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Venugopal Srambickal, Chinmaya
Publications (10 of 10) Show all publications
Jeong, S., Koh, D., Gwak, E., Venugopal Srambickal, C., Seo, D., Widengren, J. & Lee, J. C. (2024). Pushing the Resolution Limit of Stimulated Emission Depletion Optical Nanoscopy. International Journal of Molecular Sciences, 25(1), Article ID 26.
Open this publication in new window or tab >>Pushing the Resolution Limit of Stimulated Emission Depletion Optical Nanoscopy
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2024 (English)In: International Journal of Molecular Sciences, ISSN 1661-6596, E-ISSN 1422-0067, Vol. 25, no 1, article id 26Article, review/survey (Refereed) Published
Abstract [en]

Optical nanoscopy, also known as super-resolution optical microscopy, has provided scientists with the means to surpass the diffraction limit of light microscopy and attain new insights into nanoscopic structures and processes that were previously inaccessible. In recent decades, numerous studies have endeavored to enhance super-resolution microscopy in terms of its spatial (lateral) resolution, axial resolution, and temporal resolution. In this review, we discuss recent efforts to push the resolution limit of stimulated emission depletion (STED) optical nanoscopy across multiple dimensions, including lateral resolution, axial resolution, temporal resolution, and labeling precision. We introduce promising techniques and methodologies building on the STED concept that have emerged in the field, such as MINSTED, isotropic STED, and event-triggered STED, and evaluate their respective strengths and limitations. Moreover, we discuss trade-off relationships that exist in far-field optical microscopy and how they come about in STED optical nanoscopy. By examining the latest developments addressing these aspects, we aim to provide an updated overview of the current state of STED nanoscopy and its potential for future research.

Place, publisher, year, edition, pages
MDPI AG, 2024
Keywords
adaptive illumination, fluorescence lifetime, fluorescent protein, fluorophore localization, nanobody, optical nanoscopy, resolution, STED, super-resolution microscopy, temporal resolution
National Category
Biophysics Atom and Molecular Physics and Optics Other Physics Topics
Identifiers
urn:nbn:se:kth:diva-342409 (URN)10.3390/ijms25010026 (DOI)001140512500001 ()2-s2.0-85181940387 (Scopus ID)
Note

QC 20240122

Available from: 2024-01-17 Created: 2024-01-17 Last updated: 2025-02-20Bibliographically approved
Venugopal Srambickal, C., Du, Z. & Widengren, J. (2023). Analysis of proton exchange and photo-induced isomerization kinetics of the pH-sensitive cyanine dye CypHer5E. European Biophysics Journal, 52(SUPPL 1), S211-S211
Open this publication in new window or tab >>Analysis of proton exchange and photo-induced isomerization kinetics of the pH-sensitive cyanine dye CypHer5E
2023 (English)In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S211-S211Article in journal, Meeting abstract (Other academic) Published
Place, publisher, year, edition, pages
SPRINGER, 2023
National Category
Biophysics
Identifiers
urn:nbn:se:kth:diva-335951 (URN)001029235400735 ()
Note

QC 20230911

Available from: 2023-09-11 Created: 2023-09-11 Last updated: 2025-02-20Bibliographically approved
Sandberg, E., Venugopal Srambickal, C., Piguet, J., Liu, H. & Widengren, J. (2023). Local monitoring of photosensitizer transient states provides feedback for enhanced efficiency and targeting selectivity in photodynamic therapy. Scientific Reports, 13(1), 16829
Open this publication in new window or tab >>Local monitoring of photosensitizer transient states provides feedback for enhanced efficiency and targeting selectivity in photodynamic therapy
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2023 (English)In: Scientific Reports, E-ISSN 2045-2322, Vol. 13, no 1, p. 16829-Article in journal (Refereed) Published
Abstract [en]

