Palmer Amaranth Research Articles

Comparative floral development in male and female plants of Palmer amaranth (Amaranthus palmeri).

Characterizing the developmental processes in the transition from hermaphroditism to unisexuality is crucial for understanding floral evolution. Amaranthus palmeri, one of the most devastating weeds in the United States, is an emerging model system for studying a dioecious breeding system and understanding the biological traits of this invasive weed. The objectives of this study were to characterize phases of flower development in A. palmeri and compare organogenesis of flower development in female and male plants. Flower buds from male and female plants were dissected for light microscopy. Segments of male and female inflorescences at different stages of development were cut longitudinally and visualized using scanning electron microscopy. Pistillate flowers have two to three styles, one ovary with one ovule, and five obtuse tepals. Staminate flowers have five stamens with five acute tepals. Floral development was classified into 10 stages. The distinction between the two flower types became apparent at stage four by the formation of stamen primordia in staminate flowers, which developed female and male reproductive organs initially, as contrasted to pistillate flowers, which produced carpel primordia only. In staminate flowers, the putative carpel primordia changed little in size and remained undeveloped. Timing of inappropriate organ termination varies across the two sexes in A. palmeri. Our study suggests that the evolution of A. palmeri from a cosexual ancestral state to complete dioecy is still in progress since males exhibited transient hermaphroditism and females produced strictly pistillate flowers.

Cysteine proteases are activated in sensitive Amaranthus palmeri populations upon treatment with herbicides inhibiting amino acid biosynthesis.

The herbicides glyphosate and pyrithiobac inhibit the enzyme 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) in the aromatic amino acid biosynthetic pathway and acetolactate synthase (ALS) in the branched-chain amino acid biosynthetic pathway, respectively. Here we characterise the protease activity profiles of a sensitive (S), a glyphosate-resistant (GR) and a multiple-resistant (MR) population of Amaranthus palmeri in response to glyphosate and pyrithiobac. Amino acid accumulation and cysteine protease activities were induced with both herbicides in the S population and with pyrithiobac in the GR population, suggesting that the increase in cysteine proteases is responsible for the increased degradation of the available proteins and the observed increase in free amino acids. Herbicides did not induce any changes in the proteolytic activities in the populations with target-site resistance, indicating that this effect was only induced in sensitive plants.

Ethnobotany of the Useful Native Species in Linares, Nuevo León, México

In Linares, Nuevo León, Mexico, there is no record of the total number of species or the uses that people make of native plants. The purpose of this study was to know the species and their uses in the municipality of Linares, Nuevo León, Mexico. Based on 180 semi-structured interviews, collection, identification, and storage of botanical specimens, the regional ethnobotanical knowledge was assessed. The ethnobotanical information and significant use of plants in Linares was studied. To identify the cultural importance of the ethnobotanical uses of the plants, three indices were calculated: the Use Value Index (UVI), the Informant Consensus Factor (ICF), and the Fidelity Level (FL). We recorded 59 plant families, 151 genera, and 152 species. The families with the largest number of genera and species with uses registered are Asteraceae, Fabaceae, Cactaceae, Araceae, and Euphorbiaceae. The most common uses recorded are ornamental, medicinal, food, and forage. The highest values for ICF were for the circulatory, endocrine, and digestive systems. At least 20 species had 100% FL index values. The species with the highest UVI values were Equisetum laevigatum, Persea ameriana, Amaranthus palmeri, Lophophora williamsii, and Artemisia ludoviciana. A wide use of native flora is recognized in Linares, Nuevo León, which directly influences the livelihood of people in the area.

Extrachromosomal DNA-mediated glyphosate resistance in Italian ryegrass.

