title: Gene Mining for Proline Based Signaling Proteins in Cell Wall ofArabidopsis thaliana.
abstract: The cell wall (CW) as a first line of defense against biotic and abiotic stresses is of primary importance in plant biology. The proteins associated with cell walls play a significant role in determining a plant's sustainability to adverse environmental conditions. In this work, the genes encoding cell wall proteins (CWPs) in Arabidopsis were identified and functionally classified using geneMANIA and GENEVESTIGATOR with published microarrays data. This yielded 1605 genes, out of which 58 genes encoded proline-rich proteins (PRPs) and glycine-rich proteins (GRPs). Here, we have focused on the cellular compartmentalization, biological processes, and molecular functioning of proline-rich CWPs along with their expression at different plant developmental stages. The mined genes were categorized into five classes on the basis of the type of PRPs encoded in the cell wall ofArabidopsis thaliana. We review the domain structure and function of each class of protein, many with respect to the developmental stages of the plant. We have then used networks, hierarchical clustering and correlations to analyze co-expression, co-localization, genetic, and physical interactions and shared protein domains of these PRPs. This has given us further insight into these functionally important CWPs and identified a number of potentially new cell-wall related proteins inA. thaliana.
authors.affiliation: Cholistan Institute of Desert Studies, The Islamia University Bahawalpur Bahawalpur, Pakistan.
authors.forename: Muhammad Z
authors.initials: MZ
authors.lastname: Ihsan
authors.affiliation: Plant Stress Physiology and Molecular Biology Lab, Department of Botany, University of Agriculture FaisalabadFaisalabad, Pakistan; Integrated Genomics Cellular Developmental and Biotechnology Lab, Department of Entomology, University of Agriculture FaisalabadFaisalabad, Pakistan.
authors.forename: Samina J N
authors.initials: SJ
authors.lastname: Ahmad
authors.affiliation: Department of Arid Land Agriculture, Faculty of Meteorology, King Abdulaziz University Jeddah, Saudi Arabia.
authors.forename: Zahid Hussain
authors.initials: ZH
authors.lastname: Shah
authors.affiliation: Department of Electronic and Biomedical Engineering, Chonnam National University Gwangju, South Korea.
authors.forename: Hafiz M
authors.initials: HM
authors.lastname: Rehman
authors.affiliation: Department of Agronomy, University of Agriculture Faisalabad Faisalabad, Pakistan.
authors.forename: Zubair
authors.initials: Z
authors.lastname: Aslam
authors.affiliation: Department of Biology, Norwegian University of Science and Technology Trondheim, Norway.
authors.forename: Ishita
authors.initials: I
authors.lastname: Ahuja
authors.affiliation: Department of Biology, Norwegian University of Science and Technology Trondheim, Norway.
authors.forename: Atle M
authors.initials: AM
authors.lastname: Bones
authors.affiliation: Plant Stress Physiology and Molecular Biology Lab, Department of Botany, University of Agriculture FaisalabadFaisalabad, Pakistan; Integrated Genomics Cellular Developmental and Biotechnology Lab, Department of Entomology, University of Agriculture FaisalabadFaisalabad, Pakistan.
authors.forename: Jam N
authors.initials: JN
authors.lastname: Ahmad
keywords: Arabidopsis; GENEVESTIGATOR; co-expression; geneMANIA; kinase; proline