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  • Lateral Root Initiation
    the xylem pole pericycle cells De Rybel et al 2010 Early events during lateral root initiation Local auxin accumulation in primed xylem pole pericycle cells activates the auxin signaling cascade Auxin causes the degradation of IAA14 thereby de repressing ARF7 and 19 and activating downstream gene expression The receptor like kinase ACR4 promotes formative divisions in the primordium and represses cell divisions in surrounding pericycle cells De Smet et al 2008 Abbreviation LOB LATERAL ORGAN BOUNDARIES Péret et al 2009 GATA23 expression analysis Section through a stage I lateral root primordium showing pGATA23 GUS expression at one side of the xylem pole pericycle XPP Asterisks and arrowheads indicate phloem pole and XPP cells respectively De Rybel et al 2010 Publications De Rybel B Vassileva V Parizot B Demeulenaere M Grunewald W Audenaert D Van Campenhout J Overvoorde P Jansen L Vanneste S Moller B Wilson M Holman T Van Isterdael G Brunoud G Vuylsteke M Vernoux T De Veylder L Inzé D Weijers D Bennett MJ Beeckman T A Novel aux IAA28 Signaling Cascade Activates GATA23 dependent Specification of Lateral Root Founder Cell Identity CURR BIOL 2010 20 1697 1706 full text De Smet I Vassileva V De Rybel B Levesque MP Grunewald W Van Damme D Van Noorden G Naudts M Van Isterdael G De Clercq R Wang JY Meuli N Vanneste S Friml J Hilson P Jürgens G Ingram GC Inzé D Benfey PN Beeckman T Receptor like kinase ACR4 restricts formative cell divisions in the Arabidopsis root SCIENCE 2008 322 594 597 full text De Smet I Tetsumura T De Rybel B Frei Dit Frey N Laplaze L Casimiro I Swarup R Naudts M Vanneste S Audenaert D Inze D Bennett MJ Beeckman T Auxin dependent regulation of lateral root positioning in the basal meristem of Arabidopsis

    Original URL path: http://www.psb.vib-ugent.be/root-development/303-lateral-root-initiation (2016-04-26)
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  • Vascular Tissue Development
    identified an auxin regulated bHLH transcription factor dimer as a critical regulator of PCD in vascular cells that is sufficient for triggering these ectopically Figure 1 We showed that this dimer operates independently of tissue identity but is restricted to a small vascular domain by integrating the overlapping transcription patterns of the interacting bHLH proteins Figure 2 Our work reveals a common mechanism for tissue establishment and indeterminacy in vascular development and provides a conceptual framework for developmental control of local cell divisions in plants Our future work will focus on understanding how the TMO5 LHW dimer controls PCD through analysis of downstream targets Moreover as correct positioning of the TMO5 LHW dimer is crucial for normal vascular development we also want to know how the exact location of the dimer is restricted People involved Bert De Rybel Project Leader Brecht Wybouw PhD student Wouter Smet PhD student at Wageningen University Nicole van t Wout Hofland PhD student at Wageningen University This project is funded by FWO post doc FWO Odysseus type II and NWO VIDI grants Prev Next Projects Tom Beeckman Group Members Lab Members and Alumni Group in Action Publications Tom Beeckman Research Groups Alain Goossens Lab Ann

    Original URL path: http://www.psb.vib-ugent.be/root-development/411-vascular-tissue-development (2016-04-26)
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  • LRI in Crop Plants
    for the early development of the plant Feix et al 2002 and in which an extensive postembryonic shoot born root system is formed later on Very little is known about the genetic and molecular mechanisms involved in the development and architecture of the root system in major crop species generally monocotyledonous plants Lack of insight is certainly a consequence of the difficulty to access and observe this organ in its natural habitat namely the soil Moreover and probably because of this hidden character the root has been neglected for a long time in crop improvement and in agricultural approaches aiming at increasing shoot biomass Nevertheless while most of the work has been done on Arabidopsis thaliana the awareness of the importance of the root system in modulating plant growth together with progress in sequencing and new molecular techniques has caused renewed interest in understanding molecular mechanisms in crop species Hochholdinger and Zimmermann 2008 Coudert et al 2010 Parizot et al 2012 Auxin and Pericycle In Arabidopsis thaliana lateral root forming competence of pericycle cells is associated with their position at the xylem poles and depends on the establishment of protoxylem localized auxin response maxima In maize our histological analyses revealed an interruption of the pericycle at the xylem poles and confirmed the earlier reported proto phloem specific lateral root initiation Phloempole pericycle cells were larger and had thinner cell walls compared with the other pericycle cells highlighting the heterogeneous character of the maize root pericycle A maize DR5 RFP marker line demonstrated the presence of auxin response maxima in differentiating xylem cells at the root tip and in cells surrounding the proto phloem vessels Chemical inhibition of auxin transport indicated that the establishment of the phloem localized auxin response maxima is crucial for lateral root formation in maize because in their absence random divisions of pericycle and endodermis cells occurred not resulting in organogenesis These data hint at an evolutionarily conserved mechanism in which the establishment of vascular auxin response maxima is required to trigger cells in the flanking outer tissue layer for lateral root initiation It further indicates that lateral root initiation is not dependent on cellular specification or differentiation of the type of vascular tissue Lateral root formation in maize Transversal section through a developing lateral root primordium visualized with Feulgen stain and toluidine blue dye Pc pericycle X xylem asterisk phloem Scale bar 50 um Jansen et al 2012 Auxin response in the maize root visualized by DR5 RFP a Longitudinal section through the root tip g An auxin response maximum is formed at the tip of the growing primordium Scale bars a 200 mm g 100 mm Jansen et al 2012 Selected publications Genomics of root development Root Genomics and Soil Interactions Parizot B Beeckman T 2012 John Wiley Sons pp 3 28 free full text Inducible System for Lateral Roots in Arabidopsis thaliana and Maize Jansen L Parizot B Beeckman T 2013 in Plant Organogenesis Methods and Protocols Ive De Smet ed Methods in Molecular

