Use of two population metrics clarifies biodiversity dynamics in large-scale monitoring: the case of trees in Japanese old-growth forests

An alkaline comet assay and a micronucleus test were carried out on erythrocytes of the European chub, Squalius cephalus L., collected in spring and autumn in 2005 and 2006 at three sampling sites in River Sava, near Zagreb, Croatia. The results of comet assay showed the lowest genotoxic influence at the least polluted site, while higher DNA damage was observed at the polluted sites. Although the basal levels of DNA damage were elevated, a clear gradation of DNA damage was found due to pollution intensity in all sampling periods. The lowest cytogenetic damage as revealed by the micronucleus test (MNT) was observed as well at the least polluted site. High variations in MN frequency were observed between sampling periods, although the number of micronucleated erythrocytes was consistently the highest one at the polluted site. The comet assay as a biomarker of genotoxic effect exhibited higher sensitivity in discriminating the genotoxic capacity of studied polluted sites while the MNT was less sensitive. However, both tests should be used together in biomonitoring studies because they can reveal different aspects of DNA damage; comet assay, the early event of genotoxic exposure, and MNT, its final result as a mutagenic potential.     

Isolation of antifungal bacteria from Japanese fermented soybeans,natto

An inhibitory effect of a traditional Japanese fermented food, natto, was found against plant pathogens such as Rhizoctonia solani and Fusarium oxysporum, and the bacteria which showed inhibition were isolated from the natto. Among isolated bacteria, BC-1 and GAc exhibited a strong antagonistic effect in vitro against plant pathogens on an agar medium. The supernatant of bacterial culture also showed strong activity against R. solani, which meant the antimicrobial substances were produced and secreted into the medium. Both of the bacteria were estimated as Bacillus amyloliquefaciens from a partial sequence of the 16s rRNA gene. High performance liquid chromatography analysis clearly showed the production of the lipopeptide antibiotic iturin A by BC-1 and GAc.     

Screening of endophytic bacteria against fungal plant pathogens

Bacterial endophytes were found from 6 plant leaves among 35 plant leaves screened. Two of the isolated bacteria showed antagonistic activity against fungal plant pathogens. An isolate named KL1 showed the clear inihibition against plant pathogens, Fusarium oxysporum and Rhizoctonia solani, on PDA as well as TSA plate. Supernatant of the bacterial culture also showed the clear inhibition against the fungal growth on the plate and the antibiotic substance was identified as iturin A by HPLC analysis. KL1 was identified as Bacillus sp. from the 16S rRNA gene analysis. Very thin hyphae of R. solani was miccroscopically observed when the fungus was co-cultivated with KL1.     

Sulfur deposition simulations over China, Japan, and Korea: a model intercomparison study for abating sulfur emission

In response to increasing trends in sulfur deposition in Northeast Asia, three countries in the region (China, Japan, and Korea) agreed to devise abatement strategies. The concepts of critical loads and source?Creceptor (S?CR) relationships provide guidance for formulating such strategies. Based on the Long-range Transboundary Air Pollutants in Northeast Asia (LTP) project, this study analyzes sulfur deposition data in order to optimize acidic loads over the three countries. The three groups involved in this study carried out a full year (2002) of sulfur deposition modeling over the geographic region spanning the three countries, using three air quality models: MM5-CMAQ, MM5-RAQM, and RAMS-CADM, employed by Chinese, Japanese, and Korean modeling groups, respectively. Each model employed its own meteorological numerical model and model parameters. Only the emission rates for SO₂ and NO_x obtained from the LTP project were the common parameter used in the three models. Three models revealed some bias from dry to wet deposition, particularly the latter because of the bias in annual precipitation. This finding points to the need for further sensitivity tests of the wet removal rates in association with underlying cloud?Cprecipitation physics and parameterizations. Despite this bias, the annual total (dry plus wet) sulfur deposition predicted by the models were surprisingly very similar. The ensemble average annual total deposition was 7,203.6?±?370 kt S with a minimal mean fractional error (MFE) of 8.95?±?5.24?% and a pattern correlation (PC) of 0.89?C0.93 between the models. This exercise revealed that despite rather poor error scores in comparison with observations, these consistent total deposition values across the three models, based on LTP group's input data assumptions, suggest a plausible S?CR relationship that can be applied to the next task of designing cost-effective emission abatement strategies.     

