Chromosome-level Thlaspi arvense genome provides new tools for translational research and for a newly domesticated cash cover crop of the cooler climates

Nunn, Adam; Rodriguez-Arevalo, Isaac; Tandukar, Zenith; Frels, Katherine; Contreras-Garrido, Adrian; Carbonell-Bejerano, Pablo; Zhang, Panpan; Ramos-Cruz, Daniela; Jandrasits, Katharina; Lanz, Christa; Brusa, Anthony; Mirouze, Marie; Dorn, Kevin; Jarvis, Brice; Sedbrook, John; Wyse, Donald L.; Otto, Christian; Langenberger, David; Stadler, Peter F.; Weigel, Detlef; Marks, M. David; Anderson, James A.; Becker, Claude und Chopra, Ratan (2022): Chromosome-level Thlaspi arvense genome provides new tools for translational research and for a newly domesticated cash cover crop of the cooler climates. In: Plant Biotechnology Journal, Bd. 20, Nr. 5: S. 944-963

Abstract

Thlaspi arvense (field pennycress) is being domesticated as a winter annual oilseed crop capable of improving ecosystems and intensifying agricultural productivity without increasing land use. It is a selfing diploid with a short life cycle and is amenable to genetic manipulations, making it an accessible field-based model species for genetics and epigenetics. The availability of a high-quality reference genome is vital for understanding pennycress physiology and for clarifying its evolutionary history within the Brassicaceae. Here, we present a chromosome-level genome assembly of var. MN106-Ref with improved gene annotation and use it to investigate gene structure differences between two accessions (MN108 and Spring32-10) that are highly amenable to genetic transformation. We describe non-coding RNAs, pseudogenes and transposable elements, and highlight tissue-specific expression and methylation patterns. Resequencing of forty wild accessions provided insights into genome-wide genetic variation, and QTL regions were identified for a seedling colour phenotype. Altogether, these data will serve as a tool for pennycress improvement in general and for translational research across the Brassicaceae.

• Dokumententyp: Zeitschriftenartikel
• Fakultät: Biologie
• Themengebiete: 500 Naturwissenschaften und Mathematik > 570 Biowissenschaften; Biologie
• ISSN: 1467-7644
• Sprache: Englisch