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Pan L, Ding C, Deng Y, Chen H, Yang H, Wang B, Zhou Y, Wang B. Microbial degradation mechanism of historical silk revealed by proteomics and metabolomics. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2023; 15:5380-5389. [PMID: 37812415 DOI: 10.1039/d3ay01033c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/10/2023]
Abstract
Archaeological silk undergoes destructive and irreversible changes during the natural process of decay. However, in-depth studies on the influence of this biological factor are still lacking. Here, a combination of proteomics and metabolomics is proposed for the first time to explore the interaction between bacteria and historical silk during biodegradation, which provides information on changes at the molecular level of proteins and bacterial metabolites. Morphological observation revealed biofilms produced by Stenotrophomonas maltophilia and Pseudomonas alcaligenes when cultured in the stationary phase and confirmed severe deterioration of silk. Proteomics showed that S. maltophilia had an unbiased effect on silk fibroin, indicating its ability to disrupt both heavy and light chains, as well as other proteins, while P. alcaligenes showed an affinity for more disordered proteins. Analysis of bacterial metabolites showed that overall activity reduction and significant accumulation of fatty acid and phenol metabolites occurred after silk addition, suggesting that the presence of silk may inhibit the activity of an individual strain. This study provides a new insight into the microbial degradation mechanism of archaeological silk.
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Affiliation(s)
- Lindan Pan
- Institute of Textile Conservation, Zhejiang Sci-Tech University, Hangzhou 310018, China.
| | - Chuanmiao Ding
- Institute of Textile Conservation, Zhejiang Sci-Tech University, Hangzhou 310018, China.
| | - Yefeng Deng
- Institute of Textile Conservation, Zhejiang Sci-Tech University, Hangzhou 310018, China.
| | - Hao Chen
- Institute of Textile Conservation, Zhejiang Sci-Tech University, Hangzhou 310018, China.
| | - Hailiang Yang
- Key Scientific Research Base of Textile Conservation, State Administration of Cultural Heritage, China National Silk Museum, Hangzhou 310002, China
| | - Biyang Wang
- McDonald Institute for Archaeological Research, University of Cambridge, Cambridge CB2 3ER, UK
| | - Yang Zhou
- Key Scientific Research Base of Textile Conservation, State Administration of Cultural Heritage, China National Silk Museum, Hangzhou 310002, China
| | - Bing Wang
- Institute of Textile Conservation, Zhejiang Sci-Tech University, Hangzhou 310018, China.
- McDonald Institute for Archaeological Research, University of Cambridge, Cambridge CB2 3ER, UK
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2
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Asakura T, Williamson MP. A review on the structure of Bombyx mori silk fibroin fiber studied using solid-state NMR: An antipolar lamella with an 8-residue repeat. Int J Biol Macromol 2023:125537. [PMID: 37379946 DOI: 10.1016/j.ijbiomac.2023.125537] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2023] [Revised: 06/19/2023] [Accepted: 06/21/2023] [Indexed: 06/30/2023]
Abstract
Silk fibroin (SF) fiber from the silkworm Bombyx mori in the Silk II form has been used as an excellent textile fiber for over 5000 years. Recently it has been developed for a range of biomedical applications. Further expansion of these uses builds on the excellent mechanical strength of SF fiber, which derives from its structure. This relationship between strength and SF structure has been studied for over 50 years, but it is still not well understood. In this review, we report the use of solid-state NMR to study stable-isotope labeled SF fiber and stable-isotope labeled peptides including (Ala-Gly)15 and (Ala-Gly-Ser-Gly-Ala-Gly)5 as models of the crystalline fraction. We show that the crystalline fraction is a lamellar structure with a repetitive folding using β-turns every eighth amino acid, and that the sidechains adopt an antipolar arrangement rather than the more well-known polar structure described by Marsh, Corey and Pauling (that is, the Ala methyls in each layer point in opposite directions in alternate strands). The amino acids Ser, Tyr and Val are the next most common in B. mori SF after Gly and Ala, and occur in the crystalline and semi-crystalline regions, probably defining the edges of the crystalline region. Thus, we now have an understanding of the main features of Silk II but there is still a long way to go.
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Affiliation(s)
- Tetsuo Asakura
- Department of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16 Nakacho, Koganei, Tokyo 184-8588, Japan.
| | - Mike P Williamson
- School of Biosciences, University of Sheffield, Firth Court, Western Bank, Sheffield S10 2TN, UK
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3
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Asakura T, Nishimura A, Naito A. Stretching-Induced Conformational Transition of [3- 13C]Ser- and [3- 13C]Tyr- Antheraea yamamai Silk Fibroin before Spinning Investigated with 13C Solid-State NMR Spectroscopy. Biomacromolecules 2022; 23:5095-5105. [PMID: 36449573 DOI: 10.1021/acs.biomac.2c00937] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/02/2022]
Abstract
The conformational transition of [3-13C]Ser- and [3-13C]Tyr-Antheraea yamamai silk fibroin before spinning induced by stretching was investigated with 13C CP/MAS NMR spectroscopy. The α-helix content of the silk fibroin before stretching was found to be 31.6% based on the Ala and Ser peaks. With increasing stretching ratio, the α-helix and the random coil Ala Cβ peaks decreased gradually, while the β-sheet peak was observed at a stretching ratio of ×5 and increased rapidly upon further stretching. For Ser residue, the α-helix peak decreased monotonically with increasing stretching ratio, but the random coil peak increased slightly till the stretching ratio of ×5 and then decreased. A small β-sheet peak was observed before stretching and then increased rapidly starting from the stretching ratio of ×7. In contrast, a gradual decrease of random coil peak and an increase of β-sheet peak were observed for the Tyr residue. The results of this investigation may be helpful for further studies of fiber formation mechanism in A. yamamai and in the future design of artificial silk materials.
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Affiliation(s)
- Tetsuo Asakura
- Department of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16 Nakacho, Koganei, Tokyo 184-8588, Japan
| | - Akio Nishimura
- Department of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16 Nakacho, Koganei, Tokyo 184-8588, Japan
| | - Akira Naito
- Department of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16 Nakacho, Koganei, Tokyo 184-8588, Japan
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4
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Burakova E, Vasa SK, Linser R. Characterization of conformational heterogeneity via higher-dimensionality, proton-detected solid-state NMR. JOURNAL OF BIOMOLECULAR NMR 2022; 76:197-212. [PMID: 36149571 PMCID: PMC9712413 DOI: 10.1007/s10858-022-00405-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Accepted: 09/07/2022] [Indexed: 06/16/2023]
Abstract
Site-specific heterogeneity of solid protein samples can be exploited as valuable information to answer biological questions ranging from thermodynamic properties determining fibril formation to protein folding and conformational stability upon stress. In particular, for proteins of increasing molecular weight, however, site-resolved assessment without residue-specific labeling is challenging using established methodology, which tends to rely on carbon-detected 2D correlations. Here we develop purely chemical-shift-based approaches for assessment of relative conformational heterogeneity that allows identification of each residue via four chemical-shift dimensions. High dimensionality diminishes the probability of peak overlap in the presence of multiple, heterogeneously broadened resonances. Utilizing backbone dihedral-angle reconstruction from individual contributions to the peak shape either via suitably adapted prediction routines or direct association with a relational database, the methods may in future studies afford assessment of site-specific heterogeneity of proteins without site-specific labeling.
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Affiliation(s)
- Ekaterina Burakova
- Department of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Str. 4a, 44227, Dortmund, Germany
- Department of Chemistry and Pharmacy, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany
| | - Suresh K Vasa
- Department of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Str. 4a, 44227, Dortmund, Germany
- Department of Chemistry and Pharmacy, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany
| | - Rasmus Linser
- Department of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Str. 4a, 44227, Dortmund, Germany.
- Department of Chemistry and Pharmacy, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany.
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5
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Natural Biopolymers for Bone Tissue Engineering: A Brief Review. ENGINEERED REGENERATION 2022. [DOI: 10.1016/j.engreg.2022.12.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
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Kashihara K, Oouchi M, Kodama Y, Arai T, Horie M, Kitaura T, Ishii Y. High-Field Nuclear Magnetic Resonance Studies Reveal New Structural Landscape of Sulfur-Vulcanized Natural Rubber. Biomacromolecules 2022; 23:4481-4492. [DOI: 10.1021/acs.biomac.2c00141] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Kousuke Kashihara
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta, Yokohama 226-8503, Japan
- NMR Science and Development Division, SPring-8 Center, RIKEN, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
| | - Muneki Oouchi
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta, Yokohama 226-8503, Japan
- NMR Science and Development Division, SPring-8 Center, RIKEN, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
| | - Yu Kodama
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta, Yokohama 226-8503, Japan
| | - Tatsuhiro Arai
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta, Yokohama 226-8503, Japan
| | - Miki Horie
- Chemical Analysis Center, Research & Development HQ, Sumitomo Rubber Industries, Ltd., 1-1-2 Tsutsui, Chuo, Kobe 651-0071, Japan
- WORLD INTEC CO., Ltd., 11-2 Otemachi, Kokurakita-ku, Kitakyushu, Fukuoka 803-0814, Japan
| | - Takehiro Kitaura
- Chemical Analysis Center, Research & Development HQ, Sumitomo Rubber Industries, Ltd., 1-1-2 Tsutsui, Chuo, Kobe 651-0071, Japan
| | - Yoshitaka Ishii
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta, Yokohama 226-8503, Japan
- NMR Science and Development Division, SPring-8 Center, RIKEN, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
- RIKEN Center for Biosystems Dynamics Research, RIKEN, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
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7
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Wu A, Ramakrishna I, Hattori T, Yamamoto H. Silicon-based hydrophobic tags applied in liquid-phase peptide synthesis: protected DRGN-1 and poly alanine chain synthesis. Org Biomol Chem 2022; 20:8685-8692. [DOI: 10.1039/d2ob01795d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Two types of silicon-based hydrophobic tags, including a siloxy group containing tag and an arylsilyl group containing tag, were developed for applying them in tag-assisted liquid-phase peptide synthesis (Tag LPPS) to synthesize long peptides.
