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Abstract Ambrosia artemisiifolia and Ambrosia trifida (Asteraceae) are important pest species and the two greatest sources of aeroallergens globally. Here, we took advantage of a hybrid to simplify genome assembly and present chromosome‐level assemblies for both species. These assemblies show high levels of completeness with Benchmarking Universal Single‐Copy Ortholog (BUSCO) scores of 94.5% for A. artemisiifolia and 96.1% for A. trifida and long terminal repeat (LTR) Assembly Index values of 26.6 and 23.6, respectively. The genomes were annotated using RNA data identifying 41,642 genes in A. artemisiifolia and 50,203 in A. trifida. More than half of the genome is composed of repetitive elements, with 62% in A. artemisiifolia and 69% in A. trifida. Single copies of herbicide resistance‐associated genes PPX2L, HPPD, and ALS were found, while two copies of the EPSPS gene were identified; this latter observation may reveal a possible mechanism of resistance to the herbicide glyphosate. Ten of the 12 main allergenicity genes were also localized, some forming clusters with several copies, especially in A. artemisiifolia. The evolution of genome structure has differed among these two species. The genome of A. trifida has undergone greater rearrangement, possibly the result of chromoplexy. In contrast, the genome of A. artemisiifolia retains a structure that makes the allotetraploidization of the most recent common ancestor of the Heliantheae Alliance the clearest feature of its genome. When compared to other Heliantheae Alliance species, this allowed us to reconstruct the common ancestor's karyotype—a key step for furthering of our understanding of the evolution and diversification of this economically and allergenically important group.

Green pigweed [Amaranthus powellii S. Wats.] is a competitive, annual, broadleaf weed that can significantly reduce soybean yield due to rapid early growth and biomass production. As a consequence of green pigweed’s high competitiveness with crops, the weed species is generally managed with the use of herbicides; this may, however, lead to the selection of resistance. A green pigweed biotype with resistance to MCPA, mecoprop, dichlorprop-p, aminocyclopyrachlor (synthetic auxins), and imazethapyr (acetolactate synthase-(ALS)-inhibitor) was recently confirmed in Ontario, Canada. Research was conducted to identify alternative effective preemergence (PRE) and postemergence (POST) herbicides for the control of multiple-herbicide-resistant (MHR) green pigweed in Ontario soybean production. Four field trials, two with PRE and two with POST herbicides were conducted near Dresden, Ontario in 2019 and 2020. Visible soybean injury, green pigweed control, density, aboveground biomass, and soybean yield were evaluated following application with 19 PRE herbicide treatments and 12 POST herbicide treatments in separate studies. At 8 wk after application (WAA), pyroxasulfone/flumioxazin applied PRE controlled green pigweed 95% and was the most effective soil-applied herbicide. In the POST study, glyphosate was the most effective herbicide, controlling green pigweed 94% at 8 WAA. Imazethapyr, applied PRE or POST did not control this green pigweed biotype as it is also resistant to ALS-inhibitors. Control with other ALS-inhibiting herbicides as well as with PPO-inhibiting herbicides was variable, and further research is needed to determine the reason for variable control with these herbicides.