Characterization of grapevine leafroll-associated virus 3 genetic variants and application towards RT-qPCR assay design

Grapevine leafroll-associated virus 3 (GLRaV-3) is the most widely prevalent and economically important of the complex of RNA viruses associated with grapevine leafroll disease (GLD). Phylogenetic studies have grouped GLRaV-3 isolates into nine different monophyletic groups and four supergroups, making GLRaV-3 a genetically highly diverse virus species. In addition, new divergent variants have been discovered recently around the world. Accurate identification of the virus is an essential component in the management and control of GLRaV-3; however, the diversity of GLRaV-3, coupled with the limited sequence information, have complicated the development of a reliable detection assay. In this study, GLRaV-3 sequence data available in GenBank and those generated at Foundation Plant Services, University of California-Davis, was used to develop a new RT-qPCR assay with the capacity to detect all known GLRaV-3 variants. The new assay, referred to as FPST, was challenged against samples that included plants infected with different GLRaV-3 variants and originating from 46 countries. The FPST assay detected all known GLRaV-3 variants, including the highly divergent variants, by amplifying a small highly conserved region in the 3' untranslated terminal region (UTR) of the virus genome. The reliability of the new RT-qPCR assay was confirmed by an enzyme linked immunosorbent assay (ELISA) that can detect all known GLRaV-3 variants characterized to date. Additionally, three new GLRaV-3 divergent variants, represented by four isolates, were identified using a hierarchical testing process involving the FPST assay, GLRaV-3 variant-specific assays and high-throughput sequencing analysis. These variants were distantly related to groups I, II, III, V, VI, VII and IX, but much similar to GLRaV-3 variants with no assigned group; thus, they may represent new clades. Finally, based on the phylogenetic analysis, a new GLRaV-3 subclade is proposed and named as group X.Alfredo Diaz-Lara, Vicki Klaassen, Kristian Stevens, Mysore R. Sudarshana, Adib Rowhani ... Nuredin Habili ... et al

Sediment Management Goals and Recommended Practices for Orchards and Vineyards

Specific steps you can take to minimize vineyard and orchard soil erosion and keep downstream waterways clean

Paso Robles vineyard irrigation study provides benchmark data to assist future area groundwater management

Accurate information on irrigation water usage does not exist in many areas where groundwater is the primary water source. This lack of information will hinder efforts to manage these groundwater basins sustainably according to current and future water regulations and policies. Using a low-cost methodology of irrigation-line pressure sensors connected to data loggers, we estimated irrigation applications at 84 vineyard sites in the Paso Robles Groundwater Basin over 4 years (2010–2013). We compared irrigation amounts with the preceding winter's rainfall and with the growing season reference evapotranspiration (ETo). Over the study period, the average annual irrigation application was 11.46 inches (291 millimeters). The average annual application correlated inversely to the preceding winter's rainfall, while the irrigation over the growing season (April–October) correlated directly with the ETo over this same period. This study provides an initial data framework that can be used by groundwater sustainability agencies to help manage groundwater in the Paso Robles area. The methodology also could be utilized in other regions to estimate regional irrigation usage while maintaining anonymity for participants

Paso Robles vineyard irrigation study provides benchmark data to assist future area groundwater management

Accurate information on irrigation water usage does not exist in many areas where groundwater is the primary water source. This lack of information will hinder efforts to manage these groundwater basins sustainably according to current and future water regulations and policies. Using a low-cost methodology of irrigation-line pressure sensors connected to data loggers, we estimated irrigation applications at 84 vineyard sites in the Paso Robles Groundwater Basin over 4 years (2010–2013). We compared irrigation amounts with the preceding winter's rainfall and with the growing season reference evapotranspiration (ETo). Over the study period, the average annual irrigation application was 11.46 inches (291 millimeters). The average annual application correlated inversely to the preceding winter's rainfall, while the irrigation over the growing season (April–October) correlated directly with the ETo over this same period. This study provides an initial data framework that can be used by groundwater sustainability agencies to help manage groundwater in the Paso Robles area. The methodology also could be utilized in other regions to estimate regional irrigation usage while maintaining anonymity for participants