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Affiliation(s)
- An Wu
- Peptide Research Centre, Chubu University, 1200 Matsumoto-cho, Kasugai, Aichi 487-8501, Japan
| | - Isai Ramakrishna
- Peptide Research Centre, Chubu University, 1200 Matsumoto-cho, Kasugai, Aichi 487-8501, Japan
| | - Tomohiro Hattori
- Peptide Research Centre, Chubu University, 1200 Matsumoto-cho, Kasugai, Aichi 487-8501, Japan
| | - Hisashi Yamamoto
- Peptide Research Centre, Chubu University, 1200 Matsumoto-cho, Kasugai, Aichi 487-8501, Japan
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8
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Kono N, Ohtoshi R, Malay AD, Mori M, Masunaga H, Yoshida Y, Nakamura H, Numata K, Arakawa K. Darwin's bark spider shares a spidroin repertoire with Caerostris extrusa but achieves extraordinary silk toughness through gene expression. Open Biol 2021; 11:210242. [PMID: 34932907 PMCID: PMC8692038 DOI: 10.1098/rsob.210242] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
Abstract
Spider silk is a protein-based material whose toughness suggests possible novel applications. A particularly fascinating example of silk toughness is provided by Darwin's bark spider (Caerostris darwini) found in Madagascar. This spider produces extraordinarily tough silk, with an average toughness of 350 MJ m-1 and over 50% extensibility, and can build river-bridging webs with a size of 2.8 m2. Recent studies have suggested that specific spidroins expressed in C. darwini are responsible for the mechanical properties of its silk. Therefore, a more comprehensive investigation of spidroin sequences, silk thread protein contents and phylogenetic conservation among closely related species is required. Here, we conducted genomic, transcriptomic and proteomic analyses of C. darwini and its close relative Caerostris extrusa. A variety of spidroins and low-molecular-weight proteins were found in the dragline silk of these species; all of the genes encoding these proteins were conserved in both genomes, but their genes were more expressed in C. darwini. The potential to produce very tough silk is common in the genus Caerostris, and our results may suggest the existence of plasticity allowing silk mechanical properties to be changed by optimizing related gene expression in response to the environment.
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Affiliation(s)
- Nobuaki Kono
- Institute for Advanced Biosciences, Keio University, 403-1 Nihonkoku, Daihouji, Tsuruoka, Yamagata 997-0017, Japan,Systems Biology Program, Graduate School of Media and Governance, Keio University, 5322 Endo, Fujisawa, Kanagawa 252-0882, Japan
| | - Rintaro Ohtoshi
- RIKEN Center for Sustainable Resource Science, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Ali D. Malay
- RIKEN Center for Sustainable Resource Science, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Masaru Mori
- Institute for Advanced Biosciences, Keio University, 403-1 Nihonkoku, Daihouji, Tsuruoka, Yamagata 997-0017, Japan,Systems Biology Program, Graduate School of Media and Governance, Keio University, 5322 Endo, Fujisawa, Kanagawa 252-0882, Japan
| | - Hiroyasu Masunaga
- Japan Synchrotron Radiation Research Institute, 1-1-1, Kouto, Sayo-cho, Sayo-gun, Hyogo 679-5198, Japan,RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo-cho, Sayo-gun, Hyogo 679-5198, Japan
| | - Yuki Yoshida
- Institute for Advanced Biosciences, Keio University, 403-1 Nihonkoku, Daihouji, Tsuruoka, Yamagata 997-0017, Japan,Systems Biology Program, Graduate School of Media and Governance, Keio University, 5322 Endo, Fujisawa, Kanagawa 252-0882, Japan
| | - Hiroyuki Nakamura
- Spiber Inc., 234-1 Mizukami, Kakuganji, Tsuruoka, Yamagata 997-0052, Japan
| | - Keiji Numata
- RIKEN Center for Sustainable Resource Science, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan,Department of Material Chemistry, Kyoto University, Kyotodaigaku-Katsura, Nishikyo-ku, Kyoto 615-8510, Japan
| | - Kazuharu Arakawa
- Institute for Advanced Biosciences, Keio University, 403-1 Nihonkoku, Daihouji, Tsuruoka, Yamagata 997-0017, Japan,Systems Biology Program, Graduate School of Media and Governance, Keio University, 5322 Endo, Fujisawa, Kanagawa 252-0882, Japan
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9
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Structure of Silk I ( Bombyx mori Silk Fibroin before Spinning) -Type II β-Turn, Not α-Helix. Molecules 2021; 26:molecules26123706. [PMID: 34204550 PMCID: PMC8234240 DOI: 10.3390/molecules26123706] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Revised: 06/11/2021] [Accepted: 06/14/2021] [Indexed: 12/04/2022] Open
Abstract
Recently, considerable attention has been paid to Bombyx mori silk fibroin by a range of scientists from polymer chemists to biomaterial researchers because it has excellent physical properties, such as strength, toughness, and biocompatibility. These appealing physical properties originate from the silk fibroin structure, and therefore, structural determinations of silk fibroin before (silk I) and after (silk II) spinning are a key to make wider applications of silk. There are discrepancies about the silk I structural model, i.e., one is type II β-turn structure determined using many solid-state and solution NMR spectroscopies together with selectively stable isotope-labeled model peptides, but another is α-helix or partially α-helix structure speculated using IR and Raman methods. In this review, firstly, the process that led to type II β-turn structure by the authors was introduced in detail. Then the problems in speculating silk I structure by IR and Raman methods were pointed out together with the problem in the assignment of the amide I band in the spectra. It has been emphasized that the conformational analyses of proteins and peptides from IR and Raman studies are not straightforward and should be very careful when the proteins contain β-turn structure using many experimental data by Vass et al. In conclusion, the author emphasized here that silk I structure should be type II β-turn, not α-helix.
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Bauer T, Imschweiler J, Muhl C, Weber B, Barz M. Secondary Structure-Driven Self-Assembly of Thiol-Reactive Polypept(o)ides. Biomacromolecules 2021; 22:2171-2180. [PMID: 33830742 PMCID: PMC8154267 DOI: 10.1021/acs.biomac.1c00253] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2021] [Revised: 03/25/2021] [Indexed: 01/06/2023]
Abstract
Secondary structure formation differentiates polypeptides from most of the other synthetic polymers, and the transitions from random coils to rod-like α-helices or β-sheets represent an additional parameter to direct self-assembly and the morphology of nanostructures. We investigated the influence of distinct secondary structures on the self-assembly of reactive amphiphilic polypept(o)ides. The individual morphologies can be preserved by core cross-linking via chemoselective disulfide bond formation. A series of thiol-responsive copolymers of racemic polysarcosine-block-poly(S-ethylsulfonyl-dl-cysteine) (pSar-b-p(dl)Cys), enantiopure polysarcosine-block-poly(S-ethylsulfonyl-l-cysteine) (pSar-b-p(l)Cys), and polysarcosine-block-poly(S-ethylsulfonyl-l-homocysteine) (pSar-b-p(l)Hcy) was prepared by N-carboxyanhydride polymerization. The secondary structure of the peptide segment varies from α-helices (pSar-b-p(l)Hcy) to antiparallel β-sheets (pSar-b-p(l)Cys) and disrupted β-sheets (pSar-b-p(dl)Cys). When subjected to nanoprecipitation, copolymers with antiparallel β-sheets display the strongest tendency to self-assemble, whereas disrupted β-sheets hardly induce aggregation. This translates to worm-like micelles, solely spherical micelles, or ellipsoidal structures, as analyzed by atomic force microscopy and cryogenic transmission electron microscopy, which underlines the potential of secondary structure-driven self-assembly of synthetic polypeptides.
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Affiliation(s)
- Tobias
A. Bauer
- Leiden
Academic Centre for Drug Research (LACDR), Leiden University, Einsteinweg 55, 2333 CC Leiden, The Netherlands
- Department
of Chemistry, Johannes Gutenberg University
Mainz, Duesbergweg 10-14, 55128 Mainz, Germany
| | - Jan Imschweiler
- Department
of Chemistry, Johannes Gutenberg University
Mainz, Duesbergweg 10-14, 55128 Mainz, Germany
| | - Christian Muhl
- Leiden
Academic Centre for Drug Research (LACDR), Leiden University, Einsteinweg 55, 2333 CC Leiden, The Netherlands
- Department
of Chemistry, Johannes Gutenberg University
Mainz, Duesbergweg 10-14, 55128 Mainz, Germany
| | - Benjamin Weber
- Department
of Chemistry, Johannes Gutenberg University
Mainz, Duesbergweg 10-14, 55128 Mainz, Germany
| | - Matthias Barz
- Leiden
Academic Centre for Drug Research (LACDR), Leiden University, Einsteinweg 55, 2333 CC Leiden, The Netherlands
- Department
of Chemistry, Johannes Gutenberg University
Mainz, Duesbergweg 10-14, 55128 Mainz, Germany
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11
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Gao Y, Saccuzzo EG, Hill SE, Huard DJE, Robang AS, Lieberman RL, Paravastu AK. Structural Arrangement within a Peptide Fibril Derived from the Glaucoma-Associated Myocilin Olfactomedin Domain. J Phys Chem B 2021; 125:2886-2897. [PMID: 33683890 DOI: 10.1021/acs.jpcb.0c11460] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Myocilin-associated glaucoma is a new addition to the list of diseases linked to protein misfolding and amyloid formation. Single point variants of the ∼257-residue myocilin olfactomedin domain (mOLF) lead to mutant myocilin aggregation. Here, we analyze the 12-residue peptide P1 (GAVVYSGSLYFQ), corresponding to residues 326-337 of mOLF, previously shown to form amyloid fibrils in vitro and in silico. We applied solid-state NMR structural measurements to test the hypothesis that P1 fibrils adopt one of three predicted structures. Our data are consistent with a U-shaped fibril arrangement for P1, one that is related to the U-shape predicted previously in silico. Our data are also consistent with an antiparallel fibril arrangement, likely driven by terminal electrostatics. Our proposed structural model is reminiscent of fibrils formed by the Aβ(1-40) Iowa mutant peptide, but with a different arrangement of molecular turn regions. Taken together, our results strengthen the connection between mOLF fibrils and the broader amylome and contribute to our understanding of the fundamental molecular interactions governing fibril architecture and stability.