The challenge of biased evidence in conservation

Efforts to tackle the current biodiversity crisis need to be as efficient and effective as possible given chronic underfunding. To inform decision-makers of the most effective conservation actions, it is important to identify biases and gaps in the conservation literature to prioritize future evidence generation. We used the Conservation Evidence database to assess the state of the global literature that tests conservation actions for amphibians and birds. For the studies in the database, we investigated their spatial and taxonomic extent and distribution across biomes, effectiveness metrics, and study designs. Studies were heavily concentrated in Western Europe and North America for birds and particularly for amphibians, and temperate forest and grassland biomes were highly represented relative to their percentage of land coverage. Studies that used the most reliable study designs—before-after control-impact and randomized controlled trials—were the most geographically restricted and scarce in the evidence base. There were negative spatial relationships between the numbers of studies and the numbers of threatened and data-deficient species worldwide. Taxonomic biases and gaps were apparent for amphibians and birds—some entire orders were absent from the evidence base—whereas others were poorly represented relative to the proportion of threatened species they contained. Metrics used to evaluate effectiveness of conservation actions were often inconsistent between studies, potentially making them less directly comparable and evidence synthesis more difficult. Testing conservation actions on threatened species outside Western Europe, North America, and Australasia should be prioritized. Standardizing metrics and improving the rigor of study designs used to test conservation actions would also improve the quality of the evidence base for synthesis and decision-making.     

Mathematical equivalence of geometric mean fitness with probabilistic optimization under environmental uncertainty

Natural selection can be considered as optimising fitness. Because ‘mean’ fitness is maximized with respect to the genotypes of carriers, traditional theory can be viewed as a statistical theory of natural selection. Probabilistic optimisation is a way to incorporate such uncertainty into optimality analyses of natural selection, where environmental uncertainty is expressed as a probability distribution. Its canonical form is a weighted average of fitness with respect to a given probabilistic distribution. This concept should be applicable to three different levels of uncertainty: (1) behavioural variations of an individual, (2) individual variations within a generation, and (3) temporal change over generations (geometric mean fitness). The former two levels are straightforward with many empirical evidences, but the last category, the geometric mean fitness, has not well understood. Here we studied the geometric mean fitness by taking its logarithm, where the log growth rates become the fitness value. By further transforming the log growth rates, the fitness of log growth rates becomes its linear function. Therefore, a simple average of these distributions becomes the fitness measure across generations and consideration of variance discount or the entire probability distributions becomes unnecessary. We discuss some characteristic features of probabilistic optimization in general. Our view is considered a probabilistic view of natural selection, in contrast with the traditional statistical view of natural selection.     

Irrigation system and land use effect on surface water quality in river, at lake Dianchi, Yunnan, China

The surface water samples were collected in river Dahe and its tributaries, which flow into severely eutrophic lake Dianchi, Yunnan Province, China, in order to elucidate factors controlling water quality fluctuations. The temporal and spatial distribution of water quality tendency was observed. The water quality of each river is dependent on the hydrology effect such water gate and circulating irrigation system. We must consider the hydrology effect to accurately understand water quality variations of river in this study field. In river without highly circulating irrigation system or water gate effect, the downstream nitrate nitrogen (NO₃-N) concentration increase occurred in area dominated by open field cultivation, whereas the NO₃-N concentration was constant or decreased in area dominated by greenhouse land use. This result suggests that greenhouse covers the soil from precipitation, and nitrate load of greenhouse could be less than that of open field cultivation while the rainfall event. In the upper reaches of river, where is dominated by open field cultivation, there were no sharp increase dissolved molybdate reactive phosphorus and total phosphorus concentration, but P load was accumulated in the lower reaches of river, whose predominant land use is greenhouse. Although the P sources is unclear in this study, greenhouse area may have potential of P loads due to its high P content in greenhouse soil. Considering hydrology effect is necessary to determine what the major factor is influencing the water quality variation, especially in area with highly complicated irrigation system in this studying site.     

