Stapels, D. A. C., Ramyar, K. X., Bischoff, M. et al., Staphylococcus aureus secretes a unique class of neutrophil serine protease inhibitors. Proc. Natl. Acad. Sci. USA, 111 (2014), 13187–13192.Google Scholar

Kendrew, J. C., Bodo, G., Dintzis, H. M. et al., A three-dimensional model of the myoglobin molecule obtained by X-ray analysis. Nature, 181 (1958), 662–666.CrossRefGoogle ScholarPubMed

Frank, J., Single-particle imaging of macromolecules by cryo-electron microscopy. Annu. Rev. Biophys. Biomol. Struct., 31 (2002), 303–319.Google Scholar

Schmidt, A., Teeter, M., Weckert, E. and Lamzin, V. S., Crystal structure of small protein crambin at 0.48 Å resolution. Acta Crystallogr. Sect. F, 67 (2011), 424–428.Google Scholar

Bai, X. C., Fernandez, I. S., McMullan, G. and Scheres, S. H. W., Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles. eLife, 2 (2013), e00461.Google Scholar

Bartesaghi, A., Matthies, D., Banerjee, S., Merk, A. and Subramaniam, S., Structure of beta-galactosidase at 3.2-angstrom resolution obtained by cryo-electron microscopy. Proc. Natl. Acad. Sci. USA, 111 (2014), 11709–11714.Google Scholar

Glaeser, R. M., Retrospective: Radiation damage and its associated “Information Limitations”. J. Struct. Biol., 163 (2008), 271–276.Google Scholar

Egerton, R. F., Control of radiation damage in the TEM. Ultramicroscopy, 127 (2013), 100–108.CrossRefGoogle ScholarPubMed

Gilmore, B. L., Showalter, S. P., Dukes, M. J. et al., Visualizing viral assemblies in a nanoscale biosphere. Lab Chip, 13 (2013), 216–219.CrossRefGoogle Scholar

Reimer, L. and Kohl, H., Transmission Electron Microscopy: Physics of Image Formation (New York: Springer, 2008).Google Scholar

Grogan, J. M., Schneider, N. M., Ross, F. M. and Bau, H. H., Bubble and pattern formation in liquid induced by an electron beam. Nano Lett., 14 (2014), 359–364.CrossRefGoogle ScholarPubMed

Schneider, N. M., Norton, M. M., Mendel, B. J. et al., Electron-water interactions and implications for liquid cell electron microscopy. J. Phys. Chem. C, 118 (2014), 22373–22382.CrossRefGoogle Scholar

Woehl, T. J., Jungjohann, K. L., Evans, J. E. et al., Experimental procedures to mitigate electron beam induced artifacts during in situ fluid imaging of nanomaterials. Ultramicroscopy, 127 (2013), 53–63.Google Scholar

Mirsaidov, U. M., Zheng, H., Casana, Y. and Matsudaira, P., Imaging protein structure in water at 2.7 nm resolution by transmission electron microscopy. Biophys. J., 102 (2012), L15–L17.Google Scholar

Evans, J. E. and Browning, N. D., Enabling direct nanoscale observations of biological reactions with dynamic TEM. Microscopy, 62 (2013), 147–156.CrossRefGoogle ScholarPubMed

Jungjohann, K. L., Bliznakov, S., Sutter, P. W., Stach, E. A. and Sutter, E. A., In situ liquid cell electron microscopy of the solution growth of Au-Pd core-shell nanostructures. Nano Lett., 13 (2013), 2964–2970.Google Scholar

Lowenstam, H. A. and Weiner, S., On Biomineralization (New York: Oxford University Press, 1989).CrossRefGoogle Scholar

Benzerara, K., Skouri-Panet, F., Li, J. H. et al., Intracellular Ca-carbonate biomineralization is widespread in cyanobacteria. Proc. Natl. Acad. Sci. USA, 111 (2014), 10933–10938.CrossRefGoogle ScholarPubMed

