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.
CITATION STYLE
Liu, X., McKenna, S., Welch, L. R., & Showalter, A. M. (2020). Bioinformatic Identification of Plant Hydroxyproline-Rich Glycoproteins. In Methods in Molecular Biology (Vol. 2149, pp. 463–481). Humana Press Inc. https://doi.org/10.1007/978-1-0716-0621-6_26
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