Single-cell sequencing of the small and AT-skewed genome of malaria parasites

Author:

Liu Shiwei,Huckaby Adam C.,Brown Audrey C.,Moore Christopher C.,Burbulis Ian,McConnell Michael J.,Güler Jennifer L.ORCID

Abstract

AbstractSingle-cell genomics is a rapidly advancing field; however, most techniques are designed for mammalian cells. We present a single-cell sequencing pipeline for an intracellular parasite, Plasmodium falciparum, with a small genome of extreme base content. Through optimization of a quasi-linear amplification method, we target the parasite genome over contaminants and generate coverage levels allowing detection of minor genetic variants. This work, as well as efforts that build on these findings, will enable detection of parasite heterogeneity contributing to P. falciparum adaptation. Furthermore, this study provides a framework for optimizing single-cell amplification and variant analysis in challenging genomes.

Funder

University of Virginia

University of Virginia Global Infectious Disease Institute

McDonnell Fellowship

National Institute of Allergy and Infectious Diseases

Publisher

Springer Science and Business Media LLC

Subject

Genetics(clinical),Genetics,Molecular Biology,Molecular Medicine

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