caa a22 4500 467893888 CHVBK 20180406152756.0 cr unu---uuuuu 170328e20060301xx s 000 0 eng 10.1007/s11103-005-5772-4 doi (NATIONALLICENCE)springer-10.1007/s11103-005-5772-4 Conversion of MapMan to Allow the Analysis of Transcript Data from Solanaceous Species: Effects of Genetic and Environmental Alterations in Energy Metabolism in the Leaf [Elektronische Daten] [Ewa Urbanczyk-Wochniak, Björn Usadel, Oliver Thimm, Adriano Nunes-Nesi, Fernando Carrari, Marcus Davy, Oliver Bläsing, Magdalena Kowalczyk, Daniel Weicht, Anna Polinceusz, Svenja Meyer, Mark Stitt, Alisdair Fernie] The tomato microarray TOM1 offers the possibility to monitor the levels of several thousand transcripts in parallel. The microelements represented on this tomato microarray have been putatively assigned to unigenes, and organised in functional classes using the MapMan ontology (Thimm etal., 2004. Plant J. 37: 914-939). This ontology was initially developed for use with the Arabidopsis ATH1 array, has a low level of redundancy, and can be combined with the MapMan software to provide a biologically structured overview of changes of transcripts, metabolites and enzyme activities. Use of this application is illustrated using three case studies with published or novel TOM1 array data sets for Solanaceous species. Comparison of previously reported data on transcript levels in potato leaves in the middle of the day and the middle of the night identified coordinated changes in the levels of transcripts of genes involved in various metabolic pathways and cellular events. Comparison with diurnal changes of gene expression in Arabidopsis revealed common features, illustrating how MapMan can be used to compare responses in different organisms. Comparison of transcript levels in new experiments performed on the leaves of the cultivated tomato S. lycopersicum and the wild relative S. pennellii revealed a general decrease of levels of transcripts of genes involved in terpene and, phenylpropanoid metabolism as well as chorismate biosynthesis in the crop compared to the wild relative. This matches the recently reported decrease of the levels of secondary metabolites in the latter. In the third case study, new expression array data for two genotypes deficient in TCA cycle enzymes is analysed to show that these genotypes have elevated levels of transcripts associated with photosynthesis. This in part explains the previously documented enhanced rates of photosynthesis in these genotypes. Since the Solanaceous MapMan is intended to be a community resource it will be regularly updated on improvements in tomato gene annotation and transcript profiling resources. Springer, 2006 photosynthesis nationallicence Solanum tuberosum nationallicence Solanum lycopersicon nationallicence transcript analysis nationallicence tricarboxylic acid cycle nationallicence visualisation nationallicence cDNA : complementary DNA nationallicence GO : gene ontology nationallicence EST : expressedsequence tag nationallicence Urbanczyk-Wochniak Ewa Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Usadel Björn Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Thimm Oliver Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Nunes-Nesi Adriano Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Carrari Fernando Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Davy Marcus Hort Research Mt Albert, Private Bag 92 169, Auckland, New Zealand aut Bläsing Oliver Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Kowalczyk Magdalena Department of Plant Genetics, Breeding and Biotechnology, Faculty of Horticulture, Warsaw Agricultural University, Nowoursynowska 166, 02-787, Warsaw, Poland aut Weicht Daniel Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Polinceusz Anna Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Meyer Svenja RZPD German Resource Centre for Genome Research, Heubnerweg 6, D-14059, Berlin S, Germany aut Stitt Mark Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Fernie Alisdair Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut Plant Molecular Biology Kluwer Academic Publishers 60/5(2006-03-01), 773-792 0167-4412 60:5<773 2006 60 11103 https://doi.org/10.1007/s11103-005-5772-4 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11103-005-5772-4 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Urbanczyk-Wochniak Ewa Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Usadel Björn Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Thimm Oliver Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Nunes-Nesi Adriano Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Carrari Fernando Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Davy Marcus Hort Research Mt Albert, Private Bag 92 169, Auckland, New Zealand aut NATIONALLICENCE 700 1- Bläsing Oliver Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Kowalczyk Magdalena Department of Plant Genetics, Breeding and Biotechnology, Faculty of Horticulture, Warsaw Agricultural University, Nowoursynowska 166, 02-787, Warsaw, Poland aut NATIONALLICENCE 700 1- Weicht Daniel Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Polinceusz Anna Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Meyer Svenja RZPD German Resource Centre for Genome Research, Heubnerweg 6, D-14059, Berlin S, Germany aut NATIONALLICENCE 700 1- Stitt Mark Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 700 1- Fernie Alisdair Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476, Golm, Germany aut NATIONALLICENCE 773 0- Plant Molecular Biology Kluwer Academic Publishers 60/5(2006-03-01), 773-792 0167-4412 60:5<773 2006 60 11103 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer