title: Global De Novo Protein-Protein Interactome Elucidates Interactions of Drought-Responsive Proteins in Horse Gram (Macrotyloma uniflorum).
abstract: Inspired by the availability of de novo transcriptome of horse gram (Macrotyloma uniflorum) and recent developments in systems biology studies, the first ever global protein-protein interactome (PPI) map was constructed for this highly drought-tolerant legume. Large-scale studies of PPIs and the constructed database would provide rationale behind the interplay at cascading translational levels for drought stress-adaptive mechanisms in horse gram. Using a bidirectional approach (interolog and domain-based), a high-confidence interactome map and database for horse gram was constructed. Available transcriptomic information for shoot and root tissues of a sensitive (M-191; genotype 1) and a drought-tolerant (M-249; genotype 2) genotype of horse gram was utilized to draw comparative PPI subnetworks under drought stress. High-confidence 6804 interactions were predicted among 1812 proteins covering about one-fourth of the horse gram proteome. The highest number of interactions (33.86%) in horse gram interactome matched with Arabidopsis PPI data. The top five hub nodes mostly included ubiquitin and heat-shock-related proteins. Higher numbers of PPIs were found to be responsive in shoot tissue (416) and root tissue (2228) of genotype 2 compared with shoot tissue (136) and root tissue (579) of genotype 1. Characterization of PPIs using gene ontology analysis revealed that kinase and transferase activities involved in signal transduction, cellular processes, nucleocytoplasmic transport, protein ubiquitination, and localization of molecules were most responsive to drought stress. Hence, these could be framed in stress adaptive mechanisms of horse gram. Being the first legume global PPI map, it would provide new insights into gene and protein regulatory networks for drought stress tolerance mechanisms in horse gram. Information compiled in the form of database (MauPIR) will provide the much needed high-confidence systems biology information for horse gram genes, proteins, and involved processes. This information would ease the effort and increase the efficacy for similar studies on other legumes. Public access is available at http://14.139.59.221/MauPIR/ .
authors.forename: Jyoti
authors.initials: J
authors.lastname: Bhardwaj
authors.forename: Indu
authors.initials: I
authors.lastname: Gangwar
authors.forename: Ganesh
authors.initials: G
authors.lastname: Panzade
authors.forename: Ravi
authors.initials: R
authors.lastname: Shankar
authors.affiliation: Center of Innovative and Applied Bioprocessing (CIAB) , Mohali 160071, Punjab, India.
authors.forename: Sudesh Kumar
authors.initials: SK
authors.lastname: Yadav
mesh_terms: D017360:Arabidopsis / Q000737:chemistry / Q000502:physiology*; D030562:Databases, Protein; D055864:Droughts; D053263:Gene Regulatory Networks; D005838:Genotype; D010940:Plant Proteins; D025941:Protein Interaction Mapping; D020543:Proteome; D013312:Stress, Physiological / Q000235:genetics; D049490:Systems Biology
chemical_list: D010940:Plant Proteins; D020543:Proteome
keywords: computational; domain-based study; drought stress; horse gram (Macrotyloma uniflorum); interologs; protein interactome