An Italian ryegrass population from Arkansas, USA developed glyphosate resistance due to 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene amplification. The plants in this population with approximately 70 EPSPS copies were used in the present study for the physical mapping of amplified copies of EPSPS gene to determine the possible mechanism of EPSPS gene amplification conferring glyphosate resistance in Italian ryegrass. Fluorescence in situ hybridization (FISH) analysis of glyphosate resistant (GR) Italian ryegrass plants with approximately 70 EPSPS copies displayed EPSPS hybridization signals randomly on most of the metaphase chromosomes. Glyphosate susceptible (GS) Italian ryegrass plants with one EPSPS copy displayed single prominent EPSPS hybridization signal, which was co-localized with 5S rDNA locus along with few additional signals on the outside of chromosomes. Pulsed-field gel electrophoresis (PFGE) followed by DNA blot using EPSPS gene as a probe identified a prominent EPSPS hybridization around the 400 kb region in GR DNA samples, but not in GS DNA samples. We report the extrachromosomal DNA-mediated glyphosate resistance in Italian ryegrass. Physical mapping of amplified copies of EPSPS gene in Italian ryegrass by FISH gives us a clue that the amplified copies of EPSPS gene may be present in the extrachromosomal DNA elements. Further analysis by PFGE followed by DNA blotting revealed that the extrachromosomal DNA containing EPSPS is approximately 400 kb similar in size with that of eccDNA replicon in Amaranthus palmeri. © 2023 Society of Chemical Industry.

Comparative transcriptomic analysis of male and females in the dioecious weeds Amaranthus palmeri and Amaranthus tuberculatus

BackgroundWaterhemp (Amaranthus tuberculatus (Moq.) Sauer) and Palmer amaranth (Amaranthus palmeri S. Wats.) are two dioecious and important weed species in the world that can rapidly evolve herbicide-resistance traits. Understanding these two species' dioecious and sex-determination mechanisms could open opportunities for new tools to control them. This study aims to identify the differential expression patterns between males and females in A. tuberculatus and A. palmeri. Multiple analyses, including differential expression, co-expression, and promoter analyses, used RNA-seq data from multiple tissue types to identify putative essential genes for sex determination in both dioecious species.ResultsGenes were identified as potential key players for sex determination in A. palmeri. Genes PPR247, WEX, and ACD6 were differentially expressed between the sexes and located at scaffold 20 within or near the male-specific Y (MSY) region. Multiple genes involved with flower development were co-expressed with these three genes. For A. tuberculatus, no differentially expressed gene was identified within the MSY region; however, multiple autosomal class B and C genes were identified as differentially expressed and possible candidate genes.ConclusionsThis is the first study comparing the global expression profile between males and females in dioecious weedy Amaranthus species. Results narrow down putative essential genes for sex-determination in A. palmeri and A. tuberculatus and also strengthen the hypothesis of two different evolutionary events for dioecy within the genus.

Corn Plant Density Effects on Grain Yield and Palmer Amaranth Response to Dicamba

Palmer amaranth (Amaranthus palmeri S. Wats.) is primarily found in fallow and cultivated fields throughout Kansas (KS). Previously, we reported that the effective dose of dicamba for 50% control (ED50) of a 10-30 cm tall A. palmeri accession from KS (KSP) during the fallow-year of a wheat-corn-fallow rotation (WCF) ranged between 40.4 to 283.5 g ae ha-1 Here, we investigated corn (Zea mays L.) plant density effects on grain yield and the KSP response to dicamba in the corn-year of the WCF rotation. The experiments used a randomized complete block design with four replicates and a split-plot arrangement of treatments. Main plots consisted of corn planted at five densities (49,400; 61,700; 74,100; 86,400 and 98,800 plants ha-1) and sub-plots consisted of six doses of dicamba [(70, 140, 210, 280, 420, and 560 g ae ha-1) applied near V6], a weedy-check, and a weed-free check. In general, acceptable grain yield and KSP control with dicamba doses < 560 g ae ha-1 were only achieved when corn was planted at a density ≥ 74,100 plants ha-1. Based on the ED50 estimates, the KSP required 4.4-8.2% less dicamba for height and biomass reduction as corn plant density increased from 49,400 to 98,800 plants ha-1. Conversely, the amount of dicamba required for 50% reduction of KSP density increased 45.1% from 144.4 to 209.6 g ae ha-1 as corn plant density increased from 49,400 to 98,800 plants ha-1, respectively. Taken together, this study shows that integration of high-density corn planting with dicamba is a cost-effective tool for controlling A. palmeri. However, resistance mitigation and a season-long control of this species cannot be achieved without the integration of other more diversified and robust strategies that include the use of preemergence fb postemergence herbicide programs that overlap residuals with cultural, biological, and mechanical weed control tactics.

