16.12.2024

Ultrahigh resolution OCT

Some applications require finer imaging resolution. In optical coherence tomography (OCT), the transversal resolution is determined by imaging optics (often with working distance limitations), while axial resolution depends on the effective bandwidth of the light source. We developed a dual spectrometer spectral OCT system working with a broadband femtosecond laser as a source. The system provides a voxel resolution of approximately 2 micrometers.

We utilize the system for various applications, ranging from ex vivo imaging of biological samples (e.g., cornea, bladder tissue, mouse brain) to bioprinted materials (such as porous materials or muscles). In the latter application, we collaborate with Professor Marco Constantini from IPC PAS, who is always impressed with the technology’s capabilities.

More recently, we have begun developing elastography measurements with our system. The sample is compressed (at levels not visible in structural images) between measurements, and through analysis of differential phase information, we can provide contrast that depends on tissue mechanical properties. Since our dual spectrometer system also offers polarization contrast, we aim to investigate in the future whether these two types of contrasts are equivalent or complementary to each other.

Text: Karol Karnowski, PhD, Acting IDoc Leader

Project team:

Karol Karnowski

Piotr Kasprzycki

Patricio Espinoza

Wiktor Kulesza

Related funding: NAWA – Polish Returns, FNP – IRAP (MAB)

References:

  1.  M. Marcotulli, M. C. Tirelli, M. Volpi, J. Jaroszewicz, C. Scognamiglio, P. Kasprzycki, K. Karnowski, W. Święszkowski, G. Ruocco, M. Costantini, G. Cidonio, A. Barbetta, Microfluidic 3D Printing of Emulsion Ink for Engineering Porous Functionally Graded Materials. Adv. Mater. Technol. 2023, 8, 2201244
16.12.2024

Scanning OCT system for animal model study

Our collaborative research with ICTER focuses on advancing vision restoration therapies and fundamental investigations of retinal function using animal models. The team has already established a sophisticated Full-field Optical Coherence Tomography (FF-OCT) system specifically designed for mouse model imaging, capable of capturing both structural and functional retinal characteristics with exceptional precision.

To support the critical retinal injection procedures essential for therapeutic interventions, we are developing an advanced 1060 nm swept-source OCT system. This innovative imaging platform will serve multiple crucial functions, primarily providing real-time image guidance for automated eye injections. Beyond its primary injection support role, the system offers additional versatility by functioning as a comprehensive preview and eye alignment mechanism for our Full-field OCT research studies.

The 1060 nm wavelength was carefully selected to optimize imaging penetration and resolution, ensuring clear visualization of delicate retinal structures during complex therapeutic interventions. By integrating precise image guidance directly into the injection process, we aim to enhance the accuracy, safety, and potential effectiveness of emerging vision restoration techniques.

Text: Karol Karnowski, PhD, Acting IDoc Leader

Project team:

Karol Karnowski

Wiktor Kulesza

Jadwiga Milkiewicz

Piotr Nalewajko

Project in collaboration with other ICTER’s POB and OBi groups.

Related funding: IRAP (MAB) FENG by FNP

Reference:

  1. Piotr Węgrzyn, Wiktor Kulesza, Maciej Wielgo, Sławomir Tomczewski, Anna Galińska, Bartłomiej Bałamut, Katarzyna Kordecka, Onur Cetinkaya, Andrzej Foik, Robert J. Zawadzki, Dawid Borycki, Maciej Wojtkowski, and Andrea Curatolo “In vivo volumetric analysis of retinal vascular hemodynamics in mice with spatio-temporal optical coherence tomography,” Neurophotonics 11(4), 045003 (8 October 2024). https://doi.org/10.1117/1.NPh.11.4.045003
16.12.2024

Surgery guidance and therapy administration

In this project, we address two primary challenges in ophthalmic surgeries: enhancing the accuracy and precision of surgical procedures and developing targeted drug and therapy administration methods for specific eye regions. To achieve these goals, we have developed an integrated image-guided and robotic-aided ocular microscopy platform that leverages Optical Coherence Tomography (OCT) image-guidance to improve surgical accuracy.

