Computational Methods for Studying the Plant Nucleus

Axel Poulet; Xiao Zhou; Kentaro Tamura; Iris Meier; Christophe Tatout; Katja Graumann; David E Evans

doi:10.1007/978-1-4939-8691-0_15

Computational Methods for Studying the Plant Nucleus

Methods Mol Biol. 2018:1840:205-219. doi: 10.1007/978-1-4939-8691-0_15.

Authors

Axel Poulet^{1

2

3}, Xiao Zhou^{4

5}, Kentaro Tamura⁶, Iris Meier^{2

4}, Christophe Tatout¹, Katja Graumann², David E Evans⁷

Affiliations

¹ Laboratoire GReD, CNRS, INSERM, Université Clermont Auvergne, Clermont-Ferrand, F-63000, France.
² Faculty of Health and Life Sciences, Department of Biological and Medical Sciences, Oxford Brookes University, Headington Campus, Oxford, OX3 0BP, UK.
³ Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA, USA.
⁴ Department of Molecular Genetics, The Ohio State University, 318 West 12th Avenue, Columbus, OH 43210, OH, USA.
⁵ Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.
⁶ Department of Environmental and Life Sciences, School of Food and Nutritional Sciences, University of Shizuoka, Shizuoka, 422-8526, Japan.
⁷ Faculty of Health and Life Sciences, Department of Biological and Medical Sciences, Oxford Brookes University, Headington Campus, Oxford, OX3 0BP, UK. deevans@brookes.ac.uk.

PMID: 30141047
DOI: 10.1007/978-1-4939-8691-0_15

Abstract

The analysis of nuclear envelope components and their function has recently been progressed by the use of computational methods of analysis. The methods in this chapter provided by members of the International Plant Nucleus Consortium address the identification of novel nuclear envelope proteins and the study of structure and mobility of the nucleus. DORY2 is an upgrade of the KASH-finder DORY, and NucleusJ is used to characterize the three-dimensional structure of the nucleus in light microscope images. Finally, a method is provided for analysis of the migration of the nucleus, a key technique for exploring the function of plant nuclear proteins.

Keywords: Higher plant; ImageJ; Nuclear migration; Nuclear structure; Nucleus.

Publication types

Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Biomarkers
Cell Nucleus / genetics*
Cell Nucleus / metabolism*
Cell Nucleus / ultrastructure
Computational Biology / methods
Databases, Factual
Molecular Imaging
Plant Cells / metabolism*
Plant Cells / ultrastructure
Software

Substances

Biomarkers