Numerical Simulation of Super-Resolution Structured Illumination Microscopy (SIM) Using Heintzmann-Cremer Algorithm with Non-Continuous Spatial Frequency Support
We report a comprehensive numerical study of super resolution (SR) structured illumination microscopy (SIM) utilizing the classic Heintzmann-Cremer SIM process and algorithm. In particular, we investigated the impact of the diffraction limit of the underlying imaging system on the optimal SIM grating frequency that can be used to obtain the highest SR enhancement with non-continuous spatial frequency support. Besides confirming the previous theoretical and experimental work that SR-SIM can achieve an enhancement close to 3 times the diffraction limit with grating pattern illuminations, we also observe and report a series of more subtle effects of SR-SIM with non-continuous spatial frequency support. Our simulations show that when the SIM grating frequency exceeds twice that of the diffraction limit, the higher SIM grating frequency can help achieve a higher SR enhancement for the underlying imaging systems whose diffraction limit is low, though this enhancement is obtained at the cost of losing resolution at some lower resolution targets. Our simulations also show that, for underlying imaging systems with high diffraction limits, however, SR-SIM grating frequencies above twice the diffraction limits tend to bring no significant extra enhancement. Furthermore, we observed that there exists a limit grating frequency above which the SR enhancement effect is lost, and the reconstructed images essentially have the same resolution as the one obtained directly from the underlying imaging system without using the SIM process.
References
[1]
Kner, P., Manley, S., Shechtman, Y. and Stallinga, S. (2020) 25th Anniversary of STED Microscopy and the 20th Anniversary of SIM: Feature Introduction. BiomedicalOpticsExpress, 11, 1707-1711. https://doi.org/10.1364/boe.391490
[2]
Betzig, E., Patterson, G.H., Sougrat, R., Lindwasser, O.W., Olenych, S., Bonifacino, J.S., et al. (2006) Imaging Intracellular Fluorescent Proteins at Nanometer Resolution. Science, 313, 1642-1645. https://doi.org/10.1126/science.1127344
[3]
Hess, S.T., Girirajan, T.P.K. and Mason, M.D. (2006) Ultra-High Resolution Imaging by Fluorescence Photoactivation Localization Microscopy. BiophysicalJournal, 91, 4258-4272. https://doi.org/10.1529/biophysj.106.091116
[4]
Rust, M.J., Bates, M. and Zhuang, X. (2006) Sub-Diffraction-Limit Imaging by Stochastic Optical Reconstruction Microscopy (Storm). NatureMethods, 3, 793-796. https://doi.org/10.1038/nmeth929
[5]
Hell, S.W. and Wichmann, J. (1994) Breaking the Diffraction Resolution Limit by Stimulated Emission: Stimulated-Emission-Depletion Fluorescence Microscopy. OpticsLetters, 19, 780-782. https://doi.org/10.1364/ol.19.000780
[6]
Klar, T.A. and Hell, S.W. (1999) Subdiffraction Resolution in Far-Field Fluorescence Microscopy. OpticsLetters, 24, 954-956. https://doi.org/10.1364/ol.24.000954
[7]
Gustafsson, M.G.L. (2000) Surpassing the Lateral Resolution Limit by a Factor of Two Using Structured Illumination Microscopy. JournalofMicroscopy, 198, 82-87. https://doi.org/10.1046/j.1365-2818.2000.00710.x
[8]
Heintzmann, R. and Cremer, C.G. (1999) Laterally Modulated Excitation Microscopy: Improvement of Resolution by Using a Diffraction Grating. SPIE Proceedings, 3568, 185-196. https://doi.org/10.1117/12.336833
[9]
Allen, J.R., Ross, S.T. and Davidson, M.W. (2013) Single Molecule Localization Microscopy for Superresolution. JournalofOptics, 15, Article ID: 094001. https://doi.org/10.1088/2040-8978/15/9/094001
[10]
Samanta, K. and Joseph, J. (2021) An Overview of Structured Illumination Microscopy: Recent Advances and Perspectives. JournalofOptics, 23, Article ID: 123002. https://doi.org/10.1088/2040-8986/ac3675
[11]
Ma, Y., et al. (2021) Recent Advances in Structured Illumination Microscopy. JPhys Photonics, 3, Article ID: 24009.
