Barnyardgrass (Echinochloa crus-galli) is a pernicious weed in agricultural fields worldwide. The molecular mechanisms underlying its success in the absence of human intervention are presently unknown. Here we report a draft genome sequence of the hexaploid species E. crus-galli, i.e., a 1.27 Gb assembly representing 90.7% of the predicted genome size. An extremely large repertoire of genes encoding cytochrome P450 monooxygenases and glutathione S-transferases associated with detoxification are found. Two gene clusters involved in the biosynthesis of an allelochemical 2,4-dihydroxy-7-methoxy-1,4-benzoxazin-3-one (DIMBOA) and a phytoalexin momilactone A are found in the E. crus-galli genome, respectively. The allelochemical DIMBOA gene cluster is activated in response to co-cultivation with rice, while the phytoalexin momilactone A gene cluster specifically to infection by pathogenic Pyricularia oryzae. Our results provide a new understanding of the molecular mechanisms underlying the extreme adaptation of the weed.

Field trials in Europe with Miscanthus over the past 25 years have demonstrated that interspecies hybrids such as M. 9 giganteus (M 9 g) combine both high yield potentials and low inputs in a wide range of soils and climates. Miscanthus hybrids are expected to play a major role in the provision of perennial lignocellulosic biomass across much of Europe as part of a lower carbon economy. However, even with favourable policies in some European countries, uptake has been slow. M 9 g, as a sterile clone, can only be propagated vegetatively, which leads to high establishment costs and low multiplication rates. Consequently, a decade ago, a strategic decision to develop rapidly multiplied seeded hybrids was taken. To make progress on this goal, we have (1) harnessed Correspondence: John Clifton-

BackgroundPanax ginseng Meyer is a traditional medicinal plant famous for its strong therapeutic effects and serves as an important herbal medicine. To understand and manipulate genes involved in secondary metabolic pathways including ginsenosides, transcriptome profiling of P. ginseng is essential.MethodsRNA-seq analysis of adventitious roots of two P. ginseng cultivars, Chunpoong (CP) and Cheongsun (CS), was performed using the Illumina HiSeq platform. After transcripts were assembled, expression profiling was performed.ResultsAssemblies were generated from ∼85 million and ∼77 million high-quality reads from CP and CS cultivars, respectively. A total of 35,527 and 27,716 transcripts were obtained from the CP and CS assemblies, respectively. Annotation of the transcriptomes showed that approximately 90% of the transcripts had significant matches in public databases. We identified several candidate genes involved in ginsenoside biosynthesis. In addition, a large number of transcripts (17%) with different gene ontology designations were uniquely detected in adventitious roots compared to normal ginseng roots.ConclusionThis study will provide a comprehensive insight into the transcriptome of ginseng adventitious roots, and a way for successful transcriptome analysis and profiling of resource plants with less genomic information. The transcriptome profiling data generated in this study are available in our newly created adventitious root transcriptome database (http://im-crop.snu.ac.kr/transdb/index.php) for public use.

Crops during their early growth stages are vulnerable to a wide range of environmental stressors; thus, earlier seed invigoration and seedling establishment are essential in crop production. As an alternative to synthetic chemical treatments, plasma technology could be one of the emerging technologies to enhance seed germination and seedling vigor by managing environmental stressors. Recent studies have shown its beneficial effects in various stress conditions, suggesting that plasma treatment can be used for early crop stress management. This paper reviewed the effects of different types of plasma treatments on plant responses in terms of the seed surface environment (seed scarification and pathogen inactivation) and physiological processes (an enhanced antioxidant system and activated defense response) during the early growth stages of plants. As a result, plasma treatment can enhance seed invigoration and seedling establishment by alleviating the adverse effects of environmental stressors such as drought, salinity, and pathogen infection. More information on plasma applications and their mechanisms against a broad range of stressors is required to establish a better plasma technology for early crop stress management.

