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Xiao H, Yang M, Lv J, He X, Chen M, Tan W, Yang W, Zeng K, Hu J, Yang G. Biomineralization-Inspired Confined-Space Fabrication of Polyimide Aerogels. ACS APPLIED MATERIALS & INTERFACES 2024; 16:2763-2773. [PMID: 38170962 DOI: 10.1021/acsami.3c15696] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2024]
Abstract
The biomineralization process endows biominerals with unique hierarchically porous structures and physical-chemical properties by filling the restricted microreaction space with amorphous phases before the growth of inorganic crystals. In this paper, a confined-space fabrication method inspired by biomineralization for preparing hierarchically porous polyimide (PI) aerogels and PI-derived carbon aerogels is introduced. The confined structure is established through a self-assembly method of vacuum impregnation and ultrasound-assisted freeze-drying. The hierarchically porous structure is controlled by adjusting the structure characteristics of the confined space and secondary aerogels. Subsequently, a variety of performance demonstrations are conducted to demonstrate the mechanical properties and application prospects in the fields of thermal insulation and electromagnetic shielding of the prepared aerogel.
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Affiliation(s)
- Hang Xiao
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Minrui Yang
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Jiangbo Lv
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Xian He
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Menghao Chen
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Wei Tan
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Wenjie Yang
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Ke Zeng
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Jianghuai Hu
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
| | - Gang Yang
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu 610065, P. R. China
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Knight MJ, Hardy BJ, Wheeler GL, Curnow P. Computational modelling of diatom silicic acid transporters predicts a conserved fold with implications for their function and evolution. BIOCHIMICA ET BIOPHYSICA ACTA. BIOMEMBRANES 2023; 1865:184056. [PMID: 36191629 DOI: 10.1016/j.bbamem.2022.184056] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2022] [Revised: 09/16/2022] [Accepted: 09/20/2022] [Indexed: 11/27/2022]
Abstract
Diatoms are an important group of algae that can produce intricate silicified cell walls (frustules). The complex process of silicification involves a set of enigmatic integral membrane proteins that are thought to actively transport the soluble precursor of biosilica, dissolved silicic acid. Full-length silicic acid transporters are found widely across the diatoms while homologous shorter proteins have now been identified in a range of other organisms. It has been suggested that modern silicic acid transporters arose from the union of such partial sequences. Here, we present a computational study of the silicic acid transporters and related transporter-like sequences to help understand the structure, function and evolution of this class of membrane protein. The AlphaFold software predicts that all of the protein sequences studied here share a common fold in the membrane domain which is entirely different from the predicted folds of non-homologous silicic acid transporters from plants. Substrate docking reveals how conserved polar residues could interact with silicic acid at a central solvent-accessible binding site, consistent with an alternating access mechanism of transport. The structural conservation between these proteins supports a model where modern silicon transporters evolved from smaller ancestral proteins by gene fusion.
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Affiliation(s)
| | | | | | - Paul Curnow
- School of Biochemistry, University of Bristol, UK.
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3
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Geometrical frustration of phase-separated domains in Coscinodiscus diatom frustules. Proc Natl Acad Sci U S A 2022; 119:e2201014119. [PMID: 35905319 PMCID: PMC9351504 DOI: 10.1073/pnas.2201014119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Diatoms are microalgae with intricate cell walls made of glass. These structures feature micro- and nanoscale hierarchical patterns that cannot be produced with existing synthetic methods. At the same time, manufacturing the cell wall requires little energy and is powered by the sun. Diatoms can thus inspire and inform approaches to sustainable materials processing. Here, we focus on the large-scale organization of micrometer-scale pores in diatom cell walls, which possess an unusual combination of periodicity and radial alignment. While we are not aware of other examples of this organization in nature, it is common in the traditional craft of crochet. Our experiments further show that the competing tendencies of alignment and crystallinity are driven by distinct biological processes. Diatoms are single-celled organisms with a cell wall made of silica, called the frustule. Even though their elaborate patterns have fascinated scientists for years, little is known about the biological and physical mechanisms underlying their organization. In this work, we take a top-down approach and examine the micrometer-scale organization of diatoms from the Coscinodiscus family. We find two competing tendencies of organization, which appear to be controlled by distinct biological pathways. On one hand, micrometer-scale pores organize locally on a triangular lattice. On the other hand, lattice vectors tend to point globally toward a center of symmetry. This competition results in a frustrated triangular lattice, populated with geometrically necessary defects whose density increases near the center.
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Li Y, Zhang C, He X, Hu Z. Solids retention time dependent, tunable diatom hierarchical micro/nanostructures and their effect on nutrient removal. WATER RESEARCH 2022; 216:118346. [PMID: 35358880 DOI: 10.1016/j.watres.2022.118346] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Revised: 03/16/2022] [Accepted: 03/21/2022] [Indexed: 06/14/2023]
Abstract
The hierarchical three-dimensional (3D) micro/nanostructures of diatoms make them a promising biomaterial for fabricating nanomaterials, producing bioactive pharmaceuticals or nutraceuticals, and removing micropollutants. For diatom production in a continuous flow system, little is known how bioreactor operating parameters, especially solids retention time (SRT), affect the 3D structures of diatoms. This study demonstrated that tunable diatom micro/nanostructures could be produced by varying the SRT of membrane bioreactors (MBRs). A diatom strain (Stephanodiscus hantzschii) was cultivated in two identical MBRs with a fixed hydraulic retention time (HRT) of 24 h and staged SRTs from 5, to 10, and to 20 d. As SRTs increased from 5 to 20 d, important characteristics of diatom micro/nanostructures showed linear decreases: the diameters of foramina on the areola layer decreased from 170 ± 10 to 130 ± 12 nm, the numbers of nanopores per cribrum layer decreased from 20 ± 3 to 12 ± 2, and the specific surface areas of the diatoms decreased from 36.01 ± 1.27 to 12.67 ± 2.45 m2·g-1. However, the average diatom heights increased from 2.9 ± 0.3 to 3.9 ± 0.4 µm, while diatom cell diameter (5 µm) and nanopore size (20 nm) remained unchanged. The silicon content of diatoms also linearly increased with SRT. The decrease in diatom porosity and increase in silicon content were probably due to the reduced diatom growth rates (likely resulting in less pores) at increasing SRTs, which also facilitated silica deposition as the overall diatom population stayed longer in the MBRs. As the SRTs increased from 5 to 10, and to 20 d, the nitrate (NO3-) removal efficiency decreased from 75% to 70%, and to 60%, respectively, whereas phosphorus (P) removal efficiency increased from 74% to 80%, and to 90%, respectively. The opposite trends in efficiencies were because NO3--N was removed by cellular uptake and biomass waste whereas P was mainly removed through diatom-assisted chemical precipitation.
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Affiliation(s)
- Yan Li
- NingboTech University, Ningbo 315000, China; Department of Civil & Environmental Engineering, University of Missouri, Columbia, Missouri, 65211, USA
| | - Chiqian Zhang
- Department of Civil & Environmental Engineering, University of Missouri, Columbia, Missouri, 65211, USA
| | - Xiaoqing He
- Electron Microscopy Core Facility, University of Missouri, Columbia, Missouri, 65211, USA; Department of Mechanical and Aerospace Engineering, University of Missouri, Columbia, Missouri, 65211, USA
| | - Zhiqiang Hu
- Department of Civil & Environmental Engineering, University of Missouri, Columbia, Missouri, 65211, USA.
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Atomic Layer Assembly Based on Sacrificial Templates for 3D Nanofabrication. MICROMACHINES 2022; 13:mi13060856. [PMID: 35744470 PMCID: PMC9229614 DOI: 10.3390/mi13060856] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Revised: 05/25/2022] [Accepted: 05/26/2022] [Indexed: 02/04/2023]
Abstract
Three-dimensional (3D) nanostructures have attracted widespread attention in physics, chemistry, engineering sciences, and biology devices due to excellent functionalities which planar nanostructures cannot achieve. However, the fabrication of 3D nanostructures is still challenging at present. Reliable fabrication, improved controllability, and multifunction integration are desired for further applications in commercial devices. In this review, a powerful fabrication method to realize 3D nanostructures is introduced and reviewed thoroughly, which is based on atomic layer deposition assisted 3D assembly through various sacrificial templates. The aim of this review is to provide a comprehensive overview of 3D nanofabrication based on atomic layer assembly (ALA) in multifarious sacrificial templates for 3D nanostructures and to present recent advancements, with the ultimate aim to further unlock more potential of this method for nanodevice applications.
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Qin K, Pereira RFP, Coradin T, de Zea Bermudez V, Fernandes FM. Biomimetic Silk Macroporous Materials for Drug Delivery Obtained via Ice-Templating. ACS APPLIED BIO MATERIALS 2022; 5:2556-2566. [PMID: 35537179 DOI: 10.1021/acsabm.2c00020] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
Silk from Bombyx mori is one of the most exciting materials in nature. The apparently simple arrangement of its two major components─two parallel filaments of silk fibroin (SF) coated by a common sericin (SS) sheath─provides a combination of mechanical and surface properties that can protect the moth during its most vulnerable phase, the pupal stage. Here, we recapitulate the topology of native silk fibers but shape them into three-dimensional porous constructs using an unprecedented design strategy. We demonstrate, for the first time, the potential of these macroporous silk foams as dermal patches for wound protection and for the controlled delivery of Rifamycin (Rif), a model antibiotic. The method implies (i) removing SS from silk fibers; (ii) shaping SF solutions into macroporous foams via ice-templating; (iii) stabilizing the SF macroporous foam in a methanolic solution of Rif; and (iv) coating Rif-loaded SF foams with a SS sheath. The resulting SS@SF foams exhibit water wicking capacity and accommodate up to ∼20% deformation without detaching from a skin model. The antibacterial behavior of Rif-loaded SS@SF foams against Staphylococcus aureus on agar plates outperforms that of SF foams (>1 week and 4 days, respectively). The reassembly of natural materials as macroporous foams─illustrated here for the reconstruction of silk-based materials─can be extended to other multicomponent natural materials and may play an important role in applications where controlled release of molecules and fluid transport are pivotal.
