title: Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress.
abstract: To explore the transcriptomic global response to osmotic stress in roots, 18 mRNA-seq libraries were generated from three triploid banana genotypes grown under mild osmotic stress (5% PEG) and control conditions. Illumina sequencing produced 568 million high quality reads, of which 70-84% were mapped to the banana diploid reference genome. Using different uni- and multivariate statistics, 92 genes were commonly identified as differentially expressed in the three genotypes. Using our in house workflow to analyze GO enriched and underlying biochemical pathways, we present the general processes affected by mild osmotic stress in the root and focus subsequently on the most significantly overrepresented classes associated with: respiration, glycolysis and fermentation. We hypothesize that in fast growing and oxygen demanding tissues, mild osmotic stress leads to a lower energy level, which induces a metabolic shift towards (i) a higher oxidative respiration, (ii) alternative respiration and (iii) fermentation. To confirm the mRNA-seq results, a subset of twenty up-regulated transcripts were further analysed by RT-qPCR in an independent experiment at three different time points. The identification and annotation of this set of genes provides a valuable resource to understand the importance of energy sensing during mild osmotic stress.
authors.affiliation: KU Leuven, Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, B-3001 Leuven, Belgium.
authors.forename: Yasmín
authors.initials: Y
authors.lastname: Zorrilla-Fontanesi
authors.affiliation: Bioversity International, Parc Scientifique Agropolis II, 34397 Montpellier Cedex 05, France.
authors.forename: Mathieu
authors.initials: M
authors.lastname: Rouard
authors.affiliation: Bioversity International, Parc Scientifique Agropolis II, 34397 Montpellier Cedex 05, France.
authors.forename: Alberto
authors.initials: A
authors.lastname: Cenci
authors.affiliation: KU Leuven, Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, B-3001 Leuven, Belgium.
authors.forename: Ewaut
authors.initials: E
authors.lastname: Kissel
authors.affiliation: KU Leuven, Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, B-3001 Leuven, Belgium.
authors.forename: Hien
authors.initials: H
authors.lastname: Do
authors.affiliation: MGX-Montpellier GenomiX, Montpellier Genomics and Bioinformatics Facility, Montpellier F-34396, France.
authors.forename: Emeric
authors.initials: E
authors.lastname: Dubois
authors.affiliation: MGX-Montpellier GenomiX, Montpellier Genomics and Bioinformatics Facility, Montpellier F-34396, France.
authors.forename: Sabine
authors.initials: S
authors.lastname: Nidelet
authors.affiliation: Bioversity International, Parc Scientifique Agropolis II, 34397 Montpellier Cedex 05, France.
authors.forename: Nicolas
authors.initials: N
authors.lastname: Roux
authors.affiliation: KU Leuven, Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, B-3001 Leuven, Belgium.|Bioversity International, Willem De Croylaan 42, B-3001 Leuven, Belgium.|International Institute of Tropical Agriculture. c/o AVRDC - The World Vegetable Center. P.O. Box 10, Duluti, Arusha, Tanzania.
authors.forename: Rony
authors.initials: R
authors.lastname: Swennen
authors.affiliation: KU Leuven, Division of Crop Biotechnics, Laboratory of Tropical Crop Improvement, B-3001 Leuven, Belgium.
authors.forename: Sebastien Christian
authors.initials: SC
authors.lastname: Carpentier
mesh_terms: D028521:Musa / Q000378:metabolism*; D009997:Osmotic Pressure; D010101:Oxygen Consumption; D018517:Plant Roots / Q000378:metabolism*; D011123:Polyploidy; D059467:Transcriptome