Characterization of an Alginate Lyase,FlAlyA, from Flavobacterium sp. Strain UMI-01 and Its Expression in Escherichia coli

A major alginate lyase, FlAlyA, was purified from the periplasmic fraction of an alginate-assimilating bacterium, Flavobacterium sp. strain UMI-01. FlAlyA showed a single band of ~30 kDa on SDS-PAGE and exhibited the optimal temperature and pH at 55 °C and pH 7.7, respectively. Analyses for substrate preference and reaction products indicated that FlAlyA was an endolytic poly(mannuronate) lyase (EC 4.2.2.3). A gene fragment encoding the amino-acid sequence of 288 residues for FlAlyA was amplified by inverse PCR. The N-terminal region of 21 residues except for the initiation Met in the deduced sequence was predicted as the signal peptide and the following region of six residues was regarded as propeptide, while the C-terminal region of 260 residues was regarded as the polysaccharide-lyase-family-7-type catalytic domain. The entire coding region for FlAlyA was subjected to the pCold I—Escherichia coli BL21(DE3) expression system and ~eight times higher yield of recombinant FlAlyA (recFlAlyA) than that of native FlAlyA was achieved. The recFlAlyA recovered in the periplasmic fraction of E. coli had lost the signal peptide region along with the N-terminal 3 residues of propeptide region. This suggested that the signal peptide of FlAlyA could function in part in E. coli.     

Characterization of the perylenequinone pigments in Japanese Andosols and Cambisol

The green fraction of humic acid (Pg) and the chloroform-extractable green fraction (CEGF) are characteristic soil organic matter (SOM) components. These alkaline solutions are green-colored due to the presence of 4,9-dihydroxyperylene-3,10-quinone (DHPQ) chromophore. While both of which are potential indicators for the effect of land use and paleoclimatic environment in the fields of soil science as well as geochemistry, CEGF as well as its relationship with Pg in soils are not yet fully documented. In this study, we firstly investigated the chemical properties of soil CEGF fractions by ultraviolet–visible (UV–Vis) and infrared (IR) method. Two CEGF components were separated by sequential liquid-liquid extraction using aqueous ammonium hydroxide (NH₄OH) followed by aqueous sodium hydroxide (NaOH). Results showed that the UV–Vis spectral shape of NH₄OH-extractable component is very similar to that of DHPQ, except that it is red-shifted. The solubility and UV–Vis spectrum of the NaOH-extractable fraction were completely identical with those of synthesized DHPQ. Their IR spectral shapes were also almost the same. Subsequently, the distribution of CEGF in humic acid (HA), fulvic acid (FA) and humin (HN) from Japanese Andosols and Cambisol was quantitatively evaluated by sequential extraction. Most of CEGF was detected in the HA (60–78%) and HN (22–40%), but not in the FA. While the UV–Vis spectral shape of CEGF extracted from Andosols HAs showed a relatively higher proportion of DHPQ than its derivative, the opposite was observed in Cambisol HA, whose CEGF is similar to that of sclerotium grain (one of the possible origin of CEGF). These results suggest the diversity of CEGF-producing soil fungi. Quantitative data also indicated that 35–49% of Pg consisted of a chloroform-soluble fraction (i.e., CEGF) and the remaining 51–65% of Pg was chloroform-insoluble. Based on these results, we propose that CEGF is composed of DHPQ and DHPQ-derivatives and that CEGF is one of the major fractions of Pg.     

Plantation future of bamboo in China

In the past, utilization of bamboo resources in China has been traditionally dominated by direct consumption of local farmers as minor forest products with weak linkage with market. In recent years, the over-supply of grains and rapid degradation of agricultural environment call for alternative crops that can be developed through integrating the environmental plantation with the market demands. Closely associated with forestry and agriculture, bamboo is able to deal with the new challenges which China‘s agriculture is facing. Of 534 documented bamboo species in China, 153 species produce edibleshoots and of which 56 species are recommended for agricultural plantation; 139 species provide timbers and of which 58 species recommended; 116 species can be splited as good strips for weaving and of which 22 species recommended; 88 species are considered as garden bamboos and of which 34 species recommended; 45 species are able to produce paper pulp and of which 18 species recommended.     

The effect of tractor logging on forest soil compaction and growth ofShorea selanica seedlings in Indonesia

The hardness in soil was investigated in four forest areas in Indonesia after a crawler tractor passed over it several times. The hardness in soil, expressed by bulk density, was measured at various depth and various distances from the main track. Recovery of soil hardness was also examined. The bulk density increased markedly by the first and second pass of the tractor, but did not change after the fifth pass. The bulk density was highest just under the main and the log track, and decreased with an increase in distance from the track (0.5 to 1.5 m). The greatest increase in bulk density was observed at the depth of 0–5 cm. The soil hardness tended to show recovery within 9 years after logging, though not completely. Growth and root penetration of seedlingsShorea selanica decreased with the increase of soil hardness. We considered that the 2 tractor passes that caused bulk density of 1.3 g/cm³ is critical for the growth ofS. selanica’s seedling.     