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Affiliation(s)
- Kankan Qin
- Sorbonne Université, UMR 7574, Laboratoire de Chimie de la Matière Condensée de Paris, F-75005 Paris, France
| | - Rui F P Pereira
- Chemistry Center and Chemistry Department, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal
| | - Thibaud Coradin
- Sorbonne Université, UMR 7574, Laboratoire de Chimie de la Matière Condensée de Paris, F-75005 Paris, France
| | - Verónica de Zea Bermudez
- Chemistry Department and CQ-VR, University of Trás-os-Montes e Alto Douro, Apartado 1013, 5001-801 Vila Real, Portugal
| | - Francisco M Fernandes
- Sorbonne Université, UMR 7574, Laboratoire de Chimie de la Matière Condensée de Paris, F-75005 Paris, France
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7
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Daus F, Xie X, Geyer A. The silica mineralisation properties of synthetic Silaffin-1A 1 ( synSil-1A 1). Org Biomol Chem 2022; 20:3387-3396. [PMID: 35362502 DOI: 10.1039/d2ob00390b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The synthetic monodisperse pentadecapeptide synSil-1A1 is a representative of the microdisperse mixture of the native silaffin natSil-1A1 produced by the diatom Cylindrotheca fusiformis. The octaphosphorylated zwitterionic synSil-1A1 is able to mineralise silica under slightly acidic conditions at pH 5.5, which is the physiologically relevant pH range assumed. Like the posttranslational modifications of the native silaffins, synSil-1A1 is functionalised on all four lysine and phosphorylated on all seven serine residues. We describe the synthesis of a trimethyl-δ-hydroxy-L-lysine building block, the incorporation of this choline-type amino acid in peptide synthesis and its phosphorylation, together with all further posttranslational modifications observed in the native silaffins. Quantitative structure-activity relationships from silicification experiments at high dilution reveal the unique mineralisation properties of the hyperphosphorylated peptide as a single substance and in interaction with long-chain polyamines (LCPA). Diffusion-ordered spectroscopy (DOSY) experiments reveal the formation of polyelectrolyte complexes (PEC) between synSil-1A1 and long-chain polyamines, which promotes the silicification process. The microdroplets have an overall balanced ratio of 100-150 cationic and the same number of anionic charges. The unique zwitterionic synSil-1A1 confirms the prevailing molecular model of biosilicification and validates it with quantitative data based on a single phosphopeptide species, avoiding the usual unphysiologically high concentrations of phosphate of many previous in vitro silicification experiments.
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Affiliation(s)
- Fabian Daus
- Department of Chemistry, Philipps-Universität Marburg, Hans-Meerwein-Straße 4, 35032 Marburg, Germany.
| | - Xiulan Xie
- Department of Chemistry, Philipps-Universität Marburg, Hans-Meerwein-Straße 4, 35032 Marburg, Germany.
| | - Armin Geyer
- Department of Chemistry, Philipps-Universität Marburg, Hans-Meerwein-Straße 4, 35032 Marburg, Germany.
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Diploneis serrata (Bacillariophyceae): The use of structural mechanistic analysis to resolve morphological classification and molecular identification of a new record diatom species from Kenting, Taiwan. ECOL INFORM 2022. [DOI: 10.1016/j.ecoinf.2022.101588] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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10
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Lim HK, Tan SJ, Wu Z, Ong BC, Tan KW, Dong Z, Tay CY. Diatom-inspired 2D nitric oxide releasing anti-infective porous nanofrustules. J Mater Chem B 2021; 9:7229-7237. [PMID: 34031686 DOI: 10.1039/d1tb00458a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Two-dimensional (2D) nanomaterials (NM) have emerged as promising platforms for antibacterial applications. However, the inherent "flatness" of 2D NM often limits the loading of antimicrobial components needed for synergistic bactericidal actions. Here, inspired by the highly ornamented siliceous frustules of diatoms, we prepared 2D ultrathin (<20 nm) and rigid "nanofrustule" plates via the out-of-plane growth of cetyltrimethylammonium bromide (CTAB) directed silica mesostructures on the surfaces of 2D graphene oxide nanosheets. The nanofrustules were characterized by the presence of mesoporous channels with a pore size of 3 nm and a high specific surface area of 674 m2 g-1. S-nitrosothiol-modification on the silica surfaces enables the development of a novel anti-infective nitric oxide (NO) releasing NO-nanofrustule system. The cage-like mesoporous silica architecture enabled a controlled and sustainable release of NO from the NO-nanofrustules under physiological conditions. The NO-nanofrustules displayed broad antibacterial effects against Staphylococcus aureus and Escherichia coli with a minimum inhibitory concentration of 250 μg ml-1. Mechanistic studies revealed that the antibacterial property of NO-nanofrustules was attained via a unique "capture-and-release" mode-of-action. The first step entailed the capture of the bacteria by the NO-nanofrustules to form micro-aggregates. This was followed by the release of high levels of NO to the captured bacteria to elicit a potent anti-infective effect. In combination with the lack of cytotoxicity in human dermal cells, the 2D hybrid NO-nanofrustules may be utilized to combat wound infections in clinical settings.
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Affiliation(s)
- Hong Kit Lim
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
| | - Shao Jie Tan
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
| | - Zhuoran Wu
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
| | - Boon Chong Ong
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
| | - Kwan Wee Tan
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
| | - Zhili Dong
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
| | - Chor Yong Tay
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore. and School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551, Singapore and Environmental Chemistry and Materials Centre, Nanyang Environment & Water Research Institute, 1 Cleantech Loop, CleanTech One, Singapore 637141, Singapore
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11
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Can sustainable, monodisperse, spherical silica be produced from biomolecules? A review. APPLIED NANOSCIENCE 2021. [DOI: 10.1007/s13204-021-01869-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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12
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Kapustin DA, Glushchenko AM, Kociolek JP, Kulikovskiy MS. Encyonopsis indonesica sp. nov. (Bacillariophyceae, Cymbellales), a new diatom from the ancient lake Matano (Sulawesi, Indonesia). PHYTOKEYS 2021; 175:1-11. [PMID: 33786008 PMCID: PMC7990855 DOI: 10.3897/phytokeys.175.61044] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2020] [Accepted: 02/24/2021] [Indexed: 06/12/2023]
Abstract
A new species, Encyonopsis indonesica, is described from the ancient lake Matano, Sulawesi island, Indonesia. The morphology of this species was studied by means of light and scanning electron microscopy. E. indonesica has a remarkable valve ultrastructure. The valve surface is ornamented with numerous longitudinal siliceous ribs and siliceous verrucae. Valve face delineated from the mantle by a thickened marginal ridge. Raised sterna border the raphe branches. Raphe is distinctly undulate with distal ends hooked strongly to the ventral side. The only similar species to E. indonesica is Amphora dissimilis described from New Caledonia. Comparison of both taxa is given and A. dissimilis is transferred to Encyonopsis. The taxonomic placement of both taxa is evaluated, and the phenomenon of external siliceous ornamentation is discussed.
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Affiliation(s)
- Dmitry A. Kapustin
- Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, 127276, Moscow, RussiaTimiryazev Institute of Plant Physiology, Russian Academy of SciencesMoscowRussia
| | - Anton M. Glushchenko
- Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, 127276, Moscow, RussiaTimiryazev Institute of Plant Physiology, Russian Academy of SciencesMoscowRussia
| | - John P. Kociolek
- Museum of Natural History, Boulder, Colorado, 80309, USAMuseum of Natural HistoryBoulderUnited States of America
- Department of Ecology and Evolutionary Biology University of Colorado, Boulder, Colorado, 80309, USABiology University of ColoradoBoulderUnited States of America
| | - Maxim S. Kulikovskiy
- Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, 127276, Moscow, RussiaTimiryazev Institute of Plant Physiology, Russian Academy of SciencesMoscowRussia
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Abdelhamid MAA, Pack SP. Biomimetic and bioinspired silicifications: Recent advances for biomaterial design and applications. Acta Biomater 2021; 120:38-56. [PMID: 32447061 DOI: 10.1016/j.actbio.2020.05.017] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2020] [Revised: 05/06/2020] [Accepted: 05/13/2020] [Indexed: 12/12/2022]
Abstract
The rational design and controllable synthesis of functional silica-based materials have gained increased interest in a variety of biomedical and biotechnological applications due to their unique properties. The current review shows that marine organisms, such as siliceous sponges and diatoms, could be the inspiration for the fabrication of advanced biohybrid materials. Several biomolecules were involved in the molecular mechanism of biosilicification in vivo. Mimicking their behavior, functional silica-based biomaterials have been generated via biomimetic and bioinspired silicification in vitro. Additionally, several advanced technologies were developed for in vitro and in vivo immobilization of biomolecules with potential applications in biocatalysis, biosensors, bioimaging, and immunoassays. A thin silica layer could coat a single living cell or virus as a protective shell offering new opportunities in biotechnology and nanomedicine fields. Promising nanotechnologies have been developed for drug encapsulation and delivery in a targeted and controlled manner, in particular for poorly soluble hydrophobic drugs. Moreover, biomimetic silica, as a morphogenetically active biocompatible material, has been utilized in the field of bone regeneration and in the development of biomedical implantable devices. STATEMENT OF SIGNIFICANCE: In nature, silica-based biomaterials, such as diatom frustules and sponge spicules, with high mechanical and physical properties were created under biocompatible conditions. The fundamental knowledge underlying the molecular mechanisms of biosilica formation could inspire engineers and chemists to design novel hybrid biomaterials using molecular biomimetic strategies. The production of such biohybrid materials brings the biosilicification field closer to practical applications. This review starts with the biosilicification process of sponges and diatoms with recently updated researches. Then, this article covers recent advances in the design of silica-based biomaterials and their potential applications in the fields of biotechnology and nanomedicine, highlighting several promising technologies for encapsulation of functional proteins and living cells, drug delivery and the preparation of scaffolds for bone regeneration.