Photodynamic therapy (PDT) fundamentally relies on local generation of PDT precursor states in added photosensitizers (PS), particularly triplet and photo-radical states. Monitoring these states in situ can provide important feedback but is difficult in practice. The states are strongly influenced by local oxygenation, pH and redox conditions, often varying significantly at PDT treatment sites. To overcome this problem, we followed local PDT precursor state populations of PS compounds, via their fluorescence intensity response to systematically varied excitation light modulation. Thereby, we could demonstrate local monitoring of PDT precursor states of methylene blue (MB) and IRdye700DX (IR700), and determined their transitions rates under different oxygenation, pH and redox conditions. By fiber-optics, using one fiber for both excitation and fluorescence detection, the triplet and photo-radical state kinetics of locally applied MB and IR700 could then be monitored in a tissue sample. Finally, potassium iodide and ascorbate were added as possible PDT adjuvants, enhancing intersystem crossing and photoreduction, respectively, and their effects on the PDT precursor states of MB and IR700 could be locally monitored. Taken together, the presented procedure overcomes current methodological limitations and can offer feedback, guiding both excitation and PDT adjuvant application, and thereby more efficient and targeted PDT treatments.

Place, publisher, year, edition, pages
Springer Nature, 2023
National Category
Atom and Molecular Physics and Optics Energy Systems
Identifiers
urn:nbn:se:kth:diva-338339 (URN)10.1038/s41598-023-43625-6 (DOI)001084056200023 ()37803073 (PubMedID)2-s2.0-85173320319 (Scopus ID)
Note

QC 20231020

Available from: 2023-10-20 Created: 2023-10-20 Last updated: 2023-11-30Bibliographically approved
Esmaeeli, H., Venugopal Srambickal, C., Piguet, J., Bates, M., Siegmund, R., Reinkensmeier, L., . . . Widengren, J. (2023). Transient state characterization of cyanine fluorophores to take next generation super-resolution imaging into the near-IR.. European Biophysics Journal, 52(SUPPL 1), S179-S179
Open this publication in new window or tab >>Transient state characterization of cyanine fluorophores to take next generation super-resolution imaging into the near-IR.
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2023 (English)In: European Biophysics Journal, ISSN 0175-7571, E-ISSN 1432-1017, Vol. 52, no SUPPL 1, p. S179-S179Article in journal, Meeting abstract (Other academic) Published
Place, publisher, year, edition, pages
SPRINGER, 2023
National Category
Biophysics
Identifiers
urn:nbn:se:kth:diva-335947 (URN)001029235400609 ()
Note

QC 20230911

Available from: 2023-09-11 Created: 2023-09-11 Last updated: 2025-02-20Bibliographically approved
Bergstrand, J., Miao, X., Venugopal Srambickal, C., Auer, G. & Widengren, J. (2022). Fast, streamlined fluorescence nanoscopy resolves rearrangements of SNARE and cargo proteins in platelets co-incubated with cancer cells. Journal of Nanobiotechnology, 20(1), Article ID 292.
Open this publication in new window or tab >>Fast, streamlined fluorescence nanoscopy resolves rearrangements of SNARE and cargo proteins in platelets co-incubated with cancer cells
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2022 (English)In: Journal of Nanobiotechnology, E-ISSN 1477-3155, Vol. 20, no 1, article id 292Article in journal (Refereed) Published
Abstract [en]

