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Xu S, Lee I, Kwon SJ, Kim E, Nevo L, Straight L, Murata H, Matyjaszewski K, Dordick JS. Split fluorescent protein-mediated multimerization of cell wall binding domain for highly sensitive and selective bacterial detection. N Biotechnol 2024; 82:54-64. [PMID: 38750815 DOI: 10.1016/j.nbt.2024.05.004] [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: 01/28/2024] [Revised: 04/22/2024] [Accepted: 05/08/2024] [Indexed: 05/18/2024]
Abstract
Cell wall peptidoglycan binding domains (CBDs) of cell lytic enzymes, including bacteriocins, autolysins and bacteriophage endolysins, enable highly selective bacterial binding, and thus, have potential as biorecognition molecules for nondestructive bacterial detection. Here, a novel design for a self-complementing split fluorescent protein (FP) complex is proposed, where a multimeric FP chain fused with specific CBDs ((FP-CBD)n) is assembled inside the cell, to improve sensitivity by enhancing the signal generated upon Staphylococcus aureus or Bacillus anthracis binding. Flow cytometry shows enhanced fluorescence on the cell surface with increasing FP stoichiometry and surface plasmon resonance reveals nanomolar binding affinity to isolated peptidoglycan. The breadth of function of these complexes is demonstrated through the use of CBD modularity and the ability to attach enzymatic detection modalities. Horseradish peroxidase-coupled (FP-CBD)n complexes generate a catalytic amplification, with the degree of amplification increasing as a function of FP length, reaching a limit of detection (LOD) of 103 cells/droplet (approximately 0.1 ng S. aureus or B. anthracis) within 15 min on a polystyrene surface. These fusion proteins can be multiplexed for simultaneous detection. Multimeric split FP-CBD fusions enable use as a biorecognition molecule with enhanced signal for use in bacterial biosensing platforms.
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Affiliation(s)
- Shirley Xu
- Department of Chemical and Biological Engineering, and Center for Biotechnology & Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA
| | - Inseon Lee
- Department of Chemical and Biological Engineering, and Center for Biotechnology & Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA
| | - Seok-Joon Kwon
- Department of Chemical and Biological Engineering, and Center for Biotechnology & Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA
| | - Eunsol Kim
- Department of Chemical and Biological Engineering, and Center for Biotechnology & Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA
| | - Liv Nevo
- Department of Chemical and Biological Engineering, and Center for Biotechnology & Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA
| | - Lorelli Straight
- Department of Biology, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA
| | - Hironobu Murata
- Department of Chemistry, Carnegie Mellon University, 5000 Forbes Ave, Pittsburgh, PA, USA
| | | | - Jonathan S Dordick
- Department of Chemical and Biological Engineering, and Center for Biotechnology & Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA; Department of Biology, Rensselaer Polytechnic Institute, 110 8th Street, Troy, NY, USA.