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Affiliation(s)
- Mohamed A A Abdelhamid
- Department of Biotechnology and Bioinformatics, Korea University, Sejong-Ro 2511, Sejong 30019, Republic of Korea; Department of Botany and Microbiology, Faculty of Science, Minia University, Minia 61519, Egypt
| | - Seung Pil Pack
- Department of Biotechnology and Bioinformatics, Korea University, Sejong-Ro 2511, Sejong 30019, Republic of Korea.
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14
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Living materials fabricated via gradient mineralization of light-inducible biofilms. Nat Chem Biol 2020; 17:351-359. [PMID: 33349707 DOI: 10.1038/s41589-020-00697-z] [Citation(s) in RCA: 56] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2020] [Accepted: 10/15/2020] [Indexed: 11/08/2022]
Abstract
Living organisms have evolved sophisticated cell-mediated biomineralization mechanisms to build structurally ordered, environmentally adaptive composite materials. Despite advances in biomimetic mineralization research, it remains difficult to produce mineralized composites that integrate the structural features and 'living' attributes of their natural counterparts. Here, inspired by natural graded materials, we developed living patterned and gradient composites by coupling light-inducible bacterial biofilm formation with biomimetic hydroxyapatite (HA) mineralization. We showed that both the location and the degree of mineralization could be regulated by tailoring functional biofilm growth with spatial and biomass density control. The cells in the composites remained viable and could sense and respond to environmental signals. Additionally, the composites exhibited a maximum 15-fold increase in Young's modulus after mineralization and could be applied to repair damage in a spatially controlled manner. Beyond insights into the mechanism of formation of natural graded composites, our study provides a viable means of fabricating living composites with dynamic responsiveness and environmental adaptability.
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15
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High silicate concentration facilitates fucoxanthin and eicosapentaenoic acid (EPA) production under heterotrophic condition in the marine diatom Nitzschia laevis. ALGAL RES 2020. [DOI: 10.1016/j.algal.2020.102086] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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16
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Protein-driven biomineralization: Comparing silica formation in grass silica cells to other biomineralization processes. J Struct Biol 2020; 213:107665. [PMID: 33227416 DOI: 10.1016/j.jsb.2020.107665] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Revised: 11/13/2020] [Accepted: 11/16/2020] [Indexed: 11/20/2022]
Abstract
Biomineralization is a common strategy adopted by organisms to support their body structure. Plants practice significant silicon and calcium based biomineralization in which silicon is deposited as silica in cell walls and intracellularly in various cell-types, while calcium is deposited mostly as calcium oxalate in vacuoles of specialized cells. In this review, we compare cellular processes leading to protein-dependent mineralization in plants, diatoms and sponges (phylum Porifera). The mechanisms of biomineralization in these organisms are inherently different. The composite silica structure in diatoms forms inside the cytoplasm in a membrane bound vesicle, which after maturation is exocytosed to the cell surface. In sponges, separate vesicles with the mineral precursor (silicic acid), an inorganic template, and organic molecules, fuse together and are extruded to the extracellular space. In plants, calcium oxalate mineral precipitates in vacuolar crystal chambers containing a protein matrix which is never exocytosed. Silica deposition in grass silica cells takes place outside the cell membrane when the cells secrete the mineralizing protein into the apoplasm rich with silicic acid (the mineral precursor molecules). Our review infers that the organism complexity and precursor reactivity (calcium and oxalate versus silicic acid) are main driving forces for the evolution of varied mineralization mechanisms.
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Fu W, Chaiboonchoe A, Dohai B, Sultana M, Baffour K, Alzahmi A, Weston J, Al Khairy D, Daakour S, Jaiswal A, Nelson DR, Mystikou A, Brynjolfsson S, Salehi-Ashtiani K. GPCR Genes as Activators of Surface Colonization Pathways in a Model Marine Diatom. iScience 2020; 23:101424. [PMID: 32798972 PMCID: PMC7452957 DOI: 10.1016/j.isci.2020.101424] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2020] [Revised: 04/25/2020] [Accepted: 07/28/2020] [Indexed: 11/30/2022] Open
Abstract
Surface colonization allows diatoms, a dominant group of phytoplankton in oceans, to adapt to harsh marine environments while mediating biofoulings to human-made underwater facilities. The regulatory pathways underlying diatom surface colonization, which involves morphotype switching in some species, remain mostly unknown. Here, we describe the identification of 61 signaling genes, including G-protein-coupled receptors (GPCRs) and protein kinases, which are differentially regulated during surface colonization in the model diatom species, Phaeodactylum tricornutum. We show that the transformation of P. tricornutum with constructs expressing individual GPCR genes induces cells to adopt the surface colonization morphology. P. tricornutum cells transformed to express GPCR1A display 30% more resistance to UV light exposure than their non-biofouling wild-type counterparts, consistent with increased silicification of cell walls associated with the oval biofouling morphotype. Our results provide a mechanistic definition of morphological shifts during surface colonization and identify candidate target proteins for the screening of eco-friendly, anti-biofouling molecules. The model diatom Phaeodactylum tricornutum shifts morphology to form biofilms G-protein-coupled receptors (GPCRs) can modulate diatom surface colonization GPCR1A expression can induce biofouling morphotype and UV resistance Identified genes and pathways can serve as targets for anti-biofouling discoveries
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Affiliation(s)
- Weiqi Fu
- Laboratory of Algal, Systems, and Synthetic Biology (LASSB), Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAE; Center for Systems Biology and Faculty of Industrial Engineering, Mechanical Engineering and Computer Science, School of Engineering and Natural Sciences, University of Iceland, Reykjavik, Iceland.
| | - Amphun Chaiboonchoe
- Laboratory of Algal, Systems, and Synthetic Biology (LASSB), Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Bushra Dohai
- Laboratory of Algal, Systems, and Synthetic Biology (LASSB), Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Mehar Sultana
- Center for Genomics and Systems Biology (CGSB), New York University Research Institute, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Kristos Baffour
- Laboratory of Algal, Systems, and Synthetic Biology (LASSB), Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Amnah Alzahmi
- Center for Genomics and Systems Biology (CGSB), New York University Research Institute, New York University Abu Dhabi, Abu Dhabi, UAE; Department of Biology, United Arab Emirates University (UAEU), Al Ain, UAE
| | - James Weston
- Core Technology Platforms, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Dina Al Khairy
- Laboratory of Algal, Systems, and Synthetic Biology (LASSB), Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Sarah Daakour
- Center for Genomics and Systems Biology (CGSB), New York University Research Institute, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Ashish Jaiswal
- Laboratory of Algal, Systems, and Synthetic Biology (LASSB), Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAE
| | - David R Nelson
- Center for Genomics and Systems Biology (CGSB), New York University Research Institute, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Alexandra Mystikou
- Center for Genomics and Systems Biology (CGSB), New York University Research Institute, New York University Abu Dhabi, Abu Dhabi, UAE
| | - Sigurdur Brynjolfsson
- Center for Systems Biology and Faculty of Industrial Engineering, Mechanical Engineering and Computer Science, School of Engineering and Natural Sciences, University of Iceland, Reykjavik, Iceland
| | - Kourosh Salehi-Ashtiani
- Laboratory of Algal, Systems, and Synthetic Biology (LASSB), Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAE; Center for Genomics and Systems Biology (CGSB), New York University Research Institute, New York University Abu Dhabi, Abu Dhabi, UAE.
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18
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Chen S, Hall EAH. A Biosilification Fusion Protein for a ‘Self‐immobilising’ Sarcosine Oxidase Amperometric Enzyme Biosensor. ELECTROANAL 2020. [DOI: 10.1002/elan.202000032] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Si Chen
- Department of Chemical Engineering and BiotechnologyUniversity of Cambridge Philippa Fawcett Drive Cambridge CB3 0AS UK
| | - Elizabeth A. H. Hall
- Department of Chemical Engineering and BiotechnologyUniversity of Cambridge Philippa Fawcett Drive Cambridge CB3 0AS UK
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19
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Daus F, Pfeifer E, Seipp K, Hampp N, Geyer A. The role of phosphopeptides in the mineralisation of silica. Org Biomol Chem 2020; 18:700-706. [DOI: 10.1039/c9ob02438g] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We describe the synthesis of hyperphosphorylated peptides and the investigation of theirin vitrosilicification activity in combination with long-chain polyamines (LCPA) at high dilution and mildly acidic conditions.
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Affiliation(s)
- Fabian Daus
- Department of Chemistry
- Philipps-Universität Marburg
- 35032 Marburg
- Germany
| | - Erik Pfeifer
- Department of Chemistry
- Philipps-Universität Marburg
- 35032 Marburg
- Germany
| | - Kevin Seipp
- Department of Chemistry
- Philipps-Universität Marburg
- 35032 Marburg
- Germany
| | - Norbert Hampp
- Department of Chemistry
- Philipps-Universität Marburg
- 35032 Marburg
- Germany
| | - Armin Geyer
- Department of Chemistry
- Philipps-Universität Marburg
- 35032 Marburg
- Germany
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20
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Thaker A, Pushpavanam K, Bista T, Sapareto S, Rege K, Nannenga BL. Protein-facilitated gold nanoparticle formation as indicators of ionizing radiation. Biotechnol Bioeng 2019; 116:3160-3167. [PMID: 31502657 DOI: 10.1002/bit.27163] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2019] [Revised: 08/26/2019] [Accepted: 08/31/2019] [Indexed: 12/30/2022]
Abstract
The use of X-ray radiation in radiotherapy is a common treatment for many cancers. Despite several scientific advances, determination of radiation delivered to the patient remains a challenge due to the inherent limitations of existing dosimeters including fabrication and operation. Here, we describe a colorimetric nanosensor that exhibits unique changes in color as a function of therapeutically relevant radiation dose (3-15 Gy). The nanosensor is formulated using a gold salt and maltose-binding protein as a templating agent, which upon exposure to ionizing radiation is converted to gold nanoparticles. The formation of gold nanoparticles from colorless precursor salts renders a change in color that can be observed visually. The dose-dependent multicolored response was quantified through a simple ultraviolet-visible spectrophotometer and the peak shift associated with the different colored dispersions was used as a quantitative indicator of therapeutically relevant radiation doses. The ease of fabrication, visual color changes upon exposure to ionizing radiation, and quantitative read-out demonstrates the potential of protein-facilitated biomineralization approaches to promote the development of next-generation detectors for ionizing radiation.
