Boosting underwater germination in Echinochloa colona seeds: the impact of high amplitude alternating temperatures and potassium nitrate osmopriming.

Underwater germination could risk seedling survival, suggesting the need for control through seed perception of environmental cues. These cues include diurnally alternating temperatures tied to drained soils or shallow water tables. We examined high-amplitude alternating temperatures impact on underwater germination. Besides, the conditions experimented by seeds in the soil (e.g. hydration/dehydration phases) change their germinability so we tested if osmopriming could affect underwater germination. We worked with Echinochloa colona seedlots from extensive crop fields, exposing seeds to sequential submergence and drained treatments in combination with cues that promote germination. While a 10°C difference between maximum and minimum daily temperatures maximised germination in drained conditions, higher amplitudes (>15°C) alternating temperatures promoted E. colona underwater germination under hypoxic water (pO2 <4.1kPa). KNO3 osmopriming in drained conditions promoted later underwater germination even under hypoxic water; however, PEG 6000 osmopriming induced seeds to enter secondary dormancy inhibiting underwater germination. KNO3 improved E. colona underwater germination under air-equilibrated floodwater (pO2 : 16.5-17.4kPa) yet not under hypoxic conditions. This suggests that germination can proceed in flooded nitrate-fertile soils as long as it remains aerobic. Hypoxic submergence did not inhibit the induction of hypersensitivity to light in E. colona seeds. This research expands our understanding of wetland seed germination ecophysiology, shedding light on the inducible nature of underwater germination in hydrophyte weeds.

The safener isoxadifen does not increase herbicide resistance evolution in recurrent selection with fenoxaprop.

Safeners are chemical compounds used to improve selectivity and safety of herbicides in crops by activating genes that enhance herbicide metabolic detoxification. The genes activated by safeners in crops are similar to the genes causing herbicide resistance through increased metabolism in weeds. This work investigated the effect of the safener isoxadifen-ethyl (IS) in combination with fenoxaprop-p-ethyl (FE) on the evolution of herbicide resistance in Echinochloa crus-galli under recurrent selection. Reduced susceptibility was observed in the progeny after recurrent selection with both FE alone and with FE + IS for two generations (G2) compared to the parental population (G0). The resistance index found in G2 after FE + IS selection was similar as when FE was used alone, demonstrating that the safener did not increase the rate or magnitude of herbicide resistance evolution. G2 progeny selected with FE alone and the combination of FE + IS had increased survival to herbicides from other mechanisms of action relative to the parental G0 population. One biotype of G2 progeny had increased constitutive expression of glutathione-S-transferase (GST1) after recurrent selection with FE + IS. G2 progeny had increased expression of two P450 genes (CYP71AK2 and CYP72A122) following treatment with FE, while G2 progeny had increased expression of five P450 genes (CYP71AK2, CYP72A258, CYP81A12, CYP81A14 and CYP81A21) after treatment with FE + IS. Repeated selection with low doses of FE with or without the safener IS decreased E. crus-galli control and showed potential for cross-resistance evolution. Addition of safener did not further decrease herbicide sensitivity in second generation progeny; however, the recurrent use of safener in combination with FE resulted in safener-induced increased expression of several CYP genes. This is the first report using safener as an additional factor to study herbicide resistance evolution in weeds under experimental recurrent selection.

Fate and adaptive plasticity of heterogeneous resistant population of Echinochloa colona in response to glyphosate.

