Extractable Microbial DNA Pool and Microbial Activity in Paleosols of Southern Urals

An evaluation of microbial DNA pools was performed using direct quantitative isolation of DNA from contemporary soils of Southern Urals and paleosols sealed under burial mounds early in the Bronze Age more than 5000 years B.P. Significant regression dependence was found between the biomass and DNA contents in these soils (R ²= 0.97). Activity and dominant ecological strategies of microbial communities of paleosols and contemporary southern black soil were compared from growth parameters obtained by analysis of respiratory curves. The ratio of maximum specific growth rates of soil microorganisms on glucose and on yeast extract was shown to provide an auxotrophy index for soil microbial communities.     

Microbial characteristics of soils on a latitudinal transect in Siberia

Soil microbial properties were studied from localities on a transect along the Yenisei River, Central Siberia. The 1000 km‐long transect, from 56°N to 68°N, passed through tundra, taiga and pine forest characteristic of Northern Russia. Soil microbial properties were characterized by dehydrogenase activity, microbial biomass, composition of microbial community (PLFAs), respiration rates, denitrification and N mineralization rates. Relationships between vegetation, latitude, soil quality (pH, texture), soil organic carbon (SOC) and the microbial properties were examined using multivariate analysis. In addition, the temperature responses of microbial growth (net growth rate) and activity (soil respiration rate) were tested by laboratory experiments. The major conclusions of the study are as follows: 1. Multivariate analysis of the data revealed significant differences in microbial activity. SOC clay content was positively related to clay content. Soil texture and SOC exhibited the dominant effect on soil microbial parameters, while the vegetation and climatic effects (expressed as a function of latitude) were weaker but still significant. The effect of vegetation cover is linked to SOC quality, which can control soil microbial activity. 2. When compared to fine‐textured soils, coarse‐textured soils have (i) proportionally more SOC bound in microbial biomass, which might result in higher susceptibility of SOC transformation to fluctuation of environmental factors, and (ii) low mineralization potential, but with a substantial part of the consumed C being transformed to microbial products. 3. The soil microbial community from the northernmost study region located within the permafrost zone appears to be adapted to cold conditions. As a result, microbial net growth rate became negative when temperature rose above 5 °C and C mineralization then exceeded C accumulation.     

Effects of Revegetation on Soil Microbial Biomass,Enzyme Activities,and Nutrient Cycling on the Loess Plateau in China

Revegetation is a traditional practice widely used for soil and water conservation on the Loess Plateau in China. However, there has been a lack of reports on soil microbial–biochemical indices required for a comprehensive evaluation of the success of revegetation systems. In this study, we examined the effects of revegetation on major soil nutrients and microbial–biochemical properties in an artificial alfalfa grassland, an enclosed natural grassland, and an artificial shrubland (Caragana korshinskii), with an abandoned cropland as control. Results showed that at 0–5, 5–20, and 20–40 cm depths, soil organic carbon, alkaline extractable nitrogen and available potassium were higher in natural grassland and artificial shrubland compared with artificial grassland and abandoned cropland. Soil microbial biomass C (Cmic) and phosphorous (Pmic) substantially decreased with depth at all sites, and in abandoned cropland was significantly lower than those of natural grassland, artificial grassland, and artificial shrubland at the depth of 0–5 cm. Soil microbial biomass N (Nmic) was higher in artificial shrubland and abandoned cropland compared with that in natural and artificial grasslands. Both Cmic and Pmic were significantly different between the 23‐year‐old and the 13‐year‐old artificial shrublands at the 0–5 cm depth. The activities of soil invertase, urease, and alkaline phosphatase in natural grassland and artificial shrubland were higher than those in artificial grassland and abandoned cropland. This study demonstrated that the regeneration of both natural grassland and artificial shrubland effectively preserved and enhanced soil microbial biomass and major nutrient cycling, thus is an ecologically beneficial practice for recovery of degraded soils on the Loess Plateau.     