[12]
Zheng, X., Zhou, J., Wang, L., Wang, M., Wu, W., Chen, J., et al. (2021) Current Challenges and Solutions of Super-Resolution Structured Illumination Microscopy. APLPhotonics, 6, Article ID: 020901. https://doi.org/10.1063/5.0038065
[13]
Schermelleh, L., Carlton, P.M., Haase, S., Shao, L., Winoto, L., Kner, P., et al. (2008) Subdiffraction Multicolor Imaging of the Nuclear Periphery with 3D Structured Illumination Microscopy. Science, 320, 1332-1336. https://doi.org/10.1126/science.1156947
[14]
Qiao, C., Chen, X., Zhang, S., Li, D., Guo, Y., Dai, Q., et al. (2021) 3D Structured Illumination Microscopy via Channel Attention Generative Adversarial Network. IEEEJournalofSelectedTopicsinQuantumElectronics, 27, 1-11. https://doi.org/10.1109/jstqe.2021.3060762
[15]
Bajor, A.A. (2023) 3D Multi-Focus Structured Illumination Microscopy (MF-SIM) and Multi-Color SIM. Ph.D. Thesis, University of California. https://www.proquest.com/docview/2864837446
[16]
Wang, M., Chen, J., Wu, W., Wang, L., Zheng, X., Xu, G., et al. (2023) Multi-Color Two-Photon Scanning Structured Illumination Microscopy Imaging of Live Cells. JournalofBioPhotonics, 16, e202300077. https://doi.org/10.1002/jbio.202300077
[17]
Bezryadina, A., Zhao, J., Xia, Y., Lee, Y.U., Zhang, X. and Liu, Z. (2019) Localized Plasmonic Structured Illumination Microscopy with Gaps in Spatial Frequencies. OpticsLetters, 44, 2915-2918. https://doi.org/10.1364/ol.44.002915
[18]
Wei, F. and Liu, Z. (2010) Plasmonic Structured Illumination Microscopy. NanoLetters, 10, 2531-2536. https://doi.org/10.1021/nl1011068
[19]
Wei, F., Lu, D., Shen, H., Wan, W., Ponsetto, J.L., Huang, E., et al. (2014) Wide Field Super-Resolution Surface Imaging through Plasmonic Structured Illumination Microscopy. NanoLetters, 14, 4634-4639. https://doi.org/10.1021/nl501695c
[20]
Fernández-Domínguez, A.I., Liu, Z. and Pendry, J.B. (2015) Coherent Four-Fold Super-Resolution Imaging with Composite Photonic-Plasmonic Structured Illumination. ACSPhotonics, 2, 341-348. https://doi.org/10.1021/ph500342g
[21]
Ponsetto, J.L., Bezryadina, A., Wei, F., Onishi, K., Shen, H., Huang, E., et al. (2017) Experimental Demonstration of Localized Plasmonic Structured Illumination Microscopy. ACSNano, 11, 5344-5350. https://doi.org/10.1021/acsnano.7b01158
[22]
Lee, Y.U., Posner, C., Nie, Z., Zhao, J., Li, S., Bopp, S.E., et al. (2021) Organic Hyperbolic Material Assisted Illumination Nanoscopy. AdvancedScience, 8, Article ID: 2102230. https://doi.org/10.1002/advs.202102230
Lee, Y.U., Zhao, J., Ma, Q., Khorashad, L.K., Posner, C., Li, G., et al. (2021) Metamaterial Assisted Illumination Nanoscopy via Random Super-Resolution Speckles. NatureCommunications, 12, Article No. 1559. https://doi.org/10.1038/s41467-021-21835-8
[25]
Shah, Z.H., Müller, M., Wang, T., Scheidig, P.M., Schneider, A., Schüttpelz, M., et al. (2021) Deep-Learning Based Denoising and Reconstruction of Super-Resolution Structured Illumination Microscopy Images. PhotonicsResearch, 9, B168-B181. https://doi.org/10.1364/prj.416437
[26]
Zhang, Q., Chen, J., Li, J., Bo, E., Jiang, H., Lu, X., et al. (2022) Deep Learning-Based Single-Shot Structured Illumination Microscopy. OpticsandLasersinEngineering, 155, Article ID: 107066. https://doi.org/10.1016/j.optlaseng.2022.107066
[27]
Luo, F., Zeng, J., Shao, Z. and Zhang, C. (2023) Fast Structured Illumination Microscopy via Transfer Learning with Correcting. OpticsandLasersinEngineering, 162, Article ID: 107432. https://doi.org/10.1016/j.optlaseng.2022.107432
[28]
Chen, X., Zhong, S., Hou, Y., Cao, R., Wang, W., Li, D., et al. (2023) Superresolution Structured Illumination Microscopy Reconstruction Algorithms: A Review. Light: Science&Applications, 12, Article No. 172. https://doi.org/10.1038/s41377-023-01204-4
[29]
Li, Z., Kong, W., Wang, C., Pu, M., Luo, Y., Liu, X., et al. (2021) Waveguide Evanescent Waves Based Structured Illumination Microscopy with Compact Structure and Flexible Design. JournalofPhysicsD: AppliedPhysics, 54, Article ID: 215101. https://doi.org/10.1088/1361-6463/abe744
[30]
Kong, W., Wang, C., Pu, M., Ma, X., Li, X. and Luo, X. (2021) Bloch Surface Wave Assisted Structured Illumination Microscopy for Sub-100 Nm Resolution. IEEEPhotonicsJournal, 13, 1-9. https://doi.org/10.1109/jphot.2020.3044920
[31]
Liu, X., Kong, W., Wang, C., Pu, M., Li, Z., Li, X., et al. (2021) Bulk Plasmon Polariton Based Structured Illumination Microscopy by Utilizing Hyperbolic Metamaterials. JournalofPhysicsD: AppliedPhysics, 54, Article ID: 285103. https://doi.org/10.1088/1361-6463/abf78b
[32]
Mudry, E., Belkebir, K., Girard, J., Savatier, J., Le Moal, E., Nicoletti, C., et al. (2012) Structured Illumination Microscopy Using Unknown Speckle Patterns. NaturePhotonics, 6, 312-315. https://doi.org/10.1038/nphoton.2012.83
[33]
Heintzmann, R. and Huser, T. (2017) Super-Resolution Structured Illumination Microscopy. ChemicalReviews, 117, 13890-13908. https://doi.org/10.1021/acs.chemrev.7b00218