12 results on '"Pauluzzi, G."'
Search Results
2. Hairy Root Transformation Using Agrobacterium rhizogenes as a Tool for Exploring Cell Type-Specific Gene Expression and Function Using Tomato as a Model
- Author
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Ron, M., primary, Kajala, K., additional, Pauluzzi, G., additional, Wang, D., additional, Reynoso, M. A., additional, Zumstein, K., additional, Garcha, J., additional, Winte, S., additional, Masson, H., additional, Inagaki, S., additional, Federici, F., additional, Sinha, N., additional, Deal, R. B., additional, Bailey-Serres, J., additional, and Brady, S. M., additional
- Published
- 2014
- Full Text
- View/download PDF
3. Surfing along the root ground tissue gene network
- Author
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Pauluzzi, G., primary, Divol, F., additional, Puig, J., additional, Guiderdoni, E., additional, Dievart, A., additional, and Périn, C., additional
- Published
- 2012
- Full Text
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4. Innovation, conservation, and repurposing of gene function in root cell type development.
- Author
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Kajala K, Gouran M, Shaar-Moshe L, Mason GA, Rodriguez-Medina J, Kawa D, Pauluzzi G, Reynoso M, Canto-Pastor A, Manzano C, Lau V, Artur MAS, West DA, Gray SB, Borowsky AT, Moore BP, Yao AI, Morimoto KW, Bajic M, Formentin E, Nirmal NA, Rodriguez A, Pasha A, Deal RB, Kliebenstein DJ, Hvidsten TR, Provart NJ, Sinha NR, Runcie DE, Bailey-Serres J, and Brady SM
- Published
- 2021
- Full Text
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5. Evolutionary flexibility in flooding response circuitry in angiosperms.
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Reynoso MA, Kajala K, Bajic M, West DA, Pauluzzi G, Yao AI, Hatch K, Zumstein K, Woodhouse M, Rodriguez-Medina J, Sinha N, Brady SM, Deal RB, and Bailey-Serres J
- Subjects
- Binding Sites, Chromatin genetics, Gene Expression Regulation, Plant, Medicago truncatula genetics, Medicago truncatula physiology, Multigene Family, Oryza physiology, Plant Roots physiology, Solanum genetics, Solanum physiology, Stress, Physiological, Synteny, Biological Evolution, Floods, Gene Regulatory Networks, Oryza genetics, Plant Proteins genetics, Transcription Factors genetics
- Abstract
Flooding due to extreme weather threatens crops and ecosystems. To understand variation in gene regulatory networks activated by submergence, we conducted a high-resolution analysis of chromatin accessibility and gene expression at three scales of transcript control in four angiosperms, ranging from a dryland-adapted wild species to a wetland crop. The data define a cohort of conserved submergence-activated genes with signatures of overlapping cis regulation by four transcription factor families. Syntenic genes are more highly expressed than nonsyntenic genes, yet both can have the cis motifs and chromatin accessibility associated with submergence up-regulation. Whereas the flexible circuitry spans the eudicot-monocot divide, the frequency of specific cis motifs, extent of chromatin accessibility, and degree of submergence activation are more prevalent in the wetland crop and may have adaptive importance., (Copyright © 2019 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.)
- Published
- 2019
- Full Text
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6. Profiling of Accessible Chromatin Regions across Multiple Plant Species and Cell Types Reveals Common Gene Regulatory Principles and New Control Modules.
