Synergistic N2-fixation and salt stress mitigation in soybean through dual inoculation of ACC deaminase-producing Pseudomonas and Bradyrhizobium.

We investigated the potential dual application of two Bradyrhizobium strains (B. diazoefficiens USDA110 and B. ottawaense SG09) and plant growth-promoting bacteria, PGPB (Pseudomonas spp.: OFT2 and OFT5), to improve nodulation and N2-fixation in soybean plants. The growth-promoting effects of dual inoculation were observed on plant growth, physiology, and nodulation of soybean under normal conditions compared with plants individually inoculated with either USDA110 or SG09. Both OFT2 and OFT5 promoted N2-fixation by 11% and 56%, respectively, when dual inoculation with USDA110 and by 76% and 81%, respectively, when dual inoculation with SG09. Salinity stress significantly reduces soybean growth, physiology, nutrient uptake, nodulation, and N2-fixation. However, these adverse effects were attenuated by the dual inoculation of PGPB and rhizobia depending on the combination of inoculants. In particular, dual inoculation of PGPB with SG09 was more effective in enhancing the salt tolerance of soybean by reducing salt-induced ethylene production and improving nutrient uptake. However, no such effect was observed with the combined inoculation of USDA110 and OFT5. An effective symbiotic association between SG09 and two Pseudomonas bacteria can be considered a beneficial approach to improving the symbiotic efficiency of nodulation and mitigating salinity stress in soybeans.

Seed phytic acid concentration affects rice seedling vigor irrespective of soil phosphorus bioavailability.

Rice with a black-colored pericarp (hereafter, black rice) is well-known as an antioxidant-rich food, but a high grain phytic acid (PA) concentration affects its nutritional quality. However, phytic acid helps improve seedling vigor, which is crucial for enhancing subsequent plant growth. This study investigated the effect of seed phytic acid concentration in black rice on seedling vigor compared to the effects on white rice. In the first experiment, three phytic acid concentrations in the seeds of black rice, low (LPA, 15.5 mg g-1 per seed), medium (MPA, 24.7 mg g-1 per seed), and high (HPA, 35.4 mg g-1 per seed) were tested for seedling vigor in phosphorus-deficient soils. The HPA seedlings showed substantially increased seedling vigor and shoot P uptake due to early root development and enhanced physiological processes. LPA grown seedlings showed increased ethylene production in response to P stress, which is the main physiological mechanism modulating seedling growth under P stress conditions. In the second experiment, the three phytic acid concentrations in black and white rice seeds were tested under low and high soil P conditions. Again, LPA seedlings showed significantly reduced seedling vigor in both rice varieties in P-deficient soils. Interestingly, seed phytic acid and external P application had an additive effect on seedling vigor, suggesting that the combined effect further improved seedling growth. Our results reveal that black rice seeds with a HPA concentration can be used as a seed source for planting in P-deficient ecosystems for rice plants as they can increase seedling vigor and subsequent growth, thus reducing dependence on finite P resources.

Ecosystem carbon dioxide exchange and water use efficiency in a triple-cropping rice paddy in Southern India: A two-year field observation.

The lowland tropical triple-cropping rice system has unique characteristics that affect the hydrological, nutrient, and atmospheric environments. To better understand the ecosystem carbon and water dynamics of a triple-cropping rice paddy from the perspective of sustainability, ecosystem-level CO2 flux and ecosystem water use efficiency (eWUE) were observed using eddy covariance over 2 years (2016-2018) at an experimental field site in southern India, and gross primary production (GPP) and ecosystem respiration (RE) were derived using the flux partitioning technique. Results showed that among the three crop seasons per year, GPP and RE were higher (887.2 and 570.2 g C m-2, respectively) in Thaladi (October-January: wet season) than in Kuruvai (June-September: dry season; 773.4 and 568.9 g C m-2, respectively) and summer rice (February-May; 694.0 and 499.7 g C m-2, respectively) owing to the longer growing season. Triple-cropping meant that the quasi-annual GPP of 2598 g C m-2 (i.e., the total value for the three consecutive seasons, including the corresponding fallow periods) was much greater than the quasi-annual RE of 1974 g C m-2. Consequently, the net ecosystem production value was positive (624 g C m-2). Evapotranspiration was also high on the annual scale (1681 mm); that is, 48 % greater than mean annual precipitation (1139 mm). Analysis revealed that Thaladi had higher eWUE (2.21 g C (kg H2O)-1) than that of Kuruvai (1.46 g C (kg H2O)-1) and summer rice (1.57 g C (kg H2O)-1) owing to decreased water loss in cloudy weather. Intense solar radiation is generally recognized as advantageous for crop growth in most regions, but not for Kuruvai and summer rice, when too strong solar radiation increases loss of water unused for photosynthesis. The findings indicate that water-saving techniques should be targeted on the Kuruvai and summer rice seasons.