Effects of 2,4-D choline on fruiting in sensitive cotton

AbstractWith the increase in hectares planted to auxin-resistant cotton, the number of preplant, at-plant, and postplant applications of dicamba and 2,4-D choline to aid in the control of troublesome broadleaf weeds, including glyphosate-resistant Palmer amaranth, has increased. More dicamba and 2,4-D choline applications mean an increased risk of off-target movement. Field studies were conducted in 2019 to 2021 at the Texas Tech University New Deal Research Farm to evaluate dicamba-resistant cotton response to various rates of 2,4-D choline when applied at four growth stages (first square [FS] + 2 wk, first bloom [FB], FB + 2 wk, and FB + 4 wk). Applications of 2,4-D choline were applied at 1,060 (1X), 106 (1/10X), 21 (1/50X), 10.6 (1/100X), 2.1 (1/500X), and 1.06 (1/1000X) g ae ha−1 to Deltapine 1822 XF cotton. Relative to the nontreated control, yield losses were observed in all years at FS + 2 wk and FB from rates of 2,4-D choline ≥ 1/100X. At the FB + 4 wk application, only the 1X rate of 2,4-D choline resulted in a yield reduction in all three years. Micronaire, fiber length, and uniformity were negatively influenced by the 1/10X and 1X rates of 2,4-D choline at various timings in 2019, 2020, and 2021. In addition, short fiber content, neps, and seed coat neps increased where micronaire, fiber length, and uniformity were negatively impacted.

An integrated weed management approach in tomato using soil steaming, mulching, and winter cover crops

One of the most significant yield losses in tomato (Solanum lycopersicum L.) is due to weeds. Yellow and purple nutsedge, large crabgrass, and Palmer amaranth are the most troublesome weed species in tomato production throughout the southeastern United States. This study aimed to determine the impact of soil steaming, plastic mulching, and cover crops on weed suppression, tomato height, and fruit yield. The cover crops used were hairy vetch (Vicia villosa), crimson clover (Trifolium incarnatum), and cereal rye (Secale cereale). The study was conducted at the Mississippi State University Truck Crops Experiment Station in Crystal Springs, Mississippi, USA. The experiment used a completely randomized block design with three fall cover crop treatments, including fallow, and each was replicated three times and repeated in two years. Each plot was broadcasted with a mixture of yellow nutsedge (Cyperus esculentus L.), large crabgrass (Digitaria sanguinalis L.), barnyardgrass (Echinochloa crus-galli), and Palmer amaranth [Amaranthus palmeri (S.) Watson] at a density of 20 plants m-2 for each weed species. Two days after sowing the weed seeds, the soil surface was steamed according to its assigned treatment until it reached 61°C for either 0, 5, or 20 min. After steaming, drip irrigation tubing was laid on each row, and covered by black, 0.0254-mm plastic mulch. Data were recorded in both years, including weed cover, plant height, and fruit yield. The lowest weed cover was observed at 5 min of soil steaming in mulched treatment, and the highest cover was noted at 0 min of soil steaming in the absence of mulching. Yellow nutsedge was the dominant weed species, even under steam and mulch treatments. The use of cover crops did not show a difference compared to fallow treatments. However, hairy vetch showed the lowest weed cover, followed by crimson clover. Tomato plants in steamed soil were up to 13 cm taller than those in unsteamed soils. Additionally, steaming at 5 or 20 min in combination with plastic mulch increased the marketable and cull yield. Soil steaming and mulching increased tomato plant height and yield while decreasing weed population and can, therefore, be effectively incorporated into an integrated weed management program in tomato.