Background Increasing evidence suggests that platelets play a central role in cancer progression, with altered storage and selective release from platelets of specific tumor-promoting proteins as a major mechanism. Fluorescence-based super-resolution microscopy (SRM) can resolve nanoscale spatial distribution patterns of such proteins, and how they are altered in platelets upon different activations. Analysing such alterations by SRM thus represents a promising, minimally invasive strategy for platelet-based diagnosis and monitoring of cancer progression. However, broader applicability beyond specialized research labs will require objective, more automated imaging procedures. Moreover, for statistically significant analyses many SRM platelet images are needed, of several different platelet proteins. Such proteins, showing alterations in their distributions upon cancer progression additionally need to be identified. Results A fast, streamlined and objective procedure for SRM platelet image acquisition, analysis and classification was developed to overcome these limitations. By stimulated emission depletion SRM we imaged nanoscale patterns of six different platelet proteins; four different SNAREs (soluble N-ethylmaleimide factor attachment protein receptors) mediating protein secretion by membrane fusion of storage granules, and two angiogenesis regulating proteins, representing cargo proteins within these granules coupled to tumor progression. By a streamlined procedure, we recorded about 100 SRM images of platelets, for each of these six proteins, and for five different categories of platelets; incubated with cancer cells (MCF-7, MDA-MB-231, EFO-21), non-cancer cells (MCF-10A), or no cells at all. From these images, structural similarity and protein cluster parameters were determined, and probability functions of these parameters were generated for the different platelet categories. By comparing these probability functions between the categories, we could identify nanoscale alterations in the protein distributions, allowing us to classify the platelets into their correct categories, if they were co-incubated with cancer cells, non-cancer cells, or no cells at all. Conclusions The fast, streamlined and objective acquisition and analysis procedure established in this work confirms the role of SNAREs and angiogenesis-regulating proteins in platelet-mediated cancer progression, provides additional fundamental knowledge on the interplay between tumor cells and platelets, and represent an important step towards using tumor-platelet interactions and redistribution of nanoscale protein patterns in platelets as a basis for cancer diagnostics.

Place, publisher, year, edition, pages
Springer Nature, 2022
Keywords
STED, Super-resolution microscopy, Platelet, Cancer, Tumorigenesis, SNARE protein, Dictionary learning
National Category
Medical Biotechnology (with a focus on Cell Biology (including Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)
Identifiers
urn:nbn:se:kth:diva-315455 (URN)10.1186/s12951-022-01502-w (DOI)000814284100001 ()35729633 (PubMedID)2-s2.0-85132300215 (Scopus ID)
Note

QC 20230328

Available from: 2022-07-07 Created: 2022-07-07 Last updated: 2024-05-17Bibliographically approved
Venugopal Srambickal, C., Bergstrand, J. & Widengren, J. (2021). Cumulative effects of photobleaching in volumetric STED imaging-artefacts and possible benefits. Methods and Applications in Fluorescence, 9(1), Article ID 015003.
Open this publication in new window or tab >>Cumulative effects of photobleaching in volumetric STED imaging-artefacts and possible benefits
2021 (English)In: Methods and Applications in Fluorescence, ISSN 2050-6120, Vol. 9, no 1, article id 015003Article in journal (Refereed) Published
Abstract [en]

In stimulated emission depletion (STED) imaging, the excitation and depletion laser beams extend well beyond the focal plane in the imaged sample. We investigated how photobleaching resulting from this irradiation can affect STED images, by acquiring 3D images of fluorescent polystyrene beads using a 2D STED microscope, and applying different Z pixel sizes, scanning speeds, resulting in different laser light doses. While higher STED beam irradiances can increase the spatial resolution, they can also significantly increase photobleaching and thereby reduce signal-to-background levels. In 2D STED imaging, based on a single scan within the focal plane, scan parameters can often be selected to avoid photobleaching effects. Upon 3D optical sectioning experiments however, using the same scan parameters, additional cumulative effects of photobleaching may appear, due to the extension of the excitation and depletion laser beams beyond the focal planes being scanned. Apart from a reduction in signal-to-background levels, such photobleaching can lead to an apparent shift of the axial localization of the objects in the images, but also to an increased resolution in the axial dimension. These findings, confirmed by simulations based on a simplified model for photobleaching, suggests some caution in volumetric STED imaging experiments, but also a possibility for enhanced axial resolution in such experiments.

