title: Identification of pathways directly regulated by SHORT VEGETATIVE PHASE during vegetative and reproductive development in Arabidopsis.
abstract: BACKGROUND
  MADS-domain transcription factors play important roles during plant development. The Arabidopsis MADS-box gene SHORT VEGETATIVE PHASE (SVP) is a key regulator of two developmental phases. It functions as a repressor of the floral transition during the vegetative phase and later it contributes to the specification of floral meristems. How these distinct activities are conferred by a single transcription factor is unclear, but interactions with other MADS domain proteins which specify binding to different genomic regions is likely one mechanism.
  
  
  RESULTS
  To compare the genome-wide DNA binding profile of SVP during vegetative and reproductive development we performed ChIP-seq analyses. These ChIP-seq data were combined with tiling array expression analysis, induction experiments and qRT-PCR to identify biologically relevant binding sites. In addition, we compared genome-wide target genes of SVP with those published for the MADS domain transcription factors FLC and AP1, which interact with SVP during the vegetative and reproductive phases, respectively.
  
  
  CONCLUSIONS
  Our analyses resulted in the identification of pathways that are regulated by SVP including those controlling meristem development during vegetative growth and flower development whereas floral transition pathways and hormonal signaling were regulated predominantly during the vegetative phase. Thus, SVP regulates many developmental pathways, some of which are common to both of its developmental roles whereas others are specific to only one of them.
authors.forename: Veronica
authors.initials: V
authors.lastname: Gregis
authors.forename: Fernando
authors.initials: F
authors.lastname: Andrés
authors.forename: Alice
authors.initials: A
authors.lastname: Sessa
authors.forename: Rosalinda F
authors.initials: RF
authors.lastname: Guerra
authors.forename: Sara
authors.initials: S
authors.lastname: Simonini
authors.forename: Julieta L
authors.initials: JL
authors.lastname: Mateos
authors.forename: Stefano
authors.initials: S
authors.lastname: Torti
authors.forename: Federico
authors.initials: F
authors.lastname: Zambelli
authors.forename: Gian Marco
authors.initials: GM
authors.lastname: Prazzoli
authors.forename: Katrine N
authors.initials: KN
authors.lastname: Bjerkan
authors.forename: Paul E
authors.initials: PE
authors.lastname: Grini
authors.forename: Giulio
authors.initials: G
authors.lastname: Pavesi
authors.forename: Lucia
authors.initials: L
authors.lastname: Colombo
authors.forename: George
authors.initials: G
authors.lastname: Coupland
authors.forename: Martin M
authors.initials: MM
authors.lastname: Kater
mesh_terms: D017360:Arabidopsis / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D029681:Arabidopsis Proteins / Q000235:genetics* / Q000378:metabolism; D001483:Base Sequence; D018744:DNA, Plant / Q000235:genetics* / Q000378:metabolism; D035264:Flowers / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D018507:Gene Expression Regulation, Developmental; D018506:Gene Expression Regulation, Plant; D053263:Gene Regulatory Networks; D018745:Genome, Plant; D055106:Genome-Wide Association Study; D026161:MADS Domain Proteins / Q000235:genetics / Q000378:metabolism; D018519:Meristem / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D008969:Molecular Sequence Data; D011485:Protein Binding; D014157:Transcription Factors / Q000235:genetics* / Q000378:metabolism
chemical_list: C091535:AP1 protein, Arabidopsis; D029681:Arabidopsis Proteins; D018744:DNA, Plant; C418902:At5g10140 protein, Arabidopsis; D026161:MADS Domain Proteins; C407549:SVP protein, Arabidopsis; D014157:Transcription Factors