Understanding the fate of heterogenous herbicide resistant weed populations in response to management practices can help towards overcoming the resistance issues. We selected one pair of susceptible (S) and resistant (R) phenotypes (2B21-R vs 2B21-S and 2B37-R vs 2B37-S) separately from two glyphosate resistant heterogeneous populations (2B21 and 2B37) of Echinochloa colona and their fate and adaptive plasticity were evaluated after glyphosate application. Our study revealed the glyphosate concentration required to cause a 50% plant mortality (LD50) was 1187, 200, 3064, and 192 g a. e. ha-1 for the four phenotypes 2B21-R, 2B21-S, 2B37-R, and 2B37-S respectively. Both S phenotypes accumulated more biomass than the R phenotypes at the lower application rates (34 and 67.5 g a. e. ha-1) of glyphosate. However, the R phenotypes generally produced more biomass at rates of glyphosate higher than 100 g a. e. ha-1 throughout the growth period. Plants from the R phenotypes of 2B21 and 2B37 generated 32% and 38% fewer spikesplant-1 than their respective S counterparts in the absence of glyphosate respectively. The spike and seed numbersplant-1 significantly higher in R than S phenotypes at increased rates of glyphosate and these relationships were significant. Our research suggests that glyphosate-resistant E. colona plants will be less fit than susceptible plants (from the same population) in the absence of glyphosate. But in the presence of glyphosate, the R plants may eventually dominate in the field. The use of glyphosate is widespread in field, would favour the selection towards resistant individuals.

Echinochloa crus-galli seed physiological dormancy and germination responses to hypoxic floodwaters.

Hypoxic floodwaters can seriously damage seedlings. Seed dormancy could be an effective trait to avoid lethal underwater germination. This research aimed to discover novel adaptive dormancy responses to hypoxic floodwaters in seeds of Echinochloa crus-galli, a noxious weed from rice fields and lowland croplands. Echinochloa crus-galli dormant seeds were subjected to a series of sequential treatments. Seeds were: (i) submerged under hypoxic floodwater (simulated with hypoxic flasks) at different temperatures for 15 or 30 days, and germination tested under drained conditions while exposing seeds to dormancy-breaking signals (alternating temperatures, nitrate (KNO3 ), light); or (ii) exposed to dormancy-breaking signals during hypoxic submergence, and germination monitored during incubation and after transfer to drained conditions. Echinochloa crus-galli seed primary dormancy was attenuated under hypoxic submergence but to a lesser extent than under drained conditions. Hypoxic floodwater did not reinforced dormancy but hindered secondary dormancy induction in warm temperatures. Seeds did not germinate under hypoxic submergence even when subjected to dormancy-breaking signals; however, these signals broke dormancy in seeds submerged under normoxic water. Seeds submerged in hypoxic water could sense light through phytochrome signals and germinated when normoxic conditions were regained. Hypoxic floodwaters interfere with E. crus-galli seed seasonal dormancy changes. Dormancy-breaking signals are overridden during hypoxic floods, drastically decreasing underwater germination. In addition, results indicate that a fraction of E. crus-galli seeds perceive dormancy-breaking signals under hypoxic water and germinate immediately after aerobic conditions are regained, a hazardous yet less competitive environment for establishment.

Enantioselectivity and allelopathy both have effects on the inhibition of napropamide on Echinochloa crus-galli.

Napropamide is a chiral acetamide herbicide commonly applied to control Echinochloa crus-galli in maize. The inhibition effect may be enantioselective for Echinochloa crus-galli and maize. It may also be affected by the potential allelopathy at field condition. To investigate this, we have examined the inhibition effect of napropamide on Echinochloa crus-galli mono-cultured or co-cultured with maize at field conditions. Our results on morphology, physiology, chlorophyll content and chlorophyll fluorescence suggest that R-napropamide has stronger inhibitory effect than Rac-napropamide and S-napropamide on Echinochloa crus-galli, while none of them affects maize. We found that both glutathione-S-transferase (GST) genes and oxidative enzymes (superoxide dismutase, malondialdehyde) played roles in the inhibition. Accumulations of napropamide in Echinochloa crus-galli were more prominent in roots than in shoots, and no enantioselectivity was found in medium dissipation. We have observed relative allelopathy when applying napropamide to Echinochloa crus-galli co-cultured with maize. The results warrant further field studies on the enantioselectivity and allelopathy of herbicides.

Novel aryloxyphenoxypropionate derivates containing benzofuran moiety: Design, synthesis, herbicidal activity, docking study and theoretical calculation.

