1. LeafGo: Leaf to Genome, a quick workflow to produce high-quality de novo plant genomes using long-read sequencing technology
- Author
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Alexander Putra, Muppala P. Reddy, Ming Sin Cheung, Luca Ermini, Richard Willem Otto Soppe, Karen Carty, Yoshinori Fukasawa, Salim Bougouffa, Kamel Jabbari, and Patrick Driguez
- Subjects
Time Factors ,Arachis ,DNA, Plant ,QH301-705.5 ,Method ,Computational biology ,QH426-470 ,Biology ,Genome ,Species Specificity ,Genetics ,Biology (General) ,Long-read sequencing ,Eucalyptus ,food and beverages ,High-Throughput Nucleotide Sequencing ,Chromosome-level draft genome ,Plant genomes ,Diploidy ,Arachis hypogaea ,Plant Leaves ,Tetraploidy ,Workflow ,Peanut ,Plant species ,High molecular weight DNA extraction ,Genomic standardized workflow ,Genome, Plant ,Software - Abstract
Currently, different sequencing platforms are used to generate plant genomes and no workflow has been properly developed to optimize time, cost, and assembly quality. We present LeafGo, a complete de novo plant genome workflow, that starts from tissue and produces genomes with modest laboratory and bioinformatic resources in approximately 7 days and using one long-read sequencing technology. LeafGo is optimized with ten different plant species, three of which are used to generate high-quality chromosome-level assemblies without any scaffolding technologies. Finally, we report the diploid genomes of Eucalyptus rudis and E. camaldulensis and the allotetraploid genome of Arachis hypogaea.
- Published
- 2021