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AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in Populus tremula
Umeå University, Faculty of Science and Technology, Umeå Plant Science Centre (UPSC). Umeå University, Faculty of Science and Technology, Department of Plant Physiology.
Umeå University, Faculty of Science and Technology, Umeå Plant Science Centre (UPSC). Umeå University, Faculty of Science and Technology, Department of Plant Physiology.
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2017 (English)In: The Plant Cell, ISSN 1040-4651, E-ISSN 1532-298X, Vol. 29, no 7, 1585-1604 p.Article in journal (Refereed) Published
Abstract [en]

Trees represent the largest terrestrial carbon sink and a renewable source of ligno-cellulose. There is significant scope for yield and quality improvement in these largely undomesticated species, and efforts to engineer elite varieties will benefit from improved understanding of the transcriptional network underlying cambial growth and wood formation. We generated high-spatial-resolution RNA sequencing data spanning the secondary phloem, vascular cambium, and wood-forming tissues of Populus tremula. The transcriptome comprised 28,294 expressed, annotated genes, 78 novel protein-coding genes, and 567 putative long intergenic noncoding RNAs. Most paralogs originating from the Salicaceae whole-genome duplication had diverged expression, with the exception of those highly expressed during secondary cell wall deposition. Coexpression network analyses revealed that regulation of the transcriptome underlying cambial growth and wood formation comprises numerous modules forming a continuum of active processes across the tissues. A comparative analysis revealed that a majority of these modules are conserved in Picea abies. The high spatial resolution of our data enabled identification of novel roles for characterized genes involved in xylan and cellulose biosynthesis, regulators of xylem vessel and fiber differentiation and lignification. An associated web resource (AspWood, http://aspwood.popgenie.org) provides interactive tools for exploring the expression profiles and coexpression network.

Place, publisher, year, edition, pages
2017. Vol. 29, no 7, 1585-1604 p.
National Category
Bioinformatics and Systems Biology
Identifiers
URN: urn:nbn:se:umu:diva-139016DOI: 10.1105/tpc.17.00153ISI: 000407495000008OAI: oai:DiVA.org:umu-139016DiVA: diva2:1138762
Available from: 2017-09-06 Created: 2017-09-06 Last updated: 2017-09-06Bibliographically approved

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Sundell, DavidStreet, Nathaniel R.Mannapperuma, ChanakaDelhomme, NicolasTuominen, HannelePesquet, EdouardHvidsten, Torgeir R.
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Umeå Plant Science Centre (UPSC)Department of Plant Physiology
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The Plant Cell
Bioinformatics and Systems Biology

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CiteExportLink to record
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Citation style
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