Bazylinski, D. A., Synthesis of the bacterial magnetosome: the making of a magnetic personality. Int. Microbiol, 2 (1999), 71–80.Google Scholar

Sumper, M. and Brunner, E., Learning from diatoms: nature’s tools for the production of nanostructured silica. Adv. Funct. Mater., 16 (2006), 17–26.CrossRefGoogle Scholar

Woehl, T. J., Kashyap, S., Firlar, E. et al., Correlative electron and fluorescence microscopy of magnetotactic bacteria in liquid: toward in vivo imaging. Sci. Rep., 4 (2014), 6854.CrossRefGoogle ScholarPubMed

Arakaki, A., Webb, J. and Matsunaga, T., A novel protein tightly bound to bacterial magnetic particles in Magnetospirillum magneticum strain AMB-1. J. Biol. Chem., 278 (2003), 8745–8750.Google Scholar

Poulsen, N., Sumper, M. and Kroger, N., Biosilica formation in diatoms: characterization of native silaffin-2 and its role in silica morphogenesis. Proc. Natl. Acad. Sci. USA, 100 (2003), 12075–12080.Google Scholar

Prozorov, T., Bazylinski, D. A., Mallapragada, S. K. and Prozorov, R., Novel magnetic nanomaterials inspired by magnetotactic bacteria: topical review. Mater. Sci. Eng. R., 74 (2013), 133–172.Google Scholar

Lang, C. and Schueler, D., Biomineralization of magnetosomes in bacteria: nanoparticles with potential applications. In Rehm, B., ed., Microbial Bionanotechnology (Wymondham, UK: Horizon Bioscience, 2006) pp. 107–124.Google Scholar

Prozorov, T., Palo, P., Wang, L. et al., Cobalt ferrite nanocrystals: out-performing magnetotactic bacteria. ACS Nano, 1 (2007), 228–233.Google Scholar

Colfen, H. and Antonietti, M., Mesocrystals: inorganic superstructures made by highly parallel crystallization and controlled alignment. Angew. Chem. Int. Ed., 44 (2005), 5576–5591.Google Scholar

Bazylinski, D. A., Garrattreed, A. J. and Frankel, R. B., Electron-microscopic studies of magnetosomes in magnetotactic bacteria. Microsc. Res. Tech., 27 (1994), 389–401.Google Scholar

Komeili, A., Li, Z., Newmana, D. K. and Jensen, G. J., Magnetosomes are cell membrane invaginations organized by the actin-like protein MamK. Science, 311 (2006), 242–245.Google Scholar

Pouget, E. M., Bomans, P. H. H., Goos, J. et al., The initial stages of template-controlled CaCO₃ formation revealed by cryo-TEM. Science, 323 (2009), 1455–1458.Google Scholar

Bazylinski, D. A. and Frankel, R. B., Magnetosome formation in prokaryotes. Nat. Rev. Micro., 2 (2004), 217–230.Google Scholar

Faivre, D. and Schüler, D., Magnetotactic bacteria and magnetosomes. Chem. Rev., 108 (2008), 4875–4898.Google Scholar

Prozorov, T., Mallapragada, S. K., Narasimhan, B. et al., Protein-mediated synthesis of uniform superparamagnetic magnetite nanocrystals. Adv. Funct. Mater., 17 (2007), 951–957.Google Scholar

Epp, E. R., Weiss, H. and Santomasso, A., The oxygen effect in bacterial cells irradiated with high-intensity pulsed electrons. Rad. Res., 34 (1968), 320–325.Google Scholar

Komeili, A., Vali, H., Beveridge, T. J. and Newman, D. K., Magnetosome vesicles are present before magnetite formation, and MamA is required for their activation. Proc. Natl. Acad. Sci. USA, 101 (2004), 3839–3844.CrossRefGoogle ScholarPubMed

