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An automated approach to prepare tissue-derived spatially barcoded RNA-sequencing libraries
Anders Jemt1, Fredrik Salmén1, Anna Lundmark2
1Science for Life Laboratory, Department of Gene Technology, Royal Institute of Technology, SE-106 91, Stockholm, Sweden.
Scientific Reports
|November 17, 2016
Summary
This study adapted spatial transcriptomics for robotic automation, reducing variability and increasing throughput for analyzing tissue samples. This advancement enhances the scalability and efficiency of single-cell sequencing protocols.
Area of Science:
- Molecular Biology
- Genomics
- Bioinformatics
Background:
- Single-cell sequencing and spatial transcriptomics are crucial for understanding tissue heterogeneity.
- Automated and scalable library preparation protocols are needed to meet the growing demand for sequencing.
- Existing protocols may not fully capture or retain spatial information.
Purpose of the Study:
- To adapt a spatial transcriptomics protocol for robotic automation.
- To evaluate the robustness and variability of the automated protocol.
- To increase sample throughput and reduce hands-on time for spatial transcriptomics.
Main Methods:
- Adaptation of a spatial transcriptomics protocol for a robotic workstation.
- Preparation of reference RNA for quality control.
- Preparation and sequencing of six replicate gingival tissue biopsy sections.
Main Results:
- Reduced technical variability between replicate samples.
- Increased throughput, processing four times more samples.
- Reduced hands-on time by over two-thirds compared to the standard protocol.
Conclusions:
- Robotic automation of spatial transcriptomics enhances robustness and scalability.
- The adapted protocol significantly improves efficiency for analyzing tissue samples.
- This method facilitates deeper investigation into tissue heterogeneity with spatial context.