Identification of Pseudomonas strains for the biological control of soybean red crown root rot.

Soybean red crown root rot (RCR), caused by the soil-borne fungal pathogen, Calonectria ilicicola, is the most destructive disease affecting soybean production in Japan. To date, no resistant cultivars or effective fungicides have been developed to control this disease. In this study, we evaluated 13 bacterial strains to determine their efficacy in controlling C. ilicicola. We first investigated whether the volatile organic compounds (VOCs) emitted by the bacterial strains exhibited any antifungal activity against C. ilicicola using the double-plate chamber method. The results showed that VOCs from three Pseudomonas bacterial strains, OFT2 (Pseudomonas sp.), OFT5 (Pseudomonas sp.), and Cab57 (Pseudomonas protegens), exhibited strong inhibitory activity against C. ilicicola mycelial growth. Some antifungal activity was also observed in the culture supernatants of these Pseudomonas strains. Greenhouse soil inoculation tests showed that application of OFT2, OFT5, and Cab57 cultures around soybean seeds after seed sowing significantly reduced the severity of RCR, as shown by up to 40% reduction in C. ilicicola fungal growth in the roots and 180-200% increase in shoot and root fresh weights compared to the water control. Our results suggest that OFT2, Cab57, and OFT5 produce potent antifungal compounds against C. ilicicola, thereby showing considerable potential for the biological control of C. ilicicola during soybean production.

Correction: Influence of rice varieties, organic manure and water management on greenhouse gas emissions from paddy rice soils.

[This corrects the article DOI: 10.1371/journal.pone.0253755.].

Influence of rice varieties, organic manure and water management on greenhouse gas emissions from paddy rice soils.

The study is focused on impact of manure application, rice varieties and water management on greenhouse gas (GHG) emissions from paddy rice soil in pot experiment. The objectives of this study were a) to assess the effect of different types of manure amendments and rice varieties on greenhouse gas emissions and b) to determine the optimum manure application rate to increase rice yield while mitigating GHG emissions under alternate wetting and drying irrigation in paddy rice production. The first pot experiment was conducted at the Department of Agronomy, Yezin Agricultural University, Myanmar, in the wet season from June to October 2016. Two different organic manures (compost and cow dung) and control (no manure), and two rice varieties; Manawthukha (135 days) and IR-50 (115 days), were tested. The results showed that cumulative CH4 emission from Manawthukha (1.084 g CH4 kg-1 soil) was significantly higher than that from IR-50 (0.683 g CH4 kg-1 soil) (P<0.0046) with yield increase (P<0.0164) because of the longer growth duration of the former. In contrast, higher cumulative nitrous oxide emissions were found for IR-50 (2.644 mg N2O kg-1 soil) than for Manawthukha (2.585 mg N2O kg-1 soil). However, IR-50 showed less global warming potential (GWP) than Manawthukha (P<0.0050). Although not significant, the numerically lowest CH4 and N2O emissions were observed in the cow dung manure treatment (0.808 g CH4 kg-1 soil, 2.135 mg N2O kg-1 soil) compared to those of the control and compost. To determine the effect of water management and organic manures on greenhouse gas emissions, second pot experiments were conducted in Madaya township during the dry and wet seasons from February to October 2017. Two water management practices {continuous flooding (CF) and alternate wetting and drying (AWD)} and four cow dung manure rates {(1) 0 (2) 2.5 t ha-1 (3) 5 t ha-1 (4) 7.5 t ha-1} were tested. The different cow dung manure rates did not significantly affect grain yield or greenhouse gas emissions in this experiment. Across the manure treatments, AWD irrigation significantly reduced CH4 emissions by 70% during the dry season and 66% during the wet season. Although a relative increase in N2O emissions under AWD was observed in both rice seasons, the global warming potential was significantly reduced in AWD compared to CF in both seasons (P<0.0002, P<0.0000) according to reduced emission in CH4. Therefore, AWD is the effective mitigation practice for reducing GWP without compromising rice yield while manure amendment had no significant effect on GHG emission from paddy rice field. Besides, AWD saved water about 10% in dry season and 19% in wet season.