Lack of understanding the effects of single- and multiple-weed interference on soybean yield has led to inadequate weed management in Primorsky Krai, resulting in much lower average yield than neighboring regions. A 2 yr field experiment was conducted in a soybean field located in Bogatyrka (43.82°N, 131.6°E), Primorsky Krai, Russia, in 2013 and 2014 to investigate the effects of single and multiple interference caused by naturally established weeds on soybean yield and to model these effects. Aboveground dry weight was negatively affected the most by weed interference, followed by number of pods and seeds. Soybean yield under single-weed interference was best demonstrated by a rectangular hyperbolic model, showing that common ragweed and barnyardgrass were the most competitive weed species, followed by annual sowthistle, American sloughgrass, and common lambsquarters. In the case of multiple-weed interference, soybean yield loss was accurately described by a multivariate rectangular hyperbolic model, with total density equivalent as the independent variable. Parameter estimates indicated that weed-free soybean yields were similar in 2013 and 2014, i.e., estimated as 1.72 t and 1.75 t ha−1, respectively, and competitiveness of each weed species was not significantly different between the two years. Economic thresholds for single-weed interference were 0.74, 0.66, 1.15, 1.23, and 1.45 plants m−2for common ragweed, barnyardgrass, annual sowthistle, American sloughgrass, and common lambsquarters, respectively. The economic threshold for multiple-weed interference was 0.70 density equivalent m−2. These results, including the model, thus can be applied to a decision support system for weed management in soybean cultivation under single and multiple-weed interference in Primorsky Krai and its neighboring regions of Russia.

Paraquat was the most successful nonselective herbicide in Korea due to its rapid herbicidal activity. However, its high mammalian toxicity, frequent self-poisoning incidents, and a lack of effective antidotes led to a paraquat ban in Korea in 2012. Therefore, this review was conducted to revisit the toxicological profile of paraquat and to investigate the impacts of the paraquat ban on human health and agriculture in Korea. A review of toxicological information reconfirmed that paraquat is highly acutely toxic to humans, and ingestion, inhalation, or dermal administration of the herbicide can cause severe clinical signs and inevitably lead to death by respiratory failure. In Korea, the paraquat ban immediately decreased the suicide rate due to pesticides (mainly paraquat) by 46.1%, resulting in a 10% decrease of the total suicide rate. However, this also led to an increase in suicide attempts with other poisons such as carbon monoxide, suggesting that suicide attempts and rates of suicide by poisoning depend on not only the toxicity of the poison but also the accessibility of the poisoning agents. In agriculture, paraquat was quickly replaced by other nonselective herbicides such as glufosinate and glyphosate. Thus, the paraquat ban did not have a significant impact on agricultural practices but influenced the nonselective herbicide market; the use of glufosinate was higher than use of glyphosate due to glufosinate’s rapid herbicidal activity, which is similar to that of paraquat. Though the paraquat ban can be considered as a national strategy to lower suicide rates, the increase in suicide attempts with other poisons suggests that multilateral efforts are required for not only keeping suicidal agents away from people but also minimizing motives for suicide.

Rapid detection methods were developed for discriminating between resistant (R) and susceptible (S) biotypes of Echinochloa colona to either propanil or fenoxaprop-P at all growth stages. In the pregerminated seed assay for fenoxaprop-P, seeds were placed on 1.0% agar containing a range of concentrations of herbicides and kept under humid conditions. For propanil, pregerminated seeds were placed on moist filter paper in the lid of a petri dish and, when one leaf had developed, the lid was inverted for 1 min into propanil solutions at a range of concentrations. For the fenoxaprop-P and propanil test, seedling length and fresh weight were measured after 1 wk. For juvenile plants with four-leaf to one-tiller, shoots and roots were trimmed and placed in 20-ml glass tubes containing 0.2% (wt/v) agar and a range of concentrations of herbicides. Shoot extension and weight were recorded after 7 d. Larger plants with several small tillers were also assayed by this method. Tillers were removed from larger plants and were evaluated as described for juvenile plants. At later growth stages from ear emergence to flowering, excised stem node segments (8 cm) were soaked in water to stimulate rooting. Rooted nodes were placed in 30-ml glass bottles containing 0.2% agar with a range of concentrations of herbicides, and the test was conducted as described for juvenile plants but with the final assessment of new shoot extension and weight being recorded after 10 d. Discrimination between R and S biotypes was possible on the basis of GR50 values for shoot length and fresh weight in all testing methods. With few exceptions, GR50 values for the length of new shoot were very similar to those for the new shoot fresh weight. We concluded that all testing methods in our study provided reliable and quick discrimination between biotypes for both propanil and fenoxaprop-P susceptibility, covering various growth stages from seed to flowering stage. Trimming plants before herbicide treatment gives a rapid method of discrimination by measuring not only newly grown shoot fresh weight but also shoot length.

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