Agronomy and Horticulture, Department of
Department of Agronomy and Horticulture: Faculty Publications
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ORCID IDs
John C. Sedbrook https://orcid.org/0000-0002-4930-1627
Ratan Chopra https://orcid.org/0000-0003-2088-3341
Document Type
Article
Date of this Version
5-1-2022
Citation
Plant Biotechnology Journal (2022) 20, pp. 944–963
doi: 10.1111/pbi.13775
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.
Included in
Agricultural Science Commons, Agriculture Commons, Agronomy and Crop Sciences Commons, Botany Commons, Horticulture Commons, Other Plant Sciences Commons, Plant Biology Commons
Comments
This is an open access article under the terms of the Creative Commons Attribution License