The complete chloroplast (cp) genome sequences of three Amaranthus species (Amaranthus hypochondriacus, A. cruentus and A. caudatus) were determined by next-generation sequencing. The cp genome sequences of A. hypochondriacus, A. cruentus and A. caudatus were 150,523, 150,757 and 150,523 bp in length, respectively, each containing 84 genes with identical contents and orders. Expansion or contraction of the inverted repeat region was not observed among the three Amaranthus species. The coding regions were highly conserved with 99.3% homology in nucleotide and amino acid sequences. Five genes – matK, accD, ndhJ, ccsA and ndhF – showed relatively high non-synonymous/synonymous values (Ka/Ks > 0.1). Sequence comparison identified two insertion/deletion (InDels) greater than 40 bp in length, and polymerase chain reaction markers that could amplify these InDel regions were applied to diverse Korean Genbank accessions, which could discriminate the three Amaranthus species. Phylogenetic analyses based on 62 protein-coding genes showed that the core Caryophyllales were monophyletic and Amaranthoideae formed a sister group with the Betoideae and Chenopodioideae clade. Comparing each homologous locus among the three Amaranthus species, identified eight regions with high Pi values (>0.03). Seven of these loci, except for rps19-trnH (GUG), were considered to be useful molecular markers for further phylogenetic studies.

Weed and cucumber (Cucumis sativus L. ‘Poinsett’) growth was studied where herbicides were soil-applied or applied to emerged weeds in the established crop. Cucumber yields were decreased at least 36% in 2 of 5 yr when weeds interfered for 4 weeks after emergence. Sequential applications of bensulide [O,O-diisopropyl phosphorodithioate S-ester with N-(2-mercaptoethyl)benzenesulfonamide] applied preplant and incorporated (PPI) + trifluralin (α,α,α-trifluoro-2,6-dinitro-N,N-dipropyl-p-toluidine) applied postemergence and incorporated (POI) were outstanding and controlled Japanese millet (Echinochloa crus-galli Link. var. frumentacea), Texas panicum (Panicum texanum Buckl.), Palmer amaranth (Amaranthus palmeri S. Wats.), and common purslane (Portulaca oleracea L.) without affecting the growth or yield of cucumber. Compared with bensulide, the selectivity of soil-incorporated butralin [4-(1,1-dimethylethyl)-N-(1-methylpropyl)-2,6-dinitrobenzenamine] with cucumber was limited. Laboratory bioassays showed that under warm field soil conditions, PPI applications of 1.7 kg/ha of butralin persisted more than 2 months, but were dissipated after 4 months. Ethalfluralin [N-ethyl-N-(2-methyl-2-propenyl)-2,6-dinitro-4-(trifluoromethyl)benzenamine] reduced cucumber yields only when it was soil-incorporated to the crop-seed depth at planting. Applications to soil of bensulide + DCPA (dimethyl tetrachloroterephthalate) stunted cucumber plants, reduced leaf area, increased leaf thickness, and caused higher near-infrared (0.75 to 1.34 μm) leaf reflectance.

A field study was conducted in 2014 and 2015 in Arkansas, Illinois, Indiana, Ohio, Tennessee, Wisconsin, and Missouri to determine the effects of tillage system and herbicide program on season-long emergence of Amaranthus species in glufosinate-resistant soybean. The tillage systems evaluated were deep tillage (fall moldboard plow followed by (fb) one pass with a field cultivator in the spring), conventional tillage (fall chisel plow fb one pass with a field cultivator in the spring), minimum tillage (one pass of a vertical tillage tool in the spring), and no-tillage (PRE application of paraquat). Each tillage system also received one of two herbicide programs; PRE application of flumioxazin (0.09 kg ai ha–1) fb a POST application of glufosinate (0.59 kg ai ha−1) plus S-metolachlor (1.39 kg ai ha–1), or POST-only applications of glufosinate (0.59 kg ha−1). The deep tillage system resulted in a 62, 67, and 73% reduction in Amaranthus emergence when compared to the conventional, minimum, and no-tillage systems, respectively. The residual herbicide program also resulted in an 87% reduction in Amaranthus species emergence compared to the POST-only program. The deep tillage system, combined with the residual program, resulted in a 97% reduction in Amaranthus species emergence when compared to the minimum tillage system combined with the POST-only program, which had the highest Amaranthus emergence. Soil cores taken prior to planting and herbicide application revealed that only 28% of the Amaranthus seed in the deep tillage system was placed within the top 5-cm of the soil profile compared to 79, 81, and 77% in the conventional, minimum, and no-tillage systems. Overall, the use of deep tillage with a residual herbicide program provided the greatest reduction in Amaranthus species emergence, thus providing a useful tool in managing herbicide-resistant Amaranthus species where appropriate.

Two of the most problematic Amaranthus species in soybean production today are tall waterhemp and Palmer amaranth. This study determined the percentage of tall waterhemp and Palmer amaranth seed that was retained by the weed at soybean maturity to assess the likelihood of using at-harvest weed seed control tactics for soil seedbank management. Palmer amaranth plants were collected from fields in Arkansas, Tennessee, Illinois, Missouri, and Nebraska, and tall waterhemp plants were collected from fields in Nebraska, Missouri, Wisconsin, and Illinois. Collected plants were assessed for at-harvest weed seed retention in 2013 and 2014. Within 1 wk of soybean maturity, Amaranthus plants were harvested and the loose soil and debris beneath the plants were swept into a pan with a hand broom to collect any shattered seed. Percent seed retention ranged from 95 to 100% for all states both years, regardless of species. There was a strong correlation between weed biomass (g) and total seed production (no. plant−1) in that the larger the plant, the more seeds it produced. However, there was no correlation between percent seed retention and weed biomass, which indicates that regardless of plant size and likely time of emergence, seed retention is high at the time of crop maturity. Overall, this study demonstrated that there is great opportunity for Palmer amaranth and tall waterhemp seed capture or destruction at soybean harvest. It is likely that nearly all of the seeds produced for both Amaranthus species passes through the combine during harvest to be returned to the soil seedbank. Thus, there is continued need for research focused on developing and testing harvest weed seed control tactics that aim at reducing the soil seedbank and lowering risks for evolution of herbicide resistance.