Synergy between a shallow root system with a DRO1 homologue and localized P application improves P uptake of lowland rice.

Improved phosphorus (P) use efficiency for crop production is needed, given the depletion of phosphorus ore deposits, and increasing ecological concerns about its excessive use. Root system architecture (RSA) is important in efficiently capturing immobile P in soils, while agronomically, localized P application near the roots is a potential approach to address this issue. However, the interaction between genetic traits of RSA and localized P application has been little understood. Near-isogenic lines (NILs) and their parent of rice (qsor1-NIL, Dro1-NIL, and IR64, with shallow, deep, and intermediate root growth angles (RGA), respectively) were grown in flooded pots after placing P near the roots at transplanting (P-dipping). The experiment identified that the P-dipping created an available P hotspot at the plant base of the soil surface layer where the qsor1-NIL had the greatest root biomass and root surface area despite no genotyipic differences in total values, whereby the qsor1-NIL had significantly greater biomass and P uptake than the other genotypes in the P-dipping. The superior surface root development of qsor1-NIL could have facilitated P uptakes from the P hotspot, implying that P-use efficiency in crop production can be further increased by combining genetic traits of RSA and localized P application.

P-dipping of rice seedlings increases applied P use efficiency in high P-fixing soils.

Applied phosphorus (P) use efficiency is generally low due to the low mobility of P in soil and its affinity to form insoluble complexes. Localized P application nearby the root zone is a potential approach to overcome this issue in crop production. However, the interaction with soil conditions is little understood, which results in less effective application of this approach. Using root-box experiments and changing P-retention capacity of soils, we revealed that applied P use efficiency of rice can be substantially improved by dipping seedlings in P-enriched slurry at transplanting (P-dipping) even in highly P-fixing soils. Spatial analysis of soluble P in soils indicated that P-dipping creates a P hotspot because the P-enriched slurry is transferred with seedling roots. The P hotspot could have induced vigorous surface root and facilitated further P uptake from the spot. In contrast, the effect of conventional P incorporation depended on P-retention capacity of soils; no increases in soluble P content in soils or plant P uptakes were observed when P-retention capacity was high. Our finding of significant interaction between localized P application and a specific soil property should help improving applied P use efficiency and achieving sustainable rice production against depleting P fertilizer resources.

Influence of pruning waste biochar and oyster shell on N2O and CO2 emissions from Japanese pear orchard soil.

Two incubation experiments were conducted under controlled moisture and temperature conditions to determine the effects of soil amendment treatments based on pruning waste biochar and oyster shell, on N2O and CO2 emissions from an orchard soil. In experiment 1, four treatments were tested including, control (CK), pruning waste biochar at 2% (B2%), at 10% (B10%), and oyster shell (OS), mixed with soil from two different depths, namely, from the 0-5 cm and the 0-10 cm layers. In experiment 2, only the 0-10 cm soil layer was used to study the effect of surface application of pruning waste biochar (B2% and B10%) on soil N2O and CO2 emissions. The results showed that soil pH, total C and C: N ratio increased with biochar amendment treatments. Significant reduction in soil NO3- content was observed for the B10% treatment. Although OS application increased soil pH, no effect was observed on soil mineral N content, total C or C: N ratio. The rate of N2O emissions from the 0-5 cm soil layer after B2% and B10% addition, significantly declined by 12.5% and 26.3%, respectively. However, only the B10% treatment caused significant reduction in N2O emissions from the 0-10 cm soil layer and from surface soil, by 15.1% and 13.8%, respectively. Oyster shell application had no effect on either soil N2O or CO2 emissions from either soil layer tested. Our results suggest that the addition of pruning waste biochar at a high rate has the potential to mitigate N2O emissions from orchard soils; while, oyster shell can be used for liming without altering soil N2O nor CO2 emissions.

