Works (60)

2022 journal article

Field-grown soybean shows genotypic variation in physiological and seed composition responses to heat stress during seed development

ENVIRONMENTAL AND EXPERIMENTAL BOTANY, 195.

By: A. Ortiz*, I. De Smet*, R. Sozzani & A. Locke

author keywords: Photosynthesis; V-cmax; Respiration; Yield; Seed composition
Sources: Web Of Science, ORCID
Added: March 14, 2022

2022 journal article

Gene regulatory networks for compatible versus incompatible grafts identify a role for SlWOX4 during junction formation

PLANT CELL, 34(1), 535–556.

Sources: Web Of Science, ORCID
Added: February 7, 2022

2022 article

POPEYE intercellular localization mediates cell-specific iron deficiency responses

Muhammad, D. S., Clark, N. M., Haque, S., Williams, C. M., Sozzani, R., & Long, T. A. (2022, August 3). PLANT PHYSIOLOGY, Vol. 8.

By: D. Muhammad, N. Clark, S. Haque, C. Williams, R. Sozzani & T. Long

Sources: Web Of Science, ORCID
Added: August 13, 2022

2022 journal article

RNA-Seq and Gene Regulatory Network Analyses Uncover Candidate Genes in the Early Defense to Two Hemibiotrophic Colletorichum spp. in Strawberry

FRONTIERS IN GENETICS, 12.

By: T. Adhikari, R. Aryal, L. Redpath, L. Broeck n, H. Ashrafi, A. Philbrick, R. Jacobs n, R. Sozzani, F. Louws

author keywords: Colletotrichum acutatum; Colletotrichum gloeosporioides; Fragaria x ananassa; rate-reducing resistance; gene regulatory network
Sources: Web Of Science, ORCID
Added: April 25, 2022

2021 journal article

Cell-by-cell dissection of phloem development links a maturation gradient to cell specialization

SCIENCE, 374(6575), 1577-+.

Sources: Web Of Science, ORCID
Added: February 7, 2022

2021 review

Divide and Conquer: The Initiation and Proliferation of Meristems

[Review of ]. CRITICAL REVIEWS IN PLANT SCIENCES, 40(2), 147–156.

By: M. Schwartz, R. Peters, A. Hunt, A. Abdul-Matin n, L. Broeck n & R. Sozzani

author keywords: Founder cells; meristem initiation; meristem maintenance; procambium; root apical meristem; shoot apical meristem
Sources: Web Of Science, ORCID
Added: May 10, 2021

2021 journal article

Down-regulation of Fra a 1.02 in strawberry fruits causes transcriptomic and metabolic changes compatible with an altered defense response

HORTICULTURE RESEARCH, 8(1).

Sources: Web Of Science, ORCID
Added: April 19, 2021

2021 journal article

Integrated omics networks reveal the temporal signaling events of brassinosteroid response in Arabidopsis

NATURE COMMUNICATIONS, 12(1).

Sources: Web Of Science, ORCID
Added: October 26, 2021

2021 journal article

Precise transcriptional control of cellular quiescence by BRAVO/WOX5 complex in Arabidopsis roots

MOLECULAR SYSTEMS BIOLOGY, 17(6).

By: I. Betegon-Putze*, J. Mercadal*, N. Bosch*, A. Planas-Riverola*, M. Marques-Bueno*, J. Vilarrasa-Blasi*, D. Frigola*, R. Burkart* ...

author keywords: BRAVO; mathematical modelling; quiescent centre; root growth; WOX5
Sources: Web Of Science, ORCID
Added: July 12, 2021

2021 article

Spatiotemporal Gene Expression Profiling and Network Inference: A Roadmap for Analysis, Visualization, and Key Gene Identification

MODELING TRANSCRIPTIONAL REGULATION, Vol. 2328, pp. 47–65.

author keywords: Gene regulatory network inference; RNA sequencing; Bioinformatics; Network visualization
Sources: Web Of Science, ORCID
Added: October 4, 2021

2020 journal article

BAM1/2 receptor kinase signaling drives CLE peptide-mediated formative cell divisions in Arabidopsis roots

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 117(51), 32750–32756.