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Affiliation(s)
- Amar Thaker
- Chemical Engineering, School for Engineering of Matter, Transport, and Energy, Arizona State University, Tempe, Arizona
| | - Karthik Pushpavanam
- Chemical Engineering, School for Engineering of Matter, Transport, and Energy, Arizona State University, Tempe, Arizona
| | - Tomasz Bista
- Banner-MD Anderson Cancer Center, Gilbert, Arizona
| | | | - Kaushal Rege
- Chemical Engineering, School for Engineering of Matter, Transport, and Energy, Arizona State University, Tempe, Arizona
| | - Brent L Nannenga
- Chemical Engineering, School for Engineering of Matter, Transport, and Energy, Arizona State University, Tempe, Arizona
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21
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Altintoprak K, Farajollahi F, Seidenstücker A, Ullrich T, Wenz NL, Krolla P, Plettl A, Ziemann P, Marti O, Walther P, Exner D, Schwaiger R, Gliemann H, Wege C. Improved manufacture of hybrid membranes with bionanopore adapters capable of self-luting. BIOINSPIRED BIOMIMETIC AND NANOBIOMATERIALS 2019. [DOI: 10.1680/jbibn.18.00008] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Affiliation(s)
- Klara Altintoprak
- Department of Molecular Biology and Plant Virology, Institute of Biomaterials and Biomolecular Systems, University of Stuttgart, Stuttgart, Germany
| | - Farid Farajollahi
- Institute of Functional Interfaces, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
| | | | - Timo Ullrich
- Department of Molecular Biology and Plant Virology, Institute of Biomaterials and Biomolecular Systems, University of Stuttgart, Stuttgart, Germany
| | - Nana L Wenz
- Department of Molecular Biology and Plant Virology, Institute of Biomaterials and Biomolecular Systems, University of Stuttgart, Stuttgart, Germany
| | - Peter Krolla
- Institute of Functional Interfaces, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
| | - Alfred Plettl
- Institute of Solid State Physics, University of Ulm, Ulm, Germany
| | - Paul Ziemann
- Institute of Solid State Physics, University of Ulm, Ulm, Germany
| | - Othmar Marti
- Institute of Experimental Physics, University of Ulm, Ulm, Germany
| | - Paul Walther
- Central Facility for Electron Microscopy, University of Ulm, Ulm, Germany
| | - Daniela Exner
- Institute for Applied Materials – Materials and Biomechanics, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany; Karlsruhe Nano Micro Facility, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
| | - Ruth Schwaiger
- Institute for Applied Materials – Materials and Biomechanics, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany; Karlsruhe Nano Micro Facility, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
| | - Hartmut Gliemann
- Institute of Functional Interfaces, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
| | - Christina Wege
- Department of Molecular Biology and Plant Virology, Institute of Biomaterials and Biomolecular Systems, University of Stuttgart, Stuttgart, Germany
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22
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Russo MT, Aiese Cigliano R, Sanseverino W, Ferrante MI. Assessment of genomic changes in a CRISPR/Cas9 Phaeodactylum tricornutum mutant through whole genome resequencing. PeerJ 2018; 6:e5507. [PMID: 30310734 PMCID: PMC6174884 DOI: 10.7717/peerj.5507] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2018] [Accepted: 07/30/2018] [Indexed: 12/26/2022] Open
Abstract
The clustered regularly interspaced short palindromic repeat (CRISPR)/Cas9 system, co-opted from a bacterial defense natural mechanism, is the cutting edge technology to carry out genome editing in a revolutionary fashion. It has been shown to work in many different model organisms, from human to microbes, including two diatom species, Phaeodactylum tricornutum and Thalassiosira pseudonana. Transforming P. tricornutum by bacterial conjugation, we have performed CRISPR/Cas9-based mutagenesis delivering the nuclease as an episome; this allowed for avoiding unwanted perturbations due to random integration in the genome and for excluding the Cas9 activity when it was no longer required, reducing the probability of obtaining off-target mutations, a major drawback of the technology. Since there are no reports on off-target occurrence at the genome level in microalgae, we performed whole-genome Illumina sequencing and found a number of different unspecific changes in both the wild type and mutant strains, while we did not observe any preferential mutation in the genomic regions in which off-targets were predicted. Our results confirm that the CRISPR/Cas9 technology can be efficiently applied to diatoms, showing that the choice of the conjugation method is advantageous for minimizing unwanted changes in the genome of P. tricornutum.
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Affiliation(s)
- Monia Teresa Russo
- Department of Integrative Marine Ecology, Stazione Zoologica Anton Dohrn, Naples, Italy
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23
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Pawolski D, Heintze C, Mey I, Steinem C, Kröger N. Reconstituting the formation of hierarchically porous silica patterns using diatom biomolecules. J Struct Biol 2018; 204:64-74. [DOI: 10.1016/j.jsb.2018.07.005] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2018] [Revised: 07/06/2018] [Accepted: 07/07/2018] [Indexed: 11/15/2022]
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24
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Ragni R, Cicco SR, Vona D, Farinola GM. Multiple Routes to Smart Nanostructured Materials from Diatom Microalgae: A Chemical Perspective. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2018; 30:e1704289. [PMID: 29178521 DOI: 10.1002/adma.201704289] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2017] [Revised: 08/30/2017] [Indexed: 06/07/2023]
Abstract
Diatoms are unicellular photosynthetic microalgae, ubiquitously diffused in both marine and freshwater environments, which exist worldwide with more than 100 000 species, each with different morphologies and dimensions, but typically ranging from 10 to 200 µm. A special feature of diatoms is their production of siliceous micro- to nanoporous cell walls, the frustules, whose hierarchical organization of silica layers produces extraordinarily intricate pore patterns. Due to the high surface area, mechanical resistance, unique optical features, and biocompatibility, a number of applications of diatom frustules have been investigated in photonics, sensing, optoelectronics, biomedicine, and energy conversion and storage. Current progress in diatom-based nanotechnology relies primarily on the availability of various strategies to isolate frustules, retaining their morphological features, and modify their chemical composition for applications that are not restricted to those of the bare biosilica produced by diatoms. Chemical or biological methods that decorate, integrate, convert, or mimic diatoms' biosilica shells while preserving their structural features represent powerful tools in developing scalable, low-cost routes to a wide variety of nanostructured smart materials. Here, the different approaches to chemical modification as the basis for the description of applications relating to the different materials thus obtained are presented.
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Affiliation(s)
- Roberta Ragni
- Dipartimento di Chimica, Università degli Studi di Bari "Aldo Moro,", via Orabona 4, I-70126, Bari, Italy
| | - Stefania R Cicco
- CNR-ICCOM-Bari, Dipartimento di Chimica, via Orabona 4, I-70126, Bari, Italy
| | - Danilo Vona
- Dipartimento di Chimica, Università degli Studi di Bari "Aldo Moro,", via Orabona 4, I-70126, Bari, Italy
| | - Gianluca M Farinola
- Dipartimento di Chimica, Università degli Studi di Bari "Aldo Moro,", via Orabona 4, I-70126, Bari, Italy
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25
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Nguyen PQ, Courchesne NMD, Duraj-Thatte A, Praveschotinunt P, Joshi NS. Engineered Living Materials: Prospects and Challenges for Using Biological Systems to Direct the Assembly of Smart Materials. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2018; 30:e1704847. [PMID: 29430725 PMCID: PMC6309613 DOI: 10.1002/adma.201704847] [Citation(s) in RCA: 189] [Impact Index Per Article: 31.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2017] [Revised: 10/25/2017] [Indexed: 05/20/2023]
Abstract
Vast potential exists for the development of novel, engineered platforms that manipulate biology for the production of programmed advanced materials. Such systems would possess the autonomous, adaptive, and self-healing characteristics of living organisms, but would be engineered with the goal of assembling bulk materials with designer physicochemical or mechanical properties, across multiple length scales. Early efforts toward such engineered living materials (ELMs) are reviewed here, with an emphasis on engineered bacterial systems, living composite materials which integrate inorganic components, successful examples of large-scale implementation, and production methods. In addition, a conceptual exploration of the fundamental criteria of ELM technology and its future challenges is presented. Cradled within the rich intersection of synthetic biology and self-assembling materials, the development of ELM technologies allows the power of biology to be leveraged to grow complex structures and objects using a palette of bio-nanomaterials.
