First whole genome assembly and annotation of a European common bean cultivar using PacBio HiFi and Iso-Seq data

Sébastien Carrère; Baptiste Mayjonade; David Lalanne; Sylvain Gaillard; Jérôme Verdier; Nicolas W G Chen

doi:10.1016/j.dib.2023.109182

First whole genome assembly and annotation of a European common bean cultivar using PacBio HiFi and Iso-Seq data

Data Brief. 2023 Apr 26:48:109182. doi: 10.1016/j.dib.2023.109182. eCollection 2023 Jun.

Authors

Sébastien Carrère¹, Baptiste Mayjonade¹, David Lalanne², Sylvain Gaillard², Jérôme Verdier², Nicolas W G Chen²

Affiliations

¹ Université de Toulouse, INRAE, CNRS, Laboratoire des Interactions Plantes Micro-organismes Environnement (LIPME), 31326 Castanet-Tolosan, France.
² Univ Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, F-49000 Angers, France.

Abstract

Common bean (Phaseolus vulgaris L.) is the most important grain legume for direct human consumption worldwide. Flageolet bean originates from France and presents typical organoleptic properties, including the remarkable feature of having small pale green colored seeds. Here, we report the whole-genome data, assembly and annotation of the flageolet bean accession 'Flavert'. High molecular weight DNA and RNA were extracted and subjected to long-read sequencing using PacBio Sequel II platform. The genome consisted of 566,238,753 bp assembled in 13 molecules, including 11 chromosomes plus the mitochondrial and chloroplastic genomes. Annotation predicted 29,549 protein coding genes and 6,958 non-coding RNA. This high-quality genome (99.2% BUSCO completeness) represents a valuable data set for further genomic and genetic studies on common bean and more generally on legumes. To our knowledge, this is the first whole-genome sequence of a common bean accession originating from Europe.

Keywords: Annotation; Flavert; Legume; PacBio; Phaseolus; Whole genome sequencing.