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Takur KR, Kohli M, Pande K, Malik A, Deshmukh A, Kayal A, Kommoju PR, Kulkarni N. In silico studies disclose the underlying link between binding affinity and redox potential in laccase isoforms. J Biomol Struct Dyn 2023; 41:7265-7276. [PMID: 36102280 DOI: 10.1080/07391102.2022.2120540] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Accepted: 08/24/2022] [Indexed: 10/14/2022]
Abstract
Laccases are copper-containing enzymes belonging to the family of multicopper oxidases (MCOs). All MCOs use molecular oxygen to oxidize a wide range of organic compounds by radical catalysis. One of the key fundamental properties of laccases is having high or low redox potentials depending on the active site organization. Several experimental studies have been done to rationalize the high and low redox potential laccases (LRPL), however, molecular understanding is still lacking. In this work, we explored the proteomic profile of laccases produced in the fungal cultures, specifically induced with lignocellulosic biomass such as rice straw. This study was undertaken to explain the differences in the high redox and low redox potential values of different laccases using in-silico approaches. Proteomic profiling and structural and sequence analysis revealed a low level of similarity among them. Docking analyses and molecular dynamics simulation analysis revealed that high redox potential laccases (HRPL) are having good binding affinity compared to low or medium redox potential laccases (MRPL). The stability of these complexes was further analyzed based on reactive distances, active site volume comparison and a number of tunnel formations that were observed to be significantly higher for HRPL. Our results indicate that the number of tunnel formations calculated from the simulation's trajectories and available water molecules at the T3 site directly correlates with the laccases' redox potentials. This study will be helpful and provide valuable inputs for the designing of new laccases to improve lignin degradation.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
| | | | | | | | - Apoorva Deshmukh
- Praj Matrix R & D Centre, Division of Praj Industries Ltd, Pune, India
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3
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Biocatalytic Versatilities and Biotechnological Prospects of Laccase for a Sustainable Industry. Catal Letters 2022. [DOI: 10.1007/s10562-022-04134-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
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Effects of Taro (Colocasia esculenta) Water-Soluble Non-Starch Polysaccharide, Lactobacillus acidophilus, Bifidobacterium breve, Bifidobacterium infantis, and Their Synbiotic Mixtures on Pro-Inflammatory Cytokine Interleukin-8 Production. Nutrients 2022; 14:nu14102128. [PMID: 35631269 PMCID: PMC9147535 DOI: 10.3390/nu14102128] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Revised: 05/12/2022] [Accepted: 05/12/2022] [Indexed: 11/25/2022] Open
Abstract
In the past decades, the regulation of pro-inflammatory cytokine production, including interleukin-8 (IL-8), has been the goal of many targeted therapeutic interventions for Necrotising enterocolitis (NEC), a gastrointestinal disease commonly associated with a very low birth weight in preterm infants. In this study, the ability to regulate the production of IL-8 of the water-soluble non-starch polysaccharide (WS-NSP) from taro corm (Tc-WS-NSP) extracted using a conventional (CE) or improved conventional (ICE) extraction method, of the probiotics Lactobacillus acidophilus, Bifidobacterium breve, and Bifidobacterium infantis, and their synbiotic mixtures were evaluated. The TNF-α stimulated HT-29 cells were incubated with undigested or digested Tc-WS-NSPs (CE or ICE), probiotics, and their synbiotic mixtures with Klebsiella oxytoca, an NEC-positive-associated pathogen. Overall, the synbiotic mixtures of digested Tc-WS-NSP-ICE and high bacterial concentrations of L. acidophilus (5.57 × 109), B. breve (2.7 × 108 CFU/mL), and B. infantis (1.53 × 108) demonstrated higher (42.0%, 45.0%, 43.1%, respectively) ability to downregulate IL-8 compared to the sole use of Tc-WS-NSPs (24.5%), or the probiotics L. acidophilus (32.3%), B. breve (37.8%), or B. infantis (33.1%). The ability demonstrated by the Tc-WS-NSPs, the probiotics, and their synbiotics mixtures to downregulate IL-8 production in the presence of an NEC-positive-associated pathogen may be useful in the development of novel prophylactic agents against NEC.