A series of novel aryloxyphenoxypropionate (APP) herbicides containing benzofuran moiety were designed, synthesized and tested for herbicidal activity. The bioassay results indicated that most of target compounds possessed moderate to good herbicidal activity against monocotyledonous weeds. Compounds 5a-5d and 6a-6d showed 100% control efficiency against crabgrass (Digitaria sanguinalis) and barnyard grass (Echinochloa crus-galli) in both pre-emergence and post-emergence treatments at the dosage of 1500 g a.i. ha-1. Compound 6c was the most promising, with herbicidal activity better than clodinafop-propargyl. Molecular docking for compound 6c and its hydrolysis acid 1c were performed. ACCase activities of some compounds were also tested. Theoretical calculations for corresponding hydrolysis products 1a-1ewere carried out. Based on the results of molecular docking, enzyme activity test and theoretical calculation, the potential mechanism for herbicidal activity of these compounds was evaluated.

Enantiomeric impacts of two amide chiral herbicides on Echinochloa crus-galli physiology and gene transcription.

Echinochloa crus-galli is one of the most noxious weeds in the world and causes yield losses in a variety of different field crops. Napropamide and acetochlor are herbicides commonly employed to control this weed. Both compounds are chiral, with enantiomers displaying different activities. However, it is unclear how the enantiomers of these two chiral herbicides act on different tissues of E. crus-galli. The objective of this paper is to investigate the action mechanism of napropamide and acetochlor in the roots and shoots of E. crus-galli. R­enantiomers were found to be more active than either the racemates or S-enantiomers on the weed. The content of chlorophyll was not significantly affected by treatment with either enantiomer. The impacts on the activity for the oxidative stress enzymes, except catalase (CAT), showed that both napropamide and acetochlor enantiomers could induce oxidative stress. Furthermore, R­enantiomers caused greater oxidative damage. Enhanced glutathione-S-transferase (GST) activity and expression of GST genes suggested both EcGSTF1 and EcGSTZ1 were present in the roots and shoots, and this will be helpful for detoxification. The changes in both the roots and shoots revealed the two herbicides displayed tissue selectivity in E. crus-galli. These results enable a better understanding on the mechanism of action for napropamide and acetochlor enantiomers on different tissues, including the shoots and roots in E. crus-galli.

Occurrence characteristics of Echinochloa and its response to long-term fertilization in paddy fields of yellow soil.

We studied the characteristics of Echinochloa and its response to variation of rice yield and soil properties under long-term fertilization in paddy field of yellow soil, based on a 23-year long-term fertilization experiment in Scientific Oberving and Experimental Station of Arable Land Conservation and Agricultural Environment (Guizhou), Ministry of Agriculture. The occurrence characteristics of Echinochloa (density, panicle number per plant, totle panicles, seed number per panicle, 1000-seed mass and seed mass per panicle) of ten treatments including CK, N, PK, NK, NP, NPK, 1/4MNP, 1/2MNP, M (manure), MNPK were examined. The results showed that the characteristics of Echinochloa significantly varied with long-term different fertilization. The highest density, panicle number per plant and total panicles of Echinochloa were attained in the MNPK treatment, followed by the 1/4MNP treatment. Compared with the NPK treatment, the density of Echinochloa was significantly decreased in no fertilizer treatment (CK) and unbalanced chemical fertilizer treatments (N, PK, NK, NP). The panicle number per plant significantly increased in organic fertilizer treatments (1/4MNP, 1/2MNP, M, MNPK). Both the density and total panicles of Echinochloa were positively correlated with rice yield. The occurrence characteristics of Echinochloa were positively correlated with soil organic matter, total N, total P, available N, available P and available K. Results from path analysis showed that soil total N had a direct positive effect on panicle number per plant and soil total P content was the main factor affecting the density and total panicles of Echinochloa. Soil available K content was the factor with strongest influence on seed number per panicle and seed mass per panicle. We concluded that the occurrence characteristics of Echinochloa varied with long-term different fertilization. The density, panicle number per plant and total panicles of Echinochloa could be increased with appling cow manure. Soil total P was the direct influencing factor for the variation of density and total panicle of Echinochloa in paddy field of yellow soil.

Echinochloa crus-galli genome analysis provides insight into its adaptation and invasiveness as a weed.

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.

Interference of allelopathic rice with penoxsulam-resistant barnyardgrass.

