Malcolm J Bennett

Summary

Affiliation: University of Nottingham
Country: UK

Publications

  1. pmc Recovering complete plant root system architectures from soil via X-ray μ-Computed Tomography
    Stefan Mairhofer
    Centre for Plant Integrative Biology, University of Nottingham, Sutton Bonington Campus, Nottingham, LE12 5RD, UK
    Plant Methods 9:8. 2013
  2. doi request reprint Arabidopsis lateral root development: an emerging story
    Benjamin Peret
    Plant Sciences Division and Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, UK
    Trends Plant Sci 14:399-408. 2009
  3. pmc Sequential induction of auxin efflux and influx carriers regulates lateral root emergence
    Benjamin Peret
    1 Centre for Plant Integrative Biology, University of Nottingham, Loughborough, UK 2 Division of Plant and Crop Sciences, School of Biosciences, University of Nottingham, Loughborough, UK 3 Unité Mixte de Recherche 7265, Commissariat à l Énergie Atomique et aux Énergies Alternatives, Centre National de la Recherche Scientifique, Aix Marseille Universite, Laboratoire de Biologie du Développement des Plantes, Saint Paul lez Durance, France
    Mol Syst Biol 9:699. 2013
  4. doi request reprint Gibberellin signaling in the endodermis controls Arabidopsis root meristem size
    Susana Ubeda-Tomas
    Centre for Plant Integrative Biology, University of Nottingham, Nottingham LE12 5RD, UK
    Curr Biol 19:1194-9. 2009
  5. doi request reprint The auxin influx carrier LAX3 promotes lateral root emergence
    Kamal Swarup
    School of Biosciences and Centre for Plant Integrative Biology, University of Nottingham, LE12 5RD, UK
    Nat Cell Biol 10:946-54. 2008
  6. pmc Integration of hormonal signaling networks and mobile microRNAs is required for vascular patterning in Arabidopsis roots
    Daniele Muraro
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, United Kingdom
    Proc Natl Acad Sci U S A 111:857-62. 2014
  7. pmc Dynamic regulation of auxin oxidase and conjugating enzymes AtDAO1 and GH3 modulates auxin homeostasis
    Nathan Mellor
    Centre for Plant Integrative Biology, Division of Plant and Crop Sciences, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, United Kingdom Centre for Mathematical Medicine and Biology, School of Mathematical Sciences, University of Nottingham, Nottingham NG7 2RD, United Kingdom
    Proc Natl Acad Sci U S A 113:11022-7. 2016
  8. pmc Mathematical modeling elucidates the role of transcriptional feedback in gibberellin signaling
    Alistair M Middleton
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, United Kingdom
    Proc Natl Acad Sci U S A 109:7571-6. 2012
  9. doi request reprint Auxin regulates aquaporin function to facilitate lateral root emergence
    Benjamin Peret
    Centre for Plant Integrative Biology, University of Nottingham, LE12 5RD, UK
    Nat Cell Biol 14:991-8. 2012
  10. pmc RootNav: navigating images of complex root architectures
    Michael P Pound
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington LE12 5RD, United Kingdom
    Plant Physiol 162:1802-14. 2013

Collaborators

Detail Information

Publications44

  1. pmc Recovering complete plant root system architectures from soil via X-ray μ-Computed Tomography
    Stefan Mairhofer
    Centre for Plant Integrative Biology, University of Nottingham, Sutton Bonington Campus, Nottingham, LE12 5RD, UK
    Plant Methods 9:8. 2013
    ..The approach provides high quality root descriptions, but tracks root systems top to bottom and so omits upward-growing (plagiotropic) branches...
  2. doi request reprint Arabidopsis lateral root development: an emerging story
    Benjamin Peret
    Plant Sciences Division and Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, UK
    Trends Plant Sci 14:399-408. 2009
    ..We review how these studies have revealed that the plant hormone auxin represents a common signal that integrates these distinct yet interconnected developmental processes...