Designing New Protoporphyrinogen Oxidase-Inhibitors Carrying Potential Side Chain Isosteres to Enhance Crop Safety and Spectrum of Activity.

There are several methods to control weeds, which impose particular challenges for farmers in all parts of the world, although applying small molecular compounds still remains the most efficient technology to date. However, plants can evolve to become resistant toward active ingredients which is also the case for protoporphyrinogen oxidase (PPO) inhibitors, a class of highly effective herbicides in use for more than 50 years. Hence, it is essential to continuously discover and develop new herbicidal PPO inhibitors with enhanced intrinsic activity, an improved resistance profile, enhanced crop safety, favorable physicochemical properties, and a clean toxicological profile. By modifying structural key features from known PPO inhibitors such as tiafenacil, inspired by isostere and mix&match concepts in combination with modeling investigations based on a wild-type Amaranthus crystal structure, we have found new promising lead structures showing strong activity in vitro and in vivo against several notorious dicotyledon and monocotyledon weeds with emerging resistance (e.g., Amaranthus palmeri, Amaranthus tuberculatus, Lolium rigidum, and Alopecurus myosuroides). While several phenyl uracils carrying an isoxazoline motif in their thio-linked side chain showed promising resistance-breaking potential against different Amaranthus species, introducing a thioacrylamide side chain afforded outstanding efficacy against resistant grass weeds.

Extrachromosomal circular DNA-mediated spread of herbicide resistance in interspecific hybrids of pigweed.

Extrachromosomal circular DNAs (eccDNAs) are found in many eukaryotic organisms. EccDNA-powered copy number variation plays diverse roles, from oncogenesis in humans to herbicide resistance in crop weeds. Here, we report interspecific eccDNA flow and its dynamic behavior in soma cells of natural populations and F1 hybrids of Amaranthus sp. The glyphosate-resistance (GR) trait is controlled by eccDNA-based amplification harboring the 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene (eccDNA replicon), the molecular target of glyphosate. We documented pollen-mediated transfer of eccDNA in experimental hybrids between glyphosate-susceptible Amaranthus tuberculatus and GR Amaranthus palmeri. Experimental hybridization and fluorescence in situ hybridization (FISH) analysis revealed that the eccDNA replicon in Amaranthus spinosus derived from GR A. palmeri by natural hybridization. FISH analysis also revealed random chromosome anchoring and massive eccDNA replicon copy number variation in soma cells of weedy hybrids. The results suggest that eccDNAs are inheritable across compatible species, contributing to genome plasticity and rapid adaptive evolution.

A New V361A Mutation in Amaranthus palmeri PPX2 Associated with PPO-Inhibiting Herbicide Resistance.

Weeds resistant to PPO-inhibiting herbicides threaten the profitability of crop producers relying on this chemistry. In Amaranthus palmeri, mutations at G210 (∆G210) and R128 (R128G/M) of the PPX2 gene were reported to confer PPO-inhibitor resistance. Here, A. palmeri samples from nine states in America, having survived a field application of a PPO-inhibitor, were genotyped to determine the prevalence of these mutations. Less than 5% of the 1828 A. palmeri plants screened contained the ∆G210 mutation. Of the plants lacking ∆G210, a R128 substitution was only found in a single plant. An A. palmeri population from Alabama without mutations at G210 or R128 had a resistance ratio of 3.1 to 3.5 for fomesafen. Of the candidate PPX2 mutations identified in this population, only V361A conferred resistance to lactofen and fomesafen in a transformed bacterial strain. This is the first report of the V361A substitution of PPX2 conferred PPO-inhibiting herbicide resistance in any plant species. Future molecular screens of PPO-inhibitor resistance in A. palmeri and other species should encompass the V361A mutation of PPX2 to avoid false-negative results.