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12
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Siemer AB. Advances in studying protein disorder with solid-state NMR. SOLID STATE NUCLEAR MAGNETIC RESONANCE 2020; 106:101643. [PMID: 31972419 PMCID: PMC7202078 DOI: 10.1016/j.ssnmr.2020.101643] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Revised: 01/06/2020] [Accepted: 01/07/2020] [Indexed: 05/26/2023]
Abstract
Solution NMR is a key tool to study intrinsically disordered proteins (IDPs), whose importance for biological function is widely accepted. However, disordered proteins are not limited to solution and are also found in non-soluble systems such as fibrils and membrane proteins. In this Trends article, I will discuss how solid-state NMR can be used to study disorder in non-soluble proteins. Techniques based on dipolar couplings can study static protein disorder which either occurs naturally as e.g. in spider silk or can be induced by freeze trapping IDPs or unfolded proteins. In this case, structural ensembles are directly reflected by a static distribution of dihedral angels that can be determined by the distribution of chemical shifts or other methods. Techniques based on J-couplings can detect dynamic protein disorder under MAS. In this case, only average chemical shifts are measured but disorder can be characterized with a variety of data including secondary chemical shifts, relaxation rates, paramagnetic relaxation enhancements, or residual dipolar couplings. I describe both technical aspects and examples of solid-state NMR on protein disorder and end the article with a discussion of challenges and opportunities of this emerging field.
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Affiliation(s)
- Ansgar B Siemer
- Department of Physiology and Neuroscience, Zilkha Neurogenetic Institute, Univeristy of Southern California, 1501 San Pablo Street, Los Angeles, CA, 90033, USA.
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13
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Burakova E, Vasa SK, Klein A, Linser R. Non-uniform sampling in quantitative assessment of heterogeneous solid-state NMR line shapes. JOURNAL OF BIOMOLECULAR NMR 2020; 74:71-82. [PMID: 31834579 DOI: 10.1007/s10858-019-00291-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Accepted: 11/26/2019] [Indexed: 06/10/2023]
Abstract
Non-uniform sampling has been successfully used for solution and solid-state NMR of homogeneous samples. In the solid state, protein samples are often dominated by inhomogeneous contributions to the homogeneous line widths. In spite of different technical strategies for peak reconstruction by different methods, we validate that NUS can generally be used also for such situations where spectra are made up of complex peak shapes rather than Lorentian lines. Using the RMSD between subsampled and reconstructed data and those spectra obtained with uniform sampling for a sample comprising a wide conformational distribution, we quantitatively evaluate the identity of inhomogeneous peak patterns. The evaluation comprises Iterative Soft Thresholding (hmsIST implementation) as a method explicitly not assuming Lorentian lineshapes, as well as Sparse Multidimensional Iterative Lineshape Enhanced (SMILE) algorithm and Signal Separation Algorithm (SSA) reconstruction, which do work on the basis of Lorentian lineshape models, with different sampling densities. Even though individual peculiarities are apparent, all methods turn out principally viable to reconstruct the heterogeneously broadened peak shapes.
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Affiliation(s)
- Ekaterina Burakova
- Faculty for Chemistry and Pharmacy, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany
- Faculty of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Straße 4a, 44227, Dortmund, Germany
| | - Suresh K Vasa
- Faculty for Chemistry and Pharmacy, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany
- Faculty of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Straße 4a, 44227, Dortmund, Germany
| | - Alexander Klein
- Faculty for Chemistry and Pharmacy, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany
- Faculty of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Straße 4a, 44227, Dortmund, Germany
| | - Rasmus Linser
- Faculty for Chemistry and Pharmacy, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany.
- Faculty of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Straße 4a, 44227, Dortmund, Germany.
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14
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Moseti KO, Yoshioka T, Kameda T, Nakazawa Y. Structure Water-Solubility Relationship in α-Helix-Rich Films Cast from Aqueous and 1,1,1,3,3,3-Hexafluoro-2-Propanol Solutions of S. c. ricini Silk Fibroin. Molecules 2019; 24:E3945. [PMID: 31683683 PMCID: PMC6864477 DOI: 10.3390/molecules24213945] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2019] [Revised: 10/25/2019] [Accepted: 10/28/2019] [Indexed: 11/16/2022] Open
Abstract
Silk fibroin (SF) produced by the domesticated wild silkworm, Samia cynthia ricini (S. c. ricini) is attracting increasing interest owing to its unique mechanical properties, biocompatibility, and abundance in nature. However, its utilization is limited, largely due to lack of appropriate processing strategies. Various strategies have been assessed to regenerate cocoon SF, as well as the use of aqueous liquid fibroin (LFaq) prepared by dissolution of silk dope obtained from the silk glands of mature silkworm larvae in water. However, films cast from these fibroin solutions in water or organic solvents are often water-soluble and require post-treatment to render them water-stable. Here, we present a strategy for fabrication of water-stable films from S. c. ricini silk gland fibroin (SGF) without post-treatment. Aqueous ethanol induced gelation of fibroin in the posterior silk glands (PSG), enabling its separation from the rest of the silk gland. When dissolved in 1,1,1,3,3,3-hexafluoro-2-propanol (HFIP), the SGF-gel gave a solution from which a transparent, flexible, and water-insoluble film (SGFHFIP) was cast. Detailed structural characterization of the SGFHFIP as-cast film was carried out and compared to a conventional, water-soluble film cast from LFaq. FTIR and 13C solid-state NMR analyses revealed both cast films to be α-helix-rich. However, gelation of SGF induced by the 40%-EtOH-treatment resulted in an imperfect β-sheet structure. As a result, the SGF-gel was soluble in HFIP, but some β-sheet structural memory remains, and the SGFHFIP as-cast film obtained has some β-sheet content which renders it water-resistant. These results reveal a structure water-solubility relationship in S. c. ricini SF films that may offer useful insights towards tunable fabrication of novel biomaterials. A plausible model of the mechanism that leads to the difference in water resistance of the two kinds of α-helix-rich films is proposed.
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Affiliation(s)
- Kelvin O Moseti
- Department of Biotechnology and Life Science, Graduate School of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan.
- Silk Materials Research Unit, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan.
- National Sericulture Research Centre, Industrial Crops Research Institute, Kenya Agricultural and Livestock Research Organization, Thika P.O. Box 7816-01000, Kenya.
| | - Taiyo Yoshioka
- Silk Materials Research Unit, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan.
| | - Tsunenori Kameda
- Silk Materials Research Unit, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan.
| | - Yasumoto Nakazawa
- Department of Biotechnology and Life Science, Graduate School of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan.
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15
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Moseti KO, Yoshioka T, Kameda T, Nakazawa Y. Aggregation State of Residual α-Helices and Their Influence on Physical Properties of S. c. ricini Native Fiber. Molecules 2019; 24:E3741. [PMID: 31627317 PMCID: PMC6832210 DOI: 10.3390/molecules24203741] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2019] [Revised: 10/10/2019] [Accepted: 10/15/2019] [Indexed: 11/26/2022] Open
Abstract
Formation of the α-helical conformation in the poly-l-alanine (PA) sequence regions, subsequent structural transition to β-sheet during natural spinning, and presence of residual α-helices in Samia cynthia ricini (S. c. ricini) native silk fiber have been experimentally proven. However, the aggregation state of the residual α-helices, and their influence on the mechanical deformation behavior in native fiber remain unclear. Here we show that the α-helices form an ordered aggregation state with a hexagonal packing in the aqueous solution, some of which remain during natural spinning. X-ray scattering and differential scanning calorimetry (DSC) analyses revealed occurrence of a structural transition of the residual α-helices to the β-sheet structure, accompanied by disappearance of the plateau region in the force-strain curve, due to heat-treatment at ~220 °C. On the basis of X-ray scattering before and after tensile stretching of S. c. ricini native silk, a direct connection between the plateau region and the α-helix to β-sheet structural transition was confirmed. Our findings demonstrate the importance of the PA sequence regions in fiber structure formation and their influence on the tensile deformation behavior of S. c. ricini silk, features believed to be essentially similar in other saturniid silks. We strongly believe the residual ordered α-helices to be strategically and systematically designed by S. c. ricini silkworms to impart flexibility in native silk fiber. We anticipate that these knowledge forms a basis for fruitful strategies in the design and development of amino acid sequences for artificial silks with desired mechanical properties.
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Affiliation(s)
- Kelvin O Moseti
- Department of Biotechnology and Life Science, Graduate School of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan.
- Silk Materials Research Unit, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan.
- National Sericulture Research Centre, Industrial Crops Research Institute, Kenya Agricultural and Livestock Research Organization, P.O. Box 7816-01000 Thika, Kenya.
| | - Taiyo Yoshioka
- Silk Materials Research Unit, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan.
| | - Tsunenori Kameda
- Silk Materials Research Unit, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan.
| | - Yasumoto Nakazawa
- Department of Biotechnology and Life Science, Graduate School of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan.
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16
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Mohammadi P, Jonkergouw C, Beaune G, Engelhardt P, Kamada A, Timonen JVI, Knowles TPJ, Penttila M, Linder MB. Controllable coacervation of recombinantly produced spider silk protein using kosmotropic salts. J Colloid Interface Sci 2019; 560:149-160. [PMID: 31670097 DOI: 10.1016/j.jcis.2019.10.058] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2019] [Revised: 10/14/2019] [Accepted: 10/15/2019] [Indexed: 12/15/2022]
Abstract
Recent developments suggest that the phase transition of natural and synthetic biomacromolecules represents an important and ubiquitous mechanism underlying structural assemblies toward the fabrication of high-performance materials. Such a transition results in the formation of condensed liquid droplets, described as condensates or coacervates. Being able to effectively control the assembly of such entities is essential for tuning the quality and their functionality. Here we describe how self-coacervation of genetically engineered spidroin-inspired proteins can be preceded by a wide range of kosmotropic salts. We studied the kinetics and mechanisms of coacervation in different conditions, from direct observation of initial phase separation to the early stage of nucleation/growth and fusion into large fluid assemblies. We found that coacervation induced by kosmotropic salts follows the classical nucleation theory and critically relies on precursor clusters of few weak-interacting protein monomers. Depending on solution conditions and the strength of the supramolecular interaction as a function of time, coacervates with a continuum of physiochemical properties were observed. We observed similar characteristics in other protein-based coacervates, which include having a spherical-ellipsoid shape in solution, an interconnected bicontinuous network, surface adhesion, and wetting properties. Finally, we demonstrated the use of salt-induced self-coacervates of spidroin-inspired protein as a cellulosic binder in dried condition.
