Basic Phytochrome B Calculations

Robert W. Smith; Christian Fleck

doi:10.1007/978-1-4939-9612-4_9

Basic Phytochrome B Calculations

Robert W. Smith^*, Christian Fleck

^*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review

2 Citations (Scopus)

Abstract

Mathematical models are important tools in helping us to understand complex biological systems. Models of phytochrome-regulated systems in Arabidopsis thaliana have shown the importance of dimerization, nuclear transport, and thermal/dark reversion in mediating phytochrome activity and plant development. Here we go through the steps required to calculate the steady-state amounts of phytochrome subspecies relative to the total phytochrome molecule population. Starting from a simplified two-state system we expand and apply the technique to the extended phytochrome dimer model. Additionally, we provide a Python package that can automatically calculate the proportion of phytochrome B in a particular state given specific experimental conditions.

Original language	English
Title of host publication	Phytochromes
Subtitle of host publication	Methods and Protocols
Editors	Andreas Hiltbrunner
Publisher	Humana Press
Pages	121-133
Number of pages	13
ISBN (Electronic)	9781493996124
ISBN (Print)	9781493996117
DOIs	https://doi.org/10.1007/978-1-4939-9612-4_9
Publication status	Published - 18 Jul 2019

Publication series

Name	Methods in Molecular Biology
Volume	2026
ISSN (Print)	1064-3745

Keywords

Computer programming
Mathematical modeling
Ordinary differential equations
Phytochromes

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10.1007/978-1-4939-9612-4_9

MycoSynVac: Engineering of Mycoplasma pneumoniae as a broad-spectrum animal vaccine
1/04/15 → 31/03/20
Project: EU research project

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abstract = "Mathematical models are important tools in helping us to understand complex biological systems. Models of phytochrome-regulated systems in Arabidopsis thaliana have shown the importance of dimerization, nuclear transport, and thermal/dark reversion in mediating phytochrome activity and plant development. Here we go through the steps required to calculate the steady-state amounts of phytochrome subspecies relative to the total phytochrome molecule population. Starting from a simplified two-state system we expand and apply the technique to the extended phytochrome dimer model. Additionally, we provide a Python package that can automatically calculate the proportion of phytochrome B in a particular state given specific experimental conditions.",

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AU - Smith, Robert W.

AU - Fleck, Christian

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AB - Mathematical models are important tools in helping us to understand complex biological systems. Models of phytochrome-regulated systems in Arabidopsis thaliana have shown the importance of dimerization, nuclear transport, and thermal/dark reversion in mediating phytochrome activity and plant development. Here we go through the steps required to calculate the steady-state amounts of phytochrome subspecies relative to the total phytochrome molecule population. Starting from a simplified two-state system we expand and apply the technique to the extended phytochrome dimer model. Additionally, we provide a Python package that can automatically calculate the proportion of phytochrome B in a particular state given specific experimental conditions.

KW - Computer programming

KW - Mathematical modeling

KW - Ordinary differential equations

KW - Phytochromes

U2 - 10.1007/978-1-4939-9612-4_9

DO - 10.1007/978-1-4939-9612-4_9

M3 - Chapter

AN - SCOPUS:85069452165

SN - 9781493996117

T3 - Methods in Molecular Biology

SP - 121

EP - 133

BT - Phytochromes

A2 - Hiltbrunner, Andreas

PB - Humana Press

ER -

Basic Phytochrome B Calculations

Abstract

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Keywords

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MycoSynVac: Engineering of Mycoplasma pneumoniae as a broad-spectrum animal vaccine

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