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Affiliation(s)
- Peter Q. Nguyen
- School of Engineering and Applied Sciences, Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA 02138, USA
| | - Noémie-Manuelle Dorval Courchesne
- School of Engineering and Applied Sciences, Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA 02138, USA
| | - Anna Duraj-Thatte
- School of Engineering and Applied Sciences, Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA 02138, USA
| | - Pichet Praveschotinunt
- School of Engineering and Applied Sciences, Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA 02138, USA
| | - Neel S. Joshi
- School of Engineering and Applied Sciences, Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA 02138, USA
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26
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27
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Huang W, Daboussi F. Genetic and metabolic engineering in diatoms. Philos Trans R Soc Lond B Biol Sci 2018; 372:rstb.2016.0411. [PMID: 28717021 DOI: 10.1098/rstb.2016.0411] [Citation(s) in RCA: 52] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/22/2017] [Indexed: 12/23/2022] Open
Abstract
Diatoms have attracted considerable attention due to their success in diverse environmental conditions, which probably is a consequence of their complex origins. Studies of their metabolism will provide insight into their adaptation capacity and are a prerequisite for metabolic engineering. Several years of investigation have led to the development of the genome engineering tools required for such studies, and a profusion of appropriate tools is now available for exploring and exploiting the metabolism of these organisms. Diatoms are highly prized in industrial biotechnology, due to both their richness in natural lipids and carotenoids and their ability to produce recombinant proteins, of considerable value in diverse markets. This review provides an overview of recent advances in genetic engineering methods for diatoms, from the development of gene expression cassettes and gene delivery methods, to cutting-edge genome-editing technologies. It also highlights the contributions of these rapid developments to both basic and applied research: they have improved our understanding of key physiological processes; and they have made it possible to modify the natural metabolism to favour the production of specific compounds or to produce new compounds for green chemistry and pharmaceutical applications.This article is part of the themed issue 'The peculiar carbon metabolism in diatoms'.
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Affiliation(s)
- Weichao Huang
- LISBP, Université de Toulouse, CNRS, INRA, INSA (LISBP-INSA Toulouse), 135 Avenue de Rangueil, 31077 Toulouse, France
| | - Fayza Daboussi
- LISBP, Université de Toulouse, CNRS, INRA, INSA (LISBP-INSA Toulouse), 135 Avenue de Rangueil, 31077 Toulouse, France
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28
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Hatanaka T, Ohashi M, Ishida N. Ordered silica mineralization by regulating local reaction conditions. Biomater Sci 2018; 6:2316-2319. [DOI: 10.1039/c8bm00412a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Using cationic peptides with tetramethyl orthosilicate, a silica nano-film >100 μm in size with <100 nm thickness was constructed under physiological conditions.
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29
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Bauer J, Meza LR, Schaedler TA, Schwaiger R, Zheng X, Valdevit L. Nanolattices: An Emerging Class of Mechanical Metamaterials. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2017; 29. [PMID: 28873250 DOI: 10.1002/adma.201701850] [Citation(s) in RCA: 107] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2017] [Revised: 05/23/2017] [Indexed: 05/12/2023]
Abstract
In 1903, Alexander Graham Bell developed a design principle to generate lightweight, mechanically robust lattice structures based on triangular cells; this has since found broad application in lightweight design. Over one hundred years later, the same principle is being used in the fabrication of nanolattice materials, namely lattice structures composed of nanoscale constituents. Taking advantage of the size-dependent properties typical of nanoparticles, nanowires, and thin films, nanolattices redefine the limits of the accessible material-property space throughout different disciplines. Herein, the exceptional mechanical performance of nanolattices, including their ultrahigh strength, damage tolerance, and stiffness, are reviewed, and their potential for multifunctional applications beyond mechanics is examined. The efficient integration of architecture and size-affected properties is key to further develop nanolattices. The introduction of a hierarchical architecture is an effective tool in enhancing mechanical properties, and the eventual goal of nanolattice design may be to replicate the intricate hierarchies and functionalities observed in biological materials. Additive manufacturing and self-assembly techniques enable lattice design at the nanoscale; the scaling-up of nanolattice fabrication is currently the major challenge to their widespread use in technological applications.
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Affiliation(s)
- Jens Bauer
- Department of Mechanical and Aerospace Engineering, University of California Irvine, CA, 92697, USA
- Institute for Applied Materials, Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, Eggenstein-Leopoldshafen, 76344, Germany
| | - Lucas R Meza
- Engineering Department, Trumpington Street, Cambridge, CB2 1PZ, UK
| | | | - Ruth Schwaiger
- Institute for Applied Materials, Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, Eggenstein-Leopoldshafen, 76344, Germany
| | - Xiaoyu Zheng
- Department of Mechanical Engineering, Virginia Tech, 635 Prices Fork Road, Blacksburg, VA, 24061, USA
| | - Lorenzo Valdevit
- Department of Mechanical and Aerospace Engineering, University of California Irvine, CA, 92697, USA
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30
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Kang KK, Oh HS, Kim DY, Shim G, Lee CS. Synthesis of silica nanoparticles using biomimetic mineralization with polyallylamine hydrochloride. J Colloid Interface Sci 2017; 507:145-153. [PMID: 28783518 DOI: 10.1016/j.jcis.2017.07.115] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2017] [Revised: 07/11/2017] [Accepted: 07/29/2017] [Indexed: 01/03/2023]
Abstract
To synthesize silica particles under mild conditions, we proposed a biomimetic synthesis method. The synthesis process was carried out based on a biphasic sol-gel synthesis method using TEOS (tetraethyl orthosilicate) as a silica source and PAH (polyallylamine) as a substitute for proteins of marine microorganisms for biosilicification. The function and activity of the PAH, used as a replacement for bioactive substances, were confirmed through comparisons between control experiments and designed experiments. The PAH exhibited the ability accelerate condensation with hydrolyzed TEOS in aqueous solutions. The PAH also exhibited high condensation activity in acidic and neutral conditions to produce silica particles. Moreover, PAH also created the nuclei of the silica particles, and the number of nuclei could be controlled by the concentration of PAH. In addition to exhibiting these unique capabilities, PAH did not generate any complexes or composites with the silica species. Depending on the synthesis conditions, the synthesized silica particles exhibited various shapes, such as sponge-like, self-assembled, irregular spherical and completely spherical shapes. The sizes of the primary particles were diverse, with a range from 10nm to 50nm. In particular, by adjusting the PAH concentration, it was possible to obtain nearly perfect spherical-shaped silica nanoparticles with uniform sizes, which has rarely been reported. Above all, using this paper, we can get closer to understanding the principles of silica formation using PAH as a replacement for the bioactive proteins of microorganisms.
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Affiliation(s)
- Kyoung-Ku Kang
- Department of Chemical Engineering, Chungnam National University, 99 Daehak-ro, Yuseong-gu, Daejeon 34134, Republic of Korea
| | - Hyun-Seok Oh
- Department of Chemical Engineering, Chungnam National University, 99 Daehak-ro, Yuseong-gu, Daejeon 34134, Republic of Korea
| | - Dong-Young Kim
- Department of Chemical Engineering, Chungnam National University, 99 Daehak-ro, Yuseong-gu, Daejeon 34134, Republic of Korea
| | - Gyurak Shim
- Department of Chemical Engineering, Chungnam National University, 99 Daehak-ro, Yuseong-gu, Daejeon 34134, Republic of Korea
| | - Chang-Soo Lee
- Department of Chemical Engineering, Chungnam National University, 99 Daehak-ro, Yuseong-gu, Daejeon 34134, Republic of Korea.
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31
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Brembu T, Chauton MS, Winge P, Bones AM, Vadstein O. Dynamic responses to silicon in Thalasiossira pseudonana - Identification, characterisation and classification of signature genes and their corresponding protein motifs. Sci Rep 2017; 7:4865. [PMID: 28687794 PMCID: PMC5501833 DOI: 10.1038/s41598-017-04921-0] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2017] [Accepted: 05/22/2017] [Indexed: 11/10/2022] Open
Abstract
The diatom cell wall, or frustule, is a highly complex, three-dimensional structure consisting of nanopatterned silica as well as proteins and other organic components. While some key components have been identified, knowledge on frustule biosynthesis is still fragmented. The model diatom Thalassiosira pseudonana was subjected to silicon (Si) shift-up and shift-down situations. Cellular and molecular signatures, dynamic changes and co-regulated clusters representing the hallmarks of cellular and molecular responses to changing Si availabilities were characterised. Ten new proteins with silaffin-like motifs, two kinases and a novel family of putatively frustule-associated transmembrane proteins induced by Si shift-up with a possible role in frustule biosynthesis were identified. A separate cluster analysis performed on all significantly regulated silaffin-like proteins (SFLPs), as well as silaffin-like motifs, resulted in the classification of silaffins, cingulins and SFLPs into distinct clusters. A majority of the genes in the Si-responsive clusters are highly divergent, but positive selection does not seem to be the driver behind this variability. This study provides a high-resolution map over transcriptional responses to changes in Si availability in T. pseudonana. Hallmark Si-responsive genes are identified, characteristic motifs and domains are classified, and taxonomic and evolutionary implications outlined and discussed.
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Affiliation(s)
- Tore Brembu
- NTNU Norwegian University of Science and Technology, Departments of Biology, N-7491, Trondheim, Norway.
| | | | - Per Winge
- NTNU Norwegian University of Science and Technology, Departments of Biology, N-7491, Trondheim, Norway
| | - Atle M Bones
- NTNU Norwegian University of Science and Technology, Departments of Biology, N-7491, Trondheim, Norway
| | - Olav Vadstein
- Biotechnology and Food Science, N-7491, Trondheim, Norway
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32
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Zhang Z, Ju E, Bing W, Wang Z, Ren J, Qu X. Chemically individual armoured bioreporter bacteria used for the in vivo sensing of ultra-trace toxic metal ions. Chem Commun (Camb) 2017; 53:8415-8418. [DOI: 10.1039/c7cc03794e] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
A chemically engineered mesoporous silica armour is developed for simultaneously improving bioreporter bacterial vitality and shielding infectivity.
