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Construction of multiplexed transcriptome NGS libraries of microdissected tissue samples based on combinational DNA barcode microbeads
  • +4
  • Kaitong Dang,
  • Yue Zhao,
  • kaiqiang Ye,
  • Yunxia Guo,
  • Wenjia Wang,
  • Qinyu Ge,
  • xiangwei zhao
Kaitong Dang
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kaiqiang Ye
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Yunxia Guo
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Wenjia Wang
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xiangwei zhao
Southeast University - Sipailou Campus

Corresponding Author:[email protected]

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The combination of single-cell RNA sequencing and microdissection techniques that preserves positional information has become a major tool for spatial transcriptome analyses. However, high costs and time requirements, especially for experiments at the single cell scale, make it challenging for this approach to meet the demand for increased throughput. Therefore, we proposed combinational DNA barcode (CDB)-seq as a medium-throughput, multiplexed approach combining Smart-3SEQ and CDB magnetic microbeads for transcriptome analyses of microdissected tissue samples. We conducted a comprehensive comparison of conditions for CDB microbead preparation and related factors and then applied CDB-seq to RNA extracts, fresh frozen (FF) and formalin-fixed paraffin-embedded (FFPE) mouse brain tissue samples. CDB-seq transcriptomic profiles of tens of microdissected samples could be obtained in a simple, cost-effective way, providing a promising method for future spatial transcriptomics.
16 Jun 2023Submitted to Biotechnology Journal
19 Jun 2023Submission Checks Completed
19 Jun 2023Assigned to Editor
21 Jun 2023Reviewer(s) Assigned
15 Aug 2023Review(s) Completed, Editorial Evaluation Pending
18 Aug 2023Editorial Decision: Revise Major
17 Sep 20231st Revision Received
19 Sep 2023Submission Checks Completed
19 Sep 2023Assigned to Editor
19 Sep 2023Reviewer(s) Assigned
01 Oct 2023Review(s) Completed, Editorial Evaluation Pending
05 Oct 2023Editorial Decision: Accept