By: A. Crook*, A. Willoughby*, O. Hazak*, S. Okuda*, K. VanDerMolen*, C. Soyars*, P. Cattaneo*, N. Clark ...

author keywords: Arabidopsis; receptor kinase; cell cycle; SHORT-ROOT; CLE peptide
Sources: Web Of Science, ORCID
Added: January 19, 2021

2020 chapter

BioVision Tracker: A semi-automated image analysis software for spatiotemporal gene expression tracking in Arabidopsis thaliana

In Methods in Cell Biology (Vol. 160, pp. 419–436).

By: E. Buckner, I. Madison, C. Melvin, T. Long, R. Sozzani & C. Williams

Sources: Crossref, ORCID, Web Of Science
Added: June 17, 2020

2020 article

Editorial overview: Directionality and precision - how signaling and gene regulation drive plant development and growth

Van Norman, J. M., Strader, L. C., & Sozzani, R. (2020, October). CURRENT OPINION IN PLANT BIOLOGY, Vol. 57, pp. A1–A3.

By: J. Van Norman*, L. Strader* & R. Sozzani

Sources: Web Of Science, ORCID
Added: January 19, 2021

2020 journal article

Gene Regulatory Network Inference: Connecting Plant Biology and Mathematical Modeling

Frontiers in Genetics, 11.

author keywords: gene regulatory network; network properties; network inference; machine learning; experimental methodologies
Sources: Crossref, ORCID, Web Of Science
Added: July 13, 2020

2020 chapter

MAGIC: Live imaging of cellular division in plant seedlings using lightsheet microscopy

In Methods in Cell Biology (Vol. 160, pp. 405–418).

By: I. Madison, C. Melvin, E. Buckner, C. Williams, R. Sozzani & T. Long

Sources: Crossref, ORCID, Web Of Science
Added: June 17, 2020

2020 journal article

Novel Imaging Modalities Shedding Light on Plant Biology: Start Small and Grow Big

Annual Review of Plant Biology, 71(1), 789–816.

author keywords: Forster resonance energy transfer; scanning fluorescent correlation spectroscopy; microfluid devices; light sheet microscopy; imaging of macroscopic traits; multiscale imaging techniques
Sources: Crossref, ORCID, Web Of Science
Added: September 14, 2020

2020 journal article

Protein complex stoichiometry and expression dynamics of transcription factors modulate stem cell division

Proceedings of the National Academy of Sciences, 117(26), 15332–15342.

author keywords: protein complex stoichiometry; intercellular protein movement; mathematical modeling; expression dynamics; transcription factor
Sources: Crossref, ORCID
Added: September 14, 2020

2020 journal article

tuxnet: a simple interface to process RNA sequencing data and infer gene regulatory networks

PLANT JOURNAL, 101(3), 716–730.

By: R. Spurney, L. Broeck n, N. Clark, A. Fisher, M. Balaguer n & R. Sozzani

author keywords: Arabidopsis thaliana; gene regulatory network inference; graphical user interface; RNA sequencing processing; stem cell maintenance; technical advance
Sources: Web Of Science, ORCID
Added: December 9, 2019

2019 journal article

Automated Imaging, Tracking, and Analytics Pipeline for Differentiating Environmental Effects on Root Meristematic Cell Division

Frontiers in Plant Science, 10.

By: E. Buckner n, I. Madison n, H. Chou n, A. Matthiadis n, C. Melvin n, R. Sozzani, C. Williams n, T. Long

author keywords: light sheet imaging; image analysis; cell cycle progression; heat stress and iron deficiency stresses; combined stresses
Sources: Crossref, ORCID
Added: December 4, 2019

2019 journal article

Characterizing the involvement of FaMADS9 in the regulation of strawberry fruit receptacle development

Plant Biotechnology Journal, 18(4), 929–943.

