Involvement of microaerophilic iron-oxidizing bacteria in the iron-oxidizing process at the surface layer of flooded paddy field soil

Journal of Soils and Sediments - To reveal whether microaerophilic Fe(II)-oxidizing bacteria (FeOB) participate in the Fe(II) oxidation at the oxic-anoxic interface in flooded paddy field soil,...     

A case study on Salmonella enteritidis (SE) origin at three egg-laying farms and its control with an S. enteritidis bacterin

In the early 1990s, three egg-laying farms (farms S, T, and B) were thought to have the possibility of Salmonella enteritidis (SE) contamination because positive liquid egg samples originated from those farms. The present study was therefore conducted. The first clarification for SE contamination was the study on the origin of SE contamination including its vertical transmission. The results of SE contamination profiling with dust and manure, food materials, dead embryos, and residual yolks on hatch day in regular monitoring over a few years were clearly negative. Therefore, we concluded the SE transmission/infection was attributed to horizontal infection in the egg-laying farms but not vertical transmission from parental stock, hatcheries, growth, or food materials during a 7-yr experimental period. Second, we attempted to clarify if administration of an SE bacterin (Layermune SE) to growth flocks for the egg-laying farms could reduce SE incidence in liquid egg samples from each egg-laying farm. In the first experiment, we compared SE incidence in liquid egg samples from vaccinated and nonvaccinated flocks (similar age flocks). SE incidence from vaccinated and nonvaccinated flocks showed negative and <2 most probable number (MPN)/100 ml for farm B, <2 and >1600 MPN/100 ml for farm S, and negative and >1600 MPN/100 ml for farm T, respectively. In the second experiment, we compared the SE isolation incidence in the liquid egg samples from nonvaccinated and newly replaced vaccinated flocks in the same chicken houses from each of the three egg-laying farms. SE incidence in the liquid egg samples was similar to that in the first experiment. Therefore, the SE bacterin may play an important role in reducing the SE incidence of liquid egg samples.     

Thermal behavior of beta-1 subunits in lignin: pyrolysis of 1,2-diarylpropane-1,3-diol-type lignin model compounds

1,2-Diarylpropane-1,3-diol-type lignin model compounds, 1,2-bis(4-hydroxy-3-methoxyphenyl)propane-1,3-diol (1) and 1-(3,4-diethoxyphenyl)-2-(4-methoxyphenyl)propane-1,3-diol (2), were pyrolyzed at 500 degrees C for 4 s to clarify the thermal behavior of beta-1 subunits in lignin. Products were monitored by gas chromatography/mass spectrometry. The cleavage of the Calpha-Cbeta bond to produce benzaldehydes such as 4-hydroxy-3-methoxybenzaldehyde (9) and phenylethanals as the counterparts such as 4-hydroxy-3-methoxyphenylethanal (10) occurred in pyrolyses of both 1 and 2. In pyrolysis of 1, an oxetane pathway leading to the formation of Z/E-stilbenes without the gamma-CH2OH group such as Z/E-4,4'-dihydroxy-3,3'-dimethoxystilbene (3) was predominant. In pyrolysis of 2, the oxetane pathway was minor, while pathways producing a dimer with a =CgammaH2 group by loss of water and a dimer with an alpha-carbonyl group were predominant. Pyrolysis of Japanese cedar wood provided 3 and 10 in approximately 0.8% and 0.6% yields, respectively, based on the Klason lignin content, while pyrolysis of a guaiacyl bulk dehydrogenation polymer gave them in a very small amount.     

Response of denitrifying communities to successive soil freeze–thaw cycles

The effect of soil freeze–thaw cycles on the denitrification potential was examined based on the C₂H₂ inhibition method. The gross N₂O production curve of the soil sample (incubation with C₂H₂) showed minor changes between the freeze–thaw treatment and the unfrozen control. However, kinetics analysis revealed that the initial production rate, an indicator of the population density of denitrifying communities, decreased (P = 0.043) and the specific growth rate constant, an indicator of the activity of denitrifying communities, increased (P = 0.039) as a result of the freeze–thaw cycles in five of six soil samples examined. The increase in the specific growth rate constant suggested the stimulation of the activity of denitrifying communities that survived after the freeze–thaw cycles and may explain the minor suppression on the gross N₂O production in spite of decreasing the population density of denitrifying communities that was suggested by the initial production rate. The net N₂O production curve of the soil sample (incubation without C₂H₂) showed a remarkable change in one out of six soil samples, and in that one soil sample, N₂O release to the atmosphere was largely stimulated (7.6 times) by the freeze–thaw cycles. However, the stimulation of the N₂O release by the freeze–thaw cycles was even observed in two other selected soil samples (4.6 and 1.8 times), suggesting that an imbalance in the N₂O-producing and N₂O-reducing activities of denitrifying communities might complementally explain the N₂O release stimulated by the freeze–thaw cycles.     

