Automated assembly scaffolding elevates a new tomato system for high-throughput genome editing

By Michael Alonge, Ludivine Lebeigle, Melanie Kirsche, Sergey Aganezov Jr., Xingang Wang, Z. Lippman, Michael C. Schatz, Sebastian Soyk. bioRxiv, 2021

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Advancing crop genomics requires efficient genetic systems enabled by high-quality personalized genome assemblies. Here, we introduce RagTag, a toolset for automating assembly scaffolding and patching, and we establish chromosome-scale reference genomes for the widely used tomato genotype M82 along with Sweet-100, a rapid-cycling genotype that we developed to accelerate functional genomics and genome editing. This work outlines strategies to rapidly expand genetic systems and genomic resources in other plant species.

Subfields: Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/73788f2b8f30dbc1b095fbaf1d424f476dc778cd