Energy and carbon dioxide (CO2) balance of logging residues as alternative energy resources: system analysis based on the method of a life cycle inventory (LCI) analysis

Using the method of a life cycle inventory (LCI) analysis, the energy balance and the carbon dioxide (CO₂) emission of logging residues from Japanese conventional forestry as alternative energy resources were analyzed over the entire life cycle of the residues. The fuel consumption for forestry machines was measured in field experiments for harvesting and transporting logging residues at forestry operating sites in Japan. In addition, a total audit of energy consumption was undertaken. It involved an assessment of materials, construction, and the repair and maintenance of forestry machines as well as the costs associated with an energy-conversion plant. As a result, the ratio of energy output to input was calculated to be 5.69, indicating that the system examined in this study could be feasible as an energy production system. The CO₂ emission per MWh_e (e: electricity) of the biomass-fired power generation plant was calculated to be 61.8kgCO₂/MWh_e, while that of coal-fired power generation plants in Japan is 960kgCO₂/MWh_e. Therefore, the reduction in the amount of CO₂ emission that would result from replacing coal with biomass for power generation by as much as 3.0 million dry-t/year of logging residues in Japan was estimated to be 1.66 million tCO₂/year, corresponding to 0.142% of the national CO₂ emission. This study provides evidence that Japan could reduce its domestic CO₂ emission by using logging residues as alternative energy resources.     

Attaining inter-subgeneric hybrids in fragrant azalea breeding and the inheritance of organelle DNA

Inter-subgeneric hybrids were successfully obtained in reciprocal cross combinations between evergreen azaleas (Rhododendron nakaharae and its hybrids) and fragrant deciduous azaleas (R. arborescens and R. viscosum) for the purpose of fragrant evergreen azalea breeding. Nuclear and organelle DNA of these hybrids was investigated using PCR-RFLP markers. Viable hybrid seedlings have nuclear ribosomal DNA (nrDNA) inherited biparentally, mitochondrial DNA (mtDNA) from the seed parent, and chloroplast DNA (cpDNA) from the deciduous azalea, regardless of cross combination. These results suggest that the chloroplast genome from deciduous azaleas and the nuclear genome from evergreen azaleas are compatible in viable hybrid progenies.     

Growth and morphologic response of rumen methanogenic archaea and bacteria to cashew nut shell liquid and its alkylphenol components

The growth and morphology of rumen methanogenic archaea (15 strains of 10 species in 5 genera, including 7 strains newly isolated in the present study) and bacteria (14 species in 12 genera) were investigated using unsupplemented in vitro pure cultures and cultures supplemented with cashew nut shell liquid (CNSL) and its phenolic compound components, anti-methanogenic agents for ruminant animals. Growth of most of the methanogens tested was inhibited by CNSL and alkylphenols at different concentrations ranging from 1.56 to 12.5 μg/ml. Of the alkylphenols tested, anacardic acid exhibited the most potent growth inhibition. Three gram-negative bacterial species involved in propionate production were resistant to CNSL and alkylphenols (>50 μg/ml). All the methanogens and bacteria that were sensitive to CNSL and alkylphenols exhibited altered morphology; disruption of the cell surface was notable, possibly due to surfactant activity of the tested materials. Cells division was inhibited in some organisms, with cell elongation and unclear septum formation observed. These results indicate that CNSL and alkylphenols, particularly anacardic acid, inhibit both rumen bacteria and methanogens in a selective manner, which could help mitigate rumen methane generation.     

Hemorrhagic necrotizing splenitis in a slaughter pig infected with Arcanobacterium species

A 6-month-old barrow presented with lethargy, inappetence and dysstasia. At necropsy, multiple coalescing hemorrhagic foci were detected in the margins of the spleen. Gram-positive bacilli were isolated from the spleen, kidney, muscle and liver. Comparative 16S rDNA gene sequencing analysis of the isolates (TO16177) revealed that they would be the same species of unpublished Arcanobacterium species strain HJ57-14E (accession no. gi 18873551) (99.7% similarity based on a comparison of 675 bp). Histologic examination of the splenic tissue sections revealed extensive necrosis and inflammation, and gram-positive bacilli were discernible. Multifocal necrosis was also detected in the liver. Immunohistochemically, the isolates were cross-reacted with polyclonal antibodies against Arcanobacterium pyogenes and Actinomyces naeslundii, and the reaction was strong for the latter. Similar reactions were found in the suppurative lesions of the tonsil, and occasionally in the spleen and lymph nodes. The present results indicate that the unpublished Arcanobacterium species induced multiple organ failure accompanied by acute hemorrhagic necrotizing splenitis in this growing-finishing pig.     

Cyclosporine A inhibits the mRNA expressions of IL-2, IL-4 and IFN-gamma, but not TNF-alpha, in canine mononuclear cells

The effects of the calcineurin inhibitors cyclosporine A (CsA) and FK506 on the mRNA expressions of various cytokines were evaluated in dogs to determine whether the effects of CsA and FK506 in dogs were similar to those in humans. The mRNA expression levels of the cytokines IL-2, IL-4, IFN-gamma and TNF-alpha were measured in PHA-stimulated canine PBMC using real-time RT-PCR after incubation with CsA or FK506 for 5 hr. Both reagents inhibited IL-2, IL-4 and IFN-gamma mRNA expressions in a dose-dependent manner. However, CsA hardly inhibited the mRNA expression of TNF-alpha. These findings are important for assessing the indications of CsA treatment in dogs.