Kyung-Hwa Baek

Conversion of the Amazon rainforest to agriculture results in biotic homogenization of soil bacterial communities

The Amazon rainforest is the Earth’s largest reservoir of plant and animal diversity, and it has been subjected to especially high rates of land use change, primarily to cattle pasture. This conversion has had a strongly negative effect on biological diversity, reducing the number of plant and animal species and homogenizing communities. We report here that microbial biodiversity also responds strongly to conversion of the Amazon rainforest, but in a manner different from plants and animals. Local taxonomic and phylogenetic diversity of soil bacteria increases after conversion, but communities become more similar across space. This homogenization is driven by the loss of forest soil bacteria with restricted ranges (endemics) and results in a net loss of diversity. This study shows homogenization of microbial communities in response to human activities. Given that soil microbes represent the majority of biodiversity in terrestrial ecosystems and are intimately involved in ecosystem functions, we argue that microbial biodiversity loss should be taken into account when assessing the impact of land use change in tropical forests.

Effects of Crude Oil, Oil Components, and Bioremediation on Plant Growth

Abstract The phytotoxic effects of crude oil and oil components on the growth of red beans (Phaseolus nipponesis OWH1) and corn (Zea mays) was investigated. In addition, the beneficial effects of bioremediation with the oil-degrading microorganism, Nocardia sp. H17-1, on corn and red bean growth in oil-contaminated soil was also determined. It was found that crude oil-contaminated soil (10,000 mg/kg) was phytotoxic to corn and red beans. In contrast, obvious phytotoxicity was not observed in soils contaminated with 0–1000 mg/kg of aliphatic hydrocarbons such as decane (C10) and eicosane (C20). Phytotoxicity was observed in soils contaminated with 10–1000 mg/kg of the poly aromatic hydrocarbons (PAHs) naphthalene, phenanthrene, and pyrene. It was observed that phytotoxicity increased with the number of aromatic rings, and that corn was more sensitive than red beans to PAH-contaminated soil. Bioremediation with Nocardia sp. H17-1 reduced phytotoxicity more in corn than in red bean, suggesting that this microbial species might degrade PAHs to some degree.

Biodegradation of Aliphatic and Aromatic Hydrocarbons by Nocardia sp. H17-1

We investigated the biodegradation of hydrocarbon components by Nocardia sp. H17-1 and the catabolic genes involved in the degradation pathways of both aliphatic and aromatic hydrocarbons. After 6 days of incubation, the aliphatic and aromatic fractions separated from Arabian light oil were degraded 99.0 ± 0.1% and 23.8 ± 0.8%, respectively. Detection of the catabolic genes involved in the hydrocarbon degradation indicated that H17-1 possessed the alkB genes for n-alkane biodegradation and catA gene for catechol 1,2-dioxygenase. However, H17-1 had neither the C23O gene for the degradation of aromatic hydrocarbons nor the catechol 2,3-dioxygenase activity. The investigation of the genes involved in the biodegradation of hydrocarbons supported the low degradation activity of H17-1 on the aromatic fractions.

Molecular approach to evaluate biostimulation of 1,2-dibromoethane in contaminated groundwater

This study investigated the effect of co-substrate amendments on EDB biodegradation under aerobic conditions. Microcosms were established using contaminated soil and groundwater samples and maintained under in situ conditions to determine EDB degradation rates, and the diversity and abundance of EDB degrading indigenous bacteria. After 100days of incubation, between 25% and 56% of the initial EDB was degraded in the microcosms, with added jet fuel providing highest degradation rates (2.97±0.49yr(-1)). In all microcosms, the quantity of dehalogenase genes did not change significantly, while the number of BTEX monooxygenase and phenol hydroxylase genes increased with jet fuel amendments. These results indicate that EDB was not degraded by prior dehalogenation, but rather by cometabolism with adapted indigenous microorganisms. This is also reflected in the history of the plume, which originated from an aviation gasoline pipeline leak. This study suggests that biostimulation of EDB is possible at aerobic groundwater sites.