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Affiliation(s)
- Pezhman Mohammadi
- VTT Technical Research Centre of Finland Ltd., Espoo FI-02044, Finland.
| | - Christopher Jonkergouw
- Department of Bioproducts and Biosystems, School of Chemical Engineering, Aalto University, P.O. Box 16100, FI-16100 Espoo, Finland
| | - Grégory Beaune
- Department of Applied Physics, School of Science, Aalto University, FI-02150 Espoo, Finland
| | - Peter Engelhardt
- Department of Applied Physics, School of Science, Aalto University, FI-02150 Espoo, Finland
| | - Ayaka Kamada
- Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, UK
| | - Jaakko V I Timonen
- Department of Applied Physics, School of Science, Aalto University, FI-02150 Espoo, Finland
| | | | - Merja Penttila
- VTT Technical Research Centre of Finland Ltd., Espoo FI-02044, Finland
| | - Markus B Linder
- Department of Bioproducts and Biosystems, School of Chemical Engineering, Aalto University, P.O. Box 16100, FI-16100 Espoo, Finland
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17
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Xin W, Zhang Z, Huang X, Hu Y, Zhou T, Zhu C, Kong XY, Jiang L, Wen L. High-performance silk-based hybrid membranes employed for osmotic energy conversion. Nat Commun 2019; 10:3876. [PMID: 31462636 PMCID: PMC6713777 DOI: 10.1038/s41467-019-11792-8] [Citation(s) in RCA: 131] [Impact Index Per Article: 26.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Accepted: 07/24/2019] [Indexed: 12/18/2022] Open
Abstract
The salinity gradient between seawater and river water is a clean energy source and an alternative solution for the increasing energy demands. A membrane-based reverse electrodialysis technique is a promising strategy to convert osmotic energy to electricity. To overcome the limits of traditional membranes with low efficiency and high resistance, nanofluidic is an emerging technique to promote osmotic energy harvesting. Here, we engineer a high-performance nanofluidic device with a hybrid membrane composed of a silk nanofibril membrane and an anodic aluminum oxide membrane. The silk nanofibril membrane, as a screening layer with condensed negative surface and nanochannels, dominates the ion transport; the anodic aluminum oxide membrane, as a supporting substrate, offers tunable channels and amphoteric groups. Thus, a nanofluidic membrane with asymmetric geometry and charge polarity is established, showing low resistance, high-performance energy conversion, and long-term stability. The system paves avenues for sustainable power generation, water purification, and desalination.
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Affiliation(s)
- Weiwen Xin
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
- School of Future Technology, University of Chinese Academy of Sciences, Beijing, 100049, P. R. China
| | - Zhen Zhang
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
- Beijing National Laboratory for Molecular Sciences (BNLMS), Key Laboratory of Green Printing, Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
| | - Xiaodong Huang
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
| | - Yuhao Hu
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
- School of Future Technology, University of Chinese Academy of Sciences, Beijing, 100049, P. R. China
| | - Teng Zhou
- College of Mechanical and Electrical Engineering Hainan University Haikou, Hainan, 570228, P. R. China
| | - Congcong Zhu
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
- School of Future Technology, University of Chinese Academy of Sciences, Beijing, 100049, P. R. China
| | - Xiang-Yu Kong
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China.
| | - Lei Jiang
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
- School of Future Technology, University of Chinese Academy of Sciences, Beijing, 100049, P. R. China
| | - Liping Wen
- CAS Key Laboratory of Bio-inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China.
- School of Future Technology, University of Chinese Academy of Sciences, Beijing, 100049, P. R. China.
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18
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McGill M, Holland GP, Kaplan DL. Experimental Methods for Characterizing the Secondary Structure and Thermal Properties of Silk Proteins. Macromol Rapid Commun 2019; 40:e1800390. [PMID: 30073740 PMCID: PMC6425979 DOI: 10.1002/marc.201800390] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2018] [Revised: 06/16/2018] [Indexed: 12/17/2022]
Abstract
Silk proteins are biopolymers produced by spinning organisms that have been studied extensively for applications in materials engineering, regenerative medicine, and devices due to their high tensile strength and extensibility. This remarkable combination of mechanical properties arises from their unique semi-crystalline secondary structure and block copolymer features. The secondary structure of silks is highly sensitive to processing, and can be manipulated to achieve a wide array of material profiles. Studying the secondary structure of silks is therefore critical to understanding the relationship between structure and function, the strength and stability of silk-based materials, and the natural fiber synthesis process employed by spinning organisms. However, silks present unique challenges to structural characterization due to high-molecular-weight protein chains, repetitive sequences, and heterogeneity in intra- and interchain domain sizes. Here, experimental techniques used to study the secondary structure of silks, the information attainable from these techniques, and the limitations associated with them are reviewed. Ultimately, the appropriate utilization of a suite of techniques discussed here will enable detailed characterization of silk-based materials, from studying fundamental processing-structure-function relationships to developing commercially useful quality control assessments.
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Affiliation(s)
- Meghan McGill
- Department of Biomedical Engineering, Tufts University, 4 Colby Street, Medford, MA 02155, USA
| | - Gregory P. Holland
- Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182-1030, USA
| | - David L. Kaplan
- Department of Biomedical Engineering, Tufts University, 4 Colby Street, Medford, MA 02155, USA
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19
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Ling S, Chen W, Fan Y, Zheng K, Jin K, Yu H, Buehler MJ, Kaplan DL. Biopolymer nanofibrils: structure, modeling, preparation, and applications. Prog Polym Sci 2018; 85:1-56. [PMID: 31915410 PMCID: PMC6948189 DOI: 10.1016/j.progpolymsci.2018.06.004] [Citation(s) in RCA: 168] [Impact Index Per Article: 28.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Biopolymer nanofibrils exhibit exceptional mechanical properties with a unique combination of strength and toughness, while also presenting biological functions that interact with the surrounding environment. These features of biopolymer nanofibrils profit from their hierarchical structures that spun angstrom to hundreds of nanometer scales. To maintain these unique structural features and to directly utilize these natural supramolecular assemblies, a variety of new methods have been developed to produce biopolymer nanofibrils. In particular, cellulose nanofibrils (CNFs), chitin nanofibrils (ChNFs), silk nanofibrils (SNFs) and collagen nanofibrils (CoNFs), as the four most abundant biopolymer nanofibrils on earth, have been the focus of research in recent years due to their renewable features, wide availability, low-cost, biocompatibility, and biodegradability. A series of top-down and bottom-up strategies have been accessed to exfoliate and regenerate these nanofibrils for versatile advanced applications. In this review, we first summarize the structures of biopolymer nanofibrils in nature and outline their related computational models with the aim of disclosing fundamental structure-property relationships in biological materials. Then, we discuss the underlying methods used for the preparation of CNFs, ChNFs, SNF and CoNFs, and discuss emerging applications for these biopolymer nanofibrils.
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Affiliation(s)
- Shengjie Ling
- School of Physical Science and Technology, ShanghaiTech University, Shanghai, 201210, China
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
| | - Wenshuai Chen
- Key Laboratory of Bio-based Material Science & Technology, Ministry of Education, Northeast Forestry University, Harbin, China
| | - Yimin Fan
- College of Chemical Engineering, Nanjing Forestry University, Nanjing, China
| | - Ke Zheng
- School of Physical Science and Technology, ShanghaiTech University, Shanghai, 201210, China
| | - Kai Jin
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA
| | - Haipeng Yu
- Key Laboratory of Bio-based Material Science & Technology, Ministry of Education, Northeast Forestry University, Harbin, China
| | - Markus J. Buehler
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA
| | - David L. Kaplan
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
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20
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Naito A, Tasei Y, Nishimura A, Asakura T. Unusual Dynamics of Alanine Residues in Polyalanine Regions with Staggered Packing Structure of Samia cynthia ricini Silk Fiber in Dry and Hydrated States Studied by 13C Solid-State NMR and Molecular Dynamics Simulation. J Phys Chem B 2018; 122:6511-6520. [DOI: 10.1021/acs.jpcb.8b03509] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Akira Naito
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Yugo Tasei
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Akio Nishimura
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Tetsuo Asakura
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
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21
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Hong YL, Asakura T, Nishiyama Y. 3D 14 N/ 1 H Double Quantum/ 1 H Single Quantum Correlation Solid-State NMR for Probing the Parallel and Anti-Parallel Beta-Sheet Arrangement of Oligo-Peptides at Natural Abundance. Chemphyschem 2018; 19:1841-1845. [PMID: 29737041 DOI: 10.1002/cphc.201800392] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2018] [Indexed: 02/28/2024]
Abstract
The beta (β)-sheet structures of oligopeptides and polypeptides can be formed in anti-parallel (AP) and parallel (P) forms, which is an important feature to understand such structures. In principle, P- and AP-β-sheet structures can be identified by the presence (AP) or absence (P) of inter-strand 1 HNH /1 HNH correlations on a diagonal in the corresponding 2D 1 H double quantum (DQ)/1 H single quantum (SQ) spectrum due to the different inter-strand 1 HNH /1 HNH distances between the two arrangements. However, the 1 HNH /1 HNH peaks overlap with the 1 HNH3+ /1 HNH3+ peaks, which always give cross-peaks regardless of the β-sheet arrangement. The 1 HNH3+ /1 HNH3+ peaks disturb the observation of the presence/absence of 1 HNH /1 HNH correlations and the assignment of 1 HNH and 1 HNH3+ is not always available. Here, 3D 14 N/1 H DQ/1 H SQ correlation solid-state NMR experiments at fast magic angle spinning (70 kHz) are introduced to distinguish AP- and P-β-sheet structures. The 14 N dimension allows the distinction of 1 HNH /1 HNH peaks from 1 HNH3+ /1 HNH3+ peaks with clear assignments of 1 HNH and 1 HNH3+ . In addition, the high natural abundance of 1 H and 14 N enables 3D 14 N/1 H DQ/1 H SQ experiments of oligo-alanines (Ala3-6 ) in four hours without isotope labelling.