White, E. R., Singer, S. B., Augustyn, V. et al., In situ transmission electron microscopy of lead dendrites and lead ions in aqueous solution. ACS Nano, 6 (2012), 6308–6317.CrossRefGoogle ScholarPubMed

Kashyap, S., Woehl, T. J., Liu, X., Mallapragada, S. K. and Prozorov, T., Nucleation of iron oxide nanoparticles mediated by Mms6 protein in situ. ACS Nano, 8 (2014), 9097–9106.Google Scholar

ISO/ASTM51540-09, USA, 2009. Standard Practices for Use of Radiochromic Liquid Dosimetry System, ASTM International, West Conshohocken, PA, USA.Google Scholar

Fiester, S. E., Helfinstine, S. L., Redfearn, J. C., Uribe, R. M. and Woolverton, C. J., Electron beam irradiation dose dependently damages the Bacillus spore coat and spore membrane. Int. J. Microbiol. (2012), 579593.Google Scholar

Ward, G. D., Watson, I. A., Stewart-Tull, D. E. et al., Bactericidal action of high-power Nd:YAG laser light on Escherichia coli in saline suspension. J. Appl. Microbiol., 89 (2000), 517–525.Google Scholar

Nandakumar, K., Obika, H., Utsumi, A., Ooie, T. and Yano, T., Molecular level damages of low power pulsed laser radiation in a marine bacterium Pseudoalteromonas carrageenovora. Lett. Appl. Microbiol., 42 (2006), 521–526.Google Scholar

Tuszyn’ski, J. A., Portet, S., Dixon, J. M., Luxford, C. and Cantiello, H. F., Ionic wave propagation along actin filaments. Biophys. J., 86 (2004), 1890–1903.Google Scholar

Cantiello, H. F., Patenaude, C. and Zaner, K., Osmotically induced electrical signals from actin filaments. Biophys. J., 59 (1991), 1284–1289.Google Scholar

Merla, C., Paffi, A., Apollonio, F. et al., Microdosimetry for nanosecond pulsed electric field applications: a parametric study for a single cell. IEEE Trans. Biomed. Eng., 58 (2011), 1294–1302.Google Scholar

Cowley, J. M., Twenty forms of electron holography. Ultramicroscopy, 41 (1992), 335–348.Google Scholar

Formanek, P., Lenk, A., Lichte, H. et al., Electron holography: applications to materials questions. Annu. Rev. Mater. Res., 37 (2007), 539–588.Google Scholar

Dunin-Borkowski, R. E., McCartney, M. R., Kardynal, B. et al., Off-axis electron holography of exchange-biased CoFe/FeMn patterned nanostructures. J Appl. Phys., 90 (2001), 2899–2902.Google Scholar

Simon, P., Lichte, H., Formanek, P. et al., Electron holography of biological samples. Micron, 39 (2008), 229–256.CrossRefGoogle ScholarPubMed

Dunin-Borkowski, R. E., McCartney, M. R., Posfai, M. et al., Off-axis electron holography of magnetotactic bacteria: magnetic microstructure of strains MV-1 and MS-1. Eur. J. Mineral., 13 (2001), 671–684.Google Scholar

Kasama, T., Posfai, M., Chong, R. K. K. et al., Magnetic properties, microstructure, composition, and morphology of greigite nanocrystals in magnetotactic bacteria from electron holography and tomography. Am. Mineral., 91 (2006), 1216–1229.Google Scholar

Simpson, E. T., Kasama, T., Posfai, M. et al., Magnetic induction mapping of magnetite chains in magnetotactic bacteria at room temperature and close to the Verwey transition using electron holography. J. Phys. Conf. Ser., 17 (2005), 108–121.Google Scholar

Longchamp, J. N., Latychevskaia, T., Escher, C. and Fink, H. W., Non-destructive imaging of an individual protein. Appl. Phys. Lett., 101 (2012), 093701.Google Scholar

