scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation.

Raine A, Lundmark A, Annett A, Wiman AC, Cavalli M, Wadelius C, Bergin C, Nordlund J

Sci Rep 12 (1) 5772 [2022-04-06; online 2022-04-06]

DNA methylation is a central epigenetic mark that has diverse roles in gene regulation, development, and maintenance of genome integrity. 5 methyl cytosine (5mC) can be interrogated at base resolution in single cells by using bisulfite sequencing (scWGBS). Several different scWGBS strategies have been described in recent years to study DNA methylation in single cells. However, there remain limitations with respect to cost-efficiency and yield. Herein, we present a new development in the field of scWGBS library preparation; single cell Splinted Ligation Adapter Tagging (scSPLAT). scSPLAT employs a pooling strategy to facilitate sample preparation at a higher scale and throughput than previously possible. We demonstrate the accuracy and robustness of the method by generating data from 225 single K562 cells and from 309 single liver nuclei and compare scSPLAT against other scWGBS methods.

Bioinformatics Support for Computational Resources [Service]

Microbial Single Cell Genomics

NGI Single cell [Technology development]

NGI Uppsala (SNP&SEQ Technology Platform) [Technology development]

National Genomics Infrastructure [Technology development]

PubMed 35388090

DOI 10.1038/s41598-022-09798-2

Crossref 10.1038/s41598-022-09798-2

pmc: PMC8986790
pii: 10.1038/s41598-022-09798-2

Publications 9.5.0