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Affiliation(s)
- You-Lee Hong
- RIKEN CLST-JEOL Collaboration Center, Yokohama, Kanagawa, 230-0045, Japan
| | - Tetsuo Asakura
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo, 184-8588, Japan
| | - Yusuke Nishiyama
- RIKEN CLST-JEOL Collaboration Center, Yokohama, Kanagawa, 230-0045, Japan
- JEOL RESONANCE Inc., 3-1-2 Musaino, Akishima, Tokyo, 196-8558, Japan
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22
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He Z, Liu Z, Zhou X, Huang H. Low pressure-induced secondary structure transitions of regenerated silk fibroin in its wet film studied by time-resolved infrared spectroscopy. Proteins 2018; 86:621-628. [DOI: 10.1002/prot.25488] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2017] [Revised: 02/08/2018] [Accepted: 02/24/2018] [Indexed: 11/06/2022]
Affiliation(s)
- Zhipeng He
- State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, Jiangsu Key Laboratory for the Design and Application of Advanced Functional Polymer, College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 China
| | - Zhao Liu
- State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, Jiangsu Key Laboratory for the Design and Application of Advanced Functional Polymer, College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 China
| | - Xiaofeng Zhou
- State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, Jiangsu Key Laboratory for the Design and Application of Advanced Functional Polymer, College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 China
| | - He Huang
- State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, Jiangsu Key Laboratory for the Design and Application of Advanced Functional Polymer, College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 China
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23
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Guo C, Zhang J, Jordan JS, Wang X, Henning RW, Yarger JL. Structural Comparison of Various Silkworm Silks: An Insight into the Structure-Property Relationship. Biomacromolecules 2018; 19:906-917. [PMID: 29425447 DOI: 10.1021/acs.biomac.7b01687] [Citation(s) in RCA: 81] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Silkworm silk has attracted considerable attention in recent years due to its excellent mechanical properties, biocompatibility, and promising applications in biomedical sector. However, a clear understanding of the molecular structure and the relationship between the excellent mechanical properties and the silk protein sequences are still lacking. This study carries out a thorough comparative structural analysis of silk fibers of four silkworm species ( Bombyx mori, Antheraea pernyi, Samia cynthia ricini, and Antheraea assamensis). A combination of characterization techniques including scanning electron microscopy, mechanical test, synchrotron X-ray diffraction, Fourier transform infrared spectroscopy (FTIR), and NMR spectroscopy was applied to investigate the morphologies, mechanical properties, amino acid compositions, nanoscale organizations, and molecular structures of various silkworm silks. Furthermore, the structure-property relationship is discussed by correlating the molecular structural features of silks with their mechanical properties. The results show that a high content of β-sheet structures and a high crystallinity would result in a high Young's modulus for silkworm silk fibers. Additionally, a low content of β-sheet structures would result in a high extensibility.
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Affiliation(s)
- Chengchen Guo
- School of Molecular Sciences, Magnetic Resonance Research Center , Arizona State University , Tempe , Arizona 85287-1604 , United States
| | - Jin Zhang
- Australian Future Fibers Research and Innovation Centre, Institute for Frontier Materials , Deakin University , Burwood VIC 3216 , Australia
| | - Jacob S Jordan
- School of Molecular Sciences, Magnetic Resonance Research Center , Arizona State University , Tempe , Arizona 85287-1604 , United States
| | - Xungai Wang
- Australian Future Fibers Research and Innovation Centre, Institute for Frontier Materials , Deakin University , Burwood VIC 3216 , Australia
| | - Robert W Henning
- Center for Advanced Radiation Sources , The University of Chicago , Chicago , Illinois 60637 , United States
| | - Jeffery L Yarger
- School of Molecular Sciences, Magnetic Resonance Research Center , Arizona State University , Tempe , Arizona 85287-1604 , United States
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24
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Wang Y, Wen J, Peng B, Hu B, Chen X, Shao Z. Understanding the Mechanical Properties and Structure Transition of Antheraea pernyi Silk Fiber Induced by Its Contraction. Biomacromolecules 2018; 19:1999-2006. [DOI: 10.1021/acs.biomac.7b01691] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yu Wang
- State Key Laboratory of Molecular Engineering of Polymers, Laboratory of Advanced Materials and Department of Macromolecular Science, Fudan University, Shanghai 200433, People’s Republic of China
| | - Jianchuan Wen
- State Key Laboratory of Molecular Engineering of Polymers, Laboratory of Advanced Materials and Department of Macromolecular Science, Fudan University, Shanghai 200433, People’s Republic of China
| | - Bo Peng
- Engineering Research Center for Nanophotonics & Advanced Instrument, Ministry of Education, Shanghai Key Laboratory of Magnetic Resonance, Department of Physics, East China Normal University, Shanghai 200062, People’s Republic of China
| | - Bingwen Hu
- Engineering Research Center for Nanophotonics & Advanced Instrument, Ministry of Education, Shanghai Key Laboratory of Magnetic Resonance, Department of Physics, East China Normal University, Shanghai 200062, People’s Republic of China
| | - Xin Chen
- State Key Laboratory of Molecular Engineering of Polymers, Laboratory of Advanced Materials and Department of Macromolecular Science, Fudan University, Shanghai 200433, People’s Republic of China
| | - Zhengzhong Shao
- State Key Laboratory of Molecular Engineering of Polymers, Laboratory of Advanced Materials and Department of Macromolecular Science, Fudan University, Shanghai 200433, People’s Republic of China
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25
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Nishimura A, Matsuda H, Tasei Y, Asakura T. Effect of Water on the Structure and Dynamics of Regenerated [3- 13C] Ser, [3- 13C] , and [3- 13C] Ala-Bombyx mori Silk Fibroin Studied with 13C Solid-State Nuclear Magnetic Resonance. Biomacromolecules 2018; 19:563-575. [PMID: 29309731 DOI: 10.1021/acs.biomac.7b01665] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
The effects of water on the structure and dynamics of natural and regenerated silk fibroin (SF) samples were studied using 13C solid-state nuclear magnetic resonance (NMR) spectroscopy. We prepared different types of SF materials, sponges, and fibers with different preparation methods and compared their NMR spectra in the dry and hydrated states. Three kinds of 13C NMR techniques, r-INEPT, CP/MAS, and DD/MAS, coupled with 13C isotope labeling of Ser, Tyr, and Ala residues were used. In the hydrated sponges, several conformations, that is, Silk I* and two kinds of β-sheets, A and B, random coil, and highly mobile hydrated random coil were observed, and the fractions were determined. The fractions were remarkably different among the three sponges but with only small differences among the regenerated and native fibers. The increase in the fraction of β-sheet B might be one of the structural factors for preparing stronger regenerated SF fiber.
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Affiliation(s)
- Akio Nishimura
- Department of Biotechnology, Tokyo University of Agriculture and Technology , Koganei, Tokyo 184-8588, Japan
| | - Hironori Matsuda
- Department of Biotechnology, Tokyo University of Agriculture and Technology , Koganei, Tokyo 184-8588, Japan
| | - Yugo Tasei
- Department of Biotechnology, Tokyo University of Agriculture and Technology , Koganei, Tokyo 184-8588, Japan
| | - Tetsuo Asakura
- Department of Biotechnology, Tokyo University of Agriculture and Technology , Koganei, Tokyo 184-8588, Japan
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26
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Han Y, Ling S, Qi Z, Shao Z, Chen X. Application of far-infrared spectroscopy to the structural identification of protein materials. Phys Chem Chem Phys 2018; 20:11643-11648. [DOI: 10.1039/c8cp00802g] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Far-IR spectroscopy was applied to monitor the structure of two types of silk fibroins and the results indicate that they both show several sharp characteristic peaks, which are totally different from those of globular proteins.
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Affiliation(s)
- Yanchen Han
- State Key Laboratory of Molecular Engineering of Polymers, Department of Macromolecular Science, Laboratory of Advanced Materials, Fudan University
- Shanghai
- People's Republic of China
| | - Shengjie Ling
- School of Physical Science and Technology, ShanghaiTech University
- Shanghai
- People's Republic of China
| | - Zeming Qi
- National Synchrotron Radiation Laboratory, University of Science and Technology of China
- Hefei
- People's Republic of China
| | - Zhengzhong Shao
- State Key Laboratory of Molecular Engineering of Polymers, Department of Macromolecular Science, Laboratory of Advanced Materials, Fudan University
- Shanghai
- People's Republic of China
| | - Xin Chen
- State Key Laboratory of Molecular Engineering of Polymers, Department of Macromolecular Science, Laboratory of Advanced Materials, Fudan University
- Shanghai
- People's Republic of China
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27
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Guo C, Zhang J, Wang X, Nguyen AT, Liu XY, Kaplan DL. Comparative Study of Strain-Dependent Structural Changes of Silkworm Silks: Insight into the Structural Origin of Strain-Stiffening. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2017; 13:1702266. [PMID: 29076647 DOI: 10.1002/smll.201702266] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2017] [Revised: 09/04/2017] [Indexed: 06/07/2023]
Abstract
Structure-property relationships of silk is an intriguing topic for silk-based biomaterials research since these features are related to biomimicking the processing in natural silk fiber formation which results in excellent mechanical properties. Strain-stiffening is common for spider silks and nonmulberry silkworm silks. However, the structural origin of strain-stiffening remains unclear. In this paper, the strain-dependent structural change of Antheraea pernyi silkworm silk is studied by X-ray fiber diffraction and Fourier transform infrared spectroscopy under stretching. Based on a combination of mechanical and structural analysis, the molecular origins of strain-stiffening in A. pernyi silk were determined. The relatively high content of the β-sheets within the amorphous domains in A. pernyi silk is responsible for strain-stiffening, where "molecular spindles" enhance the extensibility and toughness of the fiber.