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Anwar M, Mros S, McConnell M, Bekhit AEDA. Effects of extraction methods on the digestibility, cytotoxicity, prebiotic potential and immunomodulatory activity of taro (Colocasia esculenta) water-soluble non-starch polysaccharide. Food Hydrocoll 2021. [DOI: 10.1016/j.foodhyd.2021.107068] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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Anwar M, McConnell M, Bekhit AED. New freeze-thaw method for improved extraction of water-soluble non-starch polysaccharide from taro (Colocasia esculenta): Optimization and comprehensive characterization of physico-chemical and structural properties. Food Chem 2021; 349:129210. [PMID: 33582541 DOI: 10.1016/j.foodchem.2021.129210] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2020] [Revised: 01/05/2021] [Accepted: 01/24/2021] [Indexed: 11/16/2022]
Abstract
This study investigated the effects of an improved extraction method that utilized freeze-thaw, termed improved conventional extraction (ICE), on the yield and properties of the water-soluble non-starch polysaccharide of taro (Tc-WS-NSP) and compared this method to the conventional extraction (CE) method. The freeze-thaw condition was optimized using response surface methodology (RSM) based on yield. The use of the ICE method resulted in a 227.8% increase in yield of Tc-WS-NSP compared to the CE method. The Tc-WS-NSP-ICE had higher purity, lighter color, larger particle size, and higherζ-potential than Tc-WS-NSP-CE. Both of the samples contain the sugar arabinose, galactose, glucose, and mannose and exhibited comparative FTIR, 1H, and 13C NMR spectra. The Tc-WS-NSP-ICE had a semi-crystalline structure resulting in higher thermal stability and had a higher consistency index than Tc-WS-NSP-CE. Overall, the use of the ICE method provided a simple, efficient, and green alternative to CE for the extraction of Tc-WS-NSP.
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Affiliation(s)
- Mylene Anwar
- Department of Food Science, University of Otago PO Box 56, Dunedin 9054, New Zealand; Department of Food Science, Central Mindanao University, University Town, Musuan 8714, Maramag, Bukidnon, Philippines.
| | - Michelle McConnell
- Department of Microbiology and Immunology, University of Otago PO Box 56, Dunedin 9054, New Zealand
| | - Alaa El-Din Bekhit
- Department of Food Science, University of Otago PO Box 56, Dunedin 9054, New Zealand.
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Francesko A, Petkova P, Tzanov T. Hydrogel Dressings for Advanced Wound Management. Curr Med Chem 2019; 25:5782-5797. [PMID: 28933299 DOI: 10.2174/0929867324666170920161246] [Citation(s) in RCA: 130] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2017] [Revised: 12/08/2017] [Accepted: 08/25/2017] [Indexed: 12/12/2022]
Abstract
BACKGROUND Composed in a large extent of water and due to their nonadhesiveness, hydrogels found their way to the wound dressing market as materials that provide a moisture environment for healing while being comfortable to the patient. Hydrogels' exploitation is constantly increasing after evidences of their even broader therapeutic potential due to resemblance to dermal tissue and ability to induce partial skin regeneration. The innovation in advanced wound care is further directed to the development of so-called active dressings, where hydrogels are combined with components that enhance the primary purpose of providing a beneficial environment for wound healing. OBJECTIVE The objective of this review is to concisely describe the relevance of hydrogel dressings as platforms for delivery of active molecules for improved management of difficult- to-treat wounds. The emphasis is on the most recent advances in development of stimuli- responsive hydrogels, which allow for control over wound healing efficiency in response to different external modalities. Novel strategies for monitoring of the wound status and healing progress based on incorporation of sensor molecules into the hydrogel platforms are also discussed.