High temperature increases 2,4-D metabolism in resistant Amaranthus palmeri

AbstractPalmer amaranth (Amaranthus palmeri S. Watson) is a troublesome weed in several cropping systems in the United States. The evolution of resistance to multiple herbicides is a challenge for the management of this weed. Recently, we reported metabolic resistance to 2,4-D possibly mediated by cytochrome P450 (P450) activity in a six-way-resistant A. palmeri population (KCTR). Plant growth temperature can influence the herbicide efficacy and level of resistance. The effect of temperature on 2,4-D resistance in A. palmeri is unknown. In the present research, we investigated the response of KCTR and a known susceptible (MSS) A. palmeri response to 2,4-D grown under low-temperature (LT, 24/14 C, day/night [d/n]) or high-temperature (HT, 34/24 C, d/n) regimes. When MSS and KCTR plants were 8- to 10-cm tall, they were treated with 0, 140, 280, 560 (field recommended dose), 1,120, and 2,240 g ai ha−1 of 2,4-D. Further, 8- to 10-cm-tall MSS and KCTR plants grown at LT and HT were also treated with [14C]2,4-D to assess the metabolism of 2,4-D at LT and HT. The results of dose–response experiments suggest that KCTR A. palmeri exhibits 23 times more resistance to 2,4-D at HT than MSS. Nonetheless, at LT, the resistance to 2,4-D in KCTR was only 2-fold higher than in MSS. Importantly, there was enhanced metabolism of 2,4-D in both KCTR and MSS A. palmeri at HT compared with LT. Further, treatment with the P450 inhibitor malathion, followed by 2,4-D increased the susceptibility of KCTR at HT. Overall, rapid metabolism of 2,4-D increased KCTR resistance to 2,4-D at HT compared with LT. Therefore, the application of 2,4-D when temperatures are cooler can improve control of 2,4-D–resistant A. palmeri.

Late postemergence glufosinate‐based programs for glyphosate‐resistant Palmer amaranth control in dicamba/glufosinate/glyphosate‐resistant soybean

AbstractGlyphosate‐resistant (GR) Palmer amaranth (Amaranthus palmeri S. Watson) is widespread in the Central Great Plains. Introduction of newly developed dicamba/glufosinate/glyphosate (DGG)‐resistant soybean varieties allows postemergence (POST) applications of dicamba and glufosinate for in‐season control of GR Palmer amaranth. Limited information exists on the effectiveness of glufosinate applied late‐POST for tall (70–90 cm) GR Palmer amaranth control in DGG‐resistant soybean. The objectives of this study were to (1) determine the effectiveness of late‐POST glufosinate‐based programs for GR Palmer amaranth control, and (2) determine the impact of those programs on soybeans grain yields. Ten glufosinate‐based programs were tested in a field study at Kansas State University Agricultural Research Center near Hays, Kansas. Results indicated that single (655 or 737 g ha−1) and all sequential (594 followed by [fb] 594, 655 fb 594, and 737 fb 594 g ha−1) applications (7‐days apart) of glufosinate provided 87%–93% control of GR Palmer amaranth 28 days after last POST (DALPOST). Palmer amaranth control with single late‐POST application of glufosinate (594 g ha−1) or glufosinate plus S‐metolachlor did not exceed 84% at 28 DALPOST. Majority of the evaluated programs reduced shoot dry weights of GR Palmer amaranth by 83%–91%. The least control (11%) and shoot dry weight reduction (33%) of GR Palmer amaranth were observed with glyphosate fb glyphosate. Glufosinate‐based programs resulted in soybean grain yield of 626–701 kg ha−1. These results conclude that glufosinate applied late‐POST may provide effective control of tall GR Palmer amaranth in DGG‐resistant soybeans.

Responses of Fungal Assembly and Co-Occurrence Network of Rhizosphere Soil to Amaranthus palmeri Invasion in Northern China.