BACKGROUND: Despite increasing knowledge of allelopathic rice interference with barnyardgrass, relatively little is known about its action on herbicide-resistant barnyardgrass. The incidence of herbicide-resistant barnyardgrass is escalating in paddy fields. Knowledge of the interference of allelopathic rice with herbicide-resistant barnyardgrass and the potential mechanisms involved is warranted. RESULTS: Penoxsulam-resistant and -susceptible barnyardgrass biotypes were identified and segregated from a putative penoxsulam-resistant population occurring in paddy fields in China. Allelopathic rice inhibited the growth of barnyardgrass roots more than shoots, regardless of biotype. In particular, there was a stronger inhibition for resistant barnyardgrass than for susceptible barnyardgrass. Allelopathic rice significantly reduced total root length, total root area, maximum root amplitude and maximum root depth in barnyardgrass. Furthermore, the rice allelochemicals tricin and momilactone B inhibited the growth of both resistant and susceptible barnyardgrass. Compared with root contact, root segregation significantly increased inhibition of barnyardgrass with an increase in rice allelochemicals. Root exudates from barnyardgrass induced the production of rice allelochemicals, but the effect of susceptible barnyardgrass was much stronger than that of resistant barnyardgrass. CONCLUSION: Allelopathic rice can interfere with the growth of penoxsulam-resistant barnyardgrass through allelochemical-mediated root interactions. This type of allelopathic interference may provide a non-herbicidal alternative for herbicide-resistant weed management in paddy systems. © 2017 Society of Chemical Industry.

Study of the potential of barnyard grass for the remediation of Cd- and Pb-contaminated soil.

In this study, the microwave digestion method was used to determine total cadmium (Cd) and lead (Pb) concentrations, the BCR method was used to determine different states of Cd and Pb, and atomic absorption spectroscopy (AAS) and inductively coupled plasma optical emission spectrometry (ICP-OES) were used to determine Cd and Pb concentrations in simulated soil and barnyard grass before and after planting barnyard grass to provide a theoretical basis for the remediation of Cd- and Pb-contaminated soil. The results showed that the bioconcentration factor changes with different Cd concentrations are relatively complex and that the removal rate increases regularly. The 100 mg kg-1 Cd treatment had the highest removal rate, which reached 36.66%. For Pb, the bioconcentration factor decreased and tended to reach equilibrium as the Pb concentration increased. The highest removal rate was 41.72% and occurred in the 500 mg kg-1 Pb treatment; however, this removal rate was generally lower than that of Cd. In addition, the reduction state had the highest change rate, followed by the residual, acid soluble and oxidation states. For Pb, the residual state has the highest change rate, followed by the acid soluble state, reduction state and oxidation state. In addition, a significant correlation was observed between the soil Pb and Cd concentrations and the concentrations of Pb and Cd that accumulated in the belowground biomass of the barnyard grass, but no significant correlation was observed between the soil Pb and Cd concentrations and the amounts of Pb and Cd that accumulated in the aboveground biomass of the barnyard grass. The highest transfer factor of Cd was 0.49, which occurred in the 5 mg kg-1 Cd treatment. The higher transfer factor of Pb was 0.48 in the 100 mg kg-1 Pb treatment. All of these factors indicate that the belowground biomass of barnyard grass plays a more important role in the remediation of Cd- and Pb-contaminated soils than the aboveground biomass of barnyard grass. Remediation should occur through phytostabilization. Thus, with its strong adaptability and lush growth, barnyard grass can be applied as a pioneer species for the phytoremediation of Cd- and Pb-contaminated soils.

Interference of allelopathic rice with paddy weeds at the root level.