- Author
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Maher KA, Bajic M, Kajala K, Reynoso M, Pauluzzi G, West DA, Zumstein K, Woodhouse M, Bubb K, Dorrity MW, Queitsch C, Bailey-Serres J, Sinha N, Brady SM, and Deal RB
- Subjects
- Arabidopsis genetics, Conserved Sequence genetics, Solanum lycopersicum genetics, Medicago genetics, Meristem genetics, Oryza genetics, Plant Epidermis cytology, Sequence Analysis, DNA, Species Specificity, Transcription Factors metabolism, Transposases metabolism, Chromatin metabolism, Gene Expression Regulation, Plant, Gene Regulatory Networks, Plant Cells metabolism, Plants genetics
- Abstract
The transcriptional regulatory structure of plant genomes remains poorly defined relative to animals. It is unclear how many cis -regulatory elements exist, where these elements lie relative to promoters, and how these features are conserved across plant species. We employed the assay for transposase-accessible chromatin (ATAC-seq) in four plant species ( Arabidopsis thaliana , Medicago truncatula , Solanum lycopersicum , and Oryza sativa ) to delineate open chromatin regions and transcription factor (TF) binding sites across each genome. Despite 10-fold variation in intergenic space among species, the majority of open chromatin regions lie within 3 kb upstream of a transcription start site in all species. We find a common set of four TFs that appear to regulate conserved gene sets in the root tips of all four species, suggesting that TF-gene networks are generally conserved. Comparative ATAC-seq profiling of Arabidopsis root hair and non-hair cell types revealed extensive similarity as well as many cell-type-specific differences. Analyzing TF binding sites in differentially accessible regions identified a MYB-driven regulatory module unique to the hair cell, which appears to control both cell fate regulators and abiotic stress responses. Our analyses revealed common regulatory principles among species and shed light on the mechanisms producing cell-type-specific transcriptomes during development., (© 2018 American Society of Plant Biologists. All rights reserved.)
- Published
- 2018
- Full Text
- View/download PDF
7. SHR overexpression induces the formation of supernumerary cell layers with cortex cell identity in rice.
- Author
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Henry S, Dievart A, Divol F, Pauluzzi G, Meynard D, Swarup R, Wu S, Gallagher KL, and Périn C
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- Arabidopsis cytology, Arabidopsis genetics, Arabidopsis metabolism, Arabidopsis Proteins genetics, Arabidopsis Proteins metabolism, Cell Division genetics, Genetic Complementation Test, Microscopy, Confocal, Mutation, Oryza cytology, Oryza metabolism, Plant Proteins metabolism, Plant Roots cytology, Plant Roots metabolism, Plants, Genetically Modified, Reverse Transcriptase Polymerase Chain Reaction, Transcription Factors genetics, Transcription Factors metabolism, Gene Expression Regulation, Plant, Oryza genetics, Plant Proteins genetics, Plant Roots genetics
- Abstract
The number of root cortex cell layers varies among plants, and many species have several cortical cell layers. We recently demonstrated that the two rice orthologs of the Arabidopsis SHR gene, OsSHR1 and OsSHR2, could complement the A. thaliana shr mutant. Moreover, OsSHR1 and OsSHR2 expression in A. thaliana roots induced the formation of extra root cortical cell layers. In this article, we demonstrate that the overexpression of AtSHR and OsSHR2 in rice roots leads to plants with wide and short roots that contain a high number of extra cortical cell layers. We hypothesize that SHR genes share a conserved function in the control of cortical cell layer division and the number of ground tissue cell layers in land plants., (Copyright © 2017 Elsevier Inc. All rights reserved.)
- Published
- 2017
- Full Text
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8. Analysis of Ribosome-Associated mRNAs in Rice Reveals the Importance of Transcript Size and GC Content in Translation.