The interaction between invasive plants and soil microbial communities is critical for plant establishment. However, little is known about the assembly and co-occurrence patterns of fungal communities in the rhizosphere soil of Amaranthus palmeri. The soil fungal communities and co-occurrence networks were investigated in 22 invaded patches and 22 native patches using high-throughput Illumina sequencing. Despite having little effect on alpha diversity, plant invasion significantly altered the composition of the soil fungal community (ANOSIM, p < 0.05). Fungal taxa associated with plant invasion were identified using linear discriminant analysis effect size (LEfSe). In the rhizosphere soil of A. palmeri, Basidiomycota was significantly enriched, while Ascomycota and Glomeromycota were significantly reduced when compared to native plants. At the genus level, the invasion of A. palmeri dramatically increased the abundance of beneficial fungi and potential antagonists such as Dioszegia, Tilletiopsis, Colacogloea, and Chaetomium, while it significantly decreased the abundance of pathogenic fungi such as Alternaria and Phaeosphaeria. Plant invasion reduced the average degree and average path length, and increased the modularity value, resulting in a less complex but more effective and stable network. Our findings improved the knowledge of the soil fungal communities, network co-occurrence patterns, and keystone taxa in A. palmeri-invaded ecosystems.

Exploratory Analysis on Herbicide Metabolism and Very-Long-Chain Fatty Acid Production in Metolachlor-Resistant Palmer Amaranth (Amaranthus palmeri S. Wats.).

A Palmer amaranth (Amaranthus palmeri S. Wats.) biotype resistant to S-metolachlor was confirmed from crop fields in Arkansas, USA. This study investigated the metabolic effects of malathion (cytochrome P450 inhibitor) and 4-chloro-7-nitrobenzofurazan [NBD-Cl; glutathione S-transferase inhibitor] on the S-metolachlor-resistant A. palmeri biotype. Root elongation of the resistant biotype was 20% more inhibited by treatment of NBD-Cl (50 nM) and S-metolachlor (2 μM) in mixture than by treatment of S-metolachlor alone. Metabolites of S-metolachlor were 1.4-12.1 times greater produced in the resistant biotype for 7 d than in the susceptible standard. Production of cerotic acid, one of the very-long-chain fatty acids containing 26 carbons, was more reduced in the susceptible standard (3.8-fold) than in the resistant biotype (1.8-fold) by S-metolachlor treatment. Conclusively, evolution of S-metolachlor resistance observed in this study was likely associated with improved activity of glutathione S-transferases. Further studies are needed to genetically evaluate plant endogenous enzymes involving cerotic acid production.

Changes in the structure and function of rhizosphere soil microbial communities induced by Amaranthus palmeri invasion.

Plant invasion can profoundly alter ecosystem processes driven by microorganisms. The fundamental mechanisms linking microbial communities, functional genes, and edaphic characteristics in invaded ecosystems are, nevertheless, poorly understood. Here, soil microbial communities and functions were determined across 22 Amaranthus palmeri (A. palmeri) invaded patches by pairwise 22 native patches located in the Jing-Jin-Ji region of China using high-throughput amplicon sequencing and quantitative microbial element cycling technologies. As a result, the composition and structure of rhizosphere soil bacterial communities differed significantly between invasive and native plants according to principal coordinate analysis. A. palmeri soils exhibited higher abundance of Bacteroidetes and Nitrospirae, and lower abundance of Actinobacteria than native soils. Additionally, compared to native rhizosphere soils, A. palmeri harbored a much more complex functional gene network with higher edge numbers, average degree, and average clustering coefficient, as well as lower network distance and diameter. Furthermore, the five keystone taxa identified in A. palmeri rhizosphere soils belonged to the orders of Longimicrobiales, Kineosporiales, Armatimonadales, Rhizobiales and Myxococcales, whereas Sphingomonadales and Gemmatimonadales predominated in the native rhizosphere soils. Moreover, random forest model revealed that keystone taxa were more important indicators of soil functional attributes than edaphic variables in both A. palmeri and native rhizosphere soils. For edaphic variables, only ammonium nitrogen was a significant predictor of soil functional potentials in A. palmeri invaded ecosystems. We also found keystone taxa in A. palmeri rhizosphere soils had strong and positive correlations with functional genes compared to native soils. Our study highlighted the importance of keystone taxa as a driver of soil functioning in invaded ecosystem.