Our approach employs a dual cross-scan technique, with one scan recorded along the tool and the other across to the tool’s tip. This method facilitates real-time previews of the surgical area, providing depth information that are more interpretable than commonly used 3D visualizations. The 2D imaging approach offers additional advantages, being less computationally demanding and presenting potential for future cost-effective solutions.

The robotic arm, with a surgical tool mounted at the wrist, serves as a critical component of our system. It addresses several key aspects of ophthalmic surgeries: mitigating physiological tremors, supporting both surgeon assistance and fully automated operations, and providing instantaneous information about the tool’s tip position. This enables real-time locking of the OCT dual cross-scan pattern to the surgical tool position.

We are actively exploring various navigation information sources, including image-based methods from microscopes and OCT, as well as non-image-based approaches. Currently, our research focuses on developing novel retinal injection tools aimed at improving the effectiveness of vision restoration treatments.

Text: Karol Karnowski, PhD, Acting IDoc Leader

Project team:

Karol Karnowski

Krzysztof Gromada

Piotr Nalewajko

Adam Kurek

Tomasz Gawroński

Andrea Curatolo

Project in collaboration with other ICTER groups.

Related funding: IRAP (MAB) and IRAP (MAB) FENG – FNP

References:

1. Karol M. Karnowski, K. Gromada, T. Piesio, P. Ciąćka, A. Kurek, A. Curatolo „Real-Time OCT Cross-Section Display via Robotic Arm-Guided Surgical Tool,”, The Optica Biophotonics Congress: Biomedical Optic, Fort Lauderdale, USA, 09.04.2024, oral presentation

2. K. Karnowski, K. Gromada, T. Piesio, P. Ciąćka, A. Kurek, A. Curatolo, „Ophthalmic intraoperative OCT system with robotic arm-based tracking of surgical tools,” Photonics West, San Francisco, USA, 28.01.2024, oral presentation

3. K. Karnowski, K. Gromada, T. Piesio, P. Ciąćka, A. Kurek, A. Curatolo, „Robotic arm-based surgical tool tracking for real-time display of intraoperative OCT cross-sections at the surgical tool tip,” Microsimposium of the IPC PAS, 10.01.2024, oral presentation

4. K. Karnowski, K. Gromada, T. Piesio, P. Ciąćka, A. Kurek, A. Curatolo “Robotic arm-based surgical tool tracking for real-time display of intraoperative OCT cross-sections at the surgical tool tip,” The IRAP — Fostering Excellence and Innovation Conference, 12.10.2023, poster

5. K. Karnowski, K. Gromada, T. Piesio, P. Ciąćka, A. Kurek, A. Curatolo “Robotic arm-based surgical tool tracking for real-time display of intraoperative OCT cross-sections at the surgical tool tip,” Conference on Recent Advances in Translational Eye Research, 07.09.2023, poster

6. Karol Karnowski, “On imaging of structure and function

of the human cornea,” Conference on Recent Advances in Translational Eye Research, 08.09.2023, oral presentation

7. Karol Karnowski, Piotr Ciąćka, Andrea Curatolo, „Intraoperative ophthalmic OCT system tracking surgical tools at 200 Hz”, Photonics West, San Francisco, USA, 30.01.2023, oral presentation

15.12.2024

Development of new experimental approaches and computational tools for the analysis of single-cell sequencing data

Computational work in our lab focuses on developing new algorithms and scalable tools for analysis of massive single-cell datasets originated from wet lab and their integration across platforms and techniques. In particular, we are interested in creating new approaches for comprehensive inference of developmental trajectories and delineation of cell atlases from single-cell data, understanding the role of cell-to-cell signaling and biological pathways in lineage commitment and transitions between cellular states. We explore novel methods for multidimensional and multimodal data visualization to get comprehensive topography of the cellular landscapes. Single-cell multiomics sequencing will allow us to dissect the complex ecosystem of the tumour, the immune repertoire infiltrating it, and to understand the intercellular communication between immune subpopulations of cells. It will also provide new mechanistic insight into biology of cancer including uveal melanoma and point at the potential therapies.

