Class
Article
College
College of Agriculture and Applied Sciences
Department
Plants, Soils, and Climate Department
Faculty Mentor
Rakesh Kaundal
Presentation Type
Poster Presentation
Abstract
Plant infectious diseases are a major threat to the crops, owing to economic losses to the agriculture industry worldwide. Molecular interactions between the host and pathogen play a critical role in understanding the basis of pathogenesis. Majority of the Pseudomonas syringae strains are known to cause frost injury in plants, amongst which, P. syringae pv. syringae ALF3 is asserted to be a causal organism of bacterial stem blight in Medicago sativa (alfalfa). We elucidated the genome-scale host-pathogen interactions (HPIs) between alfalfa and P. syringae using two intense computational approaches: interolog (homology-based) and the domain-based method (based on 3D structure of known proteins), followed by functional enrichment analysis and subcellular localization of the proteins. In total, ~14M probable HPIs were predicted from both the approaches, involving 50,629 alfalfa proteins and 2,932 P. syringae proteins. Furthermore, ~0.7M HPIs have been predicted as a consensus, interacting from both the approaches. The protein-protein interaction networks were visualized using Gephi and protein hubs were identified. The functional analysis showed that P. syringae proteins are highly involved in nucleotide binding activity (GO:0000166), intracellular organelle (GO:0043229) and translation (GO:0006412). Alfalfa proteins are found to be enriched in plastid stroma (GO:0009532), which is considered as a major source of production of various defense-related signals (ROS) and hormones (abscisic acid, jasmonic acid). Studies have reported that chloroplasts are the primary site for pathogen effectors to attack and overcome plant innate signaling. Further, alfalfa proteins are found to be involved in the plant-pathogen interaction pathway (mtr04626), whereby multiple immune responses are generated against invading pathogens. The subcellular localization prediction revealed that most of the pathogen proteins target host proteins inside the cytoplasm and nucleus. Additionally, we identified many novel virulence effectors in the predicted HPIs. The present study is the first to report advanced computational approaches for deciphering genome-scale host-pathogen PPIs between alfalfa and P. syringae, thus enabling the researchers to better understand the infection mechanisms of the pathogen and develop pathogen-resistant lines.Presentation Time: Thursday, 12-1 p.m.Zoom link: https://usu-edu.zoom.us/j/83738417563?pwd=SHlRcGdaaTdmVzVUOENqTnVHQ3UzZz09
Location
Logan, UT
Start Date
4-11-2021 12:00 AM
Included in
Translating -omics Big Data: Comprehensive Understanding of Host-Pathogen Interactions to Control Bacterial Blight in Alfalfa Using Computational Approaches
Logan, UT
Plant infectious diseases are a major threat to the crops, owing to economic losses to the agriculture industry worldwide. Molecular interactions between the host and pathogen play a critical role in understanding the basis of pathogenesis. Majority of the Pseudomonas syringae strains are known to cause frost injury in plants, amongst which, P. syringae pv. syringae ALF3 is asserted to be a causal organism of bacterial stem blight in Medicago sativa (alfalfa). We elucidated the genome-scale host-pathogen interactions (HPIs) between alfalfa and P. syringae using two intense computational approaches: interolog (homology-based) and the domain-based method (based on 3D structure of known proteins), followed by functional enrichment analysis and subcellular localization of the proteins. In total, ~14M probable HPIs were predicted from both the approaches, involving 50,629 alfalfa proteins and 2,932 P. syringae proteins. Furthermore, ~0.7M HPIs have been predicted as a consensus, interacting from both the approaches. The protein-protein interaction networks were visualized using Gephi and protein hubs were identified. The functional analysis showed that P. syringae proteins are highly involved in nucleotide binding activity (GO:0000166), intracellular organelle (GO:0043229) and translation (GO:0006412). Alfalfa proteins are found to be enriched in plastid stroma (GO:0009532), which is considered as a major source of production of various defense-related signals (ROS) and hormones (abscisic acid, jasmonic acid). Studies have reported that chloroplasts are the primary site for pathogen effectors to attack and overcome plant innate signaling. Further, alfalfa proteins are found to be involved in the plant-pathogen interaction pathway (mtr04626), whereby multiple immune responses are generated against invading pathogens. The subcellular localization prediction revealed that most of the pathogen proteins target host proteins inside the cytoplasm and nucleus. Additionally, we identified many novel virulence effectors in the predicted HPIs. The present study is the first to report advanced computational approaches for deciphering genome-scale host-pathogen PPIs between alfalfa and P. syringae, thus enabling the researchers to better understand the infection mechanisms of the pathogen and develop pathogen-resistant lines.Presentation Time: Thursday, 12-1 p.m.Zoom link: https://usu-edu.zoom.us/j/83738417563?pwd=SHlRcGdaaTdmVzVUOENqTnVHQ3UzZz09