First report of glyphosate resistance in an Amaranthus palmeri population from Europe

AbstractThe invasive weed Amaranthus palmeri is spreading throughout Spain, with Catalonia being one of the most affected regions. For this species, acetolactate synthase‐inhibiting herbicide‐resistant populations have been reported, and now glyphosate resistance is also suspected. Glyphosate targets and inhibits the enzyme 5‐enolpyruvylshikimate‐3‐phosphate synthase (EPSPS), but A. palmeri has evolved different resistant mechanisms leading to plant survival. One of the most effective is the EPSPS overexpression due to copy number variation (CNV). Gene copies accumulate within the EPSPS cassette that is an extrachromosomal circular DNA displaying unique structural polymorphisms. This study aims to determine the response to glyphosate of a suspected resistant population collected from a roadside and investigate the resistance mechanism involved. The herbicide bioassay confirmed that 40% of the plants survived glyphosate applied at 540 g a.i. ha−1. No known mutations endowing glyphosate resistance were found at EPSPS amongst confirmed resistant plants, while in most of them (70%) specific molecular markers revealed the presence of the EPSPS cassette. All these results indicate that this population is glyphosate resistant and it is very likely that the EPSPS gene CNV is the main resistance mechanism. This is the first case of glyphosate resistance in A. palmeri in Europe whose introduction is likely due to importation of contaminated seed with glyphosate‐resistant Palmer amaranth from the Americas. This introduction poses a significant danger to summer crops in our continent.

Unravelling the Phytotoxic Effects of Glyphosate on Sensitive and Resistant Amaranthus palmeri Populations by GC-MS and LC-MS Metabolic Profiling.

Glyphosate, the most successful herbicide in history, specifically inhibits the activity of the enzyme 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS; EC 2.5.1.19), one of the key enzymes in the shikimate pathway. Amaranthus palmeri is a driver weed in agriculture today that has evolved glyphosate-resistance through increased EPSPS gene copy number and other mechanisms. Non-targeted GC-MS and LC-MS metabolomic profiling was conducted to examine the innate physiology and the glyphosate-induced perturbations in one sensitive and one resistant (by EPSPS amplification) population of A. palmeri. In the absence of glyphosate treatment, the metabolic profile of both populations was very similar. The comparison between the effects of sublethal and lethal doses on sensitive and resistant populations suggests that lethality of the herbicide is associated with an amino acid pool imbalance and accumulation of the metabolites of the shikimate pathway upstream from EPSPS. Ferulic acid and its derivatives were accumulated in treated plants of both populations, while quercetin and its derivative contents were only lower in the resistant plants treated with glyphosate.

Adjuvant and nozzle effects on weed control using mesotrione and rimsulfuron plus thifensulfuron-methyl

