title: A kinetic analysis of the auxin transcriptome reveals cell wall remodeling proteins that modulate lateral root development in Arabidopsis.
abstract: To identify gene products that participate in auxin-dependent lateral root formation, a high temporal resolution, genome-wide transcript abundance analysis was performed with auxin-treated Arabidopsis thaliana roots. Data analysis identified 1246 transcripts that were consistently regulated by indole-3-acetic acid (IAA), partitioning into 60 clusters with distinct response kinetics. We identified rapidly induced clusters containing auxin-response functional annotations and clusters exhibiting delayed induction linked to cell division temporally correlated with lateral root induction. Several clusters were enriched with genes encoding proteins involved in cell wall modification, opening the possibility for understanding mechanistic details of cell structural changes that result in root formation following auxin treatment. Mutants with insertions in 72 genes annotated with a cell wall remodeling function were examined for alterations in IAA-regulated root growth and development. This reverse-genetic screen yielded eight mutants with root phenotypes. Detailed characterization of seedlings with mutations in cellulase3/glycosylhydrolase9b3 and leucine rich extensin2, genes not normally linked to auxin response, revealed defects in the early and late stages of lateral root development, respectively. The genes identified here using kinetic insight into expression changes lay the foundation for mechanistic understanding of auxin-mediated cell wall remodeling as an essential feature of lateral root development.
authors.affiliation: Department of Biology, Wake Forest University, Winston Salem, North Carolina 27109.
authors.forename: Daniel R
authors.initials: DR
authors.lastname: Lewis
authors.forename: Amy L
authors.initials: AL
authors.lastname: Olex
authors.forename: Stacey R
authors.initials: SR
authors.lastname: Lundy
authors.forename: William H
authors.initials: WH
authors.lastname: Turkett
authors.forename: Jacquelyn S
authors.initials: JS
authors.lastname: Fetrow
authors.forename: Gloria K
authors.initials: GK
authors.lastname: Muday
mesh_terms: D017360:Arabidopsis / Q000166:cytology / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D029681:Arabidopsis Proteins / Q000235:genetics* / Q000378:metabolism; D002473:Cell Wall / Q000378:metabolism; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D017930:Genes, Reporter; D006026:Glycoside Hydrolases / Q000235:genetics / Q000378:metabolism; D007210:Indoleacetic Acids / Q000494:pharmacology*; D007700:Kinetics; D005810:Multigene Family; D016254:Mutagenesis, Insertional; D020411:Oligonucleotide Array Sequence Analysis; D010641:Phenotype; D010937:Plant Growth Regulators / Q000494:pharmacology*; D018517:Plant Roots / Q000166:cytology / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D059386:Reverse Genetics; D036226:Seedlings / Q000166:cytology / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D059467:Transcriptome
chemical_list: D029681:Arabidopsis Proteins; D007210:Indoleacetic Acids; C479630:LRX2 protein, Arabidopsis; D010937:Plant Growth Regulators; C000597109:CEL3 protein, Arabidopsis; D006026:Glycoside Hydrolases
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