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Affiliation(s)
- Chengchen Guo
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
| | - Jin Zhang
- Australian Future Fibres Research and Innovation Centre, Institute for Frontier Materials, Deakin University, VIC, 3216, Australia
| | - Xungai Wang
- Australian Future Fibres Research and Innovation Centre, Institute for Frontier Materials, Deakin University, VIC, 3216, Australia
| | - Anh Tuan Nguyen
- Department of Physics, University of Singapore, Singapore, 117542, Singapore
| | - Xiang Yang Liu
- Department of Physics, University of Singapore, Singapore, 117542, Singapore
| | - David L Kaplan
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
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28
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Tasei Y, Nishimura A, Suzuki Y, Sato TK, Sugahara J, Asakura T. NMR Investigation about Heterogeneous Structure and Dynamics of Recombinant Spider Silk in the Dry and Hydrated States. Macromolecules 2017. [DOI: 10.1021/acs.macromol.7b01862] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Yugo Tasei
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16, Nakacho, Koganei, Tokyo 184-8588, Japan
| | - Akio Nishimura
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16, Nakacho, Koganei, Tokyo 184-8588, Japan
| | - Yu Suzuki
- Tenure-Track
Program for Innovative Research, University of Fukui, 3-9-1 Bunkyo, Fukui-shi, Fukui 910-8507, Japan
| | - Takehiro K. Sato
- Spiber Inc., 234-1 Mizukami, Kakuganji, Tsuruoka, Yamagata 997-0052, Japan
| | - Junichi Sugahara
- Spiber Inc., 234-1 Mizukami, Kakuganji, Tsuruoka, Yamagata 997-0052, Japan
| | - Tetsuo Asakura
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16, Nakacho, Koganei, Tokyo 184-8588, Japan
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29
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Asakura T, Nishimura A, Kametani S, Kawanishi S, Aoki A, Suzuki F, Kaji H, Naito A. Refined Crystal Structure of Samia cynthia ricini Silk Fibroin Revealed by Solid-State NMR Investigations. Biomacromolecules 2017; 18:1965-1974. [DOI: 10.1021/acs.biomac.7b00441] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Tetsuo Asakura
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Akio Nishimura
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Shunsuke Kametani
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Shuto Kawanishi
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Akihiro Aoki
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Furitsu Suzuki
- Institute
for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan
| | - Hironori Kaji
- Institute
for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan
| | - Akira Naito
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
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30
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Dammers C, Reiss K, Gremer L, Lecher J, Ziehm T, Stoldt M, Schwarten M, Willbold D. Pyroglutamate-Modified Amyloid-β(3-42) Shows α-Helical Intermediates before Amyloid Formation. Biophys J 2017; 112:1621-1633. [PMID: 28445753 PMCID: PMC5406372 DOI: 10.1016/j.bpj.2017.03.007] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Revised: 03/02/2017] [Accepted: 03/08/2017] [Indexed: 01/15/2023] Open
Abstract
Pyroglutamate-modified amyloid-β (pEAβ) has been described as a relevant Aβ species in Alzheimer's-disease-affected brains, with pEAβ (3-42) as a dominant isoform. Aβ (1-40) and Aβ (1-42) have been well characterized under various solution conditions, including aqueous solutions containing trifluoroethanol (TFE). To characterize structural properties of pEAβ (3-42) possibly underlying its drastically increased aggregation propensity compared to Aβ (1-42), we started our studies in various TFE-water mixtures and found striking differences between the two Aβ species. Soluble pEAβ (3-42) has an increased tendency to form β-sheet-rich structures compared to Aβ (1-42), as indicated by circular dichroism spectroscopy data. Kinetic assays monitored by thioflavin-T show drastically accelerated aggregation leading to large fibrils visualized by electron microscopy of pEAβ (3-42) in contrast to Aβ (1-42). NMR spectroscopy was performed for backbone and side-chain chemical-shift assignments of monomeric pEAβ (3-42) in 40% TFE solution. Although the difference between pEAβ (3-42) and Aβ (1-42) is purely N-terminal, it has a significant impact on the chemical environment of >20% of the total amino acid residues, as revealed by their NMR chemical-shift differences. Freshly dissolved pEAβ (3-42) contains two α-helical regions connected by a flexible linker, whereas the N-terminus remains unstructured. We found that these α-helices act as a transient intermediate to β-sheet and fibril formation of pEAβ (3-42).
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Affiliation(s)
- Christina Dammers
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany
| | - Kerstin Reiss
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany
| | - Lothar Gremer
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany
| | - Justin Lecher
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany
| | - Tamar Ziehm
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany
| | - Matthias Stoldt
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany
| | - Melanie Schwarten
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany
| | - Dieter Willbold
- Institute of Complex Systems (ICS-6) Structural Biochemistry, Forschungszentrum Jülich, Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany.
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31
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Asakura T, Nishimura A, Sato Y. Quantitative Correlation between Primary Sequences and Conformations in 13C-Labeled Samia cynthia ricini Silk Fibroin during Strain-Induced Conformational Transition by 13C Solid State NMR. Macromolecules 2017. [DOI: 10.1021/acs.macromol.7b00454] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Tetsuo Asakura
- Department of Biotechnology, Tokyo University of Agriculture and Technology Koganei, Tokyo 184-8588, Japan
| | - Akio Nishimura
- Department of Biotechnology, Tokyo University of Agriculture and Technology Koganei, Tokyo 184-8588, Japan
| | - Yuya Sato
- Department of Biotechnology, Tokyo University of Agriculture and Technology Koganei, Tokyo 184-8588, Japan
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32
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Sutherland TD, Rapson TD, Huson MG, Church JS. Recombinant Structural Proteins and Their Use in Future Materials. Subcell Biochem 2017; 82:491-526. [PMID: 28101871 DOI: 10.1007/978-3-319-49674-0_15] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Recombinant proteins are polymers that offer the materials engineer absolute control over chain length and composition: key attributes required for design of advanced polymeric materials. Through this control, these polymers can be encoded to contain information that enables them to respond as the environment changes. However, despite their promise, protein-based materials are under-represented in materials science. In this chapter we investigate why this is and describe recent efforts to address this. We discuss constraints limiting rational design of structural proteins for advanced materials; advantages and disadvantages of different recombinant expression platforms; and, methods to fabricate proteins into solid-state materials. Finally, we describe the silk proteins used in our laboratory as templates for information-containing polymers.
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33
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Kametani S, Tasei Y, Nishimura A, Asakura T. Distinct solvent- and temperature-dependent packing arrangements of anti-parallel β-sheet polyalanines studied with solid-state 13C NMR and MD simulation. Phys Chem Chem Phys 2017; 19:20829-20838. [DOI: 10.1039/c7cp03693k] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Change from rectangular arrangement to staggered arrangement of (Ala)6 by heat treatment.
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Affiliation(s)
- Shunsuke Kametani
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Koganei
- Japan
- Mitsui Chemical Analysis & Consulting Service, Inc
| | - Yugo Tasei
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Koganei
- Japan
| | - Akio Nishimura
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Koganei
- Japan
| | - Tetsuo Asakura
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Koganei
- Japan
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34
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Dao ATN, Nakayama K, Shimokata J, Taniike T. Multilateral characterization of recombinant spider silk in thermal degradation. Polym Chem 2017. [DOI: 10.1039/c6py01954d] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Elucidating the complex mechanism of thermo-oxidative degradation of recombinant spider silk by systematic characterization and correlation coefficient approach.
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Affiliation(s)
- Anh T. N. Dao
- School of Materials Science
- Japan Advanced Institute of Science and Technology
- Nomi
- Japan
| | - K. Nakayama
- School of Materials Science
- Japan Advanced Institute of Science and Technology
- Nomi
- Japan
| | - J. Shimokata
- School of Materials Science
- Japan Advanced Institute of Science and Technology
- Nomi
- Japan
- Spiber Inc
| | - T. Taniike
- School of Materials Science
- Japan Advanced Institute of Science and Technology
- Nomi
- Japan
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35
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Asakura T, Miyazawa K, Tasei Y, Kametani S, Nakazawa Y, Aoki A, Naito A. Packing arrangement of 13C selectively labeled sequence model peptides of Samia cynthia ricini silk fibroin fibers studied by solid-state NMR. Phys Chem Chem Phys 2017; 19:13379-13386. [DOI: 10.1039/c7cp01199g] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Samia cynthia ricini silk fibroin fiber was proposed to take anti-parallel β-sheet structure with staggered arrangement.
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Affiliation(s)
- Tetsuo Asakura
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Tokyo 184-8588
- Japan
| | - Kenta Miyazawa
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Tokyo 184-8588
- Japan
| | - Yugo Tasei
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Tokyo 184-8588
- Japan
| | - Shunsuke Kametani
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Tokyo 184-8588
- Japan
- Mitsui Chemical Analysis & Consulting Service
| | - Yasumoto Nakazawa
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Tokyo 184-8588
- Japan
| | - Akihiro Aoki
- Department of Biotechnology
- Tokyo University of Agriculture and Technology
- Tokyo 184-8588
- Japan
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36
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Asakura T, Endo M, Hirayama M, Arai H, Aoki A, Tasei Y. Glycerin-Induced Conformational Changes in Bombyx mori Silk Fibroin Film Monitored by (13)C CP/MAS NMR and ¹H DQMAS NMR. Int J Mol Sci 2016; 17:E1517. [PMID: 27618034 PMCID: PMC5037794 DOI: 10.3390/ijms17091517] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2016] [Revised: 08/12/2016] [Accepted: 08/30/2016] [Indexed: 01/20/2023] Open
Abstract
In order to improve the stiff and brittle characteristics of pure Bombyx mori (B. mori) silk fibroin (SF) film in the dry state, glycerin (Glyc) has been used as a plasticizer. However, there have been very limited studies on the structural characterization of the Glyc-blended SF film. In this study, (13)C Cross Polarization/Magic Angle Spinning nuclear magnetic resonance (CP/MAS NMR) was used to monitor the conformational changes in the films by changing the Glyc concentration. The presence of only 5 wt % Glyc in the film induced a significant conformational change in SF where Silk I* (repeated type II β-turn and no α-helix) newly appeared. Upon further increase in Glyc concentration, the percentage of Silk I* increased linearly up to 9 wt % Glyc and then tended to be almost constant (30%). This value (30%) was the same as the fraction of Ala residue within the Silk I* form out of all Ala residues of SF present in B. mori mature silkworm. The ¹H DQMAS NMR spectra of Glyc-blended SF films confirmed the appearance of Silk I* in the Glyc-blended SF film. A structural model of Glyc-SF complex including the Silk I* form was proposed with the guidance of the Molecular Dynamics (MD) simulation using ¹H-¹H distance constraints obtained from the ¹H Double-Quantum Magic Angle Spinning (DQMAS) NMR spectra.
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Affiliation(s)
- Tetsuo Asakura
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8488, Japan.
| | - Masanori Endo
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8488, Japan.
| | - Misaki Hirayama
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8488, Japan.
| | - Hiroki Arai
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8488, Japan.
| | - Akihiro Aoki
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8488, Japan.
| | - Yugo Tasei
- Department of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8488, Japan.