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Affiliation(s)
- Zhijun Zhang
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Enguo Ju
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Wei Bing
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Zhenzhen Wang
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Jinsong Ren
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Xiaogang Qu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
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Green DW, Watson GS, Watson JA, Lee DJ, Lee JM, Jung HS. Diversification and enrichment of clinical biomaterials inspired by Darwinian evolution. Acta Biomater 2016; 42:33-45. [PMID: 27381524 DOI: 10.1016/j.actbio.2016.06.039] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2016] [Revised: 06/11/2016] [Accepted: 06/21/2016] [Indexed: 02/06/2023]
Abstract
UNLABELLED Regenerative medicine and biomaterials design are driven by biomimicry. There is the essential requirement to emulate human cell, tissue, organ and physiological complexity to ensure long-lasting clinical success. Biomimicry projects for biomaterials innovation can be re-invigorated with evolutionary insights and perspectives, since Darwinian evolution is the original dynamic process for biological organisation and complexity. Many existing human inspired regenerative biomaterials (defined as a nature generated, nature derived and nature mimicking structure, produced within a biological system, which can deputise for, or replace human tissues for which it closely matches) are without important elements of biological complexity such as, hierarchy and autonomous actions. It is possible to engineer these essential elements into clinical biomaterials via bioinspired implementation of concepts, processes and mechanisms played out during Darwinian evolution; mechanisms such as, directed, computational, accelerated evolutions and artificial selection contrived in the laboratory. These dynamos for innovation can be used during biomaterials fabrication, but also to choose optimal designs in the regeneration process. Further evolutionary information can help at the design stage; gleaned from the historical evolution of material adaptations compared across phylogenies to changes in their environment and habitats. Taken together, harnessing evolutionary mechanisms and evolutionary pathways, leading to ideal adaptations, will eventually provide a new class of Darwinian and evolutionary biomaterials. This will provide bioengineers with a more diversified and more efficient innovation tool for biomaterial design, synthesis and function than currently achieved with synthetic materials chemistry programmes and rational based materials design approach, which require reasoned logic. It will also inject further creativity, diversity and richness into the biomedical technologies that we make. All of which are based on biological principles. Such evolution-inspired biomaterials have the potential to generate innovative solutions, which match with existing bioengineering problems, in vital areas of clinical materials translation that include tissue engineering, gene delivery, drug delivery, immunity modulation, and scar-less wound healing. STATEMENT OF SIGNIFICANCE Evolution by natural selection is a powerful generator of innovations in molecular, materials and structures. Man has influenced evolution for thousands of years, to create new breeds of farm animals and crop plants, but now molecular and materials can be molded in the same way. Biological molecules and simple structures can be evolved, literally in the laboratory. Furthermore, they are re-designed via lessons learnt from evolutionary history. Through a 3-step process to (1) create variants in material building blocks, (2) screen the variants with beneficial traits/properties and (3) select and support their self-assembly into usable materials, improvements in design and performance can emerge. By introducing biological molecules and small organisms into this process, it is possible to make increasingly diversified, sophisticated and clinically relevant materials for multiple roles in biomedicine.
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Affiliation(s)
- D W Green
- Division in Anatomy and Developmental Biology, Department of Oral Biology, Oral Science Research Center, BK21 PLUS Project, Yonsei University College of Dentistry, Seoul, Republic of Korea; Oral Biosciences, Faculty of Dentistry, The University of Hong Kong, 34, Hospital Road, Hong Kong SAR
| | - G S Watson
- School of Science & Engineering, University of the Sunshine Coast, Sippy Downs, QLD 4556, Australia
| | - J A Watson
- School of Science & Engineering, University of the Sunshine Coast, Sippy Downs, QLD 4556, Australia
| | - D-J Lee
- Division in Anatomy and Developmental Biology, Department of Oral Biology, Oral Science Research Center, BK21 PLUS Project, Yonsei University College of Dentistry, Seoul, Republic of Korea
| | - J-M Lee
- Division in Anatomy and Developmental Biology, Department of Oral Biology, Oral Science Research Center, BK21 PLUS Project, Yonsei University College of Dentistry, Seoul, Republic of Korea
| | - H-S Jung
- Division in Anatomy and Developmental Biology, Department of Oral Biology, Oral Science Research Center, BK21 PLUS Project, Yonsei University College of Dentistry, Seoul, Republic of Korea; Oral Biosciences, Faculty of Dentistry, The University of Hong Kong, 34, Hospital Road, Hong Kong SAR.
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34
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Marron AO, Chappell H, Ratcliffe S, Goldstein RE. A model for the effects of germanium on silica biomineralization in choanoflagellates. J R Soc Interface 2016; 13:rsif.2016.0485. [PMID: 27655668 PMCID: PMC5046948 DOI: 10.1098/rsif.2016.0485] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2016] [Accepted: 08/26/2016] [Indexed: 12/22/2022] Open
Abstract
Silica biomineralization is a widespread phenomenon of major biotechnological interest. Modifying biosilica with substances like germanium (Ge) can confer useful new properties, although exposure to high levels of Ge disrupts normal biosilicification. No clear mechanism explains why this disruption occurs. Here, we study the effect of Ge on loricate choanoflagellates, a group of protists that construct a species-specific extracellular lorica from multiple siliceous costal strips. High Ge exposures were toxic, whereas lower Ge exposures produced cells with incomplete or absent loricae. These effects can be ameliorated by restoring the germanium : silicon ratio, as observed in other biosilicifying organisms. We developed simulations of how Ge interacts with polymerizing silica. In our models, Ge is readily incorporated at the ends of silica forming from silicic acid condensation, but this prevents further silica polymerization. Our 'Ge-capping' model is supported by observations from loricate choanoflagellates. Ge exposure terminates costal strip synthesis and lorica formation, resulting in disruption to cytokinesis and fatal build-up of silicic acid. Applying the Ge-capping model to other siliceous organisms explains the general toxicity of Ge and identifies potential protective responses in metalloid uptake and sensing. This can improve the design of new silica biomaterials, and further our understanding of silicon metabolism.
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Affiliation(s)
- Alan O Marron
- Department of Applied Mathematics and Theoretical Physics, Centre for Mathematical Sciences, University of Cambridge, Wilberforce Road, Cambridge CB3 0WA, UK
| | - Helen Chappell
- Medical Research Council Human Nutrition Research, Elsie Widdowson Laboratory, 120 Fulbourn Road, Cambridge CB1 9NL, UK
| | - Sarah Ratcliffe
- School of Biochemistry, Biomedical Sciences Building, University of Bristol, University Walk, Bristol BS8 1TD, UK
| | - Raymond E Goldstein
- Department of Applied Mathematics and Theoretical Physics, Centre for Mathematical Sciences, University of Cambridge, Wilberforce Road, Cambridge CB3 0WA, UK
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35
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Hyde EDER, Seyfaee A, Neville F, Moreno-Atanasio R. Colloidal Silica Particle Synthesis and Future Industrial Manufacturing Pathways: A Review. Ind Eng Chem Res 2016. [DOI: 10.1021/acs.iecr.6b01839] [Citation(s) in RCA: 85] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Emily D. E. R. Hyde
- School of Engineering, and ‡School of Environmental
and Life Sciences, The University of Newcastle, Callaghan, NSW 2308, Australia
| | - Ahmad Seyfaee
- School of Engineering, and ‡School of Environmental
and Life Sciences, The University of Newcastle, Callaghan, NSW 2308, Australia
| | - Frances Neville
- School of Engineering, and ‡School of Environmental
and Life Sciences, The University of Newcastle, Callaghan, NSW 2308, Australia
| | - Roberto Moreno-Atanasio
- School of Engineering, and ‡School of Environmental
and Life Sciences, The University of Newcastle, Callaghan, NSW 2308, Australia
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36
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Kotzsch A, Pawolski D, Milentyev A, Shevchenko A, Scheffel A, Poulsen N, Shevchenko A, Kröger N. Biochemical Composition and Assembly of Biosilica-associated Insoluble Organic Matrices from the Diatom Thalassiosira pseudonana. J Biol Chem 2016; 291:4982-97. [PMID: 26710847 PMCID: PMC4777836 DOI: 10.1074/jbc.m115.706440] [Citation(s) in RCA: 51] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2015] [Revised: 12/23/2015] [Indexed: 11/06/2022] Open
Abstract
The nano- and micropatterned biosilica cell walls of diatoms are remarkable examples of biological morphogenesis and possess highly interesting material properties. Only recently has it been demonstrated that biosilica-associated organic structures with specific nanopatterns (termed insoluble organic matrices) are general components of diatom biosilica. The model diatom Thalassiosira pseudonana contains three types of insoluble organic matrices: chitin meshworks, organic microrings, and organic microplates, the latter being described in the present study for the first time. To date, little is known about the molecular composition, intracellular assembly, and biological functions of organic matrices. Here we have performed structural and functional analyses of the organic microrings and organic microplates from T. pseudonana. Proteomics analysis yielded seven proteins of unknown function (termed SiMat proteins) together with five known silica biomineralization proteins (four cingulins and one silaffin). The location of SiMat1-GFP in the insoluble organic microrings and the similarity of tyrosine- and lysine-rich functional domains identifies this protein as a new member of the cingulin protein family. Mass spectrometric analysis indicates that most of the lysine residues of cingulins and the other insoluble organic matrix proteins are post-translationally modified by short polyamine groups, which are known to enhance the silica formation activity of proteins. Studies with recombinant cingulins (rCinY2 and rCinW2) demonstrate that acidic conditions (pH 5.5) trigger the assembly of mixed cingulin aggregates that have silica formation activity. Our results suggest an important role for cingulins in the biogenesis of organic microrings and support the hypothesis that this type of insoluble organic matrix functions in biosilica morphogenesis.