Sources: Web Of Science, ORCID, Crossref
Added: November 11, 2019

2019 journal article

Computational prediction of gene regulatory networks in plant growth and development

Current Opinion in Plant Biology, 47, 96–105.

By: S. Haque n, J. Ahmad n, N. Clark n, C. Williams & R. Sozzani

Sources: Web Of Science, ORCID, Crossref
Added: February 8, 2019

2019 journal article

DOF2.1 Controls Cytokinin-Dependent Vascular Cell Proliferation Downstream of TMO5/LHW

CURRENT BIOLOGY, 29(3), 520-+.

By: W. Smet*, I. Sevilem*, M. Luis Balaguer n, B. Wybouw*, E. Mor*, S. Miyashima*, B. Blob*, P. Roszak* ...

Sources: Web Of Science, ORCID
Added: February 18, 2019

2019 journal article

Mobile PEAR transcription factors integrate hormone and miRNA cues to prime cambial growth

Nature, 565(7740), 490–494.

By: S. Miyashima*, P. Roszak*, I. Sevilem*, K. Toyokura*, B. Blob*, J. Heo*, N. Mellor*, H. Help-Rinta-Rahko* ...

Sources: Web Of Science, ORCID
Added: February 8, 2019

2019 journal article

Nucleo-cytoplasmic Partitioning of ARF Proteins Controls Auxin Responses in Arabidopsis thaliana

MOLECULAR CELL, 76(1), 177-+.

By: S. Powers*, A. Holehouse*, D. Korasick*, K. Schreiber*, N. Clark, H. Jing*, R. Emenecker*, S. Han* ...

Sources: Web Of Science, ORCID
Added: October 21, 2019

2019 journal article

Stem-cell-ubiquitous genes spatiotemporally coordinate division through regulation of stem-cell-specific gene networks

NATURE COMMUNICATIONS, 10.

By: N. Clark, E. Buckner, A. Fisher, E. Nelson n, T. Nguyen, A. Simmons*, M. Balaguer n, T. Butler-Smith n ...

Sources: Web Of Science, ORCID
Added: December 30, 2019

2019 journal article

The Lateral Root Cap Acts as an Auxin Sink that Controls Meristem Size

CURRENT BIOLOGY, 29(7), 1199-+.

Sources: Web Of Science, ORCID
Added: April 15, 2019

2018 journal article

Exposure to heavy metal stress triggers changes in plasmodesmatal permeability via deposition and breakdown of callose

JOURNAL OF EXPERIMENTAL BOTANY, 69(15), 3715–3728.

By: R. O'Lexy*, K. Kasai*, N. Clark n, T. Fujiwara*, R. Sozzani & K. Gallagher*

author keywords: Callose; copper; iron; nutrient stress; plasmodesmata; root development
Sources: Web Of Science, ORCID
Added: August 6, 2018

2018 journal article

GTL1 and DF1 regulate root hair growth through transcriptional repression of ROOT HAIR DEFECTIVE 6-LIKE 4 in Arabidopsis

DEVELOPMENT, 145(3).

By: M. Shibata*, C. Breuer*, A. Kawamura*, N. Clark n, B. Rymen*, L. Braidwood*, K. Morohashi*, W. Busch* ...

author keywords: Root hair; Cell growth; Trihelix transcription factor; Gene regulatory network
Sources: Web Of Science, ORCID
Added: August 6, 2018

2018 chapter

Identifying Differentially Expressed Genes Using Fluorescence-Activated Cell Sorting (FACS) and RNA Sequencing from Low Input Samples

In L. von Stechow & A. Santos Delgado (Eds.), Computational Cell Biology (pp. 139–151).

