SMALT (Substitution Mutation-Aided Lineage-Tracing) is a cutting-edge lineage tracing method, utilizing the base editor of engineered AID (activation-induced cytidine deaminase) to induce targeted mutagenesis. This process generates C/G to T/A mutations in a DNA barcode at high efficacy, facilitating the reconstruction of large phylogenetic trees at the single-cell level. We have developed a mouse model integrated with the SMALT system, allowing for the controlled activation or deactivation of the lineage tracer with doxycycline. Using the SMALT mouse model, we investigated intestinal tumorigenesis by employing the AOM/DSS model (inflammation-driven colon cancer) or crossing with the Apc^Min/+ mouse. On this platform, you can explore the SMALT-based cell phylogenetic trees generated from mouse polyps and colon tumors. You can also export the phylogenetic tree file for reanalysis. This interactive visualizations platform is built upon phylotree.js.

The data for this paper are publicly available on the NGDC (National Genomics Data Center) under the accession numbers PRJCA024217 and on the Zenodo repository.

Phylo Gallery provides an overview of the cell phylogenetic trees generated from mouse polyps and colon tumors. If you have any questions, please do not hesitate to contact us. If you use our data in your work, please cite our paper:
Zhaolian Lu#, Shanlan Mo#, Duo Xie#, Xiangwei Zhai#, Shanjun Deng#,Kantian Zhou, Kun Wang, Xueling Kang, Hao Zhang, Juanzhen Tong,Liangzhen Hou, Huijuan Hu, Xuefei Li, Da Zhou, Leo Tsz On Lee, Li Liu, Yaxi Zhu, Jing Yu, Ping Lan, Jiguang Wang, Zhen He ✉, Xionglei He ✉ & Zheng Hu ✉,Polyclonal-to-monoclonal transition in colorectal precancerous evolution, Nature, 2024, https://www.nature.com/articles/s41586-024-08133-1.