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Affiliation(s)
| | | | - Alexander Milentyev
- the Max-Planck-Institute of Molecular Cell Biology and Genetics, 01307 Dresden, Germany, and
| | - Anna Shevchenko
- the Max-Planck-Institute of Molecular Cell Biology and Genetics, 01307 Dresden, Germany, and
| | - André Scheffel
- the Max-Planck-Institute of Plant Physiology, 14476 Potsdam, Germany
| | | | - Andrej Shevchenko
- the Max-Planck-Institute of Molecular Cell Biology and Genetics, 01307 Dresden, Germany, and
| | - Nils Kröger
- From the B CUBE Center for Molecular Bioengineering and the Department of Chemistry and Food Chemistry, Technische Universität Dresden, 01307 Dresden, Germany,
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37
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Alipour L, Hamamoto M, Nakashima S, Harui R, Furiki M, Oku O. Infrared Microspectroscopy of Bionanomaterials (Diatoms) with Careful Evaluation of Void Effects. APPLIED SPECTROSCOPY 2016; 70:427-442. [PMID: 26823543 DOI: 10.1177/0003702815626665] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2014] [Accepted: 07/13/2015] [Indexed: 06/05/2023]
Abstract
In order to characterize a representative natural bionanomaterial, present day centric diatom samples (diameter, 175-310 µm) have been analyzed and imaged by infrared (IR) micro-spectroscopy and scanning electron microscopy (SEM). Because diatom silica frustules have complex microscopic morphology, including many void areas such as micro- or nano-pores, the effects of voids on the spectral band shapes were first evaluated. With increasing void area percentage, 1220 cm(-1)/1070 cm(-1) peak height ratio (Si-O polymerization index) increases and 950 cm(-1)/800 cm(-1) peak height ratio (Si-OH/Si-O-Si) decreases, both approaching 1. Based on the void area percentage of representative diatom samples determined using SEM image analyses (51.5% to 20.5%) and spectral simulation, the 1220 cm(-1)/1070 cm(-1) ratios of diatom samples are sometimes affected by the void effect, but the 950 cm(-1)/800 cm(-1) ratios can indicate real structural information of silica. This void effect should be carefully evaluated for IR micro-spectroscopy of micro-nano-porous materials. Maturity of diatom specimens may be evaluated from: (1) void area percentages determined by SEM; (2) average thicknesses determined by optical microscope; and (3) average values of 1220 cm(-1)/1070 cm(-1) peak height ratios (opposite trend to the void effect) determined by IR micro-spectroscopy. Microscopic heterogeneities of chemical structures of silica were obtained by IR micro-spectroscopic mapping of four representative diatoms. The 950 cm(-1)/800 cm(-1) ratios show that large regions of some diatoms consist of hydrated amorphous immature silica. The successful analysis of diatoms by IR micro-spectroscopic data with careful void effect evaluation may be applied to physicochemical structures of many other bionanomaterials.
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Affiliation(s)
- Leila Alipour
- Department of Earth and Space Science, Osaka University, Toyonaka, Japan
| | - Mai Hamamoto
- Department of Earth and Space Science, Osaka University, Toyonaka, Japan
| | - Satoru Nakashima
- Department of Earth and Space Science, Osaka University, Toyonaka, Japan
| | - Rika Harui
- Thermo Fisher Scientific Corp., Nishinakajima 6-3-14, Osaka, Japan
| | - Masanari Furiki
- Hitachi High Technologies Corp., Miyahara 3-3-31, Osaka, Japan
| | - Osamu Oku
- Micro World Service. Minami-Otsuka 1-3-25-301, Tokyo, Japan
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38
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Liu B, Cao Y, Huang Z, Duan Y, Che S. Silica biomineralization via the self-assembly of helical biomolecules. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2015; 27:479-97. [PMID: 25339438 DOI: 10.1002/adma.201401485] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2014] [Revised: 07/06/2014] [Indexed: 05/27/2023]
Abstract
The biomimetic synthesis of relevant silica materials using biological macromolecules as templates via silica biomineralization processes attract rapidly rising attention toward natural and artificial materials. Biomimetic synthesis studies are useful for improving the understanding of the formation mechanism of the hierarchical structures found in living organisms (such as diatoms and sponges) and for promoting significant developments in the biotechnology, nanotechnology and materials chemistry fields. Chirality is a ubiquitous phenomenon in nature and is an inherent feature of biomolecular components in organisms. Helical biomolecules, one of the most important types of chiral macromolecules, can self-assemble into multiple liquid-crystal structures and be used as biotemplates for silica biomineralization, which renders them particularly useful for fabricating complex silica materials under ambient conditions. Over the past two decades, many new silica materials with hierarchical structures and complex morphologies have been created using helical biomolecules. In this review, the developments in this field are described and the recent progress in silica biomineralization templating using several classes of helical biomolecules, including DNA, polypeptides, cellulose and rod-like viruses is summarized. Particular focus is placed on the formation mechanism of biomolecule-silica materials (BSMs) with hierarchical structures. Finally, current research challenges and future developments are discussed in the conclusion.
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Affiliation(s)
- Ben Liu
- School of Chemistry and Chemical Technology, State Key Laboratory of Composite Materials, Shanghai Jiao Tong University, Shanghai, 200240, China
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39
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Meng F, Gao G, Jia Z. Study on tribological mechanism for multi-layer porous structure of diatom frustule. MICROBIAL ECOLOGY 2015; 69:45-58. [PMID: 25204749 DOI: 10.1007/s00248-014-0485-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2014] [Accepted: 08/19/2014] [Indexed: 06/03/2023]
Abstract
Tribological mechanism of the diatom frustule with multi-layers of pores is studied with the liquid-solid interaction (FSI) method. Based on the reconstructed representative Coscinodiscus sp. frustule with two-layer porous structure, the tribological performances for the diatom frustule at its different pore diameter ratios, pore depth ratios, and velocities are solved through governing equations involved with FSI method. The numerical result shows that the existence of the two-layer porous structure of the diatom helps to reduce the friction between it and ambient water, and to increase its ability to resist the ambient water pressure. The two-layer porous structure effectively improve the tribological performances for the diatom frustule due to the change in the frustule velocity.
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Affiliation(s)
- Fanming Meng
- The State Key Laboratory of Mechanical Transmission, Chongqing University, Chongqing, 400044, China,
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40
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Biogenic nanomaterials from photosynthetic microorganisms. Curr Opin Biotechnol 2014; 33:23-31. [PMID: 25445544 DOI: 10.1016/j.copbio.2014.10.005] [Citation(s) in RCA: 72] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2014] [Revised: 10/14/2014] [Accepted: 10/14/2014] [Indexed: 12/18/2022]
Abstract
The use of algal cell cultures represents a sustainable and environmentally friendly platform for the biogenic production of nanobiomaterials and biocatalysts. For example, advances in the production of biogeneic nanomaterials from algal cell cultures, such as crystalline β-chitin nanofibrils and gold and silver nanoparticles, could enable the 'green' production of biomaterials such as tissue-engineering scaffolds or drug carriers, supercapacitors and optoelectric materials. The in vivo functionalization, as well as newly demonstrated methods of production and modification, of biogenic diatom biosilica have led to the development of organic-inorganic hybrid catalytic systems as well as new biomaterials for drug delivery, biosensors and heavy-metal adsorbents.
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41
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Design of crystal structures, morphologies and functionalities of titanium oxide using water-soluble complexes and molecular control agents. Polym J 2014. [DOI: 10.1038/pj.2014.89] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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42
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Evolving marine biomimetics for regenerative dentistry. Mar Drugs 2014; 12:2877-912. [PMID: 24828293 PMCID: PMC4052322 DOI: 10.3390/md12052877] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2014] [Revised: 04/14/2014] [Accepted: 04/16/2014] [Indexed: 12/16/2022] Open
Abstract
New products that help make human tissue and organ regeneration more effective are in high demand and include materials, structures and substrates that drive cell-to-tissue transformations, orchestrate anatomical assembly and tissue integration with biology. Marine organisms are exemplary bioresources that have extensive possibilities in supporting and facilitating development of human tissue substitutes. Such organisms represent a deep and diverse reserve of materials, substrates and structures that can facilitate tissue reconstruction within lab-based cultures. The reason is that they possess sophisticated structures, architectures and biomaterial designs that are still difficult to replicate using synthetic processes, so far. These products offer tantalizing pre-made options that are versatile, adaptable and have many functions for current tissue engineers seeking fresh solutions to the deficiencies in existing dental biomaterials, which lack the intrinsic elements of biofunctioning, structural and mechanical design to regenerate anatomically correct dental tissues both in the culture dish and in vivo.
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43
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Jang D, Meza LR, Greer F, Greer JR. Fabrication and deformation of three-dimensional hollow ceramic nanostructures. NATURE MATERIALS 2013; 12:893-8. [PMID: 23995324 DOI: 10.1038/nmat3738] [Citation(s) in RCA: 162] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2013] [Accepted: 07/17/2013] [Indexed: 05/24/2023]
Abstract
Creating lightweight, mechanically robust materials has long been an engineering pursuit. Many siliceous skeleton species--such as diatoms, sea sponges and radiolarians--have remarkably high strengths when compared with man-made materials of the same composition, yet are able to remain lightweight and porous. It has been suggested that these properties arise from the hierarchical arrangement of different structural elements at their relevant length scales. Here, we report the fabrication of hollow ceramic scaffolds that mimic the length scales and hierarchy of biological materials. The constituent solids attain tensile strengths of 1.75 GPa without failure even after multiple deformation cycles, as revealed by in situ nanomechanical experiments and finite-element analysis. We discuss the high strength and lack of failure in terms of stress concentrators at surface imperfections and of local stresses within the microstructural landscape. Our findings suggest that the hierarchical design principles offered by hard biological organisms can be applied to create damage-tolerant lightweight engineering materials.