  3. pmc Sequential induction of auxin efflux and influx carriers regulates lateral root emergence
    Benjamin Peret
    1 Centre for Plant Integrative Biology, University of Nottingham, Loughborough, UK 2 Division of Plant and Crop Sciences, School of Biosciences, University of Nottingham, Loughborough, UK 3 Unité Mixte de Recherche 7265, Commissariat à l Énergie Atomique et aux Énergies Alternatives, Centre National de la Recherche Scientifique, Aix Marseille Universite, Laboratoire de Biologie du Développement des Plantes, Saint Paul lez Durance, France
    Mol Syst Biol 9:699. 2013
    ..Our study exemplifies how mathematical models can be used to direct experiments to elucidate complex developmental processes...
  4. doi request reprint Gibberellin signaling in the endodermis controls Arabidopsis root meristem size
    Susana Ubeda-Tomas
    Centre for Plant Integrative Biology, University of Nottingham, Nottingham LE12 5RD, UK
    Curr Biol 19:1194-9. 2009
    ..Our study highlights the importance of probing regulatory mechanisms linking molecular- and cellular-scale processes with tissue and organ growth responses...
  5. doi request reprint The auxin influx carrier LAX3 promotes lateral root emergence
    Kamal Swarup
    School of Biosciences and Centre for Plant Integrative Biology, University of Nottingham, LE12 5RD, UK
    Nat Cell Biol 10:946-54. 2008
    ..Increased LAX3 activity reinforces the auxin-dependent induction of a selection of cell-wall-remodelling enzymes, which are likely to promote cell separation in advance of developing lateral root primordia...
  6. pmc Integration of hormonal signaling networks and mobile microRNAs is required for vascular patterning in Arabidopsis roots
    Daniele Muraro
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, United Kingdom
    Proc Natl Acad Sci U S A 111:857-62. 2014
    ..These components form a plausible mechanism capable of patterning vascular tissues in the absence of positional inputs provided by the transport of hormones from the shoot. ..
  7. pmc Dynamic regulation of auxin oxidase and conjugating enzymes AtDAO1 and GH3 modulates auxin homeostasis
    Nathan Mellor
    Centre for Plant Integrative Biology, Division of Plant and Crop Sciences, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, United Kingdom Centre for Mathematical Medicine and Biology, School of Mathematical Sciences, University of Nottingham, Nottingham NG7 2RD, United Kingdom
    Proc Natl Acad Sci U S A 113:11022-7. 2016
    ..We conclude that auxin homeostasis is dependent on AtDAO1, acting in concert with GH3, to maintain auxin at optimal levels for plant growth and development. ..
  8. pmc Mathematical modeling elucidates the role of transcriptional feedback in gibberellin signaling
    Alistair M Middleton
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, United Kingdom
    Proc Natl Acad Sci U S A 109:7571-6. 2012
    ..Moreover, although the contribution of other individual feedback loops seems relatively small, GID1 and DELLA transcriptional regulation acts synergistically with GA20ox feedback...
  9. doi request reprint Auxin regulates aquaporin function to facilitate lateral root emergence
    Benjamin Peret
    Centre for Plant Integrative Biology, University of Nottingham, LE12 5RD, UK
    Nat Cell Biol 14:991-8. 2012
    ..We conclude that auxin promotes LRE by regulating the spatial and temporal distribution of aquaporin-dependent root tissue water transport...
  10. pmc RootNav: navigating images of complex root architectures
    Michael P Pound
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington LE12 5RD, United Kingdom
    Plant Physiol 162:1802-14. 2013
    ..A separate viewer tool is provided to recover a rich set of architectural traits from RootNav's core representation. ..
  11. doi request reprint Root growth in Arabidopsis requires gibberellin/DELLA signalling in the endodermis
    Susana Ubeda-Tomas
    Centre for Plant Integrative Biology, University of Nottingham, Loughborough, LE12 5RD, UK
    Nat Cell Biol 10:625-8. 2008
    ..Our results demonstrate that the endodermis represents the primary GA-responsive tissue regulating organ growth and that endodermal cell expansion is rate-limiting for elongation of other tissues and therefore of the root as a whole...
  12. doi request reprint Lateral root emergence in Arabidopsis is dependent on transcription factor LBD29 regulation of auxin influx carrier LAX3
    Silvana Porco
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Nottingham LE12 5RD, UK
    Development 143:3340-9. 2016
    ..We conclude that sequential LBD29 and LAX3 induction by auxin is required to coordinate cell separation and organ emergence. ..