Despite increasing knowledge of the involvement of allelopathy in negative interactions among plants, relatively little is known about its action at the root level. This study aims to enhance understanding of interactions of roots between a crop and associated weeds via allelopathy. Based on a series of experiments with window rhizoboxes and root segregation methods, we examined root placement patterns and root interactions between allelopathic rice and major paddy weeds Cyperus difformis, Echinochloa crus-galli, Eclipta prostrata, Leptochloa chinensis and Oryza sativa (weedy rice). Allelopathic rice inhibited growth of paddy weed roots more than shoots regardless of species. Furthermore, allelopathic rice significantly reduced total root length, total root area, maximum root width and maximum root depth of paddy weeds, while the weeds adjusted horizontal and vertical placement of their roots in response to the presence of allelopathic rice. With the exception of O. sativa (weedy rice), root growth of weeds avoided expanding towards allelopathic rice. Compared with root contact, root segregation significantly increased inhibition of E. crus-galli, E. prostrata and L. chinensis through an increase in rice allelochemicals. In particular, their root exudates induced production of rice allelochemicals. However, similar results were not observed in C. difformis and O. sativa (weedy rice) with either root segregation or root exudate application. The results demonstrate that allelopathic rice interferes with paddy weeds by altering root placement patterns and root interactions. This is the first case of a root behavioural strategy in crop-weed allelopathic interaction.

Differences in photosynthetic responses of NADP-ME type C4 species to high light.

MAIN CONCLUSION: Three species chosen as representatives of NADP-ME C4 subtype exhibit different sensitivity toward photoinhibition, and great photochemical differences were found to exist between the species. These characteristics might be due to the imbalance in the excitation energy between the photosystems present in M and BS cells, and also due to that between species caused by the penetration of light inside the leaves. Such regulation in the distribution of light intensity between M and BS cells shows that co-operation between both the metabolic systems determines effective photosynthesis and reduces the harmful effects of high light on the degradation of PSII through the production of reactive oxygen species (ROS). We have investigated several physiological parameters of NADP-ME-type C4 species (e.g., Zea mays, Echinochloa crus-galli, and Digitaria sanguinalis) grown under moderate light intensity (200 µmol photons m-2 s-1) and, subsequently, exposed to excess light intensity (HL, 1600 µmol photons m-2 s-1). Our main interest was to understand why these species, grown under identical conditions, differ in their responses toward high light, and what is the physiological significance of these differences. Among the investigated species, Echinochloa crus-galli is best adapted to HL treatment. High resistance of the photosynthetic apparatus of E. crus-galli to HL was accompanied by an elevated level of phosphorylation of PSII proteins, and higher values of photochemical quenching, ATP/ADP ratio, activity of PSI and PSII complexes, as well as integrity of the thylakoid membranes. It was also shown that the non-radiative dissipation of energy in the studied plants was not dependent on carotenoid contents and, thus, other photoprotective mechanisms might have been engaged under HL stress conditions. The activity of the enzymes superoxide dismutase and ascorbate peroxidase as well as the content of malondialdehyde and H2O2 suggests that antioxidant defense is not responsible for the differences observed in the tolerance of NADP-ME species toward HL stress. We concluded that the chloroplasts of the examined NADP-ME species showed different sensitivity to short-term high light irradiance, suggesting a role of other factors excluding light factors, thus influencing the response of thylakoid proteins. We also observed that HL affects the mesophyll chloroplasts first hand and, subsequently, the bundle sheath chloroplasts.

Synthesis and herbicidal evaluation of novel benzothiazole derivatives as potential inhibitors of D1 protease.

D1 protease is a C-terminal processing protease that has been predicted to be an ideal herbicidal target. Three novel series of benzothiazole derivatives were synthesized and evaluated for their herbicidal activities against Brassica napus (rape) and Echinochloa crusgalli (barnyard grass). The preliminary bioassay indicated that most of the synthesized compounds possess promising D1 protease inhibitory activities and considerable herbicidal activities. Molecular docking was performed to position representative compounds into the active site of D1 protease to determine a probable binding model.

Glyphosate resistance in Echinochloa colona: phenotypic characterisation and quantification of selection intensity.