15.12.2024

High-throughput single-cell sequencing in eye research (completed project)

Experimental part of the scientific activity of our group focuses mostly on leveraging high-throughput single-cell transcriptome and epigenome sequencing for interrogation of eye diseases, including retinal pathologies. Single-cell sequencing data enables to identify the previously unknown molecular mechanisms involved in inherited retinopathies and age-related eye diseases. Therefore, the perspectives of new therapies occur.

Team:

Dr. Marcin Tabaka

Dr. Damian Panas

Dr. Andrzej Foik

Dr. Jagoda Płaczkiewicz

Dr. Katarzyna Kordecka

Anna Galińska, MSc

References:

Leinonen H, Zhang J, Occelli LM, Seemab U, Choi EH, L P Marinho LF, Querubin J, Kolesnikov AV, Galinska A, Kordecka K, Hoang T, Lewandowski D, Lee TT, Einstein EE, Einstein DE, Dong Z, Kiser PD, Blackshaw S, Kefalov VJ, Tabaka M, Foik A, Petersen-Jones SM, Palczewski K. A combination treatment based on drug repurposing demonstrates mutation-agnostic efficacy in pre-clinical retinopathy models. Nat Commun. 2024 Jul 15;15(1):5943. doi: 10.1038/s41467-024-50033-5. PMID: 39009597; PMCID: PMC11251169.

Du SW, Komirisetty R, Lewandowski D, Choi EH, Panas D, Suh S, Tabaka M, Radu RA, Palczewski K.  Conditional deletion of miR-204 and miR-211 in murine retinal pigment epithelium results in retinal degeneration. J Biol Chem. 2024 Jun;300(6):107344. doi: 10.1016/j.jbc.2024.107344. Epub 2024 May 4. PMID: 38705389; PMCID: PMC11140208.

Engfer ZJ, Lewandowski D, Dong Z, Palczewska G, Zhang J, Kordecka K, Płaczkiewicz J, Panas D, Foik AT, Tabaka M, Palczewski K. Distinct mouse models of Stargardt disease display differences in pharmacological targeting of ceramides and inflammatory responses. Proc Natl Acad Sci U S A. 2023 Dec 12;120(50):e2314698120. doi: 10.1073/pnas.2314698120. Epub 2023 Dec 8. PMID: 38064509; PMCID: PMC10723050.

Luu JC, Saadane A, Leinonen H, Choi EH, Gao F, Lewandowski D, Halabi M, Sander CL, Wu A, Wang JM, Singh R, Gao S, Lessieur EM, Dong Z, Palczewska G, Mullins RF, Peachey NS, Kiser PD, Tabaka M, Kern TS, Palczewski K. Stress resilience-enhancing drugs preserve tissue structure and function in degenerating retina via phosphodiesterase inhibition. Proc Natl Acad Sci U S A. 2023 May 9;120(19):e2221045120. doi: 10.1073/pnas.2221045120. Epub 2023 May 1. PMID: 37126699; PMCID: PMC10175720.

Lewandowski D, Foik AT, Smidak R, Choi EH, Zhang J, Hoang T, Tworak A, Suh S, Leinonen H, Dong Z, Pinto AF, Tom E, Luu J, Lee J, Ma X, Bieberich E, Blackshaw S, Saghatelian A, Lyon DC, Skowronska-Krawczyk D, Tabaka M, Palczewski K. Inhibition of ceramide accumulation in AdipoR1-/- mice increases photoreceptor survival and improves vision. JCI Insight. 2022 Feb 22;7(4):e156301. doi: 10.1172/jci.insight.156301. PMID: 35015730; PMCID: PMC8876453.

Funds:

05.12.2024

How do we use STOC-T to assess ocular microcirculation? – new paper in Neurophotonics by 3 ICTER research groups

Like a complex network of highways, the retinal microcirculation is a hidden system that powers the life of the eye – delivering oxygen, nourishing tissues, and allowing cells to function without disruption. New research conducted by ICTER (International Centre for Translational Eye Research) scientists will enable us to track every “movement” on these microscopic roads using the STOC-T (Spatio-Temporal Optical Coherence Tomography) technique. This offers the opportunity to understand the mechanisms of retinal function and discover how microcirculation disorders herald the onset of neurological and ophthalmological diseases.