- Author
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Zhao D, Hamilton JP, Hardigan M, Yin D, He T, Vaillancourt B, Reynoso M, Pauluzzi G, Funkhouser S, Cui Y, Bailey-Serres J, Jiang J, Buell CR, and Jiang N
- Subjects
- 5' Untranslated Regions genetics, Arabidopsis genetics, Base Composition genetics, Epigenesis, Genetic, Gene Expression Regulation, Plant, Sequence Analysis, RNA, Oryza genetics, Protein Biosynthesis, RNA, Messenger genetics, Ribosomes genetics
- Abstract
Gene expression is controlled at transcriptional and post-transcriptional levels including decoding of messenger RNA (mRNA) into polypeptides via ribosome-mediated translation. Translational regulation has been intensively studied in the model dicot plant Arabidopsis thaliana, and in this study, we assessed the translational status [proportion of steady-state mRNA associated with ribosomes] of mRNAs by Translating Ribosome Affinity Purification followed by mRNA-sequencing (TRAP-seq) in rice (Oryza sativa), a model monocot plant and the most important food crop. A survey of three tissues found that most transcribed rice genes are translated whereas few transposable elements are associated with ribosomes. Genes with short and GC-rich coding regions are overrepresented in ribosome-associated mRNAs, suggesting that the GC-richness characteristic of coding sequences in grasses may be an adaptation that favors efficient translation. Transcripts with retained introns and extended 5' untranslated regions are underrepresented on ribosomes, and rice genes belonging to different evolutionary lineages exhibited differential enrichment on the ribosomes that was associated with GC content. Genes involved in photosynthesis and stress responses are preferentially associated with ribosomes, whereas genes in epigenetic regulation pathways are the least enriched on ribosomes. Such variation is more dramatic in rice than that in Arabidopsis and is correlated with the wide variation of GC content of transcripts in rice. Taken together, variation in the translation status of individual transcripts reflects important mechanisms of gene regulation, which may have a role in evolution and diversification., (Copyright © 2017 Zhao et al.)
- Published
- 2017
- Full Text
- View/download PDF
9. Flexible Ion Barrier.
- Author
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Pauluzzi G and Bailey-Serres J
- Subjects
- Arabidopsis physiology, Plant Roots physiology
- Abstract
The central vasculature of plant roots is protected by a hydrophobic ring of endodermal cells that are enclosed by lamellae of suberin. Barberon et al. demonstrate that endodermal suberization plasticity facilitates ion homeostasis, with antithetical regulation of suberin deposition and degradation by the phytohormones abscisic acid and ethylene., (Copyright © 2016 Elsevier Inc. All rights reserved.)
- Published
- 2016
- Full Text
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10. A plausible mechanism, based upon Short-Root movement, for regulating the number of cortex cell layers in roots.
- Author
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Wu S, Lee CM, Hayashi T, Price S, Divol F, Henry S, Pauluzzi G, Perin C, and Gallagher KL
- Subjects
- Arabidopsis genetics, Arabidopsis Proteins genetics, Brachypodium genetics, Oryza genetics, Transcription Factors genetics, Arabidopsis metabolism, Arabidopsis Proteins metabolism, Brachypodium metabolism, Oryza metabolism, Plant Roots metabolism, Signal Transduction physiology, Transcription Factors metabolism
- Abstract
Formation of specialized cells and tissues at defined times and in specific positions is essential for the development of multicellular organisms. Often this developmental precision is achieved through intercellular signaling networks, which establish patterns of differential gene expression and ultimately the specification of distinct cell fates. Here we address the question of how the Short-root (SHR) proteins from Arabidopsis thaliana (AtSHR), Brachypodium distachyon (BdSHR), and Oryza sativa (OsSHR1 and OsSHR2) function in patterning the root ground tissue. We find that all of the SHR proteins function as mobile signals in A. thaliana and all of the SHR homologs physically interact with the AtSHR binding protein, Scarecow (SCR). Unlike AtSHR, movement of the SHR homologs was not limited to the endodermis. Instead, the SHR proteins moved multiple cell layers and determined the number of cortex, not endodermal, cell layers formed in the root. Our results in A. thaliana are consistent with a mechanism by which the regulated movement of the SHR transcription factor determines the number of cortex cell layers produced in the roots of B. distachyon and O. sativa. These data also provide a new model for ground tissue patterning in A. thaliana in which the ability to form a functional endodermis is spatially limited independently of SHR.
