ZEISS Lightsheet 7 | Clarified xenopus 3D projection
Introduction

Reshaping South American Research: Core Imaging Facilities and Light-Sheet Microscopy

Historically, access to advanced research tools has been limited in South America, posing challenges for scientists seeking to conduct cutting-edge investigations. However, recent developments are transforming this landscape, offering researchers unprecedented opportunities to explore complex scientific questions. The establishment of core imaging facilities equipped with state-of-the-art technology, such as light-sheet microscopy, is driving a new era of discovery. These facilities enhance local research capabilities and foster collaboration across the continent. Scientists can now leverage sophisticated imaging techniques without extensive travel or resource expenditure. As these tools become more accessible, South American researchers are poised to contribute significantly to global scientific advancements.

LiSIUM Initiative Chile

Developing a South American Light-Sheet Bioimaging Hub

The LiSIUM initiative, short for "Light-Sheet Imaging at Universidad Mayor" in Santiago, Chile is a program that promotes and supports the use of light-sheet microscopy in Chile and throughout South America.

Dr. Aníbal Antonio Vargas Ríos is a postdoctoral researcher in the microscopy unit at the Center for Integrative Biology. His work involves executing and coordinating two projects funded by the Chan Zuckerberg Initiative (CZI) that aim to advance light-sheet microscopy technology. His primary responsibility is to promote this bioimaging technology among researchers in Chile and South America. This involves disseminating knowledge about the equipment and techniques through seminars, workshops, and direct support for researchers using the microscope. Vargas assists them with sample preparation, guides them in operating the microscope, manages their expectations, and advises on image post-processing. 

Enhancing Local Research Capabilities Through Light-Sheet Microscopy

The ZEISS Lightsheet 7 microscope system expands imaging possibilities beyond the limitations of existing technologies in the region, Vargas explains. While widefield and confocal microscopy are prevalent, they are shifting perspectives by demonstrating how light-sheet microscopy can improve research outcomes and the impact of publications across various model systems.

Researchers are often amazed when they see entire organs imaged in 3D (rather than individual slices), acquired at remarkable speeds compared to confocal microscopy. Others are impressed by the dramatic improvement in image quality when combining clearing protocols with the optical sectioning capabilities of light-sheet illumination. In physiology, the ability to image live samples for extended periods without phototoxicity has enabled labs to explore entirely new experimental approaches for both current and future projects.

Aníbal Antonio Vargas Ríos | Universidad Mayor, Chile

Having access to advanced imaging technology locally saves time and resources, empowering scientists to pursue ambitious research questions.

Aníbal Antonio Vargas Ríos Postdoctoral Researcher, Lightsheet microscopy specialist & LiSIUM Project Coordinator at Universidad Mayor in Santiago, Chile

Exciting Applications and Diverse Experimental Models

A wide variety of samples with a focus on developmental biology have been processed at LiSIUM. Researchers have adapted well to tissue clearing protocols, enabling full volumetric imaging of organs. Examples include cleared mouse brains for vascular network visualization, chicken legs for bone development studies, and dissected zebrafish brains for mapping dopaminergic neurons. In vivo imaging of zebrafish includes time-lapse recordings of neural development in the tail and targeted studies of eye development.
ZEISS Lightsheet 7 | Chick embryo

Sample: Chick embryo HH24 stage

Sample processing: CUBIC-based tissue clearing

Label: vascular dye (Blood vessels)

Authors: Jesús Juárez, David Arancibia

Image: Color-code projection

ZEISS Lightsheet 7 | Mouse kidney

Sample: Mouse kidney

Sample processing: iDISCO+ -based tissue clearing

Label: LRP2 (green) NPHS2 (red) Tubuline (Cyan)

Authors: Pierre N’Getta (sample processing) and Aníbal Vargas (imaging and post processing image)

Image: orthogonal projection

ZEISS Lightsheet 7 | Zebrafish brain

Sample: Zebrafish brain 4 dpf

Sample processing: CUBIC -based tissue clearing

Label: dat:eGFP (dopaminergic neurons) (green), DAPI (magenta)

Authors: Begoña Aranda and Aníbal Vargas

Image: orthogonal projection

We align researchers' needs with our equipment's capabilities to ensure an optimal balance between efficiency and effectiveness.

