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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; Rodríguez-Arévalo, Isaac; Tandukar, Zenith; Frels, Katherine; Contreras-Garrido, Adrián; Carbonell-Bejerano, Pablo; Zhang, Panpan; Ramos Cruz, Daniela; Jandrasits, Katharina; Lanz, Christa; Brusa, Anthony; Mirouze, Marie; Dorn, Kevin; Galbraith, David W; Jarvis, Brice A; Sedbrook, John C; Wyse, Donald L; Otto, Christian; Langenberger, David; Stadler, Peter F; Weigel, Detlef; Marks, M David; Anderson, James A; Becker, Claude; Chopra, Ratan.
Afiliación
  • Nunn A; ecSeq Bioinformatics GmbH, Leipzig, Germany.
  • Rodríguez-Arévalo I; Department of Computer Science, Leipzig University, Leipzig, Germany.
  • Tandukar Z; Genetics, Faculty of Biology, Ludwig Maximilians University, Martinsried, Germany.
  • Frels K; Gregor Mendel Institute of Molecular Plant Biology GmbH, Austrian Academy of Sciences (ÖAW), Vienna BioCenter (VBC), Vienna, Austria.
  • Contreras-Garrido A; Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, USA.
  • Carbonell-Bejerano P; Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, USA.
  • Zhang P; Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE, USA.
  • Ramos Cruz D; Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tübingen, Germany.
  • Jandrasits K; Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tübingen, Germany.
  • Lanz C; Institut de Recherche pour le Développement, UMR232 DIADE, Montpellier, France.
  • Brusa A; Laboratory of Plant Genome and Development, University of Perpignan, Perpignan, France.
  • Mirouze M; Genetics, Faculty of Biology, Ludwig Maximilians University, Martinsried, Germany.
  • Dorn K; Gregor Mendel Institute of Molecular Plant Biology GmbH, Austrian Academy of Sciences (ÖAW), Vienna BioCenter (VBC), Vienna, Austria.
  • Galbraith DW; Genetics, Faculty of Biology, Ludwig Maximilians University, Martinsried, Germany.
  • Jarvis BA; Gregor Mendel Institute of Molecular Plant Biology GmbH, Austrian Academy of Sciences (ÖAW), Vienna BioCenter (VBC), Vienna, Austria.
  • Sedbrook JC; Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tübingen, Germany.
  • Wyse DL; Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, USA.
  • Otto C; Institut de Recherche pour le Développement, UMR232 DIADE, Montpellier, France.
  • Langenberger D; Laboratory of Plant Genome and Development, University of Perpignan, Perpignan, France.
  • Stadler PF; Department of Plant and Microbial Biology, University of Minnesota, Saint Paul, MN, USA.
  • Weigel D; USDA-ARS, Soil Management and Sugarbeet Research, Fort Collins, CO, USA.
  • Marks MD; BIO5 Institute, Arizona Cancer Center, Department of Biomedical Engineering, University of Arizona, School of Plant Sciences, Tucson, AZ, USA.
  • Anderson JA; School of Biological Sciences, Illinois State University, Normal, IL, USA.
  • Becker C; School of Biological Sciences, Illinois State University, Normal, IL, USA.
  • Chopra R; Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, USA.
Plant Biotechnol J ; 20(5): 944-963, 2022 05.
Article en En | MEDLINE | ID: mdl-34990041
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.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Thlaspi Tipo de estudio: Prognostic_studies Idioma: En Revista: Plant Biotechnol J Asunto de la revista: BIOTECNOLOGIA / BOTANICA Año: 2022 Tipo del documento: Article País de afiliación: Alemania Pais de publicación: Reino Unido
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Thlaspi Tipo de estudio: Prognostic_studies Idioma: En Revista: Plant Biotechnol J Asunto de la revista: BIOTECNOLOGIA / BOTANICA Año: 2022 Tipo del documento: Article País de afiliación: Alemania Pais de publicación: Reino Unido