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37
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Krasnov I, Seydel T, Greving I, Blankenburg M, Vollrath F, Müller M. Strain-dependent fractional molecular diffusion in humid spider silk fibres. J R Soc Interface 2016; 13:20160506. [PMID: 27628174 PMCID: PMC5046950 DOI: 10.1098/rsif.2016.0506] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2016] [Accepted: 08/22/2016] [Indexed: 11/12/2022] Open
Abstract
Spider silk is a material well known for its outstanding mechanical properties, combining elasticity and tensile strength. The molecular mobility within the silk's polymer structure on the nanometre length scale importantly contributes to these macroscopic properties. We have therefore investigated the ensemble-averaged single-particle self-dynamics of the prevailing hydrogen atoms in humid spider dragline silk fibres on picosecond time scales in situ as a function of an externally applied tensile strain. We find that the molecular diffusion in the amorphous fraction of the oriented fibres can be described by a generalized fractional diffusion coefficient Kα that is independent of the observation length scale in the probed range from approximately 0.3-3.5 nm. Kα increases towards a diffusion coefficient of the classical Fickian type with increasing tensile strain consistent with an increasing loss of memory or entropy in the polymer matrix.
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Affiliation(s)
- Igor Krasnov
- Institut für Experimentelle und Angewandte Physik, Universität Kiel, 24098 Kiel, Germany Institute of Materials Research, Helmholtz-Zentrum Geesthacht (HZG), 21502 Geesthacht, Germany
| | - Tilo Seydel
- Institut Max von Laue-Paul Langevin (ILL), CS 20156, 38042 Grenoble, France
| | - Imke Greving
- Institute of Materials Research, Helmholtz-Zentrum Geesthacht (HZG), 21502 Geesthacht, Germany
| | - Malte Blankenburg
- Institut für Experimentelle und Angewandte Physik, Universität Kiel, 24098 Kiel, Germany Institute of Materials Research, Helmholtz-Zentrum Geesthacht (HZG), 21502 Geesthacht, Germany
| | - Fritz Vollrath
- Department of Zoology, University of Oxford, Oxford OX13PS, UK
| | - Martin Müller
- Institut für Experimentelle und Angewandte Physik, Universität Kiel, 24098 Kiel, Germany Institute of Materials Research, Helmholtz-Zentrum Geesthacht (HZG), 21502 Geesthacht, Germany
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38
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Ling S, Zhang Q, Kaplan DL, Omenetto F, Buehler MJ, Qin Z. Printing of stretchable silk membranes for strain measurements. LAB ON A CHIP 2016; 16:2459-66. [PMID: 27241909 PMCID: PMC4968584 DOI: 10.1039/c6lc00519e] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2023]
Abstract
Quantifying the deformation of biological tissues under mechanical loading is crucial to understand its biomechanical response in physiological conditions and important for designing materials and treatments for biomedical applications. However, strain measurements for biological tissues subjected to large deformations and humid environments are challenging for conventional methods due to several limitations such as strain range, boundary conditions, surface bonding and biocompatibility. Here we propose the use of silk solutions and printing to synthesize prototype strain gauges for large strain measurements in biological tissues. The study shows that silk-based strain gauges can be stretched up to 1300% without failure, which is more than two orders of magnitude larger than conventional strain gauges, and the mechanics can be tuned by adjusting ion content. We demonstrate that the printing approach can accurately provide well bonded fluorescent features on the silk membranes using designs which can accurately measure strain in the membrane. The results show that these new strain gauges measure large deformations in the materials by eliminating the effects of sliding from the boundaries, making the measurements more accurate than direct outputs from tensile machines.
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Affiliation(s)
- Shengjie Ling
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
| | - Qiang Zhang
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
- School of Textile Science and Engineering, Wuhan Textile University, Wuhan, 430073, China
| | - David L. Kaplan
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
| | - Fiorenzo Omenetto
- Department of Biomedical Engineering, Tufts University, Medford, MA, 02155, USA
| | - Markus J. Buehler
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA
- Center for Materials Science and Engineering, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, Massachusetts 02139, USA
- Center for Computational Engineering, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, Massachusetts 02139, USA
| | - Zhao Qin
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA
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39
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Ling S, Jin K, Kaplan DL, Buehler MJ. Ultrathin Free-Standing Bombyx mori Silk Nanofibril Membranes. NANO LETTERS 2016; 16:3795-800. [PMID: 27076389 DOI: 10.1021/acs.nanolett.6b01195] [Citation(s) in RCA: 87] [Impact Index Per Article: 10.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
We report a new ultrathin filtration membrane prepared from silk nanofibrils (SNFs), directly exfoliated from natural Bombyx mori silk fibers to retain structure and physical properties. These membranes can be prepared with a thickness down to 40 nm with a narrow distribution of pore sizes ranging from 8 to 12 nm. Typically, 40 nm thick membranes prepared from SNFs have pure water fluxes of 13 000 L h(-1) m(-2) bar(-1), more than 1000 times higher than most commercial ultrathin filtration membranes and comparable with the highest water flux reported previously. The commercial membranes are commonly prepared from polysulfone, poly(ether sulfone), and polyamide. The SNF-based ultrathin membranes exhibit efficient separation for dyes, proteins, and colloids of nanoparticles with at least a 64% rejection of Rhodamine B. This broad-spectrum filtration membrane would have potential utility in applications such as wastewater treatment, nanotechnology, food industry, and life sciences in part due to the protein-based membrane polymer (silk), combined with the robust mechanical and separation performance features.
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Affiliation(s)
- Shengjie Ling
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology , Cambridge, Massachusetts 02139, United States
- Department of Biomedical Engineering, Tufts University , Medford, Massachusetts 02155, United States
| | - Kai Jin
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology , Cambridge, Massachusetts 02139, United States
| | - David L Kaplan
- Department of Biomedical Engineering, Tufts University , Medford, Massachusetts 02155, United States
| | - Markus J Buehler
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology , Cambridge, Massachusetts 02139, United States
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40
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Fang G, Sapru S, Behera S, Yao J, Shao Z, Kundu SC, Chen X. Exploration of the tight structural-mechanical relationship in mulberry and non-mulberry silkworm silks. J Mater Chem B 2016; 4:4337-4347. [PMID: 32263416 DOI: 10.1039/c6tb01049k] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
The Bombyx mori silkworm is well known as it has been bred by our ancestors with mulberry tree leaves for thousands of years. However, Bombyx mori is not the only silkworm that can produce silk, many other kinds of silkworms can also make silks for commercial use. In this research, we compare the mechanical properties of five different commercial silk fibres including domesticated mulberry Bombyx mori, non-mulberry semi-domesticated eri Samia ricini, and wild tropical tasar Antheraea mylitta and muga Antheraea assamensis. The results demonstrate that the non-mulberry silk fibres have a relatively high extensibility as compared to the mulberry silk fibres. In the meantime, the non-mulberry silk fibres show comparatively unique toughness to the mulberry silk fibres. Synchrotron radiation FTIR microspectroscopy, synchrotron radiation wide angle X-ray diffraction, and Raman dichroism spectroscopy are used to analyze the structural differences among the five species of silk fibres comprehensively. The results clearly show that the mechanical properties of both mulberry and non-mulberry silk fibres are closely related to their structures, such as β-sheet content, crystallinity, and the molecular orientation along the fibre axis. This study aims to understand the differences in the structural and mechanical properties of different mulberry and non-mulberry silk fibres, which are of importance to the related research on understanding and utilizing the non-mulberry silk as a biomaterial. We believe these investigations not only provide insight into the biology of silk fibroins from the non-mulberry silkworms but also offer guidelines for further biomimetic investigations into the design and manufacture of artificial silk protein fibres with novel morphologies and associated material properties for future use in different fields like bioelectronics, biomaterials and biomedical devices.
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Affiliation(s)
- Guangqiang Fang
- State Key Laboratory of Molecular Engineering of Polymers, Collaborative Innovation Center of Polymers and Polymer Composite Materials, Department of Macromolecular Science, Laboratory of Advanced Materials, Fudan University, Shanghai, 200433, People's Republic of China.
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41
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Liu L, Li Q, Zhang S, Wang X, Hoffmann SV, Li J, Liu Z, Besenbacher F, Dong M. Identification of a Novel Parallel β-Strand Conformation within Molecular Monolayer of Amyloid Peptide. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2016; 3:1500369. [PMID: 27818898 PMCID: PMC5071675 DOI: 10.1002/advs.201500369] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2015] [Revised: 02/15/2016] [Indexed: 05/27/2023]
Abstract
The differentiation of protein properties and biological functions arises from the variation in the primary and secondary structure. Specifically, in abnormal assemblies of protein, such as amyloid peptide, the secondary structure is closely correlated with the stable ensemble and the cytotoxicity. In this work, the early Aβ33-42 aggregates forming the molecular monolayer at hydrophobic interface are investigated. The molecular monolayer of amyloid peptide Aβ33-42 consisting of novel parallel β-strand-like structure is further revealed by means of a quantitative nanomechanical spectroscopy technique with force controlled in pico-Newton range, combining with molecular dynamic simulation. The identified parallel β-strand-like structure of molecular monolayer is distinct from the antiparallel β-strand structure of Aβ33-42 amyloid fibril. This finding enriches the molecular structures of amyloid peptide aggregation, which could be closely related to the pathogenesis of amyloid disease.
