title: Microarray analysis of developing flax hypocotyls identifies novel transcripts correlated with specific stages of phloem fibre differentiation.
abstract: OBJECTIVE
  Hypocotyls are a commonly used model to study primary growth in plants, since post-germinative hypocotyls increase in size by cell elongation rather than cell division. Flax hypocotyls produce phloem fibres in bundles one to two cell layers thick, parallel to the protoxylem poles of the stele. Cell wall deposition within these cells occurs rapidly at a well-defined stage of development. The aim was to identify transcripts associated with distinct stages of hypocotyl and phloem fibre development.
  
  
  METHODS
  Stages of flax hypocotyl development were defined by analysing hypocotyl length in relation to fibre secondary wall deposition. Selected stages of development were used in microarray analyses to identify transcripts involved in the transition from elongation to secondary cell wall deposition in fibres. Expression of specific genes was confirmed by qRT-PCR and by enzymatic assays.
  
  
  RESULTS
  Genes enriched in the elongation phase included transcripts related to cell-wall modification or primary-wall deposition. Transcripts specifically enriched at the transition between elongation and secondary wall deposition included beta-galactosidase and arabinogalactan proteins. Later stages of wall development showed an increase in secondary metabolism-related transcripts, chitinases and glycosyl hydrolases including KORRIGAN. Microarray analysis also identified groups of transcription factors enriched at one or more stages of fibre development. Subsequent analysis of a differentially expressed beta-galactosidase confirmed that the post-elongation increase in beta-galactosidase enzyme activity was localized to phloem fibres.
  
  
  CONCLUSIONS
  Transcripts were identified associated with specific stages of hypocotyl development, in which phloem fibre cells were undergoing thickening of secondary walls. Temporal and spatial regulation of beta-galactosidase activity suggests a role for this enzyme in remodelling of flax bast fibre cell walls during secondary cell wall deposition.
authors.affiliation: Department of Biological Sciences, University of Alberta, Edmonton, Canada.
authors.forename: Melissa J
authors.initials: MJ
authors.lastname: Roach
authors.forename: Michael K
authors.initials: MK
authors.lastname: Deyholos
mesh_terms: D002473:Cell Wall / Q000378:metabolism; D002688:Chitinases / Q000378:metabolism; D020224:Expressed Sequence Tags; D019597:Flax / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D017343:Genes, Plant; D018546:Hypocotyl / Q000254:growth & development* / Q000378:metabolism; D009088:Mucoproteins / Q000378:metabolism; D009699:N-Glycosyl Hydrolases / Q000378:metabolism; D020411:Oligonucleotide Array Sequence Analysis; D052585:Phloem / Q000254:growth & development* / Q000378:metabolism; D010940:Plant Proteins / Q000378:metabolism; D020133:Reverse Transcriptase Polymerase Chain Reaction; D014157:Transcription Factors / Q000378:metabolism; D001616:beta-Galactosidase / Q000378:metabolism
chemical_list: D009088:Mucoproteins; D010940:Plant Proteins; D014157:Transcription Factors; C006619:arabinogalactan proteins; D002688:Chitinases; D001616:beta-Galactosidase; D009699:N-Glycosyl Hydrolases