  13. pmc Recovering the dynamics of root growth and development using novel image acquisition and analysis methods
    Darren M Wells
    Centre for Plant Integrative Biology, University of Nottingham, Sutton Bonington Campus, Loughborough, LE12 5RD, UK
    Philos Trans R Soc Lond B Biol Sci 367:1517-24. 2012
    ..These methods are demonstrated using data gathered during an experimental study of the gravitropic response of Arabidopsis thaliana...
  14. doi request reprint Time-profiling fluorescent reporters in the Arabidopsis root
    Antoine P Larrieu
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington, UK
    Methods Mol Biol 1056:11-7. 2014
    ..Treatment can easily be performed, and this approach is suitable for use in low-throughput chemical screens. We also present a rapid method to analyze fluorescence intensity profiles generated using this protocol. ..
  15. pmc The circadian clock rephases during lateral root organ initiation in Arabidopsis thaliana
    Ute Voß
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Sutton Bonington, Nottingham LE12 5RD, UK
    Nat Commun 6:7641. 2015
    ..Plants lacking or overexpressing core clock components exhibit LR emergence defects. We conclude that the circadian clock acts to gate auxin signalling during LR development to facilitate organ emergence. ..
  16. doi request reprint Hormonal regulation of root growth: integrating local activities into global behaviour
    Susana Ubeda-Tomas
    Centre for Plant Integrative Biology, University of Nottingham, Nottingham, LE12 5RD, UK
    Trends Plant Sci 17:326-31. 2012
    ..Such approaches promise to generate new insights into the mechanisms that control root growth...
  17. doi request reprint Lateral root emergence: a difficult birth
    Benjamin Peret
    Plant Sciences Division, School of Biosciences, University of Nottingham, Loughborough, UK
    J Exp Bot 60:3637-43. 2009
    ....
  18. ncbi request reprint Root gravitropism requires lateral root cap and epidermal cells for transport and response to a mobile auxin signal
    Ranjan Swarup
    School of Biosciences, University of Nottingham, Nottingham, LE12 5RD, UK
    Nat Cell Biol 7:1057-65. 2005
    ..We conclude that gravitropic curvature in Arabidopsis roots is primarily driven by the differential expansion of epidermal cells in response to an influx-carrier-dependent auxin gradient...
  19. doi request reprint Quiescent center initiation in the Arabidopsis lateral root primordia is dependent on the SCARECROW transcription factor
    Tatsuaki Goh
    Department of Biology, Graduate School of Science, Kobe University, Kobe 657 8501, Japan Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Nottingham LE12 5RD, UK
    Development 143:3363-71. 2016
    ..We conclude that de novo QC establishment in lateral root primordia operates via SCR-mediated formative cell division and coincides with the developmental phase transition. ..
  20. pmc Dioxygenase-encoding AtDAO1 gene controls IAA oxidation and homeostasis in Arabidopsis
    Silvana Porco
    Centre for Plant Integrative Biology, Plant and Crop Science Division, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, United Kingdom
    Proc Natl Acad Sci U S A 113:11016-21. 2016
    ..We conclude that the AtDAO1 gene plays a key role regulating auxin homeostasis in Arabidopsis, acting in concert with GH3 genes, to maintain auxin concentration at optimal levels for plant growth and development. ..
  21. pmc Inference of the Arabidopsis lateral root gene regulatory network suggests a bifurcation mechanism that defines primordia flanking and central zones
    Julien Lavenus
    Institut de Recherche pour le Developpement, UMR DIADE, 34394 Montpellier Cedex 5, France Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Loughborough, Leicestershire LE12 5RD, United Kingdom
    Plant Cell 27:1368-88. 2015
    ..Analyses of the expression pattern of ARF7 and ARF5 targets suggest that this patterning mechanism controls flanking and central zone specification in Arabidopsis LR primordia. ..
  22. pmc Stochastic and deterministic multiscale models for systems biology: an auxin-transport case study
    Jamie Twycross
    Centre for Plant Integrative Biology, School of Biosciences, Sutton Bonington Campus, University of Nottingham, Nottingham LE125RD, UK
    BMC Syst Biol 4:34. 2010
    ....
