[Beg-sysbiol] A stele-enriched gene regulatory network in the Arabidopsis root
A stele-enriched gene regulatory network in the Arabidopsis root Siobhan M Brady^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1>, ^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Lifang Zhang^3 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a3> , Molly Megraw^4 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a4> , Natalia J Martinez^5 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a5> , Eric Jiang^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Charles S Yi^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Weilin Liu^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Anna Zeng^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Mallorie Taylor-Teeples^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Dahae Kim^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Sebastian Ahnert^6 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a6> , Uwe Ohler^4 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a4> , Doreen Ware^3 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a3>, ^7 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a7> , Albertha J M Walhout^5 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a5> & Philip N Benfey^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#top>*Abstract* Tightly controlled gene expression is a hallmark of multicellular development and is accomplished by transcription factors (TFs) and microRNAs (miRNAs). Although many studies have focused on identifying downstream targets of these molecules, less is known about the factors that regulate their differential expression. We used data from high spatial resolution gene expression experiments and yeast one-hybrid (Y1H) and two-hybrid (Y2H) assays to delineate a subset of interactions occurring within a gene regulatory network (GRN) that determines tissue-specific TF and miRNA expression in plants. We find that upstream TFs are expressed in more diverse cell types than their targets and that promoters that are bound by a relatively large number of TFs correspond to key developmental regulators. The regulatory consequence of many TFs for their target was experimentally determined using genetic analysis. Remarkably, molecular phenotypes were identified for 65% of the TFs, but morphological phenotypes were associated with only 16%. This indicates that the GRN is robust, and that gene expression changes may be canalized or buffered. http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html
Interessant paperke! Vooral de observatie dat genen die door veel TF's gereguleerd worden blijkbaar belangrijke ontwikkelings factoren zijn. Cedric On 01/18/2011 07:53 PM, Klaas Vandepoele wrote:
A stele-enriched gene regulatory network in the Arabidopsis root
Siobhan M Brady^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1>, ^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Lifang Zhang^3 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a3> , Molly Megraw^4 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a4> , Natalia J Martinez^5 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a5> , Eric Jiang^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Charles S Yi^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Weilin Liu^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Anna Zeng^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Mallorie Taylor-Teeples^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Dahae Kim^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Sebastian Ahnert^6 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a6> , Uwe Ohler^4 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a4> , Doreen Ware^3 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a3>, ^7 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a7> , Albertha J M Walhout^5 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a5> & Philip N Benfey^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1>
<http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#top>*Abstract*
Tightly controlled gene expression is a hallmark of multicellular development and is accomplished by transcription factors (TFs) and microRNAs (miRNAs). Although many studies have focused on identifying downstream targets of these molecules, less is known about the factors that regulate their differential expression. We used data from high spatial resolution gene expression experiments and yeast one-hybrid (Y1H) and two-hybrid (Y2H) assays to delineate a subset of interactions occurring within a gene regulatory network (GRN) that determines tissue-specific TF and miRNA expression in plants. We find that upstream TFs are expressed in more diverse cell types than their targets and that promoters that are bound by a relatively large number of TFs correspond to key developmental regulators. The regulatory consequence of many TFs for their target was experimentally determined using genetic analysis. Remarkably, molecular phenotypes were identified for 65% of the TFs, but morphological phenotypes were associated with only 16%. This indicates that the GRN is robust, and that gene expression changes may be canalized or buffered.
http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html
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-- ================================================================== Cedric Simillion, PhD Tel:+32 (0)9 331 38 23 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM http://bioinformatics.psb.ugent.be ==================================================================
Sorry, that reply was only intended for Klaas. :-) On 01/19/2011 01:30 PM, Cedric Simillion wrote:
Interessant paperke! Vooral de observatie dat genen die door veel TF's gereguleerd worden blijkbaar belangrijke ontwikkelings factoren zijn.
Cedric
On 01/18/2011 07:53 PM, Klaas Vandepoele wrote:
A stele-enriched gene regulatory network in the Arabidopsis root
Siobhan M Brady^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1>, ^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Lifang Zhang^3 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a3> , Molly Megraw^4 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a4> , Natalia J Martinez^5 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a5> , Eric Jiang^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Charles S Yi^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Weilin Liu^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1> , Anna Zeng^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Mallorie Taylor-Teeples^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Dahae Kim^2 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a2> , Sebastian Ahnert^6 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a6> , Uwe Ohler^4 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a4> , Doreen Ware^3 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a3>, ^7 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a7> , Albertha J M Walhout^5 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a5> & Philip N Benfey^1 <http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#a1>
<http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html#top>*Abstract*
Tightly controlled gene expression is a hallmark of multicellular development and is accomplished by transcription factors (TFs) and microRNAs (miRNAs). Although many studies have focused on identifying downstream targets of these molecules, less is known about the factors that regulate their differential expression. We used data from high spatial resolution gene expression experiments and yeast one-hybrid (Y1H) and two-hybrid (Y2H) assays to delineate a subset of interactions occurring within a gene regulatory network (GRN) that determines tissue-specific TF and miRNA expression in plants. We find that upstream TFs are expressed in more diverse cell types than their targets and that promoters that are bound by a relatively large number of TFs correspond to key developmental regulators. The regulatory consequence of many TFs for their target was experimentally determined using genetic analysis. Remarkably, molecular phenotypes were identified for 65% of the TFs, but morphological phenotypes were associated with only 16%. This indicates that the GRN is robust, and that gene expression changes may be canalized or buffered.
http://www.nature.com/msb/journal/v7/n1/full/msb2010114.html
_______________________________________________ Beg-sysbiol mailing list Beg-sysbiol@psb.ugent.be https://maillist.psb.ugent.be/mailman/listinfo/beg-sysbiol
-- ================================================================== Cedric Simillion, PhD Tel:+32 (0)9 331 38 23 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM http://bioinformatics.psb.ugent.be ==================================================================
_______________________________________________ Beg-sysbiol mailing list Beg-sysbiol@psb.ugent.be https://maillist.psb.ugent.be/mailman/listinfo/beg-sysbiol
-- ================================================================== Cedric Simillion, PhD Tel:+32 (0)9 331 38 23 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM http://bioinformatics.psb.ugent.be ==================================================================
participants (2)
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Cedric Simillion -
Klaas Vandepoele