Extreme weather events threaten food security, yet global assessments of impacts caused by crop waterlogging are rare. Here we first develop a paradigm that distils common stress patterns across environments, genotypes and climate horizons. Second, we embed improved process-based understanding into a farming systems model to discern changes in global crop waterlogging under future climates. Third, we develop avenues for adapting cropping systems to waterlogging contextualised by environment. We find that yield penalties caused by waterlogging increase from 3–11% historically to 10–20% by 2080, with penalties reflecting a trade-off between the duration of waterlogging and the timing of waterlogging relative to crop stage. We document greater potential for waterlogging-tolerant genotypes in environments with longer temperate growing seasons (e.g., UK, France, Russia, China), compared with environments with higher annualised ratios of evapotranspiration to precipitation (e.g., Australia). Under future climates, altering sowing time and adoption of waterlogging-tolerant genotypes reduces yield penalties by 18%, while earlier sowing of winter genotypes alleviates waterlogging by 8%. We highlight the serendipitous outcome wherein waterlogging stress patterns under present conditions are likely to be similar to those in the future, suggesting that adaptations for future climates could be designed using stress patterns realised today.

Waterlogging is one of the main abiotic stresses severely reducing barley grain yield. Barley breeding programs focusing on waterlogging tolerance require an understanding of genetic loci and alleles in the current germplasm. In this study, 247 worldwide spring barley genotypes grown under controlled field conditions were genotyped with 35,926 SNPs with minor allele frequency (MAF) > 0.05. Significant phenotypic variation in each trait, including biomass, spikes per plant, grains per plant, kernel weight per plant, plant height and chlorophyll content, was observed. A genome-wide association study (GWAS) based on linkage disequilibrium (LD) for waterlogging tolerance was conducted. Population structure analysis divided the population into three subgroups. A mixed linkage model using both population structure and kinship matrix (Q+K) was performed. We identified 17 genomic regions containing 51 significant waterlogging-tolerance-associated markers for waterlogging tolerance response, accounting for 5.8–11.5% of the phenotypic variation, with a majority of them localized on chromosomes 1H, 2H, 4H, and 5H. Six novel QTL were identified and eight potential candidate genes mediating responses to abiotic stresses were located at QTL associated with waterlogging tolerance. To our awareness, this is the first GWAS for waterlogging tolerance in a worldwide barley collection under controlled field conditions. The marker-trait associations could be used in the marker-assisted selection of waterlogging tolerance and will facilitate barley breeding.

Barley (Hordeum vulgare L.) is the most susceptible cereal species to excess moisture stress. Waterlogging-induced hypoxia causes major morphological, physiological, and metabolic changes, some of which are regulated by the action of plant growth regulators and signal molecules including nitric oxide. Recent studies have evidenced the participation of phytoglobins in attenuating hypoxic stress during conditions of excessive moisture through their ability to scavenge nitric oxide and influence the synthesis and response of growth regulators. This review will highlight major cellular changes linked to plant responses to waterlogging stress with emphasis on phytoglobins.

Fusarium head blight caused by Fusarium graminearum is a devastating disease of malting barley. Mycotoxins associated with contaminated grain can be transferred from malt to beer and pose a health risk to consumers. In western Canada, F. graminearum has undergone an adaptive shift from 15ADON constituency to dominance by virulent 3ADON-producers; likewise, NIV-producers have established in regions of southern United States. Lack of adapted resistance sources with adequate malting quality has promoted the use of alternative breeding methodologies, such as in vitro selection. We studied the low-deoxynivalenol characteristic of in vitro selected, two-row malting barley variety “Norman” by RNAseq in contrast to its parental line “CDC Kendall,” when infected by 15ADON-, 3ADON-, and NIV-producing isolates of F. graminearum. The current study documents higher mycotoxin accumulation by 3ADON isolates, thereby representing increased threat to barley production. At 72–96-h post infection, significant alterations in transcription patterns were observed in both varieties with pronounced upregulation of the phenylpropanoid pathway and detoxification gene categories (UGT, GST, CyP450, and ABC), particularly in 3ADON treatment. Defense response was multitiered, where differential expression in “Norman” associated with antimicrobial peptides (thionin 2.1, defensing, non-specific lipid-transfer protein) and stress-related proteins, such as late embryogenesis abundant proteins, heat-shock, desiccation related, and a peroxidase (HvPrx5). Several gene targets identified in “Norman” would be useful for application of breeding varieties with reduced deoxynivalenol content.

Fusarium head blight (FHB) is a devastating disease in barley, causing significant losses for the malting and brewing industries. We hypothesized that the variation observed in Fusarium ‐related issues during malting may be partially attributable to differences among Fusarium graminearum strains. Field trials in 2019–2021 used barley cultivars with different FHB resistance: Newdale (intermediate) and AAC Goldman (moderately resistant). Barley plants were grown under disease‐conducive conditions, and plots were inoculated with conidial suspensions of each of seven different F. graminearum monoclonal isolates plus a noninoculated control. Disease severity (as a percentage of symptomatic spikelets) significantly differed among years (2020 > 2019 > 2021). F. graminearum density in barley varied significantly across years (2019 > 2021 > 2020). Pathogen strain identity and cultivar (Newdale > AAC Goldman) had significant effects on F. graminearum density in barley grain. The harvested barley was micromalted. The deoxynivalenol (DON) content in barley and malt significantly differed among years and cultivars, with the highest levels in 2019 and in Newdale. Pathogen strain identity significantly influenced DON content in barley and malt. F. graminearum density in malt showed significant variation among years (2021 > 2019 > 2020) and was influenced by the pathogen strain identity, while cultivar did not significantly affect F. graminearum density in malt. Gushing varied significantly across years but was not affected by cultivar or pathogen strain identity and was independent of F. graminearum density. Our finding that F. graminearum strain identity altered impact in barley grain and malt may explain the variability of FHB impacts.