贵州山区土壤中微生物担是能源物质碳流动的源与汇

在传统的农业生态系统的研究中 ,主要精力放在营养物 (如Ｎ)上 ,认为它们是限制生产力的因素 ;而往往忽略了土壤中碳的重要性 ,认为收获不受Ｃ限制的影响。然而 ,碳循环中的有机碳的分解作用部分控制着出现在地表下和显露在地表上的农业过程[4]。土壤中所储存的有机质 ,其数量既反映土壤从植物残留物的输入所获得的有机质与微生物群落的能量和营养需求之间的平衡 ,又反映植物对营养物的需求与有机质分解作用之间的平衡。因此 ,土壤中碳的平衡能反映出有机质中能量物质的储存[5]。大部分由光合作用形成的碳 ,是通过地表下的生态系统来流动的[…     

黑土母质熟化过程微生物群落碳源代谢特征

东北黑土区由于表土丧失,母质裸露等问题,严重威胁粮食生产和生态环境,通过揭示母质肥力形成过程中微生物群落的碳源利用特征可以让人们更好的理解肥力形成过程中相关微生物过程。以海伦农田生态系统国家野外科学观测研究站长期定位试验为材料,研究母质不同熟化过程下微生物群落碳源代谢特征,结果表明:苜蓿草熟化过程(PAfl)、农田化肥配施有机物熟化过程(PCS+F+OM)可培养微生物数量最多。自然熟化过程(PNat)、苜蓿草熟化过程、农田化肥农产品全循环熟化过程(PCS+F+BM)、农田化肥加有机肥配合型熟化过程可以将微生物活性提高到常规农田黑土的水平。不同熟化过程下微生物群落对单个碳源的利用不同。主成分分析表明自然熟化过程、农田化肥投入熟化过程(PCS+F)、农田化肥农产品全循环熟化过程、农田化肥加有机肥配合型熟化过程与常规农田黑土微生物代谢特征类似。研究表明不同母质熟化过程通过影响微生物群落结构导致对各个碳源的利用发生变化,最终改变了整体碳源代谢特征。     

白及根腐病植株根际土壤微生物群落组成特征分析

分析白及根腐病植株根际土壤微生物群落组成特征,为理解白及根腐病发病机理并针对性开展防治工作提供科学依据。利用Illumina HiSeq高通量测序技术,比较分析白及根腐病与健康植株根际土壤微生物群落结构特征,并对土壤理化性质与酶活性进行定量分析。白及根际土壤中优势真菌为子囊菌门(Ascomycota)和Mortierellomycota,优势细菌为变形菌门(Proteobacteria)和拟杆菌门(Bacteroidetes)。与健康植株相比,发病白及根际土壤Ascomycota相对丰度显著升高,而Mortierellomycota相对丰度显著降低;镰刀菌属(Fusarium)和白粉菌属(Erysiphe)等致病菌群相对丰度显著升高(P<0.05)。多元统计分析表明,健康与发病白及根际土壤细菌与真菌群落存在明显分化。此外,健康植株根际土壤脲酶、蛋白酶与蔗糖酶活性和有效钾含量较高,pH、有机质、铵态氮与硝态氮含量较低。白及根腐病的发生可能与土壤致病菌相对丰度升高、微生物群落结构变化、酶活性降低、养分失衡等因素有关。     

Microbial control of soil organic matter mineralization responses to labile carbon in subarctic climate change treatments

Half the global soil carbon (C) is held in high‐latitude systems. Climate change will expose these to warming and a shift towards plant communities with more labile C input. Labile C can also increase the rate of loss of native soil organic matter (SOM); a phenomenon termed ‘priming’. We investigated how warming (+1.1 °C over ambient using open top chambers) and litter addition (90 g m^?2 yr^?1) treatments in the subarctic influenced the susceptibility of SOM mineralization to priming, and its microbial underpinnings. Labile C appeared to inhibit the mineralization of C from SOM by up to 60% within hours. In contrast, the mineralization of N from SOM was stimulated by up to 300%. These responses occurred rapidly and were unrelated to microbial successional dynamics, suggesting catabolic responses. Considered separately, the labile C inhibited C mineralization is compatible with previously reported findings termed ‘preferential substrate utilization’ or ‘negative apparent priming’, while the stimulated N mineralization responses echo recent reports of ‘real priming’ of SOM mineralization. However, C and N mineralization responses derived from the same SOM source must be interpreted together: This suggested that the microbial SOM‐use decreased in magnitude and shifted to components richer in N. This finding highlights that only considering SOM in terms of C may be simplistic, and will not capture all changes in SOM decomposition. The selective mining for N increased in climate change treatments with higher fungal dominance. In conclusion, labile C appeared to trigger catabolic responses of the resident microbial community that shifted the SOM mining to N‐rich components; an effect that increased with higher fungal dominance. Extrapolating from these findings, the predicted shrub expansion in the subarctic could result in an altered microbial use of SOM, selectively mining it for N‐rich components, and leading to a reduced total SOM‐use.     