BACKGROUND: A population of Echinochloa colona infesting agricultural fields in the northern region of Western Australia evolved glyphosate resistance after 10 years of glyphosate selection. This study identified two phenotypic (susceptible S versus resistant R) lines from within a segregating glyphosate-resistant population. Estimation of survival, growth and reproductive rates of the phenotypes in response to glyphosate selection helped to characterise the level of resistance, fitness and the selection intensity for glyphosate in this species. RESULTS: Estimations of LD(50) (lethal dose) and GR(50) (growth rate) showed an eightfold glyphosate resistance in this population. The resistant index based on the estimation of seed number (SY(n50)) showed a 13-fold resistance. As a result of linear combination of plant survival and fecundity rates, plant fitness values of 0.2 and 0.8 were estimated for the S and R phenotypes when exposed to the low dose of 270 g glyphosate ha(-1). At the recommended dose of 540 g glyphosate ha(-1) , fitness significantly decreased (fivefold) in S plants but remained markedly similar (0.7) in plants of the R phenotype. Thus, the calculated selection intensity (SI) at 540 g glyphosate ha(-1) was much greater (SI = 17) than at 270 g glyphosate ha(-1) (SI = 4). CONCLUSIONS: The assessment of plant survival and fecundity in response to glyphosate selection in the S and R phenotypes allowed a greater accuracy in the estimation of population fitness of both phenotypes and thus of glyphosate selection intensity in E. colona. The estimation of seed number or mass of phenotypes under herbicide selection is a true ecological measure of resistance with implications for herbicide resistance evolution.

Target-site EPSPS Pro-106 mutations: sufficient to endow glyphosate resistance in polyploid Echinochloa colona?

BACKGROUND: This study confirms and characterises glyphosate resistance in two polyploid Echinochloa colona populations from north-eastern Australia. RESULTS: Glyphosate dose response revealed that the two resistant populations were marginally (up to twofold) resistant to glyphosate. Resistant plants did not differ in non-target-site foliar uptake and translocation of (14) C-glyphosate, but contained the known target-site 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) mutation Pro-106-Thr and/or Pro-106-Leu. Although plants carrying either a single or two EPSPS mutations were glyphosate resistant relative to the susceptible population, they were still controlled at the field rate of glyphosate (450 g a.e. ha(-1) ) when treated under warm conditions (25/20 °C). However, when treated in hot conditions (35/30 °C), most mutant resistant plants (68%) can survive the field rate, and an increase (2.5-fold) in glyphosate LD50 was found for both the R and S populations. CONCLUSIONS: This study shows that one or two EPSPS Pro-106 mutations are insufficient to confer field-rate glyphosate resistance in polyploidy E. colona at mild temperatures. However, control of these mutant plants at the glyphosate field rate is poor at high temperatures, probably owing to reduced glyphosate efficacy. Therefore, glyphosate should be applied during relatively mild (warm) temperature periods in the summer growing season to improve E. colona control.

Temperature influences the level of glyphosate resistance in barnyardgrass (Echinochloa colona).

BACKGROUND: Echinochloa colona is an important summer-growing weed species in cropping regions of northern Australia that has evolved resistance to glyphosate owing to intensive use of this herbicide in summer fallow. RESULTS: Pot trials conducted at 20 and 30 °C on six E. colona populations showed a significant increase in the level of glyphosate resistance in resistant populations at 30 °C compared with 20 °C. However, there was no influence of growth temperature on glyphosate susceptibility of the sensitive population. Sequencing of the target-site gene (EPSPS) of the six populations identified a mutation at position 106 leading to a change from proline to serine in the most resistant population A533.1 only. EPSPS gene amplification was not detected in any of the resistant populations examined. Examining (14) C-glyphosate uptake on two resistant and one susceptible population showed a twofold increase at 20 °C; however, few differences in glyphosate translocation occurred from the treated leaf to other plant parts between populations or temperatures. CONCLUSION: There is reduced efficacy of glyphosate at high temperatures on resistant E. colona populations, making these populations harder to control in summer.

C4 Photosynthesis in the Rice Paddy: Insights from the Noxious Weed Echinochloa glabrescens.

