Bioinformatics Analysis of Plant Cell Wall Evolution

Author ORCID Identifier

Elisabeth Fitzek: https://orcid.org/0000-0001-9423-2993

Yabin Yin: https://orcid.org/0000-0001-7667-881X

Publication Title

Methods in Molecular Biology

ISSN

10643745

E-ISSN

19406029

Document Type

Article

Abstract

In the past hundreds of millions of years, from green algae to land plants, cell walls have developed into a highly complex structure that is essential for plant growth and survival. Plant cell wall diversity and evolution can be directly investigated by chemically profiling polysaccharides and lignins in the cell walls of diverse plants and algae. With the increasingly low cost and high throughput of DNA sequencing technologies, cell wall evolution can also be studied by bioinformatics analysis of the occurrence of cell wall synthesis-related enzymes in the genomes and transcriptomes of different species. This chapter presents a bioinformatics workflow running on a Linux platform to process genomic data for such gene occurrence analysis. As a case study, cellulose synthase (CesA) and CesA-like (Csl) protein families are mined for in two newly sequenced organisms: the charophyte green alga Klebsormidium flaccidum (renamed as Klebsormidium nitens) and the fern Lygodium japonicum.

First Page

483

Last Page

502

Publication Date

3-7-2020

DOI

10.1007/978-1-0716-0621-6_27

PubMed ID

32617952

Keywords

Cellulose synthesis, CesA, Csl, GT2, Hemicellulose synthesis, Plant cell walls

Department

Department of Biological Sciences

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