Mitochondrial variant enrichment from high-throughput single-cell RNA-seq resolves clonal populations
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA757424 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR15598771_1.fastq.gz | Fastqsanger.gz | |||
| SRR15598771_2.fastq.gz | Fastqsanger.gz | |||
| SRR15598772_1.fastq.gz | Fastqsanger.gz | |||
| SRR15598772_2.fastq.gz | Fastqsanger.gz | |||
| SRR15598773.fastq.gz | Fastqsanger.gz |
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Project description:Natural mitochondrial DNA (mtDNA) sequence variation plays a fundamental role in human disease and enables the clonal tracing of native human cells. While various genotyping approaches revealed mutational heterogeneity in human tissues and single cells, current methodologies are limited by scale. Here, we introduce a high-throughput, droplet-based mitochondrial single-cell Assay for Transposase Accessible Chromatin with sequencing (mtscATAC-seq) protocol and computational framework that facilitate high-confidence mtDNA mutation calling in thousands of single cells. Further, the concomitant high-quality accessible chromatin readout enables the paired inference of individual cell mtDNA heteroplasmy, clonal lineage, cell state, and accessible chromatin regulatory features. Our multi-omic analyses reveals single-cell variation in heteroplasmy of a pathologic mtDNA variant (m.8344A>G), which we tie to intra-individual chromatin variability and clonal evolution. Further, using somatic mtDNA mutations, we clonally trace thousands of hematopoietic cells in vitro and in patients with chronic lymphocytic leukemia, linking epigenomic variability to subclonal evolution in vivo.
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