Aníbal Antonio Vargas Ríos Postdoctoral Researcher, Lightsheet microscopy specialist & LiSIUM Project Coordinator at Universidad Mayor in Santiago, Chile
LiSIUM Initiative Chile

Researchers can address complex questions with cutting-edge tools, boosting their scientific impact.

Vargas' role is to guide the possibilities and align them with the researchers' expectations to ensure a productive experience with the technology. Challenges such as vertical mounting, refractive index matching, and large file sizes are addressed through reliable protocols. Delicate samples, like clarified zebrafish brains, require careful handling but yield remarkable results once optimized. The ability to rotate samples during imaging maximizes data acquisition potential, enhancing opportunities for analysis and visualization, Vargas describes.

The ZEISS Lightsheet 7 system is reserved three to four times a week, with its schedule divided into blocks for fixed and live sample imaging. Most frequent users work with fixed and cleared samples, transitioning results from confocal microscopy. Live imaging requires more resources and increases costs for labs, explaining the lower proportion of these assays. Several groups focus on developmental biology using models like zebrafish, chicken, frog, and mice. 

Researchers leave our facility not only with the images they sought but also with enhanced opportunities for quantitative and qualitative analysis, image processing, and advanced data visualization – enabling richer scientific insights.

Aníbal Antonio Vargas Ríos Postdoctoral Researcher, Lightsheet microscopy specialist & LiSIUM Project Coordinator at Universidad Mayor in Santiago, Chile

Prioritizing Research Over Equipment Operation

ZEISS Lightsheet 7 represents a significant achievement in Chile by making advanced optics technology accessible. Automation and software-assisted alignment of optical components improve the pre-imaging setup, ensuring image quality without complexity. The overall microscope experience is enhanced.

The team has successfully performed large-scale tiling acquisitions of fixed samples and multi-hour time-lapse imaging without stability issues or sample damage.

Initially, sharing experiences and solutions was challenging due to the equipment's uniqueness in the region. Vargas emphasizes that technical guidance from ZEISS through Microx-Chile has been crucial for consistent operation. ZEISS ensures system reliability, though high replacement costs and shipping expenses remain challenges, he says.

Collaborative networks with other centers using the same equipment now allow for experience sharing.

 

Aníbal Antonio Vargas Ríos | Universidad Mayor, Chile

Users can focus on experiments and their variables rather than equipment operation. The system's stability allows for reproducible acquisitions, saving time and resources.

Aníbal Antonio Vargas Ríos Postdoctoral Researcher, Lightsheet microscopy specialist & LiSIUM Project Coordinator at Universidad Mayor in Santiago, Chile

ZEISS Lightsheet 7 in Action

The team has successfully performed large-scale tiling acquisitions of fixed samples and multi-hour time-lapse imaging without stability issues or sample damage.
  • Adult mouse brain with Evans blue injection

  • ZEISS Lightsheet 7 | Zebrafish 36 hpf Neuro D GFP lateral neuron projection

    Zebrafish 36 hpf Neuro D GFP lateral neuron projection

  • ZEISS Lightsheet 7 | Clarified xenopus 3D projection

    Clarified xenopus 3D projection

  • Sample: 2 mouth mouse brain sample processing: iDISCO+ -based tissue clearing Label: Evans blue (red) lymphatic vessels (green) Authors: Eugenia Isasi (sample labelling), Renata Gallardo (sample processing) and Anibal Vargas (imaging and post processing) Video: 3D redering video in Imaris 9.0
    Adult mouse brain with Evans blue injection
  • Sample: zebrafish 36 hpf Sample processing: n/a Label: Neuro D:GFP (green) Authors: Leonardo Valdivia (preparation), Anibal Vargas (imaging and post processing image) and Camila Weiss (post processing image) Video: ZEN blue
    Zebrafish 36 hpf Neuro D GFP lateral neuron projection
  • Sample: xenopus Sample processing: CUBIC-based tissue clearing Label: Topro Authors: David Arancibia Video: 3d rendering video in Imaris 9.0
    Clarified xenopus 3D projection
LiSIUM Initiative Chile