Kawasaki, T., Endo, J., Matsuda, T., Osakabe, N. and Tonomura, A., Applications of holographic interference electron microscopy to the observation of biological specimens. J. Electron Microsc., 35 (1986), 211–214.Google Scholar

Pan, Y.-H., Sader, K., Powell, J. J. et al., 3D morphology of the human hepatic ferritin mineral core: new evidence for a subunit structure revealed by single particle analysis of HAADF-STEM images. J. Struct. Biol., 166 (2009), 22–31.CrossRefGoogle ScholarPubMed

Lichte, H., Banzhof, H. and Huhle, R., Limitations in electron holography of magnetic microstructures. Proc. Int. Congr. Electr. Microsc., ICEM 14, Cancun, Mexico (1998), pp. 559–560.Google Scholar

Krack, M., Hohenberg, H., Kornowski, A. et al., Nanoparticle-loaded magnetophoretic vesicles. J. Am. Chem. Soc., 130 (2008), 7315–7320.CrossRefGoogle ScholarPubMed

Hopster, H. and Oepen, H. P. (eds.), Magnetic Microscopy of Nanostructures (Berlin: Springer, 2005).CrossRefGoogle Scholar

Eggeman, A. S., Petford-Long, A. K., Dobson, P. J. et al., Synthesis and characterization of silica encapsulated cobalt nanoparticles and nanoparticle chains. J. Magn. Magn. Mater., 301 (2006), 336–342.Google Scholar

Tanase, M. and Petford-Long, A. K., In situ TEM observation of magnetic materials. Microsc. Res. Tech., 72 (2009), 187–196.Google Scholar

Campbell, G. H., LaGrange, T. B., King, W. E. et al., The HCP to BCC phase transformation in Ti characterized by nanosecond electron microscopy. Solid-Solid Phase Transform. Inorg. Mater. 2005, Proc. Int. Conf., 2 (2005) 443–448.Google Scholar

Pankhurst, Q. A., Connolly, J., Jones, S. K. and Dobson, J., Applications of magnetic nanoparticles in biomedicine. J. Phys. D: Appl. Phys., 36 (2003), R167–R181.Google Scholar

Reiss, G. and Huetten, A., Magnetic nanoparticles: applications beyond data storage. Nat. Mater., 4 (2005), 725–726.Google Scholar

Förster, S., Amphiphilic block copolymers for templating applications. Top. Curr. Chem., 226 (2003), 1–28.Google Scholar

Prozorov, T., Unpublished, 2013.Google Scholar

Zhang, L., Song, S. I., Zheng, S. et al., Nontoxic poly(ethylene oxide phosphonamidate) hydrogels as templates for biomimetic mineralization of calcium carbonate and hydroxyapatite architectures. J. Mater. Sci., 48 (2013), 288–298.Google Scholar

Dobrunz, D., Toma, A. C., Tanner, P., Pfohl, T. and Palivan, C. G., Polymer nanoreactors with dual functionality: simultaneous detoxification of peroxynitrite and oxygen transport. Langmuir, 28 (2012), 15889–15899.Google Scholar

Tanner, P., Baumann, P., Enea, R. et al., Polymeric vesicles: from drug carriers to nanoreactors and artificial organelles. Acc. Chem. Res., 44 (2011), 1039–1049.Google Scholar

Goswami, N., Saha, R. and Pal, S. K., Protein-assisted synthesis route of metal nanoparticles: exploration of key chemistry of the biomolecule. J. Nanopart. Res., 13 (2011), 5485–5495.CrossRefGoogle Scholar

Vriezema, D. M., Aragones, M. C., Elemans, J. A. A. W. et al., Self-assembled nanoreactors, Chem. Rev., 105 (2005), 1445–1489.Google Scholar

Kashyap, S., Woehl, T., Valverde-Tercedor, C. et al., Visualization of iron-binding micelles in acidic recombinant biomineralization protein, MamC. J. Nanomater. (2014), 320124.CrossRefGoogle Scholar