    Original URL path: http://www.psb.vib-ugent.be/root-development/304-lri-in-crop-plants (2016-04-26)
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  • LRI Transcriptomics
    transcriptional changes upon this synchronized induction of lateral roots resulted in the elucidation of some crucial aspects of LRI Himanen et al 2004 Cell cycle Vanneste et al 2005 SLR IAA14 De Smet et al 2008 ACR4 De Rybel et al 2010 GATA23 De Rybel Audenaert et al 2012 A tool allowing to combine these datasets into a versatile compendium has been developed Parizot et al 2010 and allowed the selection of new candidate genes for the LRI These datasets were also made available in the eFP browser online tool LRI eFP browser LRI datasets compendium Here is a snapshot of the relative expression of GATA23 in these experiments low expression values are masked in grey Prev Next Projects Tom Beeckman Group Members Lab Members and Alumni Group in Action Publications Tom Beeckman Research Groups Alain Goossens Lab Ann Depicker Lab Bruno Cammue Lab Daniel Van Damme Lab Dirk Inzé Lab Frank Van Breusegem Lab Geert De Jaeger Lab Ive De Smet Lab Jenny Russinova Lab Lieven De Veylder Lab Mieke Van Lijsebettens Lab Moritz Nowack Lab Sofie Goormachtig Lab Steven Maere Lab Tom Beeckman Lab Yves Van de Peer Lab Wout Boerjan Lab About PSB PSB Missions The Department

    Original URL path: http://www.psb.vib-ugent.be/root-development/305-lri-transcriptomics (2016-04-26)
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  • FACS
    analysis The standard ALTRA System allows rapid separation of large numbers of specific cell populations with high purity recovery and yield Sorting at data rates up to 10 000 cells per second with air cooled lasers and up to 15 000 cells per second with water cooled lasers is possible The system features eight sort modes Four modes optimize between purity and yield for two sorted populations including one special enrichment mode Three feature the new ALTRASort mixed mode that isolates a high purity population to the left and captures the remainder of the same population to the right This is ideal when working with rare or precious populations The AccuSort mode is for accurate counting when sorting individual cells for cloning with the Autoclone sorting option or for sort matrix verification Extremely versatile the ALTRA Cell Sorting System is based on an industry standard optical platform with an extensive range of laser options allowing almost any combination of excitation wavelengths This user configurable optical design provides unmatched flexibility to satisfy cutting edge applications Prev Next Projects Tom Beeckman Group Members Lab Members and Alumni Group in Action Publications Tom Beeckman Research Groups Alain Goossens Lab Ann Depicker Lab Bruno

    Original URL path: http://www.psb.vib-ugent.be/root-development/306-facs (2016-04-26)
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  • Yves Van de Peer
    B 9052 Gent BELGIUM Fax 32 0 9 33 13 809 Projects Yves Van de Peer Group Members Publications Yves Van de Peer Research Groups Alain Goossens Lab Ann Depicker Lab Bruno Cammue Lab Daniel Van Damme Lab Dirk Inzé Lab Frank Van Breusegem Lab Geert De Jaeger Lab Ive De Smet Lab Jenny Russinova Lab Lieven De Veylder Lab Mieke Van Lijsebettens Lab Moritz Nowack Lab Sofie Goormachtig Lab

    Original URL path: http://www.psb.vib-ugent.be/yves-van-de-peer (2016-04-26)
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  • Group Members
    Yves Van de Peer Research Groups Alain Goossens Lab Ann Depicker Lab Bruno Cammue Lab Daniel Van Damme Lab Dirk Inzé Lab Frank Van Breusegem Lab Geert De Jaeger Lab Ive De Smet Lab Jenny Russinova Lab Lieven De Veylder Lab Mieke Van Lijsebettens Lab Moritz Nowack Lab Sofie Goormachtig Lab Steven Maere Lab Tom Beeckman Lab Yves Van de Peer Lab Wout Boerjan Lab About PSB PSB Missions The

    Original URL path: http://www.psb.vib-ugent.be/group-members-yvpee (2016-04-26)
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  • Introduction
    genomes and genetic networks in plants and other organisms Information about the different research groups can be found here Next Projects Yves Van de Peer Group Members Publications Yves Van de Peer Research Groups Alain Goossens Lab Ann Depicker Lab Bruno Cammue Lab Daniel Van Damme Lab Dirk Inzé Lab Frank Van Breusegem Lab Geert De Jaeger Lab Ive De Smet Lab Jenny Russinova Lab Lieven De Veylder Lab Mieke

    Original URL path: http://www.psb.vib-ugent.be/bioinformatics-yvpee/389-introduction (2016-04-26)
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