Retinal microcirculation and hemodynamics provide valuable information on neurovascular diseases, as many diseases of the central nervous system (CNS) can manifest themselves through changes in the retina. Given that about 80% of external information is processed through visual perception, understanding the structure and function of the retina, vascular hemodynamics, and neurovascular coupling (NVC) is of paramount importance.

Now, ICTER scientists have used spatio-temporal optical coherence tomography (STOC-T) to assess retinal microcirculation. It turns out that the STOC-T technique, which uses fast near-infrared tomographic imaging, offers the possibility of visualizing even the smallest capillaries in real-time. Unlike other techniques, such as ocular angiography (angio-OCT) or Doppler tomography, STOC-T allows for obtaining 3D images of the entire structure of the retina and choroid with high temporal precision. Additionally, the use of digital aberration correction and a specially designed optical system allows for obtaining images unaffected by refractive errors, which is particularly important for imaging small structures, such as the mouse retina. The results were published in the journal Neurophotonics in a paper entitled “In vivo volumetric analysis of retinal vascular hemodynamics in mice with spatiotemporal optical coherence tomography.”

What connects STOC-T and ocular microcirculation?

Spatio-temporal optical coherence tomography (STOC-T) is an advanced optical tomography method that allows for obtaining three-dimensional images of tissue microstructures in real time with high temporal resolution. In turn, ocular microcirculation is, broadly speaking, a network of small blood vessels supplying the retina and choroid, allowing for the proper functioning of photoreceptors. Adequate blood flow is essential for the delivery of oxygen and nutrients and the removal of metabolic products.

Retinal microcirculation research is becoming particularly important in the context of the increasing number of neurodegenerative and ophthalmological diseases. Disorders such as Alzheimer’s disease, Parkinson’s disease, and multiple sclerosis, as well as eye diseases such as glaucoma or diabetic retinopathy, are often associated with microcirculation disorders that can be visible at the retinal level even before neurological symptoms appear. The use of STOC-T allows precise monitoring of hemodynamic changes in the retina, which can help in the early detection of pathologies and the development of new therapeutic methods.Retinal blood flow can be quantitatively monitored in vivo using laser speckle flowgraphy (LSFG), a technique that generates angiographic contrast from speckle variance, enabling full-field (arbitrary units) blood flow measurements with high temporal resolution. Alternatively, laser Doppler flowmetry (LDF) can measure blood flow and mean velocity in relative units, and its extension, laser Doppler holography (LDH), can estimate pulsatile retinal flow in the lateral field of view (FOV) with millisecond resolution. These techniques cannot perform deep slices, making the influence of choroidal flow unclear. It would be beneficial to analyze choroidal hemodynamics separately from the internal retinal hemodynamics and with high temporal resolution, which is what STOC-T allows.

Groundbreaking observations and a chance for new therapeutic options

The study aimed to implement the STOC-T technique, previously developed by ICTER scientists, for monitoring retinal microcirculation and neurovascular coupling (NVC). Now, it was possible to obtain detailed images of different layers of the mouse retina, such as the neurofibrous layer (NFL), the inner plexiform layer (IPL), the inner and outer photoreceptor segments (IS/OS) and the choroid. These images allow for the observation of both larger blood vessels on the surface and the more complex network of capillaries in deeper layers, such as the IPL.

Analysis of the STOC-T signal amplitude allowed for the differentiation of arterial and venous pulsations in the mouse retina. In particular it was found that the pulsation in the venous vessels is delayed by an average of 29 milliseconds about the arteries, which allows for the identification of phase differences between these vessels. This pulsation time delay between arteries and veins is crucial for understanding the different roles these vessels play in microcirculation. STOC-T allows tracking of tissue displacements induced by the pulse wave as it travels through the retinal layers. These micromovements are measured in nanometers and observed mainly around arteries and veins, with modulation amplitudes ranging from 100 to 150 nanometers.

