title: Transcript and metabolite profiling for the evaluation of tobacco tree and poplar as feedstock for the bio-based industry.
abstract: The global demand for food, feed, energy and water poses extraordinary challenges for future generations. It is evident that robust platforms for the exploration of renewable resources are necessary to overcome these challenges. Within the multinational framework MultiBioPro we are developing biorefinery pipelines to maximize the use of plant biomass. More specifically, we use poplar and tobacco tree (Nicotiana glauca) as target crop species for improving saccharification, isoprenoid, long chain hydrocarbon contents, fiber quality, and suberin and lignin contents. The methods used to obtain these outputs include GC-MS, LC-MS and RNA sequencing platforms. The metabolite pipelines are well established tools to generate these types of data, but also have the limitations in that only well characterized metabolites can be used. The deep sequencing will allow us to include all transcripts present during the developmental stages of the tobacco tree leaf, but has to be mapped back to the sequence of Nicotiana tabacum. With these set-ups, we aim at a basic understanding for underlying processes and at establishing an industrial framework to exploit the outcomes. In a more long term perspective, we believe that data generated here will provide means for a sustainable biorefinery process using poplar and tobacco tree as raw material. To date the basal level of metabolites in the samples have been analyzed and the protocols utilized are provided in this article.
authors.affiliation: Max Planck Institute for Molecular Plant Physiology.
authors.forename: Colin
authors.initials: C
authors.lastname: Ruprecht
authors.affiliation: Max Planck Institute for Molecular Plant Physiology.
authors.forename: Takayuki
authors.initials: T
authors.lastname: Tohge
authors.affiliation: Max Planck Institute for Molecular Plant Physiology.
authors.forename: Alisdair
authors.initials: A
authors.lastname: Fernie
authors.affiliation: School of Biological Sciences, Plant Molecular Science, Centre for Systems and Synthetic Biology, Royal Holloway, University of London.
authors.forename: Cara L
authors.initials: CL
authors.lastname: Mortimer
authors.affiliation: School of Biological Sciences, Plant Molecular Science, Centre for Systems and Synthetic Biology, Royal Holloway, University of London.
authors.forename: Amanda
authors.initials: A
authors.lastname: Kozlo
authors.affiliation: School of Biological Sciences, Plant Molecular Science, Centre for Systems and Synthetic Biology, Royal Holloway, University of London.
authors.forename: Paul D
authors.initials: PD
authors.lastname: Fraser
authors.affiliation: Max Planck Institute for Molecular Plant Physiology.
authors.forename: Norma
authors.initials: N
authors.lastname: Funke
authors.affiliation: Department of Plant Systems Biology, VIB; Department of Plant Biotechnology and Bioinformatics, UGhent.
authors.forename: Igor
authors.initials: I
authors.lastname: Cesarino
authors.affiliation: Department of Plant Systems Biology, VIB; Department of Plant Biotechnology and Bioinformatics, UGhent.
authors.forename: Ruben
authors.initials: R
authors.lastname: Vanholme
authors.affiliation: Department of Plant Systems Biology, VIB; Department of Plant Biotechnology and Bioinformatics, UGhent.
authors.forename: Wout
authors.initials: W
authors.lastname: Boerjan
authors.affiliation: Department of Plant Systems Biology, VIB; Department of Plant Biotechnology and Bioinformatics, UGhent.
authors.forename: Kris
authors.initials: K
authors.lastname: Morreel
authors.affiliation: Institute for Building Materials, ETH Zurich; Applied Wood Materials, EMPA.
authors.forename: Ingo
authors.initials: I
authors.lastname: Burgert
authors.affiliation: Institute for Building Materials, ETH Zurich; Applied Wood Materials, EMPA.
authors.forename: Notburga
authors.initials: N
authors.lastname: Gierlinger
authors.affiliation: Division of Glycoscience, School of Biotechnology, AlbaNova University Center, Royal Institute of Technology (KTH).
authors.forename: Vincent
authors.initials: V
authors.lastname: Bulone
authors.affiliation: European Research and Project Office GmbH.
authors.forename: Vera
authors.initials: V
authors.lastname: Schneider
authors.affiliation: European Research and Project Office GmbH.
authors.forename: Andrea
authors.initials: A
authors.lastname: Stockero
authors.affiliation: ABBA Gaia S.L.
authors.forename: Juan
authors.initials: J
authors.lastname: Navarro-Aviñó
authors.affiliation: Pflanzenöltechnologie.
authors.forename: Frank
authors.initials: F
authors.lastname: Pudel
authors.affiliation: Capax Environmental Services.
authors.forename: Bart
authors.initials: B
authors.lastname: Tambuyser
authors.affiliation: Green Fuels.
authors.forename: James
authors.initials: J
authors.lastname: Hygate
authors.affiliation: Neutral Consulting Ltd.
authors.forename: Jon
authors.initials: J
authors.lastname: Bumstead
authors.affiliation: Neutral Consulting Ltd.
authors.forename: Louis
authors.initials: L
authors.lastname: Notley
authors.affiliation: Max Planck Institute for Molecular Plant Physiology; Plant Cell Biology Research Centre, School of Botany, University of Melbourne; Persson@mpimp-golm.mpg.de.
authors.forename: Staffan
authors.initials: S
authors.lastname: Persson
mesh_terms: D000821:Animal Feed; D056804:Biofuels; D018533:Biomass; D002853:Chromatography, Liquid; D008401:Gas Chromatography-Mass Spectrometry; D055432:Metabolomics; D032107:Populus / Q000235:genetics* / Q000378:metabolism*; D014026:Nicotiana / Q000235:genetics* / Q000378:metabolism*; D014158:Transcription, Genetic
chemical_list: D056804:Biofuels