Variation in soil organic carbon mineralization and microbial community structure induced by the conversion from double rice fields to drained fields北大核心CSCD

Land use conversion is an important factor influencing the carbon gas exchange between land and atmosphere. The effect of land use conversion on soil organic carbon mineralization and microbial function is important for soil organic carbon sequestration and stability. This research studied the effects of land use conversion on soil chemical properties, organic carbon mineralization and microbial community structure after two years of conversion from double rice cropping (RR) to maize-maize (MM) and soybean-peanut (SP) double cropping systems in southern China. The results showed that soil pH significantly decreased by 0.50 (MM) and 0.52 (SP, P = 0.002), and dissolved organic carbon significantly increased by 23%- 35% (P = 0.016). No significant difference was found in soil organic carbon mineralization rate with the land use conversion, though the accumulated mineralization decreased after 13 days of incubation (P = 0.019). Land use conversion from paddy to upland significantly changed soil microbial community structure. The total PLFAs, bacterial, gram-positive bacterial (G+), gram-negative bacterial (G-) and actinomycetic PLFAs decreased significantly (P < 0.05), the ratio of fungal PLFAs to bacterial PLFAs (F/B) increased significantly (P = 0.006). But no significant differences in microbial groups were found between MM and SP. The accumulated mineralization at the beginning period of the incubation were significantly positively correlated with soil actinomycetic PLFAs (P = 0.034). After 13 days of incubation, soil F/B showed a positive correlation with the accumulated mineralization (P = 0.004). However, soil microbial community structure(P = 0.014)and total PLFAs(P = 0.033)showed a positive correlation with the accumulated mineralization after 108 days of incubation. Our results indicated that after conversion from paddy soils to drained soils, soil pH and total nitrogen are the key factors regulating the variations in soil microbial community structure and biomass, and then influencing soil organic carbon mineralization.     

Effect of ultra-micro powder Dendrobium officinale on the molecular diversity of intestinal bacteria in mice with spleen-deficiency constipation北大核心CSCD

This research aimed to study the effect of ultra-micro powder Dendrobium officinale on the molecular diversity of intestinal bacteria in mice with spleen-deficiency constipation, in order to provide scientific basis for ultra-micro D. officinale therapy. The mice with spleen-deficiency constipation in treatment groups were respectively given the traditional decoction of D. officinale and 50% dose ultra-micro powder D. officinale. The metagenome DNA of intestinal flora was extracted from intestinal contents. Then ARDRA analysis was made after PCR by universal primer of bacteria. The results showed that OTUs, Shannon index and Brillouin index were the same between the normal group and the 50% dose ultra-micro powder group, and between the model group and the traditional decoction group, but greater in the former two groups than the latter ones. The similarity coefficient (0.500 0) was bigger between the 50% dose ultra-micro powder group and the normal group than between the model group and the traditional decoction group, which was 0.181 8. Both cluster analysis and principal components analysis showed that the molecular diversity of intestinal microbiotia in mice of 50% dose ultra-micro powder group was the closest to that in the normal group. The results showed that the weakened molecular diversity of intestinal bacteria in mice with spleen-deficiency constipation can be regulated by the two kinds of D. officinale treatments to different extent. The efficacy of 50% dose ultra-micro powder D. officinale is better than the traditional decoction.     

Cloning and expression analysis of ScBAK1 gene and its alternative spliceosome in sugarcane北大核心CSCD

Alternative splicing (AS) is an important part of regulation of eukaryotic gene expression. BAK1 (Brassinosteroid insensitive1-associated receptor kinase 1) is a specific type of plant serine/threonine protein kinases, and can regulate growth and development and natural immunization. To reveal the responses of sugarcane BAK1 gene to the adverse environment, a ScBAK1 gene and its alternative spliceosome, termed ScBAK1 (GenBank accession number: KP032226) and ScBAK1 S1 (GenBank accession number: KP032227), were cloned from leaf cDNA of Yacheng 05-179 utilizing the methods of electronic cloning and RT-PCR. The open reading frame (ORF) length of ScBAK1/ScBAK1 S1 gene was 1 860bp/1 770bp, encoding 619/589 amino acids residues. The predicted molecular weight of the protein was 69.28 kDa/ 65.76 kDa. Both proteins were located in plasma membrane, estimated as acid, hydrophikic and secretive proteins. Random coil and alpha helix gave priority to extended strand in their secondary structure without beta turn. The most important protein function was cell envelope, secondly biosynthesis of amino acids and cofactors. Real-time quantitative PCR analysis revealed that the expression of sugarcane ScBAK1 S1 gene exhibited the reduced expression trend under smut fungus stress and various abiotic exogenous stresses, including SA, CuCl2, PEG, ABA, NaCl and JA, while the expression of ScBAK1 gene was induced by SA, CuCl2, PEG, NaCl and smut fungus stresses. The phenomenon showed that the absent sequences or amounts of ScBAK1 S1 gene plays a key role in the response of ScBAK1 to the stress of sugarcane smut fungus, osmotic stress and cell growth. The differential expression of ScBAK1 and ScBAK1 S1 lays a foundation for further research on the function of ScBAK1 gene under biotic and abiotic stress.     