Streamlined Training for Mastering Light-Sheet Microscopy

Ongoing training for the specialist and users ensures smooth equipment operation. The specialist supports users from sample preparation to image reconstruction, facilitating a positive experience.

Training involves more than just equipment usage; it includes sample and image processing. New users receive support from sample processing to image acquisition. LiSIUM offers guidance and supplies to overcome technical, monetary, and emotional barriers. Training focuses on hardware handling and software configuration, including image processing tools for data extraction.

Developing a Collaborative Network

LiSIUM-Chile's international activities have put light-sheet microscopy on the map in South America. Open access to this technology overcomes economic and geographical barriers. Free workshops and remote access allow researchers to use the equipment regardless of distance. Collaborations with initiatives like Latin American Bioimaging (LABI) and Bioimaging North America (BINA), have built a strong support network, enabling researchers from various countries to access this technology. Any researcher in Chile or across the continent can send their samples to the microscopy unit and operate the equipment in real time via a remote connection from their location.

Participation in the international EMBO Developmental Biology course, held biennially, showcased LiSIUM’s expertise in light-sheet microscopy. Support from ZEISS, including a Lightsheet 7 demo system, enabled attendees to explore this technology for their research.

LiSIUM Initiative Chile

About LiSIUM

Universidad Mayor (UM) established the LiSIUM initiative following the acquisition of the first commercial light-sheet microscope ZEISS Lightsheet 7 in Chile. This was made possible by a FONDEQUIP grant awarded to Dr. Leonardo Valdivia and Dr. Joaquin Letelier in 2019. Recognizing the opportunity and responsibility to share this technology, the Chan Zuckerberg Initiative (CZI) provided further support in 2021. Dr. Alenka Lovy, Dr. Felipe Court, and Dr. Leonardo Valdivia received a CZI grant, marking the birth of LiSIUM-Chile. The project aims to spread light-sheet microscopy across Chile and beyond, establishing a collaborative network to support researchers with cutting-edge tools for studying living matter and enhance their current projects.

In Brief

  • The availability of light-sheet microscopy in South America significantly enhances research capabilities by providing access to advanced imaging technology that was previously unavailable or difficult to obtain. This technology allows researchers to conduct detailed 3D imaging of entire organs and live samples, facilitating new experimental approaches and improving the quality and impact of their research outcomes. With local access to such sophisticated tools, scientists can address complex questions more efficiently, saving time and resources while boosting their scientific contributions on a global scale.

  • Core imaging facilities play a crucial role in fostering collaboration among South American researchers by serving as centralized hubs for advanced imaging technology. These facilities provide open access to cutting-edge tools like light-sheet microscopy, enabling researchers from different institutions and countries to work together on shared projects. By organizing workshops, seminars, and conferences, these facilities promote knowledge exchange and skill development, creating a collaborative network that transcends geographical and economic barriers. This collaborative environment encourages the sharing of expertise and resources, leading to innovative research and stronger scientific partnerships across the continent.

  • Researchers face several challenges when using light-sheet microscopy, including technical complexities related to sample preparation, image processing, and equipment operation. To address these challenges, LiSIUM provides comprehensive training and support, guiding users through each step of the imaging process. This includes assistance with sample mounting, refractive index matching, and handling delicate specimens. Additionally, facilities offer protocols and resources to overcome technical and monetary barriers, ensuring researchers can effectively utilize the technology. Facilities like LiSIUM instill confidence and encourage autonomous use, helping researchers navigate the complexities of light-sheet microscopy and maximize its potential for scientific discovery.


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