Specific accumulation of organochlorines in human breast milk from Indonesia: levels, distribution, accumulation kinetics and infant health risk

This study determined concentrations of polychlorinated biphenyls (PCBs) and organochlorine compound (OC) pesticides in the milk samples of women from the general population in four locations of Indonesia. The most prevalent residues of OCs were DDTs, PCBs and hexachlorocyclohexane isomers (HCHs), whereas other OCs such as chlordane compounds (CHLs), tris(4-chlorophenyl)methane and hexachlorobenzene were lower. The levels of OCs varied between locations and individuals, with DDTs higher in suburban and rural areas than urban localities, may be due to the differences in food habits and sources between the individuals and locations. Data from Purwakarta site indicated continuing DDT exposure, which may confirm recent usage of DDT in Indonesia. A positive correlation was observed between concentration of OCs in human milk and age of mothers, primiparas women having higher OCs than multiparas, suggesting these parameters play an important role influencing the OC burdens in lactating women. Some individuals accumulated DDTs and HCHs in breast milk close to or even higher than the TDI (tolerable daily intake) guidelines proposed by Health Canada.     

Hydrothermal treatment and characterization of model food garbage,focusing on the effect of additional foreign matter on internal temperature,pressure and products

Hydrothermal treatment of model food garbage focusing on the effects of additional foreign matter has been performed in subcritical conditions as a pretreatment for the next step, i.e., the bio-processing and production of liquid feed or fertilizer. Using the hydrothermal technique, we studied the temporal change in internal temperature and pressure in a reactor on the elapsed heating time to check the equipment safety in terms of temperature and pressure. The gaseous and water-soluble liquid was also characterized to investigate the feasibility of retrieving valuable chemicals and emitting environmentally hazardous substances. From the changes in the internal temperature and pressure curve, the maximum temperature and pressure were 196 °C and 1.42 MPa for 30-min elapsed heating time, which was below the predefined temperature limits of 200 °C and pressure of 1.55 MPa. No such irregular behavior was observed in the temperature and pressure curve except that it was a little different for the foreign matter detergent, which also was within the limits. The qualitative and quantitative analysis of end products showed that the emitted malodorous substances and chemicals were further below the threshold levels for Japan.     

Contamination status and accumulation features of persistent organochlorines in pet dogs and cats from Japan

Concentrations of persistent organochlorines (OCs) such as polychlorinated dibenzo-p-dioxin (PCDDs), dibenzofurans (PCDFs), biphenyls, dichlorodiphenyltrichloroethane and their metabolites (DDTs), hexachlorocyclohexane isomers, hexachlorobenzene, and chlordane compounds were determined in genital organs of pet dogs and cats and pet foods from Japan. Levels of OCs in dogs were relatively lower than those in cats, while residue levels in their diets were almost similar, implying that accumulation and elimination mechanisms of these contaminants are different between dogs and cats. When bioconcentration factors (BCFs) were estimated from concentrations of OCs in dogs, cats, and their diets, BCFs of all the OCs except PCDD/DFs exceeded 1.0 in cats. On the other hand, in all the dogs, BCFs of DDTs were below 1.0, suggesting that dogs do not bioconcentrate DDTs. Furthermore, BCFs of all the OCs except PCDD/DFs in dogs were notably lower than those in cats, suggesting that dogs have higher metabolic and elimination capacity for these contaminants than cats. When residue levels of OCs in livers, adipose tissue, and genital organs of two pet dogs were examined, hepatic sequestration of PCDD/DFs and oxychlordane was observed.