Karlin, D. and Belshaw, R., Detecting remote sequence homology in disordered proteins: discovery of conserved motifs in the N-termini of Mononegavirales phosphoproteins. PLoS One, 7 (2012), e31719.Google Scholar

Heyman, A., Medalsy, I., Bet Or, O. et al., Protein scaffold engineering towards tunable surface attachment. Angew. Chem. Int. Ed., 48 (2009), 9290–9294.Google Scholar

Ghosh, P. S. and Hamilton, A. D., Noncovalent template-assisted mimicry of multiloop protein surfaces: assembling discontinuous and functional domains. J. Am. Chem. Soc., 134 (2012), 13208–13211.Google Scholar

Diao, J., Crystal structure of a super leucine zipper, an extended two-stranded super long coiled coil. Protein Sci., 19 (2010), 319–326.Google Scholar

Dedeo, M. T., Duderstadt, K. E., Berger, J. M. and Francis, M. B., Nanoscale protein assemblies from a circular permutant of the tobacco mosaic virus. Nano Lett., 10 (2010), 181–186.Google Scholar

Aniagyei, S. E., DuFort, C., Kao, C. C. and Dragnea, B., Self-assembly approaches to nanomaterial encapsulation in viral protein cages. J. Mater. Chem., 18 (2008), 3763–3774.Google Scholar

Sun, J., DuFort, C., Daniel, M.-C. et al., Core-controlled polymorphism in virus-like particles. Proc. Natl. Acad. Sci. USA, 104 (2007), 1354–1359.Google Scholar

Vatta, L. L., Sanderson, R. D. and Koch, K. R., Magnetic nanoparticles: properties and potential applications. Pure Appl. Chem., 78 (2006), 1793–1801.Google Scholar

Ai, H., Flask, C., Weinberg, B. et al., Magnetite-loaded polymeric micelles as ultrasensitive magnetic-resonance probes. Adv. Mater., 17 (2005), 1949–1952.Google Scholar

Berry, C. C. and Curtis, A. S. G., Functionalisation of magnetic nanoparticles for applications in biomedicine. J. Phys. D: Appl. Phys., 36 (2003), R198–R206.Google Scholar

Chiancone, E., Ceci, P., Ilari, A., Ribacchi, F. and Stefanini, S., Iron and proteins for iron storage and detoxification. BioMetals, 17 (2004), 197–202.Google Scholar

Busch, A. P., Rhinow, D., Yang, F. et al., Site-selective biomineralization of native biological membranes. J. Mater. Chem. B, 2 (2014), 6924–6930.CrossRefGoogle ScholarPubMed

Baumgartner, J., Morin, G., Menguy, N. et al., Magnetotactic bacteria form magnetite from a phosphate-rich ferric hydroxide via nanometric ferric (oxyhydr)oxide intermediates. Proc. Natl. Acad. Sci. USA, 110 (2013), 14883–14888.Google Scholar

Baumgartner, J. and Faivre, D., Magnetite biomineralization in bacteria. Prog. Mol. Subcell. Biol., 52 (2011), 3–27.Google Scholar

Penn, R. L. and Banfield, J. F., Imperfect oriented attachment: dislocation generation in defect-free nanocrystals. Science, 281 (1998), 969–971.Google Scholar

Gao, B., Arya, G. and Tao, A. R., Self-orienting nanocubes for the assembly of plasmonic nanojunctions. Nat. Nanotechnol., 7 (2012), 433–437.Google Scholar

Nakagawa, Y., Kageyama, H., Oaki, Y. and Imai, H., Direction control of oriented self-assembly for 1D, 2D, and 3D microarrays of anisotropic rectangular nanoblocks. J. Am. Chem. Soc., 136 (2014), 3716–3719.Google Scholar

Song, R. Q. and Colfen, H., Mesocrystals-ordered nanoparticle superstructures. Adv. Mater., 22 (2010), 1301–1330.CrossRefGoogle ScholarPubMed

