On how to add permissions to application manifest please read this KB.

GlobalPermissionsNode

GlobalPermissions.Settings.ApplicationSettingsNode

GlobalPermissions.Settings.AutomationLogsNode

GlobalPermissions.Settings.EmailNode

GlobalPermissions.SettingsNode

GlobalPermissions.Settings.InventoryNode

GlobalPermissions.Settings.Inventory.VariationsNode

GlobalPermissions.Settings.Inventory.CategoriesNode

GlobalPermissions.Settings.Inventory.LocationsNode

GlobalPermissions.Settings.ChannelIntegrationNode

GlobalPermissions.Settings.ChannelIntegration.ChannelPaymentNode

GlobalPermissions.Settings.ChannelIntegration.ChannelShippingNode

GlobalPermissions.Settings.ChannelIntegration.ChannelDetailsNode

GlobalPermissions.Settings.ChannelIntegration.ChannelMappingNode

GlobalPermissions.Settings.ChannelIntegration.ChannelDeleteNode

GlobalPermissions.Settings.TemplateDesignerNode

GlobalPermissions.Settings.ListingConfiguratorsNode

GlobalPermissions.Settings.ImportExportNode

GlobalPermissions.Settings.ImportExport.ExportNode

GlobalPermissions.Settings.ImportExport.ImportNode

GlobalPermissions.Settings.ShippingServiceNode

GlobalPermissions.Settings.ShippingService.IntegrationsNode

GlobalPermissions.Settings.ShippingService.FiledManifestsNode

GlobalPermissions.Settings.ShippingService.ShippingManifestsNode

GlobalPermissions.Settings.ShippingService.ShipStationNode

GlobalPermissions.Settings.ShippingService.PostalServicesNode

GlobalPermissions.Email.TemplatesNode

GlobalPermissions.Email.Templates.SaveEmailTemplateNode

GlobalPermissions.Email.Templates.PreviewEmailTemplateNode

GlobalPermissions.Email.Templates.EnableEmailTemplateNode

GlobalPermissions.Email.Templates.GetEmailTemplatesNode

GlobalPermissions.Email.Templates.GetEmailTemplateNode

GlobalPermissions.Email.Templates.DeleteEmailTemplateNode

GlobalPermissions.EmailNode

GlobalPermissions.Email.Account.EnableEmailAccountNode

GlobalPermissions.Email.Account.GetEmailAccountNode 

GlobalPermissions.Email.Account.GetEmailAccountsNode 

GlobalPermissions.Email.Account.SaveEmailAccountNode 

GlobalPermissions.Email.Account.DeleteEmailAccountNode 

GlobalPermissions.Email.AccountNode

GlobalPermissions.OrderBookNode

GlobalPermissions.OrderBook.ProcessedOrdersNode

GlobalPermissions.OrderBook.OpenOrdersNode

GlobalPermissions.OrderBook.ReturnsRefundsNode

GlobalPermissions.OrderBook.DespatchConsoleNode

GlobalPermissions.OrderBook.ViewOrderDetailsNode

GlobalPermissions.OrderBook.RulesEngineNode

GlobalPermissions.AccountManagementNode

GlobalPermissions.AccountManagement.SubscriptionNode

GlobalPermissions.AccountManagement.TrainingNode

GlobalPermissions.AccountManagement.SupportNode

GlobalPermissions.AccountManagement.DetailsNode

GlobalPermissions.AccountManagement.BillingNode

GlobalPermissions.InventoryNode

GlobalPermissions.Inventory.MyInventoryNode

GlobalPermissions.Inventory.WarehouseTransferNode

GlobalPermissions.Inventory.InventorySettings.SuppliersNode

GlobalPermissions.Inventory.InventorySettings.LocationsNode 

GlobalPermissions.Inventory.InventorySettings.CategoriesNode 

GlobalPermissions.Inventory.InventorySettings.VariationsNode 

GlobalPermissions.Inventory.InventorySettingsNode

GlobalPermissions.Inventory.StockNode

GlobalPermissions.Inventory.Stock.StockWriteNode

GlobalPermissions.Inventory.Stock.ChangeStockLevelsNode

GlobalPermissions.Inventory.Stock.StockReadNode

GlobalPermissions.DashboardsNode

GlobalPermissions.Dashboards.FinancialSummaryNode

GlobalPermissions.Dashboards.PrimaryDashboardNode

GlobalPermissions.Dashboards.OpenOrderDashboardNode

GlobalPermissions.Dashboards.QueryDataNode

GlobalPermissions.Dashboards.StockItemChangeHistoryNode

GlobalPermissions.Dashboards.StockConsumptionNode

GlobalPermissions.Dashboards.InventoryDashboardNode

GlobalPermissions.CustomerNode

GlobalPermissions.SyncStatusNode

GlobalPermissions.SyncStatus.SyncQueueNode

GlobalPermissions.SyncStatus.SyncSessionsNode

GlobalPermissions.SyncStatus.SyncErrorsNode

GlobalPermissions.ShippingServiceNode

GlobalPermissions.ShippingService.FiledManifestsNode

GlobalPermissions.ShippingService.IntegrationsNode 

GlobalPermissions.ShippingService.PackagingGroupsNode

GlobalPermissions.ShippingService.PostalServicesNode 

GlobalPermissions.ShippingService.ShipStationNode 

GlobalPermissions.ShippingService.ShippingManifestsNode

GlobalPermissions.PurchaseOrderNode

GlobalPermissions.PurchaseOrder.EditPurchaseOrderNode

GlobalPermissions.PurchaseOrder.SearchPurchaseOrderNode

GlobalPermissions.PurchaseOrder.ViewPurchaseOrderNode