Effect of dolomite and biochar addition on N2O and CO2 emissions from acidic tea field soil.

A laboratory study was conducted to study the effects of liming and different biochar amendments on N2O and CO2 emissions from acidic tea field soil. The first experiment was done with three different rates of N treatment; N 300 (300 kg N ha-1), N 600 (600 kg N ha-1) and N 900 (900 kg N ha-1) and four different rates of bamboo biochar amendment; 0%, 0.5%, 1% and 2% biochar. The second experiment was done with three different biochars at a rate of 2% (rice husk, sawdust, and bamboo) and a control and lime treatment (dolomite) and control at two moisture levels (50% and 90% water filled pore space (WFPS)). The results showed that dolomite and biochar amendment significantly increased soil pH. However, only biochar amendment showed a significant increase in total carbon (C), C/N (the ratio of total carbon and total nitrogen), and C/IN ratio (the ratio of total carbon and inorganic nitrogen) at the end of incubation. Reduction in soil NO3--N concentration was observed under different biochar amendments. Bamboo biochar with the rates of 0.5, 1 and 2% reduced cumulative N2O emission by 38%, 48% and 61%, respectively, compare to the control soil in experiment 1. Dolomite and biochar, either alone or combined significantly reduced cumulative N2O emission by 4.6% to 32.7% in experiment 2. Reduction in N2O production under biochar amendment was due to increases in soil pH and decreases in the magnitude of mineral-N in soil. Although, both dolomite and biochar increased cumulative CO2 emission, only biochar amendment had a significant effect. The present study suggests that application of dolomite and biochar to acidic tea field soil can mitigate N2O emissions.

Influence of soil types and osmotic pressure on growth and 137Cs accumulation in blackgram (Vigna mungo L.).

A pot experiment was conducted to study the effects of soil types and osmotic levels on growth and 137Cs accumulation in two blackgram varieties differing in salinity tolerance grown in Fukushima contaminated soils. The contamination levels of the sandy clay loam and clay soil were 1084 and 2046 Bq kg-1 DW, respectively. The 137Cs activity was higher in both plants grown on the sandy clay loam than on the clay soil regardless of soil 137Cs activity concentration. No significant differences were observed in all measured growth parameters between the two varieties under optimal water conditions for both types of soil. However, the growth, leaf water contents and 137Cs activity concentrations in both plants were lower in both soil types when there was water stress induced by addition of polyethylene glycol. Water stress-induced reduction in total leaf area and total biomass, in addition to leaf relative water content, were higher in salt sensitive 'Mut Pe Khaing To' than in salt tolerant 'U-Taung-2' plants for both soil types. Varietal difference in decreased 137Cs uptake under water stress was statically significant in the sandy clay loam soil, however, it was not in the clay soil. The transfer of 137Cs from soil to plants (i.e., root, stem and leaf) was higher for the sandy clay loam for both plants when compared with those of the clay soil. The decreased activity of 137Cs in the above ground samples (leaf and stem) in both plants in response to osmotic stress suggested that plant available 137Cs decreased when soil water is limited by osmotic stress.

Genotypic difference in (137)Cs accumulation and transfer from the contaminated field in Fukushima to azuki bean (Vigna angularis).

The screening of mini-core collection of azuki bean accessions (Vigna angularis (Willd.) Ohwi & Ohashi) for comparative uptake of (137)Cs in their edible portions was done in field trials on land contaminated by the Fukushima Daiichi Nuclear Power Plant (FDNPP) accident. Ninety seven azuki bean accessions including their wild relatives from a Japanese gene bank, were grown in a field in the Fukushima prefecture, which is located approximately 51 km north of FDNPP. The contamination level of the soil was 3665 ± 480 Bq kg(-1) dry weight ((137)Cs, average ± SD). The soil type comprised clay loam, where the sand: silt: clay proportion was 42:21:37. There was a significant varietal difference in the biomass production, radiocaesium accumulation and transfer factor (TF) of radiocaesium from the soil to edible portion. Under identical agricultural practice, the extent of (137)Cs accumulation by seeds differed between the accessions by as much as 10-fold. Inter-varietal variation was expressed at the ratio of the maximum to minimum observed (137)Cs transfer factor for seeds ranged from 0.092 to 0.009. The total biomass, time to flowering and maturity, and seed yield had negative relationship to (137)Cs activity concentration in seeds. The results suggest that certain variety/varieties of azuki bean which accumulated less (137)Cs in edible portion with preferable agronomic traits are suitable to reduce the (137)Cs accumulation in food chain on contaminated land.

