-derived EVs for RNA analysis, most of which are either time-consuming and expensive, such as methods based on EVs physical properties (ultracentrifugation and Optiprep density gradient), or also copurify blood contaminants, mostly protein aggregates and immune complexes, (such as chemical precipitation). In addition, there is a lack of standardized protocols for the extraction of EV-RNA and very little consensus on the technological platforms and normalization tools for assessing the expression levels of different RNA species. These methodological issues complicate the comparison between independent data sets, potentially biasing results and conclusions.In this book chapter we propose a protocol that might overcome some of the abovementioned issues through antibody-based isolation of blood-derived EVs followed by extraction and expression analysis of small-RNA species (miRNA) by reverse transcriptase quantitative PCR (RT-qPCR). The advantages of immunoaffinity approaches over other isolation methods are multiple and include: (1) the selective enrichment of specific EV subpopulations with restricted tissue/cell origin, (2) reduction of matrix effects and blood contaminants that may confound miRNA profiling from complex biological fluids and (3) easy coupling to conventional quantitative assays (e.g., RT-qPCR). In conclusion, we describe a protocol for standard enrichment and quantitative analysis of EV-miRNAs from blood and we warrant for technological improvements, such as the use of novel biomaterials, surface chemistries, binding agents and assay/sensor design that may further improve it.
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Affiliation(s)
- Davide Zocco
- Exosomics Siena SpA, Strada del Petriccio e Belriguardo 35, Siena, 53100, Italy.
| | - Natasa Zarovni
- Exosomics Siena SpA, Strada del Petriccio e Belriguardo 35, Siena, 53100, Italy
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25
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Safarik I, Pospiskova K, Baldikova E, Safarikova M. Development of advanced biorefinery concepts using magnetically responsive materials. Biochem Eng J 2016. [DOI: 10.1016/j.bej.2016.04.027] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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26
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Biopharmaceuticals from microorganisms: from production to purification. Braz J Microbiol 2016; 47 Suppl 1:51-63. [PMID: 27838289 PMCID: PMC5156500 DOI: 10.1016/j.bjm.2016.10.007] [Citation(s) in RCA: 93] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2016] [Accepted: 09/22/2016] [Indexed: 12/18/2022] Open
Abstract
The use of biopharmaceuticals dates from the 19th century and within 5–10 years, up to 50% of all drugs in development will be biopharmaceuticals. In the 1980s, the biopharmaceutical industry experienced a significant growth in the production and approval of recombinant proteins such as interferons (IFN α, β, and γ) and growth hormones. The production of biopharmaceuticals, known as bioprocess, involves a wide range of techniques. In this review, we discuss the technology involved in the bioprocess and describe the available strategies and main advances in microbial fermentation and purification process to obtain biopharmaceuticals.
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27
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Rampini S, Li P, Lee GU. Micromagnet arrays enable precise manipulation of individual biological analyte-superparamagnetic bead complexes for separation and sensing. LAB ON A CHIP 2016; 16:3645-63. [PMID: 27542153 DOI: 10.1039/c6lc00707d] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
In this article, we review lab on a chip (LOC) devices that have been developed for processing magnetically labelled biological analytes, e.g., proteins, nucleic acids, viruses and cells, based on micromagnetic structures and a time-varying magnetic field. We describe the methods that have been developed for fabricating micromagnetic arrays and the bioprocessing operations that have been demonstrated using superparamagnetic (SPM) beads, i.e., programmed transport, switching, separation of specific analytes, and pumping and mixing of fluids in microchannels. The primary advantage of micromagnet devices is that they make it possible to develop systems that control individual SPM beads, enabling high-efficiency separation and analysis. These devices do not require hydrodynamic control and lend themselves to parallel processing of large arrays of SPM beads with modest levels of power consumption. Micromagnet devices are well suited for bioanalytical applications that require high-resolution separation, e.g., detection of rare cell types such as circulating tumour cells, or biosensor applications that require multiple magnetic bioprocessing operations on a single chip.
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Affiliation(s)
- S Rampini
- School of Chemistry and Chemical Biology, UCD, Dublin, Ireland.
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28
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Kilinc D, Dennis CL, Lee GU. Bio-Nano-Magnetic Materials for Localized Mechanochemical Stimulation of Cell Growth and Death. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2016; 28:5672-80. [PMID: 26780501 PMCID: PMC5536250 DOI: 10.1002/adma.201504845] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2015] [Revised: 11/12/2015] [Indexed: 05/16/2023]
Abstract
Magnetic nanoparticles are promising new tools for therapeutic applications, such as magnetic nanoparticle hyperthermia therapy and targeted drug delivery. Recent in vitro studies have demonstrated that a force application with magnetic tweezers can also affect cell fate, suggesting a therapeutic potential for magnetically modulated mechanical stimulation. The magnetic properties of nanoparticles that induce physical responses and the subtle responses that result from mechanically induced membrane damage and/or intracellular signaling are evaluated. Magnetic particles with various physical, geometric, and magnetic properties and specific functionalization can now be used to apply mechanical force to specific regions of cells, which permit the modulation of cellular behavior through the use of spatially and time controlled magnetic fields. On one hand, mechanochemical stimulation has been used to direct the outgrowth on neuronal growth cones, indicating a therapeutic potential for neural repair. On the other hand, it has been used to kill cancer cells that preferentially express specific receptors. Advances made in the synthesis and characterization of magnetic nanomaterials and a better understanding of cellular mechanotransduction mechanisms may support the translation of mechanochemical stimulation into the clinic as an emerging therapeutic approach.
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Affiliation(s)
- Devrim Kilinc
- Bionanosciences Lab, School of Chemistry and Chemical Biology, UCD
Conway Institute of Biomolecular and Biomedical Research, University College Dublin,
Belfield, Dublin 4, Ireland
| | - Cindi L. Dennis
- Material Measurement Laboratory, National Institute of Standards and
Technology, 100 Bureau Drive, Gaithersburg, MD 20899–8552, USA
| | - Gil U. Lee
- Bionanosciences Lab, School of Chemistry and Chemical Biology, UCD
Conway Institute of Biomolecular and Biomedical Research, University College Dublin,
Belfield, Dublin 4, Ireland
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