Automated assembly scaffolding using RagTag elevates a new tomato system for high-throughput genome editing
By Michael Alonge, Ludivine Lebeigle, Melanie Kirsche, K. Jenike, Shujun Ou, Sergey Aganezov Jr., Xingang Wang, Z. Lippman, Michael C. Schatz, Sebastian Soyk. Genome Biology, 2022
716 citations recorded by the source corpus.
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 new rapid-cycling genotype that we developed to accelerate functional genomics and genome editing in tomato. 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/11a86f615a9ff6e13cafdbc958c3de74ea3a04a6
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Citations in the corpus
- JCVI: A versatile toolkit for comparative genomics analysis (2024, methodology): “While tools like RagOO [11] and RagTag [43] are capable of processing synteny and Hi ‐”