Place, publisher, year, edition, pages
Institute of Physics (IOP), 2021
Keywords
super-resolution microscopy, STED, photobleaching, resolution
National Category
Atom and Molecular Physics and Optics
Identifiers
urn:nbn:se:kth:diva-289540 (URN)10.1088/2050-6120/abcbed (DOI)000606030400001 ()33207335 (PubMedID)2-s2.0-85100702972 (Scopus ID)
Note

QC 20210203

Available from: 2021-02-03 Created: 2021-02-03 Last updated: 2024-05-17Bibliographically approved
Tabusi, M., Thorsdottir, S., Lysandrou, M., Narciso, A. R., Minoia, M., Venugopal Srambickal, C., . . . Iovino, F. (2021). Neuronal death in pneumococcal meningitis is triggered by pneumolysin and RrgA interactions with beta-actin. PLoS Pathogens, 17(3), Article ID e1009432.
Open this publication in new window or tab >>Neuronal death in pneumococcal meningitis is triggered by pneumolysin and RrgA interactions with beta-actin
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2021 (English)In: PLoS Pathogens, ISSN 1553-7366, E-ISSN 1553-7374, Vol. 17, no 3, article id e1009432Article in journal (Refereed) Published
Abstract [en]

Neuronal damage is a major consequence of bacterial meningitis, but little is known about mechanisms of bacterial interaction with neurons leading to neuronal cell death. Streptococcus pneumoniae (pneumococcus) is a leading cause of bacterial meningitis and many survivors develop neurological sequelae after the acute infection has resolved, possibly due to neuronal damage. Here, we studied mechanisms for pneumococcal interactions with neurons. Using human primary neurons, pull-down experiments and mass spectrometry, we show that pneumococci interact with the cytoskeleton protein beta-actin through the pilus-1 adhesin RrgA and the cytotoxin pneumolysin (Ply), thereby promoting adhesion and invasion of neurons, and neuronal death. Using our bacteremia-derived meningitis mouse model, we observe that RrgA- and Ply-expressing pneumococci co-localize with neuronal beta-actin. Using purified proteins, we show that Ply, through its cholesterol-binding domain 4, interacts with the neuronal plasma membrane, thereby increasing the exposure on the outer surface of beta-actin filaments, leading to more beta-actin binding sites available for RrgA binding, and thus enhanced pneumococcal interactions with neurons. Pneumococcal infection promotes neuronal death possibly due to increased intracellular Ca2+ levels depending on presence of Ply, as well as on actin cytoskeleton disassembly. STED super-resolution microscopy showed disruption of beta-actin filaments in neurons infected with pneumococci expressing RrgA and Ply. Finally, neuronal death caused by pneumococcal infection could be inhibited using antibodies against beta-actin. The generated data potentially helps explaining mechanisms for why pneumococci frequently cause neurological sequelae. Author summary Neuronal damage is a major consequence of meningitis. Streptococcus pneumoniae (pneumococcus) is the leading etiological cause of bacterial meningitis, yet how pneumococci interact with neurons and cause neuronal death is poorly understood. Using human neurons in vitro and our established bacteremia-derived meningitis mouse model in vivo, we found that pneumococci use the pilus-1 adhesin RrgA and the cytotoxin pneumolysin (Ply) to interact with neuronal beta-actin expressed on the plasma membrane. Also, we demonstrate that Ply interaction with the neuronal plasma membrane increase the exposure of beta-actin on the neuronal plasma membrane, allowing more pneumococci to adhere to neurons through RrgA-beta-actin interaction. Moreover, neurons infected with RrgA- and Ply-expressing pneumococci showed increased intracellular Ca2+ levels and disruption of beta-actin filaments, possibly leading to neuronal death. Importantly, by blocking pneumococcal-beta-actin interaction using antibodies, we could reduce neuronal cell death after pneumococcal infection.

Place, publisher, year, edition, pages
Public Library of Science (PLoS), 2021
National Category
Neurosciences
Identifiers
urn:nbn:se:kth:diva-292927 (URN)10.1371/journal.ppat.1009432 (DOI)000633029700003 ()33760879 (PubMedID)2-s2.0-85103507220 (Scopus ID)
Note

QC 20210415.