- Published
- 2014
- Full Text
- View/download PDF
11. Analysis of the expression of the AGL17-like clade of MADS-box transcription factors in rice.
- Author
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Puig J, Meynard D, Khong GN, Pauluzzi G, Guiderdoni E, and Gantet P
- Subjects
- Amino Acid Sequence, Arabidopsis genetics, Arabidopsis Proteins classification, Arabidopsis Proteins genetics, Flowers genetics, Flowers metabolism, Fruit genetics, Fruit metabolism, MADS Domain Proteins classification, MADS Domain Proteins metabolism, Osmotic Pressure, Phylogeny, Sequence Homology, Amino Acid, Evolution, Molecular, Gene Expression Regulation, Plant, MADS Domain Proteins genetics, Oryza genetics
- Abstract
In plants, MADS-box transcription factors are key regulators of floral and fruit development, organ dehiscence and stress responses. Nevertheless, the functions of most of them are still unknown. In Arabidopsis thaliana, the AGL17-like clade of MADS-box transcription factors comprises four members. AGL17 is involved in floral induction, whereas AGL44/ANR1 is involved in the adaptive development of roots in response to nitrate. AGL21 is primarily expressed in the roots and AGL16 in the leaves, suggesting that these transcription factors may be involved in the control of vegetative development. In Oryza sativa, the AGL17-like clade comprises five members, OsMADS23, OsMADS25, OsMADS27, OsMADS57 and OsMADS61. In a first attempt to characterize their functions, we used promoter::Gus reporter gene fusions and RT-qPCR to study the expression patterns of these genes and their regulation by different external stimuli. The OsMADS23, OsMADS25, OsMADS27 and OsMADS57 promoters were active in the root's central cylinder. In addition, the OsMADS57 promoter was active in leaves, whereas the OsMADS61 promoter was only active in the leaf tips and the stem base. OsMADS25 and OsMADS27 transcripts accumulated in response to osmotic stress, whereas the expression levels of OsMADS25, OsMADS27 and OsMADS57 were slightly induced by nitrate. Each of these five genes was responsive to various hormonal treatments. These distinct expression patterns indicate that these five genes have specific and non-redundant functions that likely differs from those of their A. thaliana homologs., (Copyright © 2013 Elsevier B.V. All rights reserved.)
- Published
- 2013
- Full Text
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12. Regulation of shoot and root development through mutual signaling.
- Author
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Puig J, Pauluzzi G, Guiderdoni E, and Gantet P
- Subjects
- Arabidopsis genetics, Arabidopsis growth & development, Arabidopsis Proteins genetics, Arabidopsis Proteins metabolism, Gene Expression Regulation, Plant, Plant Roots genetics, Plant Roots metabolism, Plant Shoots genetics, Plant Shoots metabolism, Arabidopsis metabolism, Plant Roots growth & development, Plant Shoots growth & development, Signal Transduction
- Abstract
Plants adjust their development in relation to the availability of nutrient sources. This necessitates signaling between root and shoot. Aside from the well-known systemic signaling processes mediated by auxin, cytokinin, and sugars, new pathways involving carotenoid-derived hormones have recently been identified. The auxin-responsive MAX pathway controls shoot branching through the biosynthesis of strigolactone in the roots. The BYPASS1 gene affects the production of an as-yet unknown carotenoid-derived substance in roots that promotes shoot development. Novel local and systemic mechanisms that control adaptive root development in response to nitrogen and phosphorus starvation were recently discovered. Notably, the ability of the NITRATE TRANSPORTER 1.1 to transport auxin drew for the first time a functional link between auxin, root development, and nitrate availability in soil. The study of plant response to phosphorus starvation allowed the identification of a systemic mobile miRNA. Deciphering and integrating these signaling pathways at the whole-plant level provide a new perspective for understanding how plants regulate their development in response to environmental cues.
- Published
- 2012
- Full Text
- View/download PDF
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