Measurement of the blood pulse wave velocity (0.35 mm/s) in the capillaries of the outer plexiform layer (OPL) and tissue displacements induced by vessel pulsation (up to 150 nm) provided data on the biomechanical properties of the different retinal layers. This analysis revealed differences in the biomechanical response to pulsation between layers, which is particularly valuable for NVC studies. Although the system is limited in recording pulse wave velocity in larger vessels due to the field of view and pulse wavelength, it remains highly effective in analyzing blood flow in capillaries.

Mapping of tissue shifts in time caused by vascular pulsation revealed that retinal layers exhibit periodic expansion and contraction synchronized with vascular pulsation. These observations, with an amplitude of 100-150 nm, provide important information on tissue elasticity and biomechanical properties of the retina, enabling further studies on neurodegenerative diseases in which the preservation of microcirculation and vascular elasticity may be impaired.

New quality in imaging of ocular hemodynamics

Studies conducted using the STOC-T technique provided detailed data on the hemodynamics and biomechanics of the mouse retina, which opens new diagnostic and therapeutic perspectives. The possibility of noninvasive monitoring of retinal blood flow and precise analysis of phase differences between venous and arterial pulsations may be crucial in the detection and treatment of many neurological and ophthalmological diseases. Ocular microcirculation, being a hidden highway supplying the retina with oxygen and nutrients, is crucial not only for the health of the eyes but also for the condition of the entire nervous system.

This publication is the result of the fruitful cooperation of three ICTER groups: POB, IDoc, and OBi, which emphasizes its interdisciplinary nature. These teams, combining their unique experiences and expertise, created the foundations for innovative solutions described in the publication. Such a combination of knowledge from different research areas is a key element in the search for innovative answers to contemporary challenges, which is one of the pillars of ICTER.

Authors of the paper “In vivo volumetric analysis of retinal vascular hemodynamics in mice with spatio-temporal optical coherence tomography”: Piotr Węgrzyn, Wiktor Kulesza, Maciej Wielgo, Sławomir Tomczewski, Anna Galińska, Bartłomiej Bałamut, Katarzyna Kordecka, Onur Cetinkaya, Andrzej Foik, Robert J. Zawadzki, Dawid Borycki, Maciej Wojtkowski, Andrea Curatolo.

Press note author: Scientific Editor Marcin Powęska.

The pictures portray the first author of the paper: Piotr Węgrzyn. Photos by Dr. Karol Karnowski.

18.11.2024

Strategic guidance and future directions: ICTER’s 2024 International Scientific Committee Meeting  

On November 8, 2024, ICTER hosted its International Scientific Committee (ISC) meeting at its Warsaw headquarters. Chaired by Prof. Olaf Strauss from Charité from Universitätsmedizin Berlin, the meeting convened ISC members whose strategic insights support the shaping of ICTER’s research directions. Attendees included Deputy Chair Prof. Francesca Fanelli (Università degli Studi di Modena e Reggio Emilia), Prof. Arie Lev Gruzman (Bar-Ilan University), Prof. Karl-Wilhelm Koch (Carl von Ossietzky University of Oldenburg), Prof. Pablo Artal (Universidad de Murcia), Prof. James Bainbridge (UCL Institute of Ophthalmology), Prof. Majlinda Lako (Newcastle University), Dr. Georgios Skretas (BSRC Alexander Fleming), and Dr. Henri Leinonen (University of Eastern Finland), each bringing valuable expertise to guide ICTER’s research priorities. Prof. Maciej Wojtkowski, ICTER Chair, formally welcomed new ISC members with nominations for the 2024–2028 term.  

The agenda covered key topics, with Managing Director Anna Pawlus outlining ICTER’s organizational structure and ISC responsibilities, followed by presentations on ICTER’s development as a centre of excellence under the Teaming for Excellence project by Prof. Christophe Gorecki and updates on ICTER’s new building at the Institute of Physical Chemistry, Polish Academy of Sciences campus by its Director, Dr. hab. Adam Kubas. Next, Dr. Anna Przybyło-Józefowicz, Deputy Chair for International Cooperation, highlighted upcoming events and conferences in 2025, including the 25th Anniversary of the SdOCT technology, and the CRATER 2.0 edition.  

Throughout the day, an observer from the Foundation for Polish Science, Dr. Anna Skarżyńska, was present, ensuring a transparent and collaborative approach.   