The C4 pathway is a highly complex trait that increases photosynthetic efficiency in more than 60 plant lineages. Although the majority of C4 plants occupy disturbed, arid, and nutrient-poor habitats, some grow in high-nutrient, waterlogged conditions. One such example is Echinochloa glabrescens, which is an aggressive weed of rice paddies. We generated comprehensive transcriptome datasets for C4 E. glabrescens and C3 rice to identify genes associated with adaption to waterlogged, nutrient-replete conditions, but also used the data to better understand how C4 photosynthesis operates in these conditions. Leaves of E. glabrescens exhibited classical Kranz anatomy with lightly lobed mesophyll cells having low chloroplast coverage. As with rice and other hygrophytic C3 species, leaves of E. glabrescens accumulated a chloroplastic phosphoenolpyruvate carboxylase protein, albeit at reduced amounts relative to rice. The arid-grown species Setaria italica (C4) and Brachypodium distachyon (C3) were also found to accumulate chloroplastic phosphoenolpyruvate carboxylase. We identified a molecular signature associated with C4 photosynthesis in nutrient-replete, waterlogged conditions that is highly similar to those previously reported from C4 plants that grow in more arid conditions. We also identified a cohort of genes that have been subjected to a selective sweep associated with growth in paddy conditions. Overall, this approach highlights the value of using wild species such as weeds to identify adaptions to specific conditions associated with high-yielding crops in agriculture.

Identification and comparative analysis of microRNAs in barnyardgrass (Echinochloa crus-galli) in response to rice allelopathy.

Rice allelopathy is a hot topic in the field of allelopathy, and behaviour of donor allelopathic rice has been well documented. However, few study addresses response of receiver barnyardgrass (BYG). We found that expression of miRNAs relevant to plant hormone signal transduction, nucleotide excision repair and the peroxisome proliferator-activated receptor and p53 signalling pathways was enhanced in BYG co-cultured with the allelopathic rice cultivar PI312777, the expression levels of these miRNAs in BYG plants were positively correlated with allelopathic potential of the co-cultured rice varieties. Treatment of BYG plants with rice-produced phenolic acids also increased miRNA expression in BYG, while treatment with rice-produced terpenoids had no obvious effect on miRNA expression. In the hydroponic system, the largest number of Myxococcus sp. was found in the growth medium containing rice with the highest allelopathic potential. The addition of phenolic acids in the hydroponic medium also increased the number of Myxococcus sp. More interestingly, inoculation with Myxococcus xanthus significantly increased miRNA expression in the treated BYG. Jointed treatments of ferulic acid and M. xanthus led to strongest growth inhibition of BYG. The results suggest that there exist involvement of Myxococcus sp. and mediation of miRNA expression in rice allelopathy against BYG.

Seed germination ecology of Echinochloa glabrescens and its implication for management in rice (Oryza sativa L.).

Echinochloa glabrescens is a C4 grass weed that is very competitive with rice when left uncontrolled. The competitive ability of weeds is intensified in direct-seeded rice production systems. A better understanding is needed of factors affecting weed seed germination, which can be used as a component of integrated weed management in direct-seeded rice. This study was conducted to determine the effects of temperature, light, salt and osmotic stress, burial depth, crop residue, time and depth of flooding, and herbicide application on the emergence, survival, and growth of two populations [Nueva Ecija (NE) and Los Baños (IR)] of E. glabrescens. Seeds from both populations germinated at all temperatures. The NE population had a higher germination rate (88%) from light stimulation than did the IR population (34%). The salt concentration and osmotic potential required to inhibit 50% of germination were 313 mM and -0.24 MPa, respectively, for the NE population and 254 mM and -0.33 MPa, respectively, for the IR population. Emergence in the NE population was totally inhibited at 4-cm burial depth in the soil, whereas that of the IR population was inhibited at 8 cm. Compared with zero residue, the addition of 5 t ha(-1) of rice residue reduced emergence in the NE and IR populations by 38% and 9%, respectively. Early flooding (within 2 days after sowing) at 2-cm depth reduced shoot growth by 50% compared with non-flooded conditions. Pretilachlor applied at 0.075 kg ai ha(-1) followed by shallow flooding (2-cm depth) reduced seedling emergence by 94-96% compared with the nontreated flooded treatment. Application of postemergence herbicides at 4-leaf stage provided 85-100% control in both populations. Results suggest that integration of different strategies may enable sustainable management of this weed and of weeds with similar germination responses.