Studying Whole-Genome Duplication Using Experimental Evolution of Spirodela polyrhiza

Tian Wu; Annelore Natran; Lucas Prost; Eylem Aydogdu; Yves Van de Peer; Quinten Bafort

doi:10.1007/978-1-0716-2561-3_19

Studying Whole-Genome Duplication Using Experimental Evolution of Spirodela polyrhiza

Methods Mol Biol. 2023:2545:373-390. doi: 10.1007/978-1-0716-2561-3_19.

Authors

Tian Wu^{1

2}, Annelore Natran^{1

2}, Lucas Prost^{1

2

3}, Eylem Aydogdu^{1

2}, Yves Van de Peer¹, Quinten Bafort^{4

5

6}

Affiliations

¹ Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
² VIB Center for Plant Systems Biology, VIB, Ghent, Belgium.
³ Department of Biology, Ghent University, Ghent, Belgium.
⁴ Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium. quinten.bafort@psb.ugent.be.
⁵ VIB Center for Plant Systems Biology, VIB, Ghent, Belgium. quinten.bafort@psb.ugent.be.
⁶ Department of Biology, Ghent University, Ghent, Belgium. quinten.bafort@psb.ugent.be.

PMID: 36720823
DOI: 10.1007/978-1-0716-2561-3_19

Abstract

In this chapter, we present the use of Spirodela polyrhiza in experiments designed to study the evolutionary impact of whole-genome duplication (WGD). We shortly introduce this duckweed species and explain why it is a suitable model for experimental evolution. Subsequently, we discuss the most relevant steps and methods in the design of a ploidy-related duckweed experiment. These steps include strain selection, ploidy determination, different methods of making polyploid duckweeds, replication, culturing conditions, preservation, and the ways to quantify phenotypic and transcriptomic change.

Keywords: Duckweed; Evolve and resequence (E&R); Experimental evolution; Polyploidy; Spirodela polyrhiza; Whole-genome duplication.

Publication types

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

MeSH terms

Araceae* / genetics
Gene Duplication*
Gene Expression Profiling
Ploidies
Polyploidy