Gene-regulatory networks controlling inflorescence and flower development in Arabidopsis thaliana

2017 ◽  
Vol 1860 (1) ◽  
pp. 95-105 ◽  
Author(s):  
Christopher Ralf Wils ◽  
Kerstin Kaufmann
Keyword(s):  
Arabidopsis Thaliana ◽  
Gene Regulatory Networks ◽  
Flower Development ◽  
Regulatory Networks ◽  
Gene Regulatory

scholarly journals The evolution of gene regulatory networks controlling Arabidopsis thaliana L. trichome development

2019 ◽  
Vol 19 (S1) ◽  
Author(s):  
Alexey V. Doroshkov ◽  
Dmitrii K. Konstantinov ◽  
Dmitrij A. Afonnikov ◽  
Konstantin V. Gunbin
Keyword(s):  
Arabidopsis Thaliana ◽  
Gene Regulatory Networks ◽  
Regulatory Networks ◽  
Trichome Development ◽  
Gene Regulatory

scholarly journals From gene expression to gene regulatory networks in Arabidopsis thaliana

2009 ◽  
Vol 3 (1) ◽  
Author(s):  
Chris J Needham ◽  
Iain W Manfield ◽  
Andrew J Bulpitt ◽  
Philip M Gilmartin ◽  
David R Westhead
Keyword(s):  
Gene Expression ◽  
Arabidopsis Thaliana ◽  
Gene Regulatory Networks ◽  
Regulatory Networks ◽  
Gene Regulatory

scholarly journals Systematic analyses of the MIR172 family members of Arabidopsis define their distinct roles in regulation of APETALA2 during floral transition

PLoS Biology ◽  
2021 ◽  
Vol 19 (2) ◽  
pp. e3001043
Author(s):  
Diarmuid S. Ó’Maoiléidigh ◽  
Annabel D. van Driel ◽  
Anamika Singh ◽  
Qing Sang ◽  
Nolwenn Le Bec ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Gene Regulatory Networks ◽  
Shoot Apex ◽  
Regulatory Networks ◽  
Floral Induction ◽  
Mature Mirnas ◽  
Floral Transition ◽  
Shoot Meristem ◽  
Gene Regulatory

MicroRNAs (miRNAs) play important roles in regulating flowering and reproduction of angiosperms. Mature miRNAs are encoded by multiple MIRNA genes that can differ in their spatiotemporal activities and their contributions to gene regulatory networks, but the functions of individual MIRNA genes are poorly defined. We functionally analyzed the activity of all 5 Arabidopsis thaliana MIR172 genes, which encode miR172 and promote the floral transition by inhibiting the accumulation of APETALA2 (AP2) and APETALA2-LIKE (AP2-LIKE) transcription factors (TFs). Through genome editing and detailed confocal microscopy, we show that the activity of miR172 at the shoot apex is encoded by 3 MIR172 genes, is critical for floral transition of the shoot meristem under noninductive photoperiods, and reduces accumulation of AP2 and TARGET OF EAT2 (TOE2), an AP2-LIKE TF, at the shoot meristem. Utilizing the genetic resources generated here, we show that the promotion of flowering by miR172 is enhanced by the MADS-domain TF FRUITFULL, which may facilitate long-term silencing of AP2-LIKE transcription, and that their activities are partially coordinated by the TF SQUAMOSA PROMOTER-BINDING-LIKE PROTEIN 15. Thus, we present a genetic framework for the depletion of AP2 and AP2-LIKE TFs at the shoot apex during floral transition and demonstrate that this plays a central role in floral induction.

scholarly journals The long-distance OPT3 movement is selective between herbaceous and woody plants as shown using Malus and Arabidopsis thaliana plants

2020 ◽  
Author(s):  
Xinmin Lv ◽  
Yaqiang Sun ◽  
Pengbo Hao ◽  
Cankui Zhang ◽  
Ji Tian ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Gene Regulatory Networks ◽  
Stress Resistance ◽  
Woody Plants ◽  
Regulatory Networks ◽  
Rna Binding ◽  
Long Distance ◽  
Gene Regulatory ◽  
Species Specific ◽  
Herbaceous And Woody Plants

Abstract Long-distance mobile mRNAs play key roles in gene regulatory networks controlling plant development and stress resistance. However, the mechanisms underlying species-specific delivery of mRNA still need to be elucidated. Here, the use of grafts involving highly heterozygous apple (Malus) genotypes allowed us to demonstrate that MdOPT3 mRNA can be transported over a long distance, from the leaf to the root, to regulate Fe uptake; whereas, AtOPT3, the mRNA of the MdOPT3 homolog from Arabidopsis thaliana, does not move from shoot to root. Reciprocal heterologous expression of the two types of mRNAs showed that the immobile AtOPT3 moved from the shoot to the root in Malus and Populus plants, while the mobile MdOPT3 became immobile in A. thaliana and Solanum lycopersicum. Furthermore, we demonstrate that the different transmissibility of OPT3 in A. thaliana and Malus might be caused by the divergent RNA-binding proteins (RBPs) located in herbaceous and woody plants. This study provides insights into mechanisms underlying differences in mRNA mobility and validates the important physiological functions associated with this process.

scholarly journals Network Analysis of Gene Transcriptions of Arabidopsis thaliana in Spaceflight Microgravity

Genes ◽  
2021 ◽  
Vol 12 (3) ◽  
pp. 337
Author(s):  
Vidya Manian ◽  
Jairo Orozco ◽  
Harshini Gangapuram ◽  
Heeralal Janwa ◽  
Carlos Agrinsoni
Keyword(s):  
Arabidopsis Thaliana ◽  
Cell Wall ◽  
Network Analysis ◽  
Root Growth ◽  
Gene Regulatory Networks ◽  
Regulatory Networks ◽  
Hub Genes ◽  
Computational Tools ◽  
Gene Regulatory ◽  
The Impact

The transcriptomic datasets of the plant model organism Arabidopsis thaliana grown in the International Space Station provided by GeneLab have been mined to isolate the impact of spaceflight microgravity on gene expressions related to root growth. A set of computational tools is used to identify the hub genes that respond differently in spaceflight with controlled lighting compared to on the ground. These computational tools based on graph-theoretic approaches are used to infer gene regulatory networks from the transcriptomic datasets. The three main algorithms used for network analyses are Least Absolute Shrinkage and Selection Operator (LASSO), Pearson correlation, and the Hyperlink-Induced Topic Search (HITS) algorithm. Graph-based spectral analyses reveal distinct properties of the spaceflight microgravity networks for the Wassilewskija (WS), Columbia (Col)-0, and mutant phytochromeD (phyD) ecotypes. The set of hub genes that are significantly altered in spaceflight microgravity are mainly involved in cell wall synthesis, protein transport, response to auxin, stress responses, and catabolic processes. Network analysis highlights five important root growth-regulating hub genes that have the highest outdegree distribution in spaceflight microgravity networks. These concerned genes coding for proteins are identified from the Gene Regulatory Networks (GRNs) corresponding to spaceflight total light environment. Furthermore, network analysis uncovers genes that encode nucleotide-diphospho-sugar interconversion enzymes that have higher transcriptional regulation in spaceflight microgravity and are involved in cell wall biosynthesis.

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