Relative importance of motility and antibiosis in the rhizoplane competence of a biocontrol agent Pseudomonas fluorescens MelRC2Rif

Mutants defective in motility or antibiotics production were obtained by Tn5 mutagenesis of a biocontrol agent Pseudomonas fluorescens MelRC2Rif (wt). Tomato or melon seeds were co-inoculated with a Tn5 mutant and wt in a 1:1 ratio and then grown in soil for 10 days. There was no change in ratios of Tn5 mutants defective in antibiosis to wt in the process of rhizoplane colonization, suggesting little contribution of in vitro antibiosis to the rhizoplane competence of P. fluorescens MelRC2Rif. Similar results were also obtained when seeds treated with bacteria were planted in soil artificially infested with fungal pathogens. In contrast, ratios of Tn5 mutants defective in motility to wt significantly decreased, suggesting the contribution of motility to the rhizoplane competence of this bacterium. When a non-motile Tn5 mutant and wt were co-inoculated into soil at a matric potential of pF 2.3 (–20 kPa) and plants were then grown, there was no change in the ratio in rhizoplane colonization, suggesting that motility might have a role in the movement along roots but an insignificant role in the movement from bulk soil towards roots. When they were co-inoculated into 0.2% water agar (WA) instead of soil, a remarkable decline in ratios was detected. Thus it was soil structure that hindered the efficiency of motility. Time course enumeration of rhizoplane colonization of tomatoes grown in WA revealed that motility was an important means of movement towards and/or along roots rather than the multiplication on roots. Received: 8 July 1996     

Effect of bensulfuron-methyl (a sulfonylurea herbicide) on the soil bacterial community of a paddy soil microcosm

The effect of bensulfuron-methyl (BSM) on a soil microbial community in a model paddy microcosm was studied. Total bacterial numbers in the overlying water and surface soil were monitored for 2 months after the application of BSM at the field rate and a ten-fold field rate. Pentachlorophenol (PCP) was used for comparison. Neither chemical affected the total bacterial numbers remarkably, either in the overlying water or in the surface soil. In contrast, the nitrification potential was significantly suppressed by the BSM application. The bacterial community structure, as evaluated by the denaturing gradient gel electrophoresis (DGGE) of PCR amplification products from bacterial 16S rDNA, was unaffected by the BSM treatments over 8 weeks in the surface soil, compared with the control (no pesticide). In contrast, the surface soil exposed to PCP at a ten-fold field rate showed different patterns from the controls at 4 weeks and 8 weeks after application. The DGGE patterns of the overlying water were much more variable than those of the surface soil in any treatments. Cluster analysis showed that the BSM plots were classified within the same group as the control at 1 week after application and that the BSM and PCP plots from 2 weeks onward after application were grouped differently from the control. Of 22 clones excised from the DGGE gels, 20 clones belonged to the Proteobacteria and two belonged to the Verrucomicrobia. It was considered that the impact of BSM on the overall microbial community (total numbers, community structure of soil) was negligible, although BSM had an impact on some specific functions of the soil microbial community (nitrification) and a part of the community (overlying water).     

Mutations in a human ROBO gene disrupt hindbrain axon pathway crossing and morphogenesis

The mechanisms controlling axon guidance are of fundamental importance in understanding brain development. Growing corticospinal and somatosensory axons cross the midline in the medulla to reach their targets and thus form the basis of contralateral motor control and sensory input. The motor and sensory projections appeared uncrossed in patients with horizontal gaze palsy with progressive scoliosis (HGPPS). In patients affected with HGPPS, we identified mutations in the ROBO3 gene, which shares homology with roundabout genes important in axon guidance in developing Drosophila, zebrafish, and mouse. Like its murine homolog Rig1/Robo3, but unlike other Robo proteins, ROBO3 is required for hindbrain axon midline crossing.     

Nitrogen balance in a paddy field planted with whole crop rice (Oryza sativa cv. Kusahonami) during two rice-growing seasons

This paper focuses on N balance in a paddy field planted with whole crop rice (Oryza sativa cv. Kusahonami). The experiment was conducted with two treatments during two rice-growing seasons: one was fertilized with N (160 kg N ha^–1; 16N plot) and the other unfertilized (0N plot); both plots were fertilized with P and K. The N input from precipitation was 15 and 12 kg N ha^–1 in 2002 and 2003, respectively. The N input from irrigation water reached as much as 123 and 69 kg N ha^–1 in 2002 and 2003, respectively. This was because irrigation water contained higher NO₃^– concentrations ranging from 4 to 8 mg N l^–1. The N uptake by rice plants was the major output: 118 and 240 kg N ha^–1 in the 0N and 16N plots in 2002 and 103 and 238 kg N ha^–1 in 2003, respectively. N losses by leaching were 4.8–5.3 and 6.5–7.3 kg N ha^–1 in 2002 and in 2003, respectively. Laboratory experiments were carried out to estimate the amounts of N₂ fixation and denitrification. Amount of N₂ fixation was 43 and 0 kg N ha^–1 in the 0N and 16N plots, respectively. Denitrification potential was quite high in both the plots, and 90% of the N input through irrigation water was lost through denitrification. Collectively, the total N inputs were relatively large due to irrigation water contaminated with NO₃^–, but N outflow loading, expressed as leaching–(irrigation water + precipitation + fertilizer), showed large negative values, suggesting that the whole crop rice field might serve as a constructed wetland for decreasing N.