Sun, B. L., Wen, M., Wu, Q. S. and Peng, J., Oriented growth and assembly of Ag@C@Co pentagonalprism nanocables and their highly active selected catalysis along the edges for dehydrogenation. Adv. Funct. Mater., 22 (2012), 2860–2866.Google Scholar

Ihli, J., Bots, P., Kulak, A., Benning, L. G. and Meldrum, F. C., Elucidating mechanisms of diffusion-based calcium carbonate synthesis leads to controlled mesocrystal formation. Adv. Funct. Mater., 23 (2013), 1965–1973.Google Scholar

Niederberger, M. and Colfen, H., Oriented attachment and mesocrystals: non-classical crystallization mechanisms based on nanoparticle assembly. Phys. Chem. Chem. Phys., 8 (2006), 3271–3287.Google Scholar

Frandsen, C., Legg, B. A., Comolli, L. R. et al., Aggregation-induced growth and transformation of beta-FeOOH nanorods to micron-sized alpha-Fe₂O₃ spindles. CrystEngComm, 16 (2014), 1451–1458.Google Scholar

Wang, Y., DePrince, A. E., Gray, S. K., Lin, X. M. and Pelton, M., Solvent-mediated end-to-end assembly of gold nanorods. J. Phys. Chem. Lett., 1 (2010), 2692–2698.Google Scholar

Colfen, H. and Antonietti, M., Mesocrystals and Nonclassical Crystallization (Chichester, UK: Wiley, 2008).Google Scholar

Woehl, T. J. and Prozorov, T., The mechanisms for nanoparticle surface diffusion and chain self-assembly determined from real-time nanoscale kinetics in liquid. J. Phys. Chem. C, 119 (2015), 21261–21269.Google Scholar

Burrows, N. D., Hale, C. R. H. and Penn, R. L., Effect of ionic strength on the kinetics of crystal growth by oriented aggregation. Cryst. Growth Des., 12 (2012), 4787–4797.Google Scholar

Penn, R. L. and Soltis, J. A., Characterizing crystal growth by oriented aggregation. CrystEngComm, 16 (2014), 1409–1418.Google Scholar

Ahmed, W., Laarman, R. P. B., Hellenthal, C. et al., Dipole directed ring assembly of Ni-coated Au-nanorods. Chem. Commun., 46 (2010), 6711–6713.Google Scholar

Chai, J., Liao, X., Giam, L. R. and Mirkin, C. A., Nanoreactors for studying single nanoparticle coarsening. J. Am. Chem. Soc., 134 (2012), 158–161.Google Scholar

Yang, M. X., Chen, G., Zhao, Y. F. et al., Mechanistic investigation into the spontaneous linear assembly of gold nanospheres. Phys. Chem. Chem. Phys., 12 (2010), 11850–11860.Google Scholar

Park, J., Zheng, H., Lee, W. C. et al., Direct observation of nanoparticle superlattice formation by using liquid cell transmission electron microscopy. ACS Nano, 6 (2012), 2078–2085.Google Scholar

Park, C., Woehl, T. J., Evans, J. E. and Browning, N. D., Minimum cost multi-way data association for optimizing multitarget tracking of interacting objects, pattern analysis and machine intelligence. IEEE Trans. Pattern Anal. Mach. Intell., 37 (2014), 611–624.Google Scholar

Li, D. S., Nielsen, M. H., Lee, J. R. I. et al., Direction-specific interactions control crystal growth by oriented attachment. Science, 336 (2012), 1014–1018.Google Scholar

Yuk, J. M., Park, J., Ercius, P. et al., High-resolution EM of colloidal nanocrystal growth using graphene liquid cells. Science, 336 (2012), 61–64.Google Scholar

Liao, H. G., Zherebetskyy, D., Xin, H. L. et al., Facet development during platinum nanocube growth. Science, 345 (2014), 916–919.Google Scholar