Limitations on the available herbicide portfolio for weed control have led to weed control failures. Application techniques such as proper selection of nozzle types, adjuvants, and herbicide selection have been suggested as one of the ways to maximize efficacy. The launch of HPPD (hydroxyphenylpyruvate dioxygenase)-tolerant crops will increase HPPD herbicide applications, while effective herbicide tank mixtures might prolong herbicide resistance evolution. Therefore, a greenhouse experiment was conducted to evaluate the effects of mesotrione (MES) and rimsulfuron plus thifensulfuron-methyl (RIMTHIF) in tank mixtures with five adjuvants sprayed with three different nozzle types, XR (Extended Range), AIXR (Air Induction Extended Range), and TTI (Turbo TeeJet Induction), on weed control. Five weed species were tested: common lambsquarters (Chenopodium album L.), velvetleaf (Abutilon theophrasti Medic.), common waterhemp (Amaranthus tuberculatus (Moq.) J.D. Sauer), Palmer amaranth (Amaranthus palmeri S. Wats.), barnyardgrass (Echinochloa crus-galli (L.) P. Beauv.), and a grain sorghum (Sorghum bicolor (L.) Moench) crop. A dose‒response study using MES and RIMTHIF was conducted to estimate the effective dose to reduce the aboveground biomass by 50% from the nontreated control (ED50). Another study was conducted to evaluate the efficacy of MES and RIMTHIF in tank mixtures with five adjuvants (ammonium sulfate – AMS, crop oil concentrate – COC, drift reducing adjuvant – DRA, methylated seed oil – MSO, and nonionic surfactant – NIS) sprayed with three nozzle types (XR, AIXR, and TTI). The selected nozzles influenced velvetleaf, common lambsquarters, and sorghum, indicating the possibility of applying herbicides with Coarser sprays, avoiding off-target movement. Our findings suggest adjuvants are an essential factor for improving weed control over the active ingredient, up to 18.7% and 38.3% for MES and RIMTHIF, respectively. Barnyardgrass biomass reduction was greater than 98% with RIMTHIF in tank mixtures with COC and MSO compared to 65% when applied alone. Common lambsquarters had 52.1% biomass reduction when RIMTHIF was sprayed alone, while adding adjuvants to the tank-mixture resulted in biomass reduction ranging from 60.1% (COC) to 94.1% (AMS). Velvetleaf biomass reduction was 98% when the MES and RIMTHIF mixture was applied with the addition of MSO, while 87% without the adjuvant added. These results indicate that adding adjuvants in herbicide solution can improve herbicide efficacy (COC and MSO for barnyardgrass; NIS, AMS, and MSO for velvetleaf; and NIS, COC, and MSO for common lambsquaters).

Genomic profiling of dioecious Amaranthus species provides novel insights into species relatedness and sex genes

BackgroundAmaranthus L. is a diverse genus consisting of domesticated, weedy, and non-invasive species distributed around the world. Nine species are dioecious, of which Amaranthus palmeri S. Watson and Amaranthus tuberculatus (Moq.) J.D. Sauer are troublesome weeds of agronomic crops in the USA and elsewhere. Shallow relationships among the dioecious Amaranthus species and the conservation of candidate genes within previously identified A. palmeri and A. tuberculatus male-specific regions of the Y (MSYs) in other dioecious species are poorly understood. In this study, seven genomes of dioecious amaranths were obtained by paired-end short-read sequencing and combined with short reads of seventeen species in the family Amaranthaceae from NCBI database. The species were phylogenomically analyzed to understand their relatedness. Genome characteristics for the dioecious species were evaluated and coverage analysis was used to investigate the conservation of sequences within the MSY regions.ResultsWe provide genome size, heterozygosity, and ploidy level inference for seven newly sequenced dioecious Amaranthus species and two additional dioecious species from the NCBI database. We report a pattern of transposable element proliferation in the species, in which seven species had more Ty3 elements than copia elements while A. palmeri and A. watsonii had more copia elements than Ty3 elements, similar to the TE pattern in some monoecious amaranths. Using a Mash-based phylogenomic analysis, we accurately recovered taxonomic relationships among the dioecious Amaranthus species that were previously identified based on comparative morphology. Coverage analysis revealed eleven candidate gene models within the A. palmeri MSY region with male-enriched coverages, as well as regions on scaffold 19 with female-enriched coverage, based on A. watsonii read alignments. A previously reported FLOWERING LOCUS T (FT) within A. tuberculatus MSY contig was also found to exhibit male-enriched coverages for three species closely related to A. tuberculatus but not for A. watsonii reads. Additional characterization of the A. palmeri MSY region revealed that 78% of the region is made of repetitive elements, typical of a sex determination region with reduced recombination.ConclusionsThe results of this study further increase our understanding of the relationships among the dioecious species of the Amaranthus genus as well as revealed genes with potential roles in sex function in the species.