Toxicity evaluation of 10 oil gelling agents北大核心CSCD

Oil gelling agents are widely used in emergency response of marine oil spills. However, the biological toxicity of oil gelling agents is not well understood. This research aimed to evaluate the environmental safety of oil gelling agents used for rapid removal and cleanup of marine oil spills. We used luminescent bacteria (Acinetobacter sp. Tox2 and Acinetobacter sp. RecA) combined with exposure experiment using marine medaka (Oryzias melastigma) juveniles to detect the acute toxicity and genotoxicity of 10 oil gelling agents. As a result, a certain level of acute toxicity was detected from the oil gelling agent FOA and GMN-01 (the toxicity equivalent to 0.067 mg/L and 0.084 mg/L of HgCl2, respectively), and a certain level of genotoxicity was detected from the oil gelling agent NORSOREX (the toxicity equivalent to 0.307 mg/L of MMC) by the luminescent bacteria test. However, no obvious acute toxicity or genotoxicity was detected from the above three oil gelling agents in fish-exposure experiments. Our results suggest that the 10 oil gelling agents have no obvious acute toxicity or genotoxicity to higher organisms (including marine medaka). The luminescent bacteria test is more sensitive in detecting biological toxicity of oil gelling agents. This study provides a reference for environmental safety evaluation of the oil gelling agents used in the cleaning up of the marine oil spills.     

Review on the study of mercury/silver ions-pyrimidine base pairs in DNA duplexes and their application in detection technology北大核心CSCD

Nucleic acids and their analogues are getting more and more attention. Metal-mediated base pairs as a kind of simple and functionalized nucleic acids in special positions have widened the scope of application of functional nucleic acids and their analogues. In this type of base pairs, the representative is the interaction between metal ions and pyrimidine bases, especially the research on thymine-Hg2+-thymine (T-Hg2+-T) and cytosine-Ag+-cytosine (C-Ag+-C) base pairs. This review summarizes the structure and mechanism of metal-mediate pyrimidine base pairs as well as the application in the biochemical analysis. It explores the mode and ratio of coordination between metal ions and base pairs, the effects on the stability of DNA helical structure, the related crystal structure and the three-dimensional configuration information in the DNA helix. The analytical application mainly includes various probes of metal ions, small molecules, protein and the detection of single nucleotide polymorphism. Among them the most widely used metal ions detection, and its combination with spectrum technology, visualization and amplification technology greatly promoted the rapid development of sensitive detection technology. In further studies, it is necessary to reveal the mechanism of interaction between T-Hg2+-T and C-Ag+-C, and more attention should be paid to combining of T-Hg2+-T and C-Ag+-C base pairs with other new technologies. The scope of practical application should also be further extended.     

Characterization and catabolic genes detection of three oil-degrading Rhodococcus spp.北大核心CSCD

Oil pollution is one of the major factors causing environmental deterioration. Bioremediation of oil contaminated environments by microorganisms attracts much research attention. This study aimed to screen efficient oil-degrading bacteria from oil contaminated soil and analyze their characteristics and catabolic genes. Oil-degrading bacteria were screened from oil contaminated soil in minimal medium containing crude oil and identified by morphological, physiological and biochemical characteristics and 16S rDNA sequence analysis. Their growth and degradation characteristics were studied with ultraviolet spectroscopy and GC-MS analysis. The surfactant production was studied by adopting culture method. The major oil-degrading related genes were detected by t he PCR a mplification. As a result, t hree oil-degrading bacteria strains named KB1, 2182 and JC3-47 were isolated from the oil contaminated soil samples. The strains could use crude oil as the sole carbon source to degrade oil with a degrading rate of 41.02%, 32.26% and 55.90%, respectively, when cultured in minimal medium containing crude oil for 3 days. The bacteria were identified to belong to genus Rhodococcus. With 100% similarity of 16S rDNA sequences of the three strains with known ones of Rhodococcus, KB1 was preliminarily identified as Rhodococcus erythropolis, 2182 as Rhodococcus equi, and JC3-47 as Rhodococcus qingshengii. They grew well at 10-50 °C, with the initial pH of 3-9 and the NaCl concentration of 0-5%. The optimal temperature for bacterial growth was 35 °C, 35 °C and 30 °C respectively. KB1 and 2182 could grow at pH 2 and 9.0% of NaCl. The bacteria grew well in broth containing different organic substrates as sole carbon source, such as n-dodecane, n-octadecane, benzene, methylbenzene, xylene and naphthaline. KB1 and JC3-47 could grow well in broth containing pyrene. GC-MS analysis revealed that the bacteria could effectively degrade medium- and long-chain alkane components in crude oil. The bacteria produced biosurfactants and decreased the surface tension of the culture broth. They also showed adhesion activities to n-hexadecane. The oil-degrading related genes such as alkane monooxygenase, aromatic-ring-hydroxylating dioxygenase and catechol dioxygenase genes were detected in all the three strains. Besides, biphenyl dioxygenase genes were detected in KB1 and 2182. The isolated Rhodococcus spp. strains could effectively degrade petroleum hydrocarbons with high adaptabilities to extreme environments such as high salt and low temperature. They are supposed to be applied broadly in the bioremediation of oil contaminated soil in such environments.     