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Affiliation(s)
| | - Petya Petkova
- Grup de Biotecnologia Molecular i Industrial, Department of Chemical Engineering, Universitat Politècnica de Catalunya, Terrassa, Spain
| | - Tzanko Tzanov
- Grup de Biotecnologia Molecular i Industrial, Department of Chemical Engineering, Universitat Politècnica de Catalunya, Terrassa, Spain
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Novoa C, Dhoke GV, Mate DM, Martínez R, Haarmann T, Schreiter M, Eidner J, Schwerdtfeger R, Lorenz P, Davari MD, Jakob F, Schwaneberg U. KnowVolution of a Fungal Laccase toward Alkaline pH. Chembiochem 2019; 20:1458-1466. [DOI: 10.1002/cbic.201800807] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2018] [Indexed: 11/06/2022]
Affiliation(s)
- Catalina Novoa
- DWI Leibniz Institute for Interactive Materials Forckenbeckstrasse 50 52056 Aachen Germany
| | - Gaurao V. Dhoke
- Institute of BiotechnologyRWTH Aachen University Worringerweg 3 52074 Aachen Germany
| | - Diana M. Mate
- DWI Leibniz Institute for Interactive Materials Forckenbeckstrasse 50 52056 Aachen Germany
- Present address: Center of Molecular Biology “Severo Ochoa”Universidad Autónoma de Madrid Nicolás Cabrera 1 28049 Madrid Spain
| | - Ronny Martínez
- Institute of BiotechnologyRWTH Aachen University Worringerweg 3 52074 Aachen Germany
- Present address: Departamento de Ingeniería en AlimentosInstituto de Investigación Multidisciplinario en Ciencia y TecnologíaUniversidad de La Serena Raúl Bitrán 1305 1720010 La Serena Chile
| | | | | | - Jasmin Eidner
- IAB Enzymes GmbH Feldbergstrasse 78 64293 Darmstadt Germany
| | | | - Patrick Lorenz
- IAB Enzymes GmbH Feldbergstrasse 78 64293 Darmstadt Germany
| | - Mehdi D. Davari
- Institute of BiotechnologyRWTH Aachen University Worringerweg 3 52074 Aachen Germany
| | - Felix Jakob
- DWI Leibniz Institute for Interactive Materials Forckenbeckstrasse 50 52056 Aachen Germany
- Institute of BiotechnologyRWTH Aachen University Worringerweg 3 52074 Aachen Germany
| | - Ulrich Schwaneberg
- DWI Leibniz Institute for Interactive Materials Forckenbeckstrasse 50 52056 Aachen Germany
- Institute of BiotechnologyRWTH Aachen University Worringerweg 3 52074 Aachen Germany
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9
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Guebitz GM, Nyanhongo GS. Enzymes as Green Catalysts and Interactive Biomolecules in Wound Dressing Hydrogels. Trends Biotechnol 2018; 36:1040-1053. [DOI: 10.1016/j.tibtech.2018.05.006] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Revised: 05/16/2018] [Accepted: 05/21/2018] [Indexed: 02/08/2023]
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Mate DM, Alcalde M. Laccase: a multi-purpose biocatalyst at the forefront of biotechnology. Microb Biotechnol 2017; 10:1457-1467. [PMID: 27696775 PMCID: PMC5658592 DOI: 10.1111/1751-7915.12422] [Citation(s) in RCA: 269] [Impact Index Per Article: 38.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2016] [Revised: 09/12/2016] [Accepted: 09/15/2016] [Indexed: 11/30/2022] Open
Abstract
Laccases are multicopper containing enzymes capable of performing one electron oxidation of a broad range of substrates. Using molecular oxygen as the final electron acceptor, they release only water as a by-product, and as such, laccases are eco-friendly, versatile biocatalysts that have generated an enormous biotechnological interest. Indeed, this group of enzymes has been used in different industrial fields for very diverse purposes, from food additive and beverage processing to biomedical diagnosis, and as cross-linking agents for furniture construction or in the production of biofuels. Laccases have also been studied intensely in nanobiotechnology for the development of implantable biosensors and biofuel cells. Moreover, their capacity to transform complex xenobiotics makes them useful biocatalysts in enzymatic bioremediation. This review summarizes the most significant recent advances in the use of laccases and their future perspectives in biotechnology.
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Affiliation(s)
- Diana M. Mate
- Department of BiocatalysisInstitute of CatalysisCSICCantoblanco28049MadridSpain
| | - Miguel Alcalde
- Department of BiocatalysisInstitute of CatalysisCSICCantoblanco28049MadridSpain
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Zare-Eelanjegh E, Bora DK, Rupper P, Schrantz K, Thöny-Meyer L, Maniura-Weber K, Richter M, Faccio G. Affinity-Driven Immobilization of Proteins to Hematite Nanoparticles. ACS APPLIED MATERIALS & INTERFACES 2016; 8:20432-20439. [PMID: 27429157 DOI: 10.1021/acsami.6b03284] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Functional nanoparticles are valuable materials for energy production, bioelectronics, and diagnostic devices. The combination of biomolecules with nanosized material produces a new hybrid material with properties that can exceed the ones of the single components. Hematite is a widely available material that has found application in various sectors such as in sensing and solar energy production. We report a single-step immobilization process based on affinity and achieved by genetically engineering the protein of interest to carry a hematite-binding peptide. Fabricated hematite nanoparticles were then investigated for the immobilization of the two biomolecules C-phycocyanin (CPC) and laccase from Bacillus pumilus (LACC) under mild conditions. Genetic engineering of biomolecules with a hematite-affinity peptide led to a higher extent of protein immobilization and enhanced the catalytic activity of the enzyme.