Biodegradation of ethylene dibromide (1,2-dibromoethane [EDB]) in microcosms simulating in situ and biostimulated conditions.

Although 1,2-dibromoethane (EDB) is a common groundwater contaminant, there is the lack of knowledge surrounding EDB biodegradation, especially under aerobic conditions. We have performed an extensive microcosm study to investigate the biodegradation of EDB under simulated in situ and biostimulated conditions. The materials for soil microcosms were collected from an EDB-contaminated aquifer at the Massachusetts Military Reservation in Cape Cod, MA. This EDB plume has persisted for nearly 40 years in both aerobic and anaerobic EDB zones of the aquifer. Microcosms were constructed under environmentally relevant conditions (field EDB and DO concentrations; incubated at 12°C). The results showed that natural attenuation occurred under anaerobic conditions but not under aerobic conditions, explaining why aerobic EDB contamination is so persistent. EDB degradation rates were greater under biostimulated conditions for both the aerobic and anaerobic microcosms. Particularly for aerobic biostimulation, methane-amended microcosms degraded EDB, on average, at a first order rate eight times faster than unamended microcosms. The best performing replicate achieved an EDB degradation rate of 7.0 yr(-1) (half-life (t(1/2))=0.10 yr). Residual methane concentrations and the emergence of methanotrophic bacteria, measured by culture independent bacterial analysis, provided strong indications that EDB degradation in aerobic methane-amended microcosms occurred via cometabolic degradation. These results indicate the potential for enhanced natural attenuation of EDB and that methane could be considered co-substrate for EDB bioremediation for the EDB-contaminated groundwater in aerobic zone.

Phytoremediation and microbial community structure of soil from a metal-contaminated military shooting range: comparisons of field and pot experiments.

In this study, the heavy metal uptake ability of two plant species, barnyard grass and Indian mallow, and the effects of associated micro-communities on the rhizosphere of these plants were investigated in metal-contaminated sites. In addition, the effectiveness of phytoremediation using these plants was compared under field and pot conditions. To accomplish this analysis, phytoremediation of general military shooting range soil was conducted for 8 weeks under the two conditions. The results showed that metal uptake by plants and reductions in soil metal concentration were lower in the field than in pots. However, soil dehydrogenase activities and microbial diversity increased in response to phytoremediation in the field. Specifically, the soil dehydrogenase activities of barnyard grass in field soils were 3-fold higher than those of potted soils. Moreover, the denaturing gradient gel electrophoresis patterns revealed that groups formed according to plant species. Finally, the Shannon-Weaver diversity index and Simpson dominance index were higher in the rhizosphere of barnyard grass than in the rhizosphere of Indian mallow under field conditions. These results indicate that it is difficult to apply the results obtained from pot experiments to field conditions. These findings can be used to inform future studies conducted to determine if field sites are suitable for phytoremediation based on the results of pot studies.

Distribution of Heavy Metal Content in Plants and Soil from a Korean Shooting Site

In this research we determined the levels of heavy metals in soil and metal-accumulating plants from a D military shooting site in the Kyungkido district of Korea. The data obtained may be useful in the development of methods for the efficient phytoremediation of contaminated soil. The total Cd, Cu, Pb, and Zn concentrations in the soil were found to be 1.67-5.04 mg/kg, 52.51-106.26 mg/kg, 37.24-90.32mg/kg, and 111.45-188.19mg/kg, respectively. These results show that the soil is contaminated with Cd and Cu, and this contamination is particularly severe in the case of Cd because of its high bioavailability (25-57% of the total metal in the soil is exchangeable). The high concentrations of heavy metals in the shoots of Persicaria thunbergii and Artemisia princeps var. orientalis indicate that these plants (all perennial herbs) accumulate heavy metal efficiently. Further, these plants were found to contain more Cd in its shoots (＞60% of the total metal found in the plant) than any other plant; these results indicate that these native species are particularly suited to use in Cd phytoextraction.