By: N. Clark n, A. Fisher n & R. Sozzani

Ed(s): L. Stechow & A. Santos Delgado

author keywords: Protoplasting; Fluorescence activated cell sorting; RNA sequencing; Differential expression; Low input samples
Sources: Web Of Science, ORCID
Added: February 8, 2019

2018 conference paper

Tracking Gene Expression via Light Sheet Microscopy and Computer Vision in Living Organisms

2018 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 818–821.

By: E. Buckner n, C. Ottley n, C. Williams n, A. Luis Balaguer n, C. Melvin n & R. Sozzani

Event: 2018 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC)

Sources: NC State University Libraries, ORCID
Added: February 8, 2019

2017 journal article

Auxin minimum triggers the developmental switch from cell division to cell differentiation in the Arabidopsis root

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 114(36), E7641–E7649.

author keywords: plant hormones; cell differentiation; root meristem; computational modeling
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Dose-Duration Reciprocity for G protein activation: Modulation of kinase to substrate ratio alters cell signaling

PLOS ONE, 12(12).

By: K. Liao*, C. Melvin, R. Sozzani, R. Jones*, T. Elston* & A. Jones*

Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Framework for gradual progression of cell ontogeny in the Arabidopsis root meristem

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 114(42), E8922–E8929.

By: J. Wendrich*, B. Moller*, S. Li*, S. Saiga*, R. Sozzani, P. Benfey*, B. De Rybel*, D. Weijers*

author keywords: plant development; root meristem; Arabidopsis; transcriptional regulation
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Genetic Architecture and Molecular Networks Underlying Leaf Thickness in Desert-Adapted Tomato Solanum pennellii

PLANT PHYSIOLOGY, 175(1), 376–391.

By: V. Coneva*, M. Frank*, M. Balaguer n, M. Li*, R. Sozzani & D. Chitwood*

Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 chapter

Inferring Gene Regulatory Networks in the Arabidopsis Root Using a Dynamic Bayesian Network Approach

In K. Kaufmann & B. Mueller-Roeber (Eds.), Plant Gene Regulatory Networks (pp. 331–348).

By: M. Luis Balaguer n & R. Sozzani

Ed(s): K. Kaufmann & B. Mueller-Roeber

author keywords: Gene regulatory network; Dynamic Bayesian network; Ordinary differential equation; Arabidopsis root
Sources: Web Of Science, ORCID
Added: February 8, 2019

2017 chapter

Measuring Protein Movement, Oligomerization State, and Protein–Protein Interaction in Arabidopsis Roots Using Scanning Fluorescence Correlation Spectroscopy (Scanning FCS)

In W. Busch (Ed.), Plant Genomics (pp. 251–266).

By: N. Clark n & R. Sozzani

Ed(s): W. Busch

author keywords: Scanning fluorescence correlation spectroscopy; Diffusion coefficient; Protein movement; Oligomerization state; Protein stoichiometry
Sources: Web Of Science, ORCID
Added: February 8, 2019

2017 journal article

Predicting gene regulatory networks by combining spatial and temporal gene expression data in Arabidopsis root stem cells

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 114(36), E7632–E7640.

By: M. Balaguer n, A. Fisher, N. Clark, M. Fernandez-Espinosa*, B. Moller*, D. Weijers*, J. Lohmann*, C. Williams ...

author keywords: root stem cell; root development; cell-type expression profile; gene regulatory network; modeling
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Gene and networks regulating the root stem cell niche of Arabidopsis

Curr Opin Plant Biol, 29, 38–43.

By: A. Fisher & R. Sozzani

Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Light sheet microscopy reveals more gradual light attenuation in light-green versus dark-green soybean leaves

JOURNAL OF EXPERIMENTAL BOTANY, 67(15), 4697–4709.

