Bioinformatic Identification of Plant Hydroxyproline-Rich Glycoproteins.
Arabinogalactan-proteins
Bioinformatics
Extensins
Hydroxyproline-rich glycoproteins
Phaseolus vulgaris
Plant cell wall
Proline-rich proteins
Journal
Methods in molecular biology (Clifton, N.J.)
ISSN: 1940-6029
Titre abrégé: Methods Mol Biol
Pays: United States
ID NLM: 9214969
Informations de publication
Date de publication:
2020
2020
Historique:
entrez:
4
7
2020
pubmed:
4
7
2020
medline:
27
2
2021
Statut:
ppublish
Résumé
Hydroxyproline-rich glycoproteins (HRGPs) are a superfamily of plant cell wall proteins that function in diverse aspects of plant growth and development. This superfamily consists of three members: arabinogalactan-proteins (AGPs), extensins (EXTs), and proline-rich proteins (PRPs). Hybrid and chimeric HRGPs also exist. A bioinformatic software program, BIO OHIO 2.0, was developed to expedite the genome-wide identification and classification of AGPs, EXTs, and PRPs based on characteristic HRGP motifs and biased amino acid compositions. This chapter explains the principles of identifying HRGPs and provides a stepwise tutorial for using the BIO OHIO 2.0 program with genomic/proteomic data. Here, as an example, the genome/proteome of the common bean (Phaseolus vulgaris) is analyzed using the BIO OHIO 2.0 program to identify and characterize its set of HRGPs.
Identifiants
pubmed: 32617951
doi: 10.1007/978-1-0716-0621-6_26
doi:
Substances chimiques
Glycoproteins
0
Mucoproteins
0
Plant Proteins
0
Proteome
0
arabinogalactan proteins
0
extensin protein, plant
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM