Project of Scanning and Projection Microscopes for the Nanoscopy Station for Biological Research in the “Water Transparency Window”

Ya. V. Rakshun; Ракшун Я. В.; Yu. V. Khomyakov; Хомяков Ю. В.; V. A. Chernov; Чернов В. А.; I. A. Shchelokov; Щелоков И. А.; I. V. Malyshev; Малышев И. В.; A. E. Pestov; Пестов А. Е.; V. N. Polkovnikov; Полковников В. Н.; D. G. Reunov; Реунов Д. Г.; M. N. Toropov; Торопов М. Н.; N. I. Chkhalo; Чхало Н. И.

doi:10.31857/S1028096023050126

Project of Scanning and Projection Microscopes for the Nanoscopy Station for Biological Research in the “Water Transparency Window”

Authors: Rakshun Y.V.¹, Khomyakov Y.V.¹, Chernov V.A.¹, Shchelokov I.A.², Malyshev I.V.³, Pestov A.E.³, Polkovnikov V.N.³, Reunov D.G.³, Toropov M.N.³, Chkhalo N.I.³
Affiliations:
1. Institute of Nuclear Physics G.I. Budker of the Siberian Branch RAS
2. Institute for Problems of Microelectronics Technology and High Purity Materials of RAS
3. Institute for Physics of Microstructures of RAS
Issue: No 5 (2023)
Pages: 3-15
Section: Articles
URL: https://journals.rcsi.science/1028-0960/article/view/137748
DOI: https://doi.org/10.31857/S1028096023050126
EDN: https://elibrary.ru/AJWIBH
ID: 137748

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Abstract
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Abstract

A brief description of the concept of a soft X-ray microscope for the Nanoscopy station is given, which is planned to be installed at the SKIF fourth-generation synchrotron. The microscope will be designed to study the structure of cells and dynamic processes in them with nanometer spatial resolution. It will use a unique absorption contrast of ~15 between carbon-containing structures and water in the spectral range of the “water transparency window”, λ = 2.3–4.3 nm, which eliminates the need for contrasting and the use of fluorophores and minimizes the doses of ionizing radiation absorbed in the samples to obtain high-quality 3D-images. The scanning and projection schemes of the microscope, their main technical characteristics, including the calculated spectra and parameters of the undulator source are presented, and an estimate of the absorbed doses depending on the resolution is obtained. The main advantage of the proposed concept lies in the use of an objective of high-aperture multilayer X-ray mirrors, which makes it possible to clearly visualize the focal section of the sample. Technically simple axial tomography will also be used to reconstruct the three-dimensional structure of frozen or dried samples. In the scanning scheme, due to the low dose of radiation, it will be possible to study living plant cells with a resolution of up to 10 nm, animals with a resolution of up to 80 nm, and cryofixed samples with a resolution of up to 5 nm. In the projection scheme, due to the simultaneous observation of the entire focal XY-section, the time for obtaining three-dimensional images is significantly reduced, but due to the large dose, it will be oriented mainly on the study of fixed samples.

Keywords

soft X-ray microscopy, “water transparency window”, synchrotron radiation, SKIF synchrotron station, study of living cells with nanometer resolution.