Available from: 2021-04-15 Created: 2021-04-15 Last updated: 2024-05-17Bibliographically approved
Yao, Z., Zhang, F., Guo, Y., Wu, H., He, L., Liu, Z., . . . Sun, L. (2020). Conformational and Compositional Tuning of Phenanthrocarbazole-Based Dopant-Free Hole-Transport Polymers Boosting the Performance of Perovskite Solar Cells. Journal of the American Chemical Society, 142(41), 17681-17692
Open this publication in new window or tab >>Conformational and Compositional Tuning of Phenanthrocarbazole-Based Dopant-Free Hole-Transport Polymers Boosting the Performance of Perovskite Solar Cells
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2020 (English)In: Journal of the American Chemical Society, ISSN 0002-7863, E-ISSN 1520-5126, Vol. 142, no 41, p. 17681-17692Article in journal (Refereed) Published
Abstract [en]

Conjugated polymers are regarded as promising candidates for dopant-free hole-transport materials (HTMs) in efficient and stable perovskite solar cells (PSCs). Thus far, the vast majority of polymeric HTMs feature structurally complicated benzo[1,2-b:4,5-b']dithiophene (BDT) analogs and electron-withdrawing heterocycles, forming a strong donor-acceptor (D-A) structure. Herein, a new class of phenanthrocarbazole (PC)-based polymeric HTMs (PC1, PC2, and PC3) has been synthesized by inserting a PC unit into a polymeric thiophene or selenophene chain with the aim of enhancing the pi-pi stacking of adjacent polymer chains and also to efficiently interact with the perovskite surface through the broad and planar conjugated backbone of the PC. Suitable energy levels, excellent thermostability, and humidity resistivity together with remarkable photoelectric properties are obtained via meticulously tuning the conformation and elemental composition of the polymers. As a result, PSCs containing PC3 as dopant-free HTM show a stabilized power conversion efficiency (PCE) of 20.8% and significantly enhanced longevity, rendering one of the best types of PSCs based on dopant-free HTMs. Subsequent experimental and theoretical studies reveal that the planar conformation of the polymers contributes to an ordered and face-on stacking of the polymer chains. Furthermore, introduction of the "Lewis soft" selenium atom can passivate surface trap sites of perovskite films by Pb-Se interaction and facilitate the interfacial charge separation significantly. This work reveals the guiding principles for rational design of dopant-free polymeric HTMs and also inspires rational exploration of small molecular HTMs.

Place, publisher, year, edition, pages
American Chemical Society (ACS), 2020
National Category
Chemical Sciences
Identifiers
urn:nbn:se:kth:diva-285623 (URN)10.1021/jacs.0c08352 (DOI)000579400400055 ()32924464 (PubMedID)2-s2.0-85092945215 (Scopus ID)
Note

QC 20201110

Available from: 2020-11-10 Created: 2020-11-10 Last updated: 2024-03-15Bibliographically approved
Venugopal Srambickal, C., Esmaeeli, H., Piguet, J., Reinkensmeier, L., Siegmund, R., Bates, M., . . . Widengren, J.Experimental characterization of fluorophore blinking, simulations of their effects in MINFLUX imaging, and how they can be suppressed.
Open this publication in new window or tab >>Experimental characterization of fluorophore blinking, simulations of their effects in MINFLUX imaging, and how they can be suppressed
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(English)Manuscript (preprint) (Other academic)
National Category
Biophysics
Identifiers
urn:nbn:se:kth:diva-346572 (URN)
Note

QC 20240520

Available from: 2024-05-17 Created: 2024-05-17 Last updated: 2025-02-20Bibliographically approved
Sandberg, E., Venugopal Srambickal, C., Piguet, J., Liu, H. & Widengren, J.Transient state (TRAST) monitoring of local photosensitizer photodynamics – feedback for enhanced efficiency and targeting selectivityin photodynamic therapy.
Open this publication in new window or tab >>Transient state (TRAST) monitoring of local photosensitizer photodynamics – feedback for enhanced efficiency and targeting selectivityin photodynamic therapy
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(English)Manuscript (preprint) (Other academic)
National Category
Biophysics
Identifiers
urn:nbn:se:kth:diva-319728 (URN)
Note

QC 20221011

Available from: 2022-10-06 Created: 2022-10-06 Last updated: 2025-02-20Bibliographically approved
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