Changes in hydraulic conductance cause the difference in growth response to short-term salt stress between salt-tolerant and -sensitive black gram (Vigna mungo) varieties.

Black gram (Vigna mungo) is an important crop in Asia, However, most black gram varieties are salt-sensitive. The causes of varietal differences in salt-induced growth reduction between two black gram varieties, 'U-Taung-2' (salt-tolerant; BT) and 'Mut Pe Khaing To' (salt-sensitive; BS), were examined the potential for the first step toward the genetic improvement of salt tolerance. Seedlings grown in vermiculite irrigated with full-strength Hoagland solution were treated with 0mM NaCl (control) or 225 mM NaCl for up to 10 days. In the 225 mM NaCl treatment, plant growth rate, net assimilation rate, mean leaf area, leaf water potential, and leaf photosynthesis were reduced more in BS than in BT plants. Leaf water potential was closely related to leaf photosynthesis, net assimilation rate, and increase in leaf area. In response to salinity stress, hydraulic conductance of the root, stem, and petiole decreased more strongly in BS than in BT plants. The reduction in stem and petiole hydraulic conductance was caused by cavitation, whereas the reduction in root hydraulic conductance in BS plants was caused by a reduction in root surface area and hydraulic conductivity. We conclude that the different reduction in hydraulic conductance is a cause of the differences in the growth response between the two black gram varieties under short-term salt stress.

Within field spatial variation in methane emissions from lowland rice in Myanmar.

An assessment of within field spatial variations in grain yield and methane (CH4) emission was conducted in lowland rice fields of Myanmar. Two successive rice fields (1(st) field and 2(nd) field) were divided into fertilized and non-fertilized parts and CH4 measurements were conducted at the inlet, middle and outlet positions of each field. The results showed that CH4 emissions at non-fertilized parts were higher than those at fertilized part in both rice fields. The average CH4 emissions ranged from 8.7 to 26.6 mg m(-2) h(-1) in all positions in both rice fields. The spatial variation in CH4 emission among the positions was high in both rice fields with the highest emissions in the outlet of the 1(st) field and the inlet of the 2(nd) field. The CH4 emissions at these two positions showed 2 - 2.5 times higher than those at other positions in both rice fields. Stepwise regression analysis indicates that soil total carbon content is the primary factor for CH4 emission. The average CH4 emissions during rice growing season were 13.5 mg m(-2) h(-1) for the 1(st) field and 15.7 mg m(-2) h(-1) for the 2(nd) field. Spearman rank order correlation analysis showed that CH4 emission was significantly and positively correlated with soil temperature, surface water depth and negatively correlated with soil redox potential. The result indicated that high within field spatial variation in CH4 emissions required different site specific management practices to mitigate CH4 emissions in lowland paddy rice soil.

Growth and (137)Cs uptake of four Brassica species influenced by inoculation with a plant growth-promoting rhizobacterium Bacillus pumilus in three contaminated farmlands in Fukushima prefecture, Japan.

The effectiveness of the plant growth-promoting rhizobacterium Bacillus pumilus regarding growth promotion and radiocesium ((137)Cs) uptake was evaluated in four Brassica species grown on different (137)Cs contaminated farmlands at Fukushima prefecture in Japan from June to August 2012. B. pumilus inoculation did not enhance growth in any of the plants, although it resulted in a significant increase of (137)Cs concentration and higher (137)Cs transfer from the soil to plants. The Brassica species exhibited different (137)Cs uptake abilities in the order Komatsuna>turnip>mustard>radish. TF values of (137)Cs ranged from 0.018 to 0.069 for all vegetables. Komatsuna possessed the largest root surface area and root volume, and showed a higher (137)Cs concentration in plant tissue and higher (137)Cs TF values (0.060) than the other vegetables. Higher (137)Cs transfer to plants was prominent in soil with a high amount of organic matter and an Al-vermiculite clay mineral type.