Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets

Coexpression patterns of gene expression across many microarray data sets may reveal networks of genes involved in linked processes. To identify factors involved in cellulose biosynthesis, we used a regression method to analyze 408 publicly available Affymetrix Arabidopsis microarrays. Expression of...

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Bibliographic Details
Published in:Proceedings of the National Academy of Sciences - PNAS 2005-06, Vol.102 (24), p.8633-8638
Main Authors: Persson, S, Wei, H, Milne, J, Page, G.P, Somerville, C.R
Format: Article
Language:English
Subjects:
Arabidopsis - genetics
Arabidopsis Proteins - genetics
Arabidopsis thaliana
Biological Sciences
Biosynthesis
carbohydrate metabolism
Cell walls
Cellulose
Cellulose - biosynthesis
Cellulose - genetics
Cellulose - metabolism
cellulose synthase
Computational Biology - methods
Databases, Genetic
Datasets
DNA Mutational Analysis
Gene expression
Genes
Genes, Plant - genetics
Genetic mutation
Genetics
genomics
Glucosyltransferases - genetics
Glucosyltransferases - metabolism
Glycosyltransferases - genetics
hexosyltransferases
Lignin
microarray technology
mutants
Mutation
Oligonucleotide Array Sequence Analysis
P values
Phenotype
Plant cells
Plants
Regression Analysis
Xylem
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Summary:Coexpression patterns of gene expression across many microarray data sets may reveal networks of genes involved in linked processes. To identify factors involved in cellulose biosynthesis, we used a regression method to analyze 408 publicly available Affymetrix Arabidopsis microarrays. Expression of genes previously implicated in cellulose synthesis, as well as several uncharacterized genes, was highly coregulated with expression of cellulose synthase (CESA) genes. Four candidate genes, which were coexpressed with CESA genes implicated in secondary cell wall synthesis, were investigated by mutant analysis. Two mutants exhibited irregular xylem phenotypes similar to those observed in mutants with defects in secondary cellulose synthesis and were designated irx8 and irx13. Thus, the general approach developed here is useful for identification of elements of multicomponent processes.
ISSN:0027-8424
1091-6490
DOI:10.1073/pnas.0503392102