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Affiliation(s)
- Elaheh Zare-Eelanjegh
- Laboratory for Biointerfaces, Empa, Swiss Federal Laboratories for Materials Science and Technology , Lerchenfeldstrasse 5, 9014 St. Gallen, Switzerland
| | - Debajeet K Bora
- Laboratory for High Performance Ceramics, Empa, Swiss Federal Laboratories for Materials Science and Technology , Überlandstrasse 129, 8600 Dübendorf, Switzerland
| | - Patrick Rupper
- Laboratory for Advanced Fibers, Empa, Swiss Federal Laboratories for Materials Science and Technology , Lerchenfeldstrasse 5, 9014 St. Gallen, Switzerland
| | - Krisztina Schrantz
- Laboratory for High Performance Ceramics, Empa, Swiss Federal Laboratories for Materials Science and Technology , Überlandstrasse 129, 8600 Dübendorf, Switzerland
| | - Linda Thöny-Meyer
- Laboratory for Biointerfaces, Empa, Swiss Federal Laboratories for Materials Science and Technology , Lerchenfeldstrasse 5, 9014 St. Gallen, Switzerland
| | - Katharina Maniura-Weber
- Laboratory for Biointerfaces, Empa, Swiss Federal Laboratories for Materials Science and Technology , Lerchenfeldstrasse 5, 9014 St. Gallen, Switzerland
| | - Michael Richter
- Laboratory for Biointerfaces, Empa, Swiss Federal Laboratories for Materials Science and Technology , Lerchenfeldstrasse 5, 9014 St. Gallen, Switzerland
| | - Greta Faccio
- Laboratory for Biointerfaces, Empa, Swiss Federal Laboratories for Materials Science and Technology , Lerchenfeldstrasse 5, 9014 St. Gallen, Switzerland
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Schiffer D, Tegl G, Heinzle A, Sigl E, Metcalf D, Bowler P, Burnet M, Guebitz GM. Enzyme-responsive polymers for microbial infection detection. Expert Rev Mol Diagn 2015; 15:1125-31. [DOI: 10.1586/14737159.2015.1061935] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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13
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Biomarkers for infection: enzymes, microbes, and metabolites. Appl Microbiol Biotechnol 2015; 99:4595-614. [DOI: 10.1007/s00253-015-6637-7] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2015] [Revised: 04/17/2015] [Accepted: 04/18/2015] [Indexed: 02/02/2023]
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14
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Laccase engineering: From rational design to directed evolution. Biotechnol Adv 2015; 33:25-40. [DOI: 10.1016/j.biotechadv.2014.12.007] [Citation(s) in RCA: 168] [Impact Index Per Article: 18.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2014] [Revised: 12/17/2014] [Accepted: 12/21/2014] [Indexed: 10/24/2022]
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15
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Rollett A, Heinzle A, Schneider K, Schiffer D, Tegl G, Sigl E, Guebitz G. Enzyme responsive polymers. N Biotechnol 2014. [DOI: 10.1016/j.nbt.2014.05.1618] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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16
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Bioresponsive polymers for the detection of bacterial contaminations in platelet concentrates. N Biotechnol 2014; 31:150-5. [DOI: 10.1016/j.nbt.2013.11.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2013] [Accepted: 11/09/2013] [Indexed: 02/02/2023]
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