  23. pmc Branching out in roots: uncovering form, function, and regulation
    Jonathan A Atkinson
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington LE12 5RD, United Kingdom J A A, A R, R T, U V, C S, S J M, D M W, M J B andCollege of Science, King Saud University, Riyadh 11451, Kingdom of Saudi Arabia M J B
    Plant Physiol 166:538-50. 2014
    ..We conclude by discussing the challenges and opportunities facing root branching research. ..
  24. doi request reprint Colocalization of fluorescent markers in confocal microscope images of plant cells
    Andrew P French
    Centre for Plant Integrative Biology, Main Building, University of Nottingham, Sutton Bonington, LE12 5RD, UK
    Nat Protoc 3:619-28. 2008
    ..Examples of suitable dyes for such two-color colocalization include Oregon Green or Alexa Fluor 488 dyes in the green range (excited with 488-nm laser line) and Alexa Fluor 555 dye in the red range (excited with 543-nm laser line)...
  25. doi request reprint Plant systems biology: network matters
    Mikael Lucas
    Centre for Plant Integrative Biology, University of Nottingham, Nottingham, UK
    Plant Cell Environ 34:535-53. 2011
    ..We conclude by examining plant models bridging different scales and considering the future prospects of plant systems biology...
  26. doi request reprint Root development: cytokinin transport matters, too!
    Daniele Muraro
    Centre for Plant Integrative Biology, University of Nottingham, LE12 5RD, UK
    Curr Biol 21:R423-5. 2011
    ..Two new studies now demonstrate that cytokinins transported from shoot to roots via the phloem are critical for creating mutually exclusive auxin and cytokinin signalling domains that control root vascular patterning...
  27. doi request reprint Plant development: size matters, and it's all down to hormones
    Susana Ubeda-Tomas
    Centre for Plant Integrative Biology, University of Nottingham, LE12 5RD, UK
    Curr Biol 20:R511-3. 2010
    ....
  28. pmc Root systems biology: integrative modeling across scales, from gene regulatory networks to the rhizosphere
    Kristine Hill
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, LE12 5RD, United Kingdom
    Plant Physiol 163:1487-503. 2013
    ..Here, we describe examples of such approaches and discuss the merits of developing models to span multiple scales, from network to population levels, and to address dynamic interactions between plants and their environment. ..
  29. pmc Modelling hormonal response and development
    Ute Voß
    Centre for Plant Integrative Biology, University of Nottingham, Nottingham, LE12 5RD, UK
    Trends Plant Sci 19:311-9. 2014
    ..Finally, we discuss some of the remaining biological and technical challenges. ..
  30. doi request reprint Biosensors for phytohormone quantification: challenges, solutions, and opportunities
    Darren M Wells
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington LE12 5RD, UK
    Trends Plant Sci 18:244-9. 2013
    ....
  31. pmc New insights into root gravitropic signalling
    Ethel Mendocilla Sato
    University of Antwerp, Biology Department, Plant Growth and Development, Groenenborgerlaan 171, 2020 Antwerpen, Belgium Centre for Plant Integrative Biology, University of Nottingham, Sutton Bonington LE12 5RD, UK
    J Exp Bot 66:2155-65. 2015
    ..This review discusses recent advances in our understanding of root gravitropism in Arabidopsis thaliana and identifies current challenges and future perspectives. ..
  32. pmc Extracting multiple interacting root systems using X-ray microcomputed tomography
    Stefan Mairhofer
    School of Computer Science, University of Nottingham, Jubilee Campus, Nottingham, NG8 1BB, UK
    Plant J 84:1034-43. 2015
    ..This work supports the automatic exploration of supportive and competitive foraging behaviour of plant root systems in natural soil environments. ..
  33. doi request reprint GH3-Mediated Auxin Conjugation Can Result in Either Transient or Oscillatory Transcriptional Auxin Responses
    Nathan Mellor
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, LE12 5RD, UK
    Bull Math Biol 78:210-34. 2016
    ..The transient peak of auxin and subsequent transcriptional response caused by the up-regulation of GH3 represents a possible protective homoeostasis mechanism that may be used by plant cells in response to excess auxin. ..