黄土高原石油污染土壤微生物群落结构及其代谢特征

针对污染胁迫下土壤微生物群落变化和代谢变异等问题,基于平板稀释法和Biolog微平板分析方法,研究了陕北黄土高原石油污染土壤微生物群落结构、代谢特征及其功能多样性。结果表明,不同类群的土壤微生物对石油污染胁迫的响应不同,污染土壤细菌和真菌数量高出清洁土壤1个数量级,而污染土壤的放线菌数量极显著减少(P0.01);污染土壤和清洁土壤微生物对糖类和多聚物类碳源较易利用,污染土壤微生物总体上代谢碳源的种类和活性均低于清洁土壤。微生物群落主成分分析(PCA)表明,石油污染土壤和清洁土壤的微生物群落存在显著差异(P0.01),起分异作用的碳源主要为糖类,其次是羧酸类和氨基酸类;随着土壤石油含量增加,典型变量值变异(离散)增大,土壤微生物群落结构稳定性降低。微生物群落多样性分析表明,Shannon丰富度指数(H)、McIntosh均一度指数(U)和Simpson优势度指数(1/D)均达到极显著差异(P0.01),污染土壤微生物群落H和U低于清洁土壤,但是一定浓度的石油污染可以刺激土壤微生物群落中优势种群的生长,1/D增高。研究结果为陕北黄土高原石油污染区土壤微生物修复提供理论基础。     

Microbial quality of soil from the Pampa biome in response to different grazing pressures

The aim of this study was to evaluate the impact of different grazing pressures on the activity and diversity of soil bacteria. We performed a long-term experiment in Eldorado do Sul, southern Brazil, that assessed three levels of grazing pressure: high pressure (HP), with 4% herbage allowance (HA), moderate pressure (MP), with 12% HA, and low pressure (LP), with 16% HA. Two reference areas were also assessed, one of never-grazed native vegetation (NG) and another of regenerated vegetation after two years of grazing (RG). Soil samples were evaluated for microbial biomass and enzymatic (β-glucosidase, arylsulfatase and urease) activities. The structure of the bacterial community and the population of diazotrophic bacteria were evaluated by RFLP of the 16S rRNA and nifH genes, respectively. The diversity of diazotrophic bacteria was assessed by partial sequencing of the 16S rDNA gene. The presence of grazing animals increased soil microbial biomass in MP and HP. The structures of the bacterial community and the populations of diazotrophic bacteria were altered by the different grazing managements, with a greater diversity of diazotrophic bacteria in the LP treatment. Based on the characteristics evaluated, the MP treatment was the most appropriate for animal production and conservation of the Pampa biome.     

玉米根茬留田对土壤微生物量碳和酶活性动态变化特征的影响

通过田间试验分析了玉米根茬留田对土壤生物活性动态变化的影响,结果表明,玉米根茬留田对提高土壤微生物量碳含量和土壤脲酶、磷酸酶、纤维素酶以及转化酶活性效果显著。动态变化特征表明,各处理的土壤微生物量碳和4种酶活性均在播种后60d左右出现高峰。此时正值作物生育旺盛时期,利于作物生长发育,说明玉米根茬留田配施化肥的培肥土壤效果显著,而且可以保持玉米持续高产稳产。     

基于宏基因组技术分析全球不同温度带土壤微生物多样性

【背景】温度在塑造大尺度的土壤微生物群落方面发挥了重要作用,但目前针对全球不同温度带大