Receptor-like kinases(RLKs)are the most numerous signal transduction components in plants and play important roles in determining how different plants adapt to their ecological environments.Research on RLKs has focuse...Receptor-like kinases(RLKs)are the most numerous signal transduction components in plants and play important roles in determining how different plants adapt to their ecological environments.Research on RLKs has focused mainly on a small number of typical RLK members in a few model plants.There is an urgent need to study the composition,distribution,and evolution of RLKs at the holistic level to increase our understanding of how RLKs assist in the ecological adaptations of different plant species.In this study,we collected the genome assemblies of 528 plant species and constructed an RLK dataset.Using this dataset,we identified and characterized 524948 RLK family members.Each member underwent systematic topological classification and was assigned a gene ID based on a unified nomenclature system.Furthermore,we identified two novel extracellular domains in some RLKs,designated Xiao and Xiang.Evolutionary analysis of the RLK family revealed that the RLCK-XVII and RLCK-XII-2 classes were present exclusively in dicots,suggesting that diversification of RLKs between monocots and dicots may have led to differences in downstream cytoplasmic responses.We also used an interaction proteome to help empower data mining for inference of new RLK functions from a global perspective,with the ultimate goal of understanding how RLKs shape the adaptation of different plants to the environments/ecosystems.The assembled RLK dataset,together with annotations and analytical tools,forms an integrated foundation of multiomics data that is publicly accessible via the metaRLK web portal(http://metaRLK.biocloud.top).展开更多
Motivation:Virus receptors are presented on the cell surfaces of a host and are key for viral infection of host cells.However,no unified resource for the study of viral receptors is currently available.Results:To addr...Motivation:Virus receptors are presented on the cell surfaces of a host and are key for viral infection of host cells.However,no unified resource for the study of viral receptors is currently available.Results:To address this problem,we built EVIHVR,a platform for analyzing the expression and variation,and for the identification of human virus receptors.EVIHVR provides three functions:(1)Receptor expression function for browsing and analyzing the expression of human virus receptors in various human tissues/cells;(2)Receptor gene polymorphism function for analyzing the genetic polymorphism of human virus receptors in different human populations and human tissues;and(3)Predict receptor function for identifying potential virus receptors based on differential expression analysis.EVIHVR can become a useful tool for the analysis and identification of human virus receptors.展开更多
基金supported by startup funds provided by Hunan Universitya database development fund provided by Suzhou Tributary Biologics Co.Ltd.,+2 种基金grants supported by the National Key R&D Program of China(2023YFD1401100)the Natural Science Foundation of China(32070769,32370757,and 32201712)the Science and Technology Innovation Program of Hunan Province(2021JJ10015,2021JJ30101,2023JJ40131,and 2023ZJ1080).
文摘Receptor-like kinases(RLKs)are the most numerous signal transduction components in plants and play important roles in determining how different plants adapt to their ecological environments.Research on RLKs has focused mainly on a small number of typical RLK members in a few model plants.There is an urgent need to study the composition,distribution,and evolution of RLKs at the holistic level to increase our understanding of how RLKs assist in the ecological adaptations of different plant species.In this study,we collected the genome assemblies of 528 plant species and constructed an RLK dataset.Using this dataset,we identified and characterized 524948 RLK family members.Each member underwent systematic topological classification and was assigned a gene ID based on a unified nomenclature system.Furthermore,we identified two novel extracellular domains in some RLKs,designated Xiao and Xiang.Evolutionary analysis of the RLK family revealed that the RLCK-XVII and RLCK-XII-2 classes were present exclusively in dicots,suggesting that diversification of RLKs between monocots and dicots may have led to differences in downstream cytoplasmic responses.We also used an interaction proteome to help empower data mining for inference of new RLK functions from a global perspective,with the ultimate goal of understanding how RLKs shape the adaptation of different plants to the environments/ecosystems.The assembled RLK dataset,together with annotations and analytical tools,forms an integrated foundation of multiomics data that is publicly accessible via the metaRLK web portal(http://metaRLK.biocloud.top).
基金This work was supported by the Hunan Provin-cial Natural Science Foundation of China(2020JJ3006,2019JJ20004)the National Natural Science Founda-tion of China(32170651)。
文摘Motivation:Virus receptors are presented on the cell surfaces of a host and are key for viral infection of host cells.However,no unified resource for the study of viral receptors is currently available.Results:To address this problem,we built EVIHVR,a platform for analyzing the expression and variation,and for the identification of human virus receptors.EVIHVR provides three functions:(1)Receptor expression function for browsing and analyzing the expression of human virus receptors in various human tissues/cells;(2)Receptor gene polymorphism function for analyzing the genetic polymorphism of human virus receptors in different human populations and human tissues;and(3)Predict receptor function for identifying potential virus receptors based on differential expression analysis.EVIHVR can become a useful tool for the analysis and identification of human virus receptors.
