Molecular characterisation of the Arabidopsis SBP-box genes

Cardon, Guillermo H.; Höhmann, Susanne; Klein, Joachim; Nettesheim, Klaus; Saedler, Heinz; Huijser, Peter

doi:10.1016/s0378-1119(99)00308-x

Cited by 373 publications

(458 citation statements)

References 22 publications

Supporting

Mentioning

430

Contrasting

Unclassified

Order By: Relevance

“…The AtSPL14 SBP Domain Binds to the Core GTAC Consensus Target Site but Requires an Additional Flanking Nucleotide for Effective Interaction -AtSPL14 (At1g20980) encodes a 1035 amino acid-protein with an SBP DNA-binding domain (http://srs.ebi.ac.uk; IPR004333), a bipartite nuclear localization signal (aa 117-193), and ankyrin repeats that mediate protein-protein interactions (IPR002110; aa 821-941) in the C-terminal region of the protein (9,13,39,40). The highly conserved SBP DNA-binding domain is a Cys-and His-rich region (consensus: CX 4 CX 13 HX 5 HX-15 CQQCX 3 HX 11 C) found only in proteins from photosynthetic organisms (12,13,18,28).…”

Section: Discussionmentioning

confidence: 99%

“…The highly conserved SBP DNA-binding domain is a Cys-and His-rich region (consensus: CX 4 CX 13 HX 5 HX-15 CQQCX 3 HX 11 C) found only in proteins from photosynthetic organisms (12,13,18,28). The founding members of the SBP domain gene family (SBP1 and SBP2 from A. majus) were identified by their ability to bind to the upstream regulatory region of the SQUAMOSA floral meristem identity gene (29).…”

Section: Discussionmentioning

confidence: 99%

“…Previous reports indicated that A. majus proteins and some A. thaliana SBP domain proteins bind DNA encompassing a ten nucleotide motif common to cis regulatory elements in the orthologous A. majus SQUAMOSA and A. thaliana APETALA1 gene promoters and a similar motif in the A. majus DEFH84 promoter in vitro (13,17). Alignment of these sequences revealed a putative consensus DNA-binding motif of TNCGTACAA (13). It appears that GTAC is the core DNA-binding motif for all SBP domains described so far, but nucleotides flanking the core motif are preferred by different SBP domain proteins.…”

Section: Discussionmentioning

confidence: 99%

“…The SBP gene families are comprised of 16 genes in A. thaliana and 19 genes in O. sativa that encode proteins that share the highly conserved SBP DNA-binding domain but are diverse in overall domain structure (12,13). To date, only a few functions for SBP domain proteins have been reported, perhaps due to genetic redundancy of closely related family members.…”

mentioning

confidence: 99%

See 3 more Smart Citations

Identification of a Consensus DNA-Binding Site for the Arabidopsis thaliana SBP Domain Transcription Factor, AtSPL14, and Binding Kinetics by Surface Plasmon Resonance

2008

View full text Add to dashboard Cite

Proteins with a conserved Cys- and His-rich SQUAMOSA promoter binding protein (SBP) domain are transcription factors restricted to photosynthetic organisms that possess a novel two Zn-finger structure DNA-binding domain. Despite the fact that altered expression of some SBP-encoding genes has profound effects on organism growth and development, little is known about SBP domain protein target genes. Misexpression of the Arabidopsis thaliana AtSPL14 SBP domain gene confers resistance to programmed cell death and modifies plant architecture. A consensus DNA-binding motif for AtSPL14 was identified by systematic evolution of ligands by exponential enrichment (SELEX) or random binding site selection (RBSS). DNA recognized by AtSPL14 contained the core binding motif (GTAC) found for other SBP domain proteins, but mutational analyses indicated that at least one additional flanking nucleotide is necessary for effective AtSPL14−DNA interaction. Comparison of several SBP domain amino acid sequences allows us to hypothesize which specific amino acids might participate in this sequence-specific DNA recognition. Electrophoretic mobility shift assays (EMSA) with mutant AtSPL14 DNA-binding domain proteins indicated that not all of the Zn2+ ion coordinating ligands in the second Zn structure are strictly required for DNA binding. Surface plasmon resonance (SPR) was used to evaluate AtSPL14 in vitro binding kinetics for comparison of equilibrium binding constants with other SBP domain proteins. These data provide a strong basis for further experiments aimed at defining and distinguishing the sets of genes regulated by the closely related SBP domain family members.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

mentioning

confidence: 99%

See 2 more Smart Citations

Identification of a Consensus DNA-Binding Site for the Arabidopsis thaliana SBP Domain Transcription Factor, AtSPL14, and Binding Kinetics by Surface Plasmon Resonance

2008

View full text Add to dashboard Cite

show abstract

“…SPL3 encodes a member of the Squamosa promoter-binding family of transcription factors (Cardon et al 1999), ten of which possess a cognate site for miR156 (Rhoades et al 2002). SPL3 is particularly interesting because its mRNA increases early in vegetative development, coincident with a decrease in the level of miR156 .…”

Section: Is Rnai Of Mirna-regulated Genes Functionally Important?mentioning

confidence: 99%

The Function of RNAi in Plant Development

Poethig

Perucatti²,

Yoshikawa³

et al. 2006

Cold Spring Harbor Symposia on Quantitative Biology

View full text Add to dashboard Cite

The morphological phenotype of mutations in genes required for posttranscriptional gene silencing (PTGS) or RNA interference (RNAi) in Arabidopsis demonstrates that this process is critical for normal development. One way in which RNAi contributes to gene regulation is through its involvement in the biogenesis of trans-acting small interfering RNAs (siRNAs). These endogenous siRNAs are derived from noncoding transcripts that are cleaved by a microRNA (miRNA) and mediate the silencing of protein-coding transcripts. Some protein-coding genes are also subject to miRNA-initiated transitive silencing. Several developmentally important transcription factors regulated by these silencing mechanisms have been identified.

show abstract

Transcription Factors ofArabidopsisand Rice: A Genomic Perspective

Riechmann

2018

Annual Plant Reviews Online

View full text Add to dashboard Cite

show abstract

Molecular characterisation of the Arabidopsis SBP-box genes

Cited by 373 publications

References 22 publications

Identification of a Consensus DNA-Binding Site for the Arabidopsis thaliana SBP Domain Transcription Factor, AtSPL14, and Binding Kinetics by Surface Plasmon Resonance

Identification of a Consensus DNA-Binding Site for the Arabidopsis thaliana SBP Domain Transcription Factor, AtSPL14, and Binding Kinetics by Surface Plasmon Resonance

The Function of RNAi in Plant Development

Transcription Factors ofArabidopsisand Rice: A Genomic Perspective

Contact Info

Product

Resources

About