  34. pmc Structure-function analysis of the presumptive Arabidopsis auxin permease AUX1
    Ranjan Swarup
    School of Biosciences, Sutton Bonington Campus, University of Nottingham, United Kingdom
    Plant Cell 16:3069-83. 2004
    ..Whereas almost all partial-loss-of-function and null alleles cluster in the core permease region, the sole conditional allele aux1-7 modifies the function of the external C-terminal domain...
  35. pmc Phenotyping pipeline reveals major seedling root growth QTL in hexaploid wheat
    Jonathan A Atkinson
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington LE12 5RD, UK
    J Exp Bot 66:2283-92. 2015
    ..These results suggest the presence of a major-effect gene regulating seedling root vigour/growth on chromosome 6D. ..
  36. pmc New insight into the biochemical mechanisms regulating auxin transport in plants
    Ian D Kerr
    School of Biomedical Sciences, University of Nottingham, Queen s Medical Centre, Nottingham NG7 2UH, UK
    Biochem J 401:613-22. 2007
    ..In this review we will appraise the recent transport data and highlight likely future research directions, including the characterization of auxiliary proteins necessary for the regulation of auxin transporters...
  37. pmc Hybrid vertex-midline modelling of elongated plant organs
    John A Fozard
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington LE12 5RD, UK
    Interface Focus 6:20160043. 2016
    ..Asymmetries in the concentrations of auxin between the upper and lower sides of the root lead to bending of the root midline, reflecting a gravitropic response...
  38. doi request reprint One Gene, Many Proteins: Mapping Cell-Specific Alternative Splicing in Plants
    Ranjan Swarup
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Loughborough LE12 5RD, UK
    Dev Cell 39:383-385. 2016
    ..In this issue of Developmental Cell, Li et al. (2016) present a high-resolution expression map of AS events in Arabidopsis root tissues, giving insight into cell-type- and stage-specific AS mechanisms in plants...
  39. doi request reprint The holistic rhizosphere: integrating zones, processes, and semantics in the soil influenced by roots
    Larry M York
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington Campus, LE12 5RD, UK
    J Exp Bot 67:3629-43. 2016
    ....
  40. pmc AtMYB93 is a novel negative regulator of lateral root development in Arabidopsis
    Daniel J Gibbs
    School of Biosciences, University of Birmingham, Birmingham, B15 2TT, UK
    New Phytol 203:1194-207. 2014
    ..Putative AtMYB93 homologues are detected throughout flowering plants and represent promising targets for manipulating root systems in diverse crop species. ..
  41. doi request reprint Systems biology approaches to understand the role of auxin in root growth and development
    Tatsuaki Goh
    Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Loughborough, UK Graduate School of Science, Kobe University, Kobe, Hyogo, Japan
    Physiol Plant 151:73-82. 2014
    ..In this review we initially describe examples of models capturing auxin transport and response pathways, and then discuss increasingly complex models that integrate multiple hormone response pathways, tissues and/or scales. ..
  42. ncbi request reprint Feeling UPBEAT about growth: linking ROS gradients and cell proliferation
    Darren M Wells
    Centre for Plant Integrative Biology, University of Nottingham, UK
    Dev Cell 19:644-6. 2010
    ..2010) identify UPBEAT1 as a key transcription factor in the regulation of ROS distribution, which they find controls the transition between cell proliferation and differentiation in the Arabidopsis root...
  43. ncbi request reprint Comprehensive metabolic profiling of mono- and polyglutamated folates and their precursors in plant and animal tissue using liquid chromatography/negative ion electrospray ionisation tandem mass spectrometry
    Lee C Garratt
    Plant Sciences Division, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough LE12 5RD, UK
    Rapid Commun Mass Spectrom 19:2390-8. 2005
    ....
  44. ncbi request reprint Finding your knockout: reverse genetics techniques for plants
    Sean T May
    Nottingham Arabidopsis Stock Centre, School of Biosciences, Plant Science Division, University of Nottingham, UK
    Mol Biotechnol 20:209-21. 2002
    ..Here we describe a step-by-step guide to the molecular protocols and a description of the bioinformatics approach...