Plant secretomics

Abstract

Plant secretomes are the proteins secreted by the plant cells and are involved in the maintenance of cell wall structure, relationship between host and pathogen, communication between different cells in the plant, etc. Amalgamation of methodologies like bioinformatics, biochemical, and proteomics are used to separate, classify, and outline secretomes by means of harmonizing in planta systems and in vitro suspension cultured cell system (SSCs). We summed up and explained the meaning of secretome, methods used for the identification and isolation of secreted proteins from extracellular space and methods for the assessment of purity of secretome proteins in this review. Two D PAGE method and HPLC based methods for the analysis together with different bioinformatics tools used for the prediction of secretome proteins are also discussed. Biological significance of secretome proteins under different environmental stresses, i.e., salt stress, drought stress, oxidative stress, etc., defense responses and plant interactions with environment are also explained in detail.

Small but Mighty: Functional Peptides Encoded by Small ORFs in Plants

“…Furthermore, MS typically identifies peptides by matching experimental spectra with theoretical spectra from a database, and these databases do not usually include putative sPEPs. Several optimization strategies to improve sPEP detection have been deployed, including different protein extraction protocols, the use of proteases other than trypsin, and the incorporation of a customized protein database from Ribo‐seq or a hypothetical peptide database . The combination of these optimization approaches is expected to improve sPEP detection in proteomic studies in plants.…”

G-protein Signaling Components GCR1 and GPA1 Mediate Responses to Multiple Abiotic Stresses in Arabidopsis

“…The abiotic stresses include temperature variations (both low and high), flood, drought, and salinity. The molecular mechanisms of stress response have been extensively researched and reviewed (Cabello et al, 2014 ; Suzuki et al, 2014 ; Tanveer et al, 2014 ; Parihar et al, 2015 ). However, the search for new genetic targets for crop improvement toward stress tolerance is far from complete.…”

Nanomaterial Transformation in the Soil–Plant System: Implications for Food Safety and Application in Agriculture

“…Advanced techniques such as synchrotron radiation based techniques (e.g., X-ray absorption fine structure spectroscopy) combined with imaging techniques including scanning transmission X-ray microscopy (STXM) and micro X-ray fluorescence (µ-XRF), [122] and isotope labeling approaches [49,123] coupled with in situ detection techniques such as autoradiography, [100] Nano Secondary Ion Mass Spectrometry (NanoSIMS), [124] laser ablation inductively coupled plasma mass spectrometry (ICP-MS), [125] and single particle/cell ICP-MS are all sophistical techniques that can be brought to bare for studying ENMs transformation. Metabolomics, [126] proteomics, [127] exposomics, [128] and secretomics [129] are emerging powerful tools to identify the components of root exudates, EPS, and plant/microbial metabolite response to ENMs exposure. The datasets obtained could be combined with machine learning approaches (e.g., nanoinformatics) [130] to identify key drivers and critical steps of ENMs transformation, and to predict ENMs transformations thereby facilitating safe-by-design of ENMs for sustainable application in agriculture.…”