References

Hanssen E., Knoechel C., M. Dearnley M. et al. // J. Struct. Biol. 2012. V. 177. № 2. P. 224. https://doi.org/10.1016/j.jsb.2011.09.003
Kirz J. // Q. Rev. Biophys. 1995 V. 28. P. 33. https://doi.org/10.1017/s0033583500003139
Eltsov M., Grewe D., Lemercier N. et al. // Nucl. Acids Res. 2018. V. 46. № 17. P. 9189. https://doi.org/10.1093/nar/gky670
Hell S.W., Wichmann J. // Opt. Lett. 1994. V. 19. № 11. P. 780. https://doi.org/10.1364/OL.19.000780
Späth A., Schöll S., Riess C. et al. // Ultramicroscopy. 2014. V. 144. P. 19. https://doi.org/10.1016/j.ultramic.2014.04.004
Vila-Comamala J., Jefimovs K., Raabe J. et al. // Ultramicroscopy. 2009. V. 109. № 11. P. 1360. https://doi.org/10.1016/j.ultramic.2009.07.005
Späth A., Raabe J., Fink R.H. // J. Synchr. Radiat. 2015. V. 22. № 1. P. 113. https://doi.org/10.1107/S1600577514022322
Kotani Y., Senba Y., Toyoki K. et al. // J. Synchr. Radiat. 2018. V. 25. № 5. P. 1444. https://doi.org/10.1107/S1600577518009177
Takman P.A.C., Stollberg H., Johansson G.A. et al. // J. Microscopy. 2007. V. 226. № 2. P. 175. https://doi.org/10.1111/j.1365-2818.2007.01765.x
Larabell C.A., Le Gros M.A. // Mol. Biol. Cell. 2004. V. 15. № 3. P. 957. https://doi.org/10.1091/mbc.E03-07-0522
Малышев И.В., Пестов А.Е., Полковников В.Н. и др. // Поверхность. Рентген., синхротр. и нейтрон. исслед. 2019. № 1. С. 3. https://doi.org/10.1134/S0207352819010128
Schneider G., Guttmann P., Heim S. et al. // Nat. Methods. 2010. V. 7. Iss. 12. P. 985. https://doi.org/10.1038/nmeth.1533
Chkhalo N.I., Malyshev I.V., Pestov A.E. et al. // Appl. Opt. 2016. V. 55. № 3. P. 619. https://doi.org/10.1364/AO.55.000619
Turkot B. // Proc. SPIE. 2016. V. 9776. P. 977602. https://doi.org/10.1117/12.2225014
Pirati A., v. Schoot J., Troost K. et al. // Proc. SPIE. 2017. V. 10143. P. 101430G. https://doi.org/10.1117/12.2261079
Gullikson E.M., Salmassi F., Aquila A.L., Dollar F. Lawrence Berkeley National Laboratory: Berkeley, CA, USA, 2006. http://escholarship.org/uc/item/8hv7q0hj (accessed on 20 June 2008).
Jingtao Z., Haochuan L., Hongchang W. et al. PXRNM workshop-2016, 2016. https://www.utwente.nl/en/tnw/xuv/workshops/archive/ pxrnm-workshop-2016/program/pxrnms-2016-abstracts-poster-presentations.pdf.
Burcklen C., de Rossi S., Meltchakov E. et al. // Opt. Lett. 2017. V. 42. № 10. P. 1927. https://doi.org/10.1364/OL.42.001927
Andreev S.S., Bibishkin M.S., Chkhalo N.I. et al. // J. Synchr. Radiat. 2003. V. 10. Iss. 5. P. 358. https://doi.org/10.1107/S0909049503015255
Bibishkin M.S., Chkhalo N.I., Fraerman A.A. et al. // Nucl. Instrum. Methods Phys. Res. A. 2005. V. 543. № 1. P. 333. https://doi.org/10.1016/j.nima.2005.01.251
Akhsakhalyan A.D., Kluenkov E.B., Lopatin A.Ya. et al. // J. Surf. Invest.: X-ray, Synchrotron Neutron Tech. 2017. V. 11. № 1. P. 1. https://doi.org/10.1134/S1027451017010049
Полковников В.Н., Гарахин С.А., Квашенников Д.C., Малышев И.В., Салащенко Н.Н., Свечников М.В., Смертин Р.М., Чхало Н.И. // ЖТФ. 2020. V. 90(11), P. 1893.
Chkhalo N.I., Malyshev I.V., Pestov A.E. et al. // Physics-Uspekhi. 2020. V. 63. № 1. P. 67. https://doi.org/10.3367/UFNe.2019.05.038601
http://www.eurotek-general.ru/products/systems_pi/ multicoordinate/p-561-p-562-p-563-pimars/"l “ad- image-0
Schelokov I.A., Roshchupkin D.V., Kondakov A.S. et al. // Optics Commun. 1999. V. 159. № 4–6. P. 278. https://doi.org/10.1016/S0030-4018(98)00598-7
Schneider G., Niemann B. // X-ray Sci. 1994. V. 2. P. 8.
Gilbert J.R. Soft X-Ray Microimaging of Whole Wet Cells. PhD thesis, California Institute of Technology, Pasadena, California, 1992.
Chkhalo N.I., Malyshev I.V., Pestov A.E., Polkovnikov V.N., Reunov D.G., Salashchenko N.N., Shchelokov I.A. X-ray Optical Scheme for Station “Nanoscope” for Biological Research in the Water Window. Synchrotron and Free Electron Laser Radiation: Generation and Application (SFR-2020). https://doi.org/10.1063/5.0031702
Малышев И.В., Реунов Д.Г., Чхало Н.И. и др. // Матер. XXVI Междунар. симп. “Нанофизика и наноэлектроника”. Нижний Новгород, 14–17 марта 2022. Т. 1. С. 562.
Sage D., Donati L., Soulez F. et al. // Methods-Image Processing for Biologists. 2017. V. 115. P. 28. https://doi.org/10.1016/j.ymeth.2016.12.015