Interrelation of Cd‐lon concentrations and the growth and activities of microorganisms in two growth media†

Partitioning of native or anthropogenic heavy metals in solid and solution phases of soil is a result of network of several physico‐chemical reactions. The attainment of equilibrium between two phases is also regulated by biochemical processes. For practical purposes, the bioavailability of metal present in soil is predominantly regulated by the soil solution phase which is in dynamic equilibrium with the solid phase. The results of a model laboratory and greenhouse growth experiments have been used to investigate the effect of Cd‐ion concentrations (either in soil solution or in nutrient solution) on the growth and activities of microorganisms. The soil solution has been simulated by preparing a suspension of soil with 0.1 M NaNO₃ (1: 2.5) equilibrated for two hours. Important conclusions are as follows:

Increase in Cd‐ion concentration in soil solution or in nutrient solution induces corresponding adverse effect on the growth and activities of microorganisms. Thus, it seems that Cd‐ion concentration is a more sensitive indicator for assessing the effect of metal pollution upon the growth and activities of soil microorganisms in comparison to total Cd contents.

During active microbial growth phase, a large part of the organically bound Cd was released in the soil solution which is largely bioavailable. This process is termed as mobilisation. There was momentary increase of Cd‐ion concentration in soil solution which intoxicated the growing organisms. After this stage, the Cd ions from the solution phase were removed by the newly formed solid phase (nonviable biomass) and were transformed in non‐available form. This process is termed as immobilisation.

The consequences and importance of these results for practical agriculture and in deciding the limits or guidelines on the maximum tolerable metal load in soils are discussed.     

Denitrification in bottom sediment near oil production facilities off the Louisiana Gulf Coast

There is little information on denitrification in Gulf of Mexico bottom sediment. Potential denitrification rates in surface sediment were measured along transects legs extending 0–800 m from two offshore oil production platforms. The average potential denitrification ranged from approximately 50 mg N m^?2 d^?1 in surface sediment near the platforms to 15 mg N m^?2 d^?1 in sediment 800 m from the platforms. Measured denitrification rates were correlated to a higher organic matter content in sediment nearer the platforms. This research examined only a small component of nitrogen processing in Gulf of Mexico sediment. Additional research should examine the effect of nitrogen loading and temporal and spatial variability on denitrification rate.     

Ecological properties of soil water and effects on forest vegetation in the Loess Plateau

In the Loess Plateau of China, soil water has three ecological properties: high infiltration capacity, high storage capacity and availability to deep plant roots. Soil desiccation is the most serious problem for forest vegetation in the Loess Plateau. Arid soils are the result of intensified soil desiccation caused by disturbances in plant succession, which constitute the ecological foundation of soil water. The negative effects of the arid soil layer on surface water infiltration for recharging underground water are discussed in terms of ecological hydrology. The arid soil layer disrupts the link between surface water and underground water and prevents vertical precipitation infiltration from supplementing underground water. Forest vegetation has a significant runoff-retaining efficiency that reduces total runoff from forest areas leading to low surface and ground runoff which affect the water cycle on a watershed scale.     

Critical flow-storm approach to total maximum daily load (TMDL) development: an analytical conceptual model

One of the key challenges in the total maximum daily load (TMDL) development process is how to define the critical condition for a receiving waterbody. The main concern in using a continuous simulation approach is the absence of any guarantee that the most critical condition will be captured during the selected representative hydrologic period, given the scarcity of long-term continuous data. The objectives of this paper are to clearly address the critical condition in the TMDL development process and to compare continuous and event-based approaches in defining critical condition during TMDL development for a waterbody impacted by both point and nonpoint source pollution. A practical, event-based critical flow-storm (CFS) approach was developed to explicitly addresses the critical condition as a combination of a low stream flow and a storm event of a selected magnitude, both having certain frequencies of occurrence. This paper illustrated the CFS concept and provided its theoretical basis using a derived analytical conceptual model. The CFS approach clearly defined a critical condition, obtained reasonable results and could be considered as an alternative method in TMDL development.