By: R. Slattery*, A. Grennan*, M. Sivaguru*, R. Sozzani & D. Ort*

author keywords: Chlorophyll; Glycine max; leaf light environment; light sheet microscopy; light use efficiency; photosynthesis; photosynthetic efficiency; soybean
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Multi-sample Arabidopsis Growth and Imaging Chamber (MAGIC) for long term imaging in the ZEISS Lightsheet Z.1

Developmental Biology, 419(1), 19–25.

By: M. Luis Balaguer n, M. Ramos-Pezzotti, M. Rahhal n, C. Melvin, E. Johannes n, T. Horn, R. Sozzani

author keywords: Arabidopsis root; Light sheet; 3D printing; Time-lapse imaging
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Tracking transcription factor mobility and interaction in Arabidopsis roots with fluorescence correlation spectroscopy

Elife, 5.

By: N. Clark, E. Hinde, C. Winter, A. Fisher, G. Crosti, I. Blilou, E. Gratton, P. Benfey, R. Sozzani

Source: NC State University Libraries
Added: August 6, 2018

2015 journal article

Bird and Scarecrow proteins organize tissue formation in Arabidopsis roots

Science, 350(6259), 426–430.

By: M. Moreno-Risueno*, R. Sozzani, G. Yardimici, J. Petricka*, T. Vernoux*, I. Blilou*, J. Alonso, C. Winter* ...

Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 review

Advanced imaging techniques for the study of plant growth and development

[Review of ]. TRENDS IN PLANT SCIENCE, 19(5), 304–310.

author keywords: imaging techniques; plant growth and development; systems-level modeling.
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 review

Experimental data and computational modeling link auxin gradient and development in the Arabidopsis root

[Review of ]. Frontiers in Plant Science, 5.

By: N. Clark, M. Balaguer & R. Sozzani

Source: NC State University Libraries
Added: August 6, 2018

2014 article

Intercellular Protein Movement: Deciphering the Language of Development

ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY, VOL 30, Vol. 30, pp. 207–233.

By: K. Gallagher*, R. Sozzani & C. Lee n

author keywords: Arabidopsis development; plasmodesmata; non-cell-autonomous proteins; cell-to-cell signaling
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 review

Omics and modelling approaches for understanding regulation of asymmetric cell divisions in arabidopsis and other angiosperm plants

[Review of ]. ANNALS OF BOTANY, 113(7), 1083–1105.

author keywords: Asymmetric cell division; embryo; root; stomata; lateral root; cortex endodermis initial; omics; Arabidopsis thaliana; Zea mays; maize
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 review

Postembryonic control of root meristem growth and development

[Review of ]. CURRENT OPINION IN PLANT BIOLOGY, 17, 7–12.

By: R. Sozzani & A. Iyer-Pascuzzi*

Sources: Web Of Science, ORCID
Added: August 6, 2018

2013 journal article

Spatial Coordination between Stem Cell Activity and Cell Differentiation in the Root Meristem

Developmental Cell, 26(4), 405–415.

By: L. Moubayidin*, R. Di Mambro*, R. Sozzani, E. Pacifici*, E. Salvi*, I. Terpstra*, D. Bao*, A. van Dijken* ...

Sources: Web Of Science, ORCID
Added: February 8, 2019

2012 journal article

A bistable circuit involving SCARECROW-RETINOBLASTOMA integrates cues to inform asymmetric stem cell division

Cell, 150(5), 1002–1015.

By: A. Cruz-Ramírez*, S. Díaz-Triviño*, I. Blilou*, V. Grieneisen*, R. Sozzani, C. Zamioudis*, P. Miskolczi*, J. Nieuwland* ...

Sources: Web Of Science, ORCID
Added: February 8, 2019

2012 journal article

Integrative systems biology: an attempt to describe a simple weed

Current Opinion in Plant Biology, 15(2), 162–167.

By: L. Liberman*, R. Sozzani & P. Benfey*

Sources: Web Of Science, ORCID
Added: February 8, 2019

2011 journal article

Arabidopsis homologs of the petunia hairy meristem gene are required for maintenance of shoot and root indeterminacy

Plant Physiology, 155(2), 735–750.