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Affiliation(s)
- Lei Liu
- Institute for Advanced Materials Jiangsu University Zhenjiang 212013 P. R. China; Interdisciplinary Nanoscience Center (iNANO) Aarhus University Aarhus CDK-8000 Denmark
| | - Qiang Li
- Interdisciplinary Nanoscience Center (iNANO) Aarhus University Aarhus C DK-8000 Denmark
| | - Shuai Zhang
- Interdisciplinary Nanoscience Center (iNANO) Aarhus University Aarhus C DK-8000 Denmark
| | - Xiaofeng Wang
- Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety Institute of High Energy Physics Chinese Academy of Sciences Beijing 100049 P. R. China
| | | | - Jingyuan Li
- Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety Institute of High Energy Physics Chinese Academy of Sciences Beijing 100049 P. R. China
| | - Zheng Liu
- Center for Programmable Materials School of Materials Science and Engineering Nanyang Technological University Singapore Singapore 639798 Singapore
| | - Flemming Besenbacher
- Interdisciplinary Nanoscience Center (iNANO) Aarhus University Aarhus C DK-8000 Denmark
| | - Mingdong Dong
- Interdisciplinary Nanoscience Center (iNANO) Aarhus University Aarhus C DK-8000 Denmark
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Suzuki Y, Kawanishi S, Yamazaki T, Aoki A, Saito H, Asakura T. Structural Determination of the Tandem Repeat Motif in Samia cynthia ricini Liquid Silk by Solution NMR. Macromolecules 2015. [DOI: 10.1021/acs.macromol.5b01717] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Yu Suzuki
- Tenure-Track
Program for Innovative Research, University of Fukui, 3-9-1 Bunkyo, Fukui, Fukui 910-8507, Japan
| | - Shuto Kawanishi
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16, Nakacho, Koganei, Tokyo 184-8588, Japan
| | - Toshimasa Yamazaki
- National
Institute
of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan
| | - Akihiro Aoki
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16, Nakacho, Koganei, Tokyo 184-8588, Japan
| | - Hitoshi Saito
- Department
of Applied Biology, Kyoto Institute of Technology, Matsugasaki, Sakyo-ku, Kyoto 606-8585, Japan
| | - Tetsuo Asakura
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, 2-24-16, Nakacho, Koganei, Tokyo 184-8588, Japan
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43
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Hansen MR, Graf R, Spiess HW. Interplay of Structure and Dynamics in Functional Macromolecular and Supramolecular Systems As Revealed by Magnetic Resonance Spectroscopy. Chem Rev 2015; 116:1272-308. [DOI: 10.1021/acs.chemrev.5b00258] [Citation(s) in RCA: 91] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Michael Ryan Hansen
- Max Planck Institute for Polymer Research, P.O. Box 3148, 55021 Mainz, Germany
| | - Robert Graf
- Max Planck Institute for Polymer Research, P.O. Box 3148, 55021 Mainz, Germany
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44
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Asakura T, Okushita K, Williamson MP. Analysis of the Structure of Bombyx mori Silk Fibroin by NMR. Macromolecules 2015. [DOI: 10.1021/acs.macromol.5b00160] [Citation(s) in RCA: 134] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Tetsuo Asakura
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
- Institute for
Molecular Science, 38 Nishigo-Naka, Myodaiji, Okazaki 444-8585, Japan
| | - Keiko Okushita
- Department
of Biotechnology, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184-8588, Japan
| | - Mike P. Williamson
- Department
of Molecular Biology and Biotechnology, University of Sheffield, Firth Court,
Western Bank, Sheffield S10 2TN, U.K
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45
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Blamires SJ, Liao CP, Chang CK, Chuang YC, Wu CL, Blackledge TA, Sheu HS, Tso IM. Mechanical Performance of Spider Silk Is Robust to Nutrient-Mediated Changes in Protein Composition. Biomacromolecules 2015; 16:1218-25. [DOI: 10.1021/acs.biomac.5b00006] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Sean J. Blamires
- Department
of Life Science, Tunghai University, Taichung 40704, Taiwan
- Evolution & Ecology Research Centre, School of Biological, Earth & Environmental Sciences, The University of New South Wales, Sydney 2052, Australia
| | - Chen-Pan Liao
- Department
of Life Science, Tunghai University, Taichung 40704, Taiwan
| | - Chung-Kai Chang
- National Synchrotron
Radiation Research Center, Hsinchu 3000, Taiwan
| | - Yu-Chun Chuang
- National Synchrotron
Radiation Research Center, Hsinchu 3000, Taiwan
| | - Chung-Lin Wu
- Center
for Measurement Standards, Industrial Technology Research Institute, Hsinchu 30011, Taiwan
| | - Todd A. Blackledge
- Department
of Biology, Integrated Bioscience Program, The University of Akron, Akron, Ohio 44325, United States
| | - Hwo-Shuenn Sheu
- National Synchrotron
Radiation Research Center, Hsinchu 3000, Taiwan
| | - I-Min Tso
- Department
of Life Science, Tunghai University, Taichung 40704, Taiwan
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46
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Silk protein aggregation kinetics revealed by Rheo-IR. Acta Biomater 2014; 10:776-84. [PMID: 24200713 DOI: 10.1016/j.actbio.2013.10.032] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2013] [Revised: 10/23/2013] [Accepted: 10/28/2013] [Indexed: 11/21/2022]
Abstract
The remarkable mechanical properties of silk fibres stem from a multi-scale hierarchical structure created when an aqueous protein "melt" is converted to an insoluble solid via flow. To directly relate a silk protein's structure and function in response to flow, we present the first application of a Rheo-IR platform, which couples cone and plate rheology with attenuated total reflectance infrared spectroscopy. This technique provides a new window into silk processing by linking shear thinning to an increase in molecular alignment, with shear thickening affecting changes in the silk protein's secondary structure. Additionally, compared to other static characterization methods for silk, Rheo-IR proved particularly useful at revealing the intrinsic difference between natural (native) and reconstituted silk feedstocks. Hence Rheo-IR offers important novel insights into natural silk processing. This has intrinsic academic merit, but it might also be useful when designing reconstituted silk analogues alongside other polymeric systems, whether natural or synthetic.
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47
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The Silk I and Lamella Structures of (Ala-Gly)15 as the Model of Bombyx mori Silk Fibroin Studied with Solid State NMR. BIOTECHNOLOGY OF SILK 2014. [DOI: 10.1007/978-94-007-7119-2_3] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/02/2022]
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48
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Jenkins JE, Sampath S, Butler E, Kim J, Henning RW, Holland GP, Yarger JL. Characterizing the secondary protein structure of black widow dragline silk using solid-state NMR and X-ray diffraction. Biomacromolecules 2013; 14:3472-83. [PMID: 24024617 PMCID: PMC3914425 DOI: 10.1021/bm400791u] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
This study provides a detailed secondary structural characterization of major ampullate dragline silk from Latrodectus hesperus (black widow) spiders. X-ray diffraction results show that the structure of black widow major ampullate silk fibers is comprised of stacked β-sheet nanocrystallites oriented parallel to the fiber axis and an amorphous region with oriented (anisotropic) and isotropic components. The combination of two-dimensional (2D) (13)C-(13)C through-space and through-bond solid-state NMR experiments provide chemical shifts that are used to determine detailed information about the amino acid motif secondary structure in black widow spider dragline silk. Individual amino acids are incorporated into different repetitive motifs that make up the majority of this protein-based biopolymer. From the solid-state NMR measurements, we assign distinct secondary conformations to each repetitive amino acid motif and, hence, to the amino acids that make up the motifs. Specifically, alanine is incorporated in β-sheet (poly(Alan) and poly(Gly-Ala)), 3(1)-helix (poly(Gly-Gly-Xaa), and α-helix (poly(Gln-Gln-Ala-Tyr)) components. Glycine is determined to be in β-sheet (poly(Gly-Ala)) and 3(1)-helical (poly(Gly-Gly-X(aa))) regions, while serine is present in β-sheet (poly(Gly-Ala-Ser)), 3(1)-helix (poly(Gly-Gly-Ser)), and β-turn (poly(Gly-Pro-Ser)) structures. These various motif-specific secondary structural elements are quantitatively correlated to the primary amino acid sequence of major ampullate spidroin 1 and 2 (MaSp1 and MaSp2) and are shown to form a self-consistent model for black widow dragline silk.
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Affiliation(s)
- Janelle E. Jenkins
- Department of Chemistry and Biochemistry, Magnetic Resonance Research Center, Arizona State University, Tempe, Arizona 85287-1604, USA
| | - Sujatha Sampath
- Department of Chemistry and Biochemistry, Magnetic Resonance Research Center, Arizona State University, Tempe, Arizona 85287-1604, USA
- Department of Physics, University of Wisconsin, Milwaukee, WI 53211
| | - Emily Butler
- Department of Chemistry and Biochemistry, Magnetic Resonance Research Center, Arizona State University, Tempe, Arizona 85287-1604, USA
| | - Jihyun Kim
- Department of Chemistry and Biochemistry, Magnetic Resonance Research Center, Arizona State University, Tempe, Arizona 85287-1604, USA
| | - Robert W. Henning
- Center for Advanced Radiation Sources, The University of Chicago, Chicago, IL 60637
| | - Gregory P. Holland
- Department of Chemistry and Biochemistry, Magnetic Resonance Research Center, Arizona State University, Tempe, Arizona 85287-1604, USA
| | - Jeffery L. Yarger
- Department of Chemistry and Biochemistry, Magnetic Resonance Research Center, Arizona State University, Tempe, Arizona 85287-1604, USA
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49
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Amino acid analysis of spider dragline silk using 1H NMR. Anal Biochem 2013; 440:150-7. [DOI: 10.1016/j.ab.2013.05.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2013] [Revised: 05/10/2013] [Accepted: 05/14/2013] [Indexed: 11/20/2022]
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50
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Ling S, Qi Z, Knight DP, Huang Y, Huang L, Zhou H, Shao Z, Chen X. Insight into the structure of single Antheraea pernyi silkworm fibers using synchrotron FTIR microspectroscopy. Biomacromolecules 2013; 14:1885-92. [PMID: 23607809 DOI: 10.1021/bm400267m] [Citation(s) in RCA: 72] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Synchrotron FTIR (S-FTIR) microspectroscopy was used to monitor both protein secondary structures (conformations) and their orientations in single cocoon silk fibers of the Chinese Tussah silk moth ( Antheraea pernyi ). In addition, to understand further the relationship between structure and properties of single silk fibers, we studied the changes of orientation and content of different secondary structures in single A. pernyi silk fibers when subjected to different strains. The results showed that the content and orientation of β-sheet was almost unchanged for strains from 0 to 0.3. However, the orientation of α-helix and random coil improved progressively with increasing strain, with a parallel decrease in α-helix content and an increase in random coil. This clearly indicates that most of the deformation upon stretching of the single fiber is due to the change of orientation in the amorphous regions coupled with a conversion of some of the α-helix to random coil. These observations provide an explanation for the supercontraction behavior of certain animal silks and are likely to facilitate understanding and optimization of postdrawing used in the conjunction with the wet-spinning of silk fibers from regenerated silk solutions. Thus, our work demonstrates the power of S-FTIR microspectroscopy for studying biopolymers.
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Affiliation(s)
- Shengjie Ling
- State Key Laboratory of Molecular Engineering of Polymers, Department of Macromolecular Science, Laboratory of Advanced Materials, Fudan University , Shanghai, 200433, People's Republic of China
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