The second stage of recruitment for the Group Leader position within the Integrated Structural Biology (ISB) Group took place in the afternoon, with ISC members conducting in-depth candidate interviews. Following these evaluations, Prof. Strauss presented the committee’s recommendations, providing ICTER with essential guidance on the selection of new leadership for this pivotal research area. Next, ISC members expressed their opinion on ICTER’s latest grant, evaluating its alignment with the research agenda.  

After concluding remarks, ISC members toured ICTER’s laboratories, guided by Group Leaders and researchers: Katarzyna Komar, Stefania Robakiewicz, Natalia Ochocka, Lidia Wolińska-Nizioł, Anna Posłuszny, Jadwiga Milkiewicz, Anna Galińska, Karolina Saran, Milena Gumkowska, Bartłomiej Bałamut, Piotr Kasprzycki, Adam Kurek, Piotr Nalewajko, Tomasz Gawroński and Krzysztof Gromada. The tour provided ISC members with an in-depth look at ongoing projects and advancements within ICTER’s facilities. The hands-on engagement allowed the committee to directly observe the innovative work driving ICTER’s impact on eye research, vision sciences and ophthalmology. 

Photos: Patricio Espinoza and Anna Pawlus.

18.11.2024

ICTER Centre of Scientific Excellence: agreement signed with the European Commission

How can technology be developed to help patients gain faster access to specialized ophthalmological care? Polish researchers from the ICTER scientific centre, who are exploring this question, will officially join forces with their French and British counterparts on January 1, 2025. Adam Kubas, Director of the Institute of Physical Chemistry of the Polish Academy of Sciences (IChF), signed a grant agreement with the European Commission for the “Teaming for Excellence” project. This achievement reflects months of dedicated efforts by the ICTER team, which operates within the IChF.

“This project marks a significant milestone in establishing ICTER as a centre of scientific and research excellence. It will empower us to validate and bring our cutting-edge technologies to market, boost our visibility, and reinforce both international and local partnerships. Through these advancements, ICTER is poised to make a lasting impact on innovation in ophthalmology in Poland and beyond,” said Professor Maciej Wojtkowski, head of the ICTER scientific centre.

A prestigious grant under the “Teaming for Excellence” programme within Horizon Europe has secured the researchers a total of €30 million in funding, with €15 million from the European Commission and an additional matching contribution from the Foundation for Polish Science and the Ministry of Science and Higher Education.

Theory Meets Practice

Today, ICTER scientists integrate knowledge from physics, biology, chemistry, engineering, and medicine. Thanks to the collaboration with the Institute of Ophthalmology at University College London and the Institut de la Vision at Sorbonne Université, researchers will not only enhance the exchange of knowledge and experience between leading eye research centres but also gain better opportunities to test new solutions. The Warsaw-based ICTER Centre of Scientific Excellence will be a place where science meets practice, transforming research into tangible medical solutions.

ICTER and its partners have already begun building the project’s visibility, both within the scientific community and among organizations that supported the team during the grant application phase. These activities mark the first step in creating a network of organizations and individuals dedicated to fighting for patients’ eye health. This network will accelerate the implementation of new technologies and ensure that research teams stay closely aligned with the needs of ophthalmologists. As a result, ICTER can be confident that the technologies it develops will effectively support medical professionals.

Technology to the Aid of Ophthalmologists

These approaches form the foundation of scientists’ work. Researchers analyze issues that hinder the progress of ophthalmology and determine whether current technological solutions can address these challenges. Their devices utilize advanced eye illumination methods, cameras capable of recording up to 60,000 frames per second, and artificial intelligence solutions that allow for rapid analysis of eye function.

One of the technologies now emerging from ICTER’s laboratories is STOC-T. This equipment will facilitate faster and more accurate diagnosis of diseases such as glaucoma, macular degeneration, and diabetic retinopathy. Early diagnosis is critical because, in Poland, each ophthalmologist serves approximately 10,000 patients. According to the National Health Fund, by the end of the second quarter of 2024, over 470,000 Poles were waiting for ophthalmological consultations—a number equivalent to the entire population of Gdańsk.