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Expression atlas and comparative coexpression network analyses reveal important genes involved in the formation of lignified cell wall in Brachypodium distachyon
- Source :
- New Phytologist, New Phytologist, Wiley, 2017, 215 (3), pp.1009-1025. ⟨10.1111/nph.14635⟩
- Publication Year :
- 2017
- Publisher :
- HAL CCSD, 2017.
-
Abstract
- While Brachypodium distachyon (Brachypodium) is an emerging model for grasses, no expression atlas or gene coexpression network is available. Such tools are of high importance to provide insights into the function of Brachypodium genes. We present a detailed Brachypodium expression atlas, capturing gene expression in its major organs at different developmental stages. The data were integrated into a large-scale coexpression database ( www.gene2function.de), enabling identification of duplicated pathways and conserved processes across 10 plant species, thus allowing genome-wide inference of gene function. We highlight the importance of the atlas and the platform through the identification of duplicated cell wall modules, and show that a lignin biosynthesis module is conserved across angiosperms. We identified and functionally characterised a putative ferulate 5-hydroxylase gene through overexpression of it in Brachypodium, which resulted in an increase in lignin syringyl units and reduced lignin content of mature stems, and led to improved saccharification of the stem biomass. Our Brachypodium expression atlas thus provides a powerful resource to reveal functionally related genes, which may advance our understanding of important biological processes in grasses.
- Subjects :
- 0106 biological sciences
0301 basic medicine
Physiology
[SDV]Life Sciences [q-bio]
Arabidopsis
Gene regulatory network
functional module
lignin
Plant Science
Computational biology
Genes, Plant
01 natural sciences
Genome
Plant Stem
Transcriptome
03 medical and health sciences
Cell Wall
Gene Expression Regulation, Plant
comparative coexpression
Databases, Genetic
Botany
Gene Regulatory Networks
Gene
2. Zero hunger
Regulation of gene expression
Brachypodium distachyon
Gene Regulatory Network
Plant Stems
biology
coexpression
food and beverages
Oryza
15. Life on land
Plants, Genetically Modified
biology.organism_classification
030104 developmental biology
gene function
expression atla
Brachypodium
expression atlas
Arabidopsi
functional modules
010606 plant biology & botany
Subjects
Details
- Language :
- English
- ISSN :
- 0028646X and 14698137
- Database :
- OpenAIRE
- Journal :
- New Phytologist, New Phytologist, Wiley, 2017, 215 (3), pp.1009-1025. ⟨10.1111/nph.14635⟩
- Accession number :
- edsair.doi.dedup.....3853efefc5028365a69be0ee5b76c9a7