By: E. Engstrom*, C. Andersen*, J. Gumulak-Smith*, J. Hu*, E. Orlova*, R. Sozzani, J. Bowman*

Sources: Web Of Science, ORCID
Added: February 8, 2019

2011 journal article

High-throughput phenotyping of multicellular organisms: finding the link between genotype and phenotype

Genome Biology, 12(3), 219.

By: R. Sozzani & P. Benfey*

Sources: Web Of Science, ORCID
Added: February 8, 2019

2010 journal article

Spatiotemporal regulation of cell-cycle genes by SHORTROOT links patterning and growth

Nature, 466(7302), 128–132.

Sources: Crossref, ORCID
Added: March 5, 2020

2010 journal article

The E2FD/DEL2 factor is a component of a regulatory network controlling cell proliferation and development in Arabidopsis

Plant Molecular Biology, 72(4-5), 381–395.

By: R. Sozzani, C. Maggio*, R. Giordo*, E. Umana*, J. Ascencio-Ibañez, L. Hanley-Bowdoin, C. Bergounioux*, R. Cella*, D. Albani*

author keywords: Arabidopsis; Auxin; E2F transcription factors; Plant cell cycle; Plant development
Sources: Web Of Science, ORCID
Added: August 6, 2018

2010 journal article

The SHR/SCR pathway directly activates genes involved in asymmetric cell division in the Arabidopsis root

Nature, 466(7302), 128–132.

By: R. Sozzani, H. Cui, M. Moreno-Risueno, W. Busch, J. Van Norman, T. Vernoux, S. Brady, W. Dewitte, J. Murray, P. Benfey

Source: NC State University Libraries
Added: February 8, 2019

2009 journal article

Development rooted in interwoven networks

Developmental Biology, 331(2), 386.

By: P. Benfey, H. Cui, R. Twigg, T. Long, A. Iyer-Pascuzzi, H. Tsukagoshi, R. Sozzani, T. Jackson, J. Van Norman, M. Moreno-Risueno

Sources: Crossref, ORCID
Added: March 5, 2020

2009 journal article

The Arabidopsis MCM2 gene is essential to embryo development and its over-expression alters root meristem function

The New Phytologist, 184(2), 311–322.

By: D. Ni*, R. Sozzani, S. Blanchet*, S. Domenichini*, C. Reuzeau*, R. Cella*, C. Bergounioux*, C. Raynaud*

author keywords: AtMCM3; DNA replication; lateral root initiation; minichromosome maintenance; root meristem function
Sources: Web Of Science, ORCID
Added: February 8, 2019

2008 journal article

Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection

Plant Physiology, 148(1), 436–454.

By: J. Ascencio-Ibáñez n, R. Sozzani, T. Lee, T. Chu, R. Wolfinger, R. Cella, L. Hanley-Bowdoin

Sources: Web Of Science, ORCID
Added: February 8, 2019

2006 journal article

Interplay between Arabidopsis Activating Factors E2Fb and E2Fa in Cell Cycle Progression and Development

Plant Physiology, 140(4), 1355–1366.

By: R. Sozzani, C. Maggio, S. Varotto, S. Canova, C. Bergounioux, D. Albani, R. Cella

Sources: Web Of Science, ORCID
Added: February 8, 2019

2006 journal article

Two cell-cycle regulated SET-domain proteins interact with proliferating cell nuclear antigen (PCNA) in Arabidopsis

The Plant Journal: For Cell and Molecular Biology, 47(3), 395–407.

By: C. Raynaud*, R. Sozzani, N. Glab*, S. Domenichini*, C. Perennes*, R. Cella*, E. Kondorosi*, C. Bergounioux*

author keywords: cell cycle; S phase; AtE2F; SET domain; proliferating cell nuclear antigen
Sources: Web Of Science, ORCID
Added: February 8, 2019