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Affiliation(s)
- Dongchan Jang
- Division of Engineering and Applied Science, California Institute of Technology, Pasadena, California 91125, USA
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44
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Pamirsky IE, Golokhvast KS. Silaffins of diatoms: from applied biotechnology to biomedicine. Mar Drugs 2013; 11:3155-67. [PMID: 24065158 PMCID: PMC3806462 DOI: 10.3390/md11093155] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2013] [Revised: 07/29/2013] [Accepted: 08/12/2013] [Indexed: 11/24/2022] Open
Abstract
Silaffins are involved in the formation of the cell walls of diatoms. It is known that silaffins can precipitate silica in vitro, forming nano- and micro-particles in the shape of spheres and plates containing many pores. It is important to note that the deposition of silica and the particle morphology in the presence of silaffins affects chemical and physical agents (e.g., peptides, polyamines, phosphate, nitrogen, and the mechanical changes of the reaction mixture). It is believed that silaffins act as an organic matrix for silica-genesis and that silica pore size should reflect the pattern of a matrix. Here, biotechnology related to silaffins is discussed in the context of “a hypothesis of silaffin matrix” and “the LCPA-phosphate model”. We discuss the most promising area of silaffin biotechnology—the development of production methods for silicon structures with desired shapes and nanostructural properties that can be used to create biocompatible materials.
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Affiliation(s)
- Igor E Pamirsky
- Analytical Center of Mineralogical and Geochemical Studies, Institute of Geology and Nature Management Far Eastern Branch, Russian Academy of Sciences, 1 Relochny Lane, Blagoveshchensk 675000, Russian Federation
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45
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Origin and status of homologous proteins of biomineralization (biosilicification) in the taxonomy of phylogenetic domains. BIOMED RESEARCH INTERNATIONAL 2013; 2013:397278. [PMID: 23841069 PMCID: PMC3697285 DOI: 10.1155/2013/397278] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/01/2013] [Revised: 04/16/2013] [Accepted: 06/03/2013] [Indexed: 11/17/2022]
Abstract
The taxonomic affiliation (in the systematisation of viruses, and biological domains) of known peptides and proteins of biomineralization (silicateins, silaffins, silacidins and silicase) and their primary structure homologues were analyzed (methods in silico; using Uniprot database). The total number of known peptides and proteins of biosilicification was counted. The data of the quantitative distribution of the detected homologues found in nature are presented. The similarity of the primary structures of silaffins, silacidins, silicateins, silicase, and their homologues was 21–94%, 45–98%, 39–50%, and 28–40%, respectively. These homologues are found in many organisms, from the Protista to the higher plants and animals, including humans, as well as in bacteria and extracellular agents, and they perform a variety of biological functions, such as biologically controlled mineralisation. The provisional classification of these biomineralization proteins is presented. The interrelation of the origin of the first organic polymers and biomineralization is discussed.
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46
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47
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Abstract
Tissue-derived cultured cells exhibit a remarkable range of morphological features in vitro, depending on phenotypic expression and environmental interactions. Translation of these cellular architectures into inorganic materials would provide routes to generate hierarchical nanomaterials with stabilized structures and functions. Here, we describe the fabrication of cell/silica composites (CSCs) and their conversion to silica replicas using mammalian cells as scaffolds to direct complex structure formation. Under mildly acidic solution conditions, silica deposition is restricted to the molecularly crowded cellular template. Inter- and intracellular heterogeneity from the nano- to macroscale is captured and dimensionally preserved in CSCs following drying and subjection to extreme temperatures allowing, for instance, size and shape preserving pyrolysis of cellular architectures to form conductive carbon replicas. The structural and behavioral malleability of the starting material (cultured cells) provides opportunities to develop robust and economical biocomposites with programmed structures and functions.
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48
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Curnow P, Senior L, Knight MJ, Thamatrakoln K, Hildebrand M, Booth PJ. Expression, purification, and reconstitution of a diatom silicon transporter. Biochemistry 2012; 51:3776-85. [PMID: 22530967 DOI: 10.1021/bi3000484] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The synthesis and manipulation of silicon materials on the nanoscale are core themes in nanotechnology research. Inspiration is increasingly being taken from the natural world because the biological mineralization of silicon results in precisely controlled, complex silica structures with dimensions from the millimeter to the nanometer. One fascinating example of silicon biomineralization occurs in the diatoms, unicellular algae that sheath themselves in an ornate silica-based cell wall. To harvest silicon from the environment, diatoms have developed a unique family of integral membrane proteins that bind to a soluble form of silica, silicic acid, and transport it across the cell membrane to the cell interior. These are the first proteins shown to directly interact with silicon, but the current understanding of these specific silicon transport proteins is limited by the lack of in vitro studies of structure and function. We report here the recombinant expression, purification, and reconstitution of a silicon transporter from the model diatom Thalassiosira pseudonana. After using GFP fusions to optimize expression and purification protocols, a His(10)-tagged construct was expressed in Saccharomyces cerevisiae, solubilized in the detergent Fos-choline-12, and purified by affinity chromatography. Size-exclusion chromatography and particle sizing by dynamic light scattering showed that the protein was purified as a homotetramer, although nonspecific oligomerization occurred at high protein concentrations. Circular dichroism measurements confirmed sequence-based predictions that silicon transporters are α-helical membrane proteins. Silicic acid transport could be established in reconstituted proteoliposomes, and silicon uptake was found to be dependent upon an applied sodium gradient. Transport data across different substrate concentrations were best fit to the sigmoidal Hill equation, with a K(0.5) of 19.4 ± 1.3 μM and a cooperativity coefficient of 1.6. Sodium binding was noncooperative with a K(m)(app) of 1.7 ± 1.0 mM, suggesting a transport silicic acid:Na(+) stoichiometry of 2:1. These results provide the basis for a full understanding of both silicon transport in the diatom and protein-silicon interactions in general.
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Affiliation(s)
- Paul Curnow
- School of Biochemistry, Medical Sciences Building, University of Bristol, University Walk, Bristol BS8 1TD, UK.
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49
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Pletikapić G, Berquand A, Radić TM, Svetličić V. QUANTITATIVE NANOMECHANICAL MAPPING OF MARINE DIATOM IN SEAWATER USING PEAK FORCE TAPPING ATOMIC FORCE MICROSCOPY(1). JOURNAL OF PHYCOLOGY 2012; 48:174-85. [PMID: 27009662 DOI: 10.1111/j.1529-8817.2011.01093.x] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
It is generally accepted that a diatom cell wall is characterized by a siliceous skeleton covered by an organic envelope essentially composed of polysaccharides and proteins. Understanding of how the organic component is associated with the silica structure provides an important insight into the biomineralization process and patterning on the cellular level. Using a novel atomic force microscopy (AFM) imaging technique (Peak Force Tapping), we characterized nanomechanical properties (elasticity and deformation) of a weakly silicified marine diatom Cylindrotheca closterium (Ehrenb.) Reimann et J. C. Lewin (strain CCNA1). The nanomechanical properties were measured over the entire cell surface in seawater at a resolution that was not achieved previously. The fibulae were the stiffest (200 MPa) and the least deformable (only 1 nm). Girdle band region appeared as a series of parallel stripes characterized by two sets of values of Young's modulus and deformation: one for silica stripes (43.7 Mpa, 3.7 nm) and the other between the stripes (21.3 MPa, 13.4 nm). The valve region was complex with average values of Young's modulus (29.8 MPa) and deformation (10.2 nm) with high standard deviations. After acid treatment, we identified 15 nm sized silica spheres in the valve region connecting raphe with the girdle bands. The silica spheres were neither fused together nor forming a nanopattern. A cell wall model is proposed with individual silica nanoparticles incorporated in an organic matrix. Such organization of girdle band and valve regions enables the high flexibility needed for movement and adaptation to different environments while maintaining the integrity of the cell.
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Affiliation(s)
- Galja Pletikapić
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, CroatiaBruker Nano GmbH, Mannheim 68165, GermanyDivision for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, Croatia
| | - Alexandre Berquand
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, CroatiaBruker Nano GmbH, Mannheim 68165, GermanyDivision for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, Croatia
| | - Tea Mišić Radić
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, CroatiaBruker Nano GmbH, Mannheim 68165, GermanyDivision for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, Croatia
| | - Vesna Svetličić
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, CroatiaBruker Nano GmbH, Mannheim 68165, GermanyDivision for Marine and Environmental Research, Ruđer Bošković Institute, Zagreb 10000, Croatia
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Otzen D. The role of proteins in biosilicification. SCIENTIFICA 2012; 2012:867562. [PMID: 24278750 PMCID: PMC3820600 DOI: 10.6064/2012/867562] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2012] [Accepted: 09/24/2012] [Indexed: 05/19/2023]
Abstract
Although the use of silicon dioxide (silica) as a constituent of living organisms is mainly restricted to diatoms and sponges, the ways in which this process is controlled by nature continue to inspire and fascinate. Both diatoms and sponges carry out biosilificiation using an organic matrix but they adopt very different strategies. Diatoms use small and heavily modified peptides called silaffins, where the most characteristic feature is a modulation of charge by attaching long chain polyamines (LCPAs) to lysine groups. Free LCPAs can also cooperate with silaffins. Sponges use the enzyme silicatein which is homologous to the cysteine protease cathepsin. Both classes of proteins form higher-order structures which act both as structural templates and mechanistic catalysts for the polycondensation reaction. In both cases, additional proteins are continuously being discovered which modulate the process further. This paper concentrates on the role of these proteins in the biosilification process as well as in various applications, highlighting areas where focus on specific protein properties may provide further insight. The field of biosilification is a crossroads of different disciplines, where insight into the energetics and mechanisms of molecular self-assembly combine with fundamental biology, complex multicomponent colloidal systems, and an impressive array of potential technological applications.
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Affiliation(s)
- Daniel Otzen
- Interdisciplinary Nanoscience Center (iNANO), Center for Insoluble Protein Structures (inSPIN), and Department of Molecular Biology and Genetics, Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark
- *Daniel Otzen:
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