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Title Plant circadian networks : methods and protocols / edited by Dorothee Staiger
Published New York, NY : Humana Press, [2014]


Description 1 online resource (xi, 361 pages) : illustrations (some color)
Series Methods in Molecular Biology, 1940-6029 ; 1158
Methods in molecular biology (Clifton, N.J.) ; v. 1158. 1064-3745
Contents Measurement of luciferase rhythms -- Online period estimation and determination of rhythmicity in circadian data, using the BioDare data infrastructure -- Global profiling of the circadian transcriptome using microarrays -- ChIP-seq analysis of histone modifications at the core of the arabidopsis circadian clock -- Quantitative transcriptome analysis using RNA-seq -- Rapid and parallel quantification of small and large RNA species -- The RIPper case: Identification of RNA-binding protein targets by RNA immunoprecipitation -- A protocol for visual analysis of alternative splicing in RNA-seq data using integrated genome browser -- AthaMap web tools for the analysis of transcriptional and posttranscriptional regulation of gene expression in Arabidopsis thaliana -- Analysis of mrna translation states in Arabidopsis over the diurnal cycle by polysome microarray -- Immunoprecipitation-based analysis of protein-protein interactions -- Comparative phosphoproteomics to identify targets of the clock-relevant casein kinase 1 in c. Reinhardtii flagella -- Pulsed induction of circadian clock genes in Arabidopsis seedlings -- The use of fluorescent proteins to analyze circadian rhythms -- Measuring circadian oscillations of cytosolic-free calcium in Arabidopsis thaliana -- Circadian life without micronutrients: Effects of altered micronutrient supply on clock function in Arabidopsis -- Assessing redox state and reactive oxygen species in circadian rhythmicity -- Circadian regulation of plant immunity to pathogens -- Determination of photoperiodic flowering time control in Arabidopsis and barley -- The perennial clock is an essential timer for seasonal growth events and cold hardiness -- Monitoring seasonal bud set, bud burst, and cold hardiness in Populus -- Transformation and measurement of bioluminescence rhythms in the moss Physcomitrella patens -- Modeling and simulating the Arabidopsis thaliana circadian clock using XPP-AUTO
Summary Plant Circadian Networks: Methods and Protocols provides a collection of protocols to investigate clock-controlled parameters including transcript and small RNA levels, promoter activity using luciferase reporters, protein levels and posttranslational modification, protein-protein interaction, in vivo DNA-protein interaction and RNA-protein interaction, cellular redox state, Ca2+ levels, and innate immune responses. Furthermore, the use of bioinformatics resources is described to evaluate high throughput data sets and to integrate the data into an overarching picture of circadian networks in the cell. Additional chapters focus on seasonal processes like flowering time control, and techniques on trees, moss and algae. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Plant Circadian Networks: Methods and Protocols is designed not only for the chronobiology community dealing with circadian biology but also for the plant community in general
Bibliography Includes bibliographical references and index
Notes Online resource; title from PDF title page (SpringerLink, viewed May 13, 2014)
Subject Biological rhythms in plants -- Laboratory manuals
Circadian rhythms -- Laboratory manuals
Plant physiology.
Circadian Clocks -- genetics
Chronobiology Phenomena
Plant Physiological Phenomena
Plant physiology
Biological rhythms in plants
Circadian rhythms
Genre/Form Laboratory manuals
Laboratory manuals.
Manuels de laboratoire.
Form Electronic book
Author Staiger, Dorothee, editor
ISBN 9781493907007