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Flower Development in Arabidopsis: There Is More to It Than Learning Your ABCs

The field of Arabidopsis flower development began in the early 1980s with the initial description of several mutants including apetala1, apetala2, and agamous that altered floral organ identity (Koornneef and van der Veen, Theor Appl Genet 58:257–263, 1980; Koornneef et al., J Hered 74:265– ...

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Genetic and Phenotypic Analysis of Shoot Apical and Floral Meristem Development

The shoot apical and floral meristems (SAM and FM, respectively) of Arabidopsis thaliana contain reservoirs of self-renewing stem cells that function as sources of progenitor cells for organ formation during development. The primary SAM produces all of the aerial structures of the adult ...

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Genetic and Phenotypic Analyses of Petal Development in Arabidopsis

The link between gene regulation/function and organ shape (morphogenesis) is poorly understood and remains one of the major issues in developmental biology. Petals are attractive model organs for studying organogenesis mainly because they have a simple laminar structure with a sma ...

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Cell Biological Analyses of Anther Morphogenesis and Pollen Viability in Arabidopsis and Rice

Major advances have been made in recent years in our understanding of anther development through a combination of genetic studies, cell biological technologies, biochemical analysis, microarray and high-throughput sequencing-based approaches. In this chapter, we summarize ...

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Scanning Electron Microscopy Analysis of Floral Development

Scanning Electron Microscopy (SEM) allows the morphological characterization of the surface features of floral and inflorescence structures in a manner that retains the topography or three-dimensional appearance of the structure. Even at relatively low magnification leve ...

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Microscopic Analysis of Arabidopsis Ovules

Ovules are the major female reproductive organs in higher plants. Furthermore, ovules of Arabidopsis thaliana are successfully used as model system to study plant organogenesis. Here we describe two microscopic techniques to analyze ovule development in Arabidopsis. Both methods ...

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Laser-Assisted Microdissection Applied to Floral Tissues

Cellular context can be crucial when studying developmental processes as well as responses to environmental variation. Several different tools have been developed in recent years to isolate specific tissues or cell types. Laser-assisted microdissection (LAM) allows for the isol ...

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Translating Ribosome Affinity Purification (TRAP) for Cell-Specific Translation Profiling in Developing Flowers

The development of a multicellular organism is accompanied by cell differentiation. In fact, many biological processes have cell specificity, such that distinct cell types respond differently to endogenous or environmental cues. To obtain cell-specific gene expression profi ...

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Determination of Auxin Transport Parameters on the Cellular Level

The accumulation of radioactively labelled compounds in cells is frequently used for the determination of activities of various transport systems located at the plasma membrane, including the system for carrier-mediated transport of plant hormone auxin. The measurements of aux ...

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Analyzing the In Vivo Status of Exogenously Applied Auxins: A HPLC-Based Method to Characterize the Intracellularly Localized Auxin Transporters

Exogenous application of biologically important molecules for plant growth promotion and/or regulation is very common both in plant research and horticulture. Plant hormones such as auxins and cytokinins are classes of compounds which are often applied exogenously. Neverthel ...

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Identification and Use of Fluorescent Dyes for Plant Cell Wall Imaging Using High-Throughput Screening

Plant cell walls define cell shape during development and are composed of interlaced carbohydrate and protein networks. Fluorescent dyes have long been used to label plant cell walls, enabling optical microscopy-based interrogation of cell wall structure and composition. Howeve ...

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Screening for Bioactive Small Molecules by In Vivo Monitoring of Luciferase-Based Reporter Gene Expression in Arabidopsis thaliana

Chemical genetics is a scientific strategy that utilizes bioactive small molecules as experimental tools to dissect biological processes. Bioactive compounds occurring in nature represent an enormous diversity of structures that potentially can be used as activators or inhi ...

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Time-Profiling Fluorescent Reporters in the Arabidopsis Root

Confocal laser scanning microscopy is a useful nondestructive approach for the visualization of fluorescent reporters in planta. Samples are usually placed between a slide and a cover slip which, although suited to single time-point imaging, does not allow long-term observation. Her ...

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Fully Automated Compound Screening in Arabidopsis thaliana Seedlings

High-throughput small molecule screenings in model plants are of great value to identify compounds that interfere with plant developmental processes. In academic research, the plant Arabidopsis thaliana is the most commonly used model organism for this purpose. However, compared ...

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1H NMR-Based Metabolomics Methods for Chemical Genomics Experiments

Metabolomics and chemical genomics studies can each provide unique insights into plant biology. Although a variety of analytical techniques can be used for the interrogation of plant systems, nuclear magnetic resonance (NMR) provides unbiased characterization of abundant met ...

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Quantification of Stable Isotope Label in Metabolites via Mass Spectrometry

Isotope labelling experiments with stable or radioactive isotopes have long been an integral part of biological and medical research. Labelling experiments led to the discovery of new metabolic pathways and made it possible to calculate the fluxes responsible for a metabolic phenot ...

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Screening for Gene Function Using the FOX (Full-Length cDNA OvereXpressor Gene) Hunting System

Mutant resources are indispensable for the characterization of the functions of genes. There are two types of mutants, loss-of-function and gain-of-function mutants. Recently, we have developed a novel system in plants that uses a gain-of-function approach and is named as the FOX (full-le ...

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Early Stage Hit Triage for Plant Chemical Genetic Screens and Target Site Identification

The increasing use of plant biological screens of large compound libraries to discover informative chemical probes for plant chemical genetics requires efficient methods for hit selection and advancement. Downstream target identification and validation studies with sele ...

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Statistical Molecular Design: A Tool to Follow Up Hits from Small-Molecule Screening

In high-throughput screening (HTS) a robust assay is used to interrogate a large collection of small organic molecules in order to find compounds, hits, with a desired biological activity. The hits are then further explored by an iterative process where new compounds are designed, purchased, ...

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Endomembrane Dissection Using Chemically Induced Bioactive Clusters

Chemical genomics is a novel approach that allows for the rapid functional analysis of plant proteins, complexes, pathways, and networks. Systematic screens for bioactive small molecules causing specific subcellular phenotypes have been successfully performed in mammalian c ...

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