Changes in Fungal and Oomycete Community Composition Following Irrigation Reductions Aimed at Increasing Water Use Efficiency in a Containerized Nursery Crop

Abstract

Ornamental production in the U.S. spans an estimated 267,000 hectares and uses approximately 169,000 m3 of water yearly. Ornamental growers, particularly those with air-closed systems, are interested in implementing reduced irrigation technologies like sensor-controlled irrigation (SCI) systems to improve water use efficiency in response to water scarcity. To evaluate phytobiome impacts, we utilized an Illumina metabarcoding approach to characterize changes in fungal and oomycete rhizosphere communities of commercially grown poinsettia, complementing previous studies of single-pathogen impacts. Minor reductions (from 54% volumetric water content [VWC] to 50% VWC) did not have large effects on rhizosphere fungal community structure, but shifts in plant health status (symptomatic/ asymptomatic) correlated with shifts in fungal diversity and evenness, with an increased abundance of several taxa including Plectosphaerella cucumerina, and Fusarium sp. in symptomatic plants. Further reductions in irrigation (45% VWC, 35% VWC and 25% VWC) did not affect overall fungal community composition, but the lowest VWC increased the abundance of potential root rot pathogens like Phoma multirostrata and Plectosphaerella cucumerina. Reduced irrigation volumes decreased oomycete diversity and abundance of several known pathogens in the Phytophthora genus. Addition of a bacterial product (Companion®) with putative pathogen suppressive and drought-tolerance enhancing effects had no influence on fungal community composition or abundance, but increased abundance of some oomycete species at 45% VWC. This study shows that adoption of reduced irrigation may have greater effects on fungal vs. oomycete taxa in the system, with consistent patterns of fungal enhancement, including putative fungal pathogens and beneficial organisms, and oomycete suppression.

Monitoring oomycetes in water: combinations of methodologies used to answer key monitoring questions

“…There are further useful examples for potential future water studies from work in soils, for instance changes in fungal and oomycete community composition have been successfully monitored using a metabarcoding approach (Del Castillo Muńera et al, 2022) which demonstrated significant reductions in the abundance and diversity of oomycete pathogens in the rhizosphere of poinsettia crops as a result of reduced irrigation. Other studies show the power of these techniques: for example, in studies of fungal and oomycete communities in Holm oak soil, Ruiz Goḿez et al ( 2019) examined some complex interactions and identified a strong correlation between the presence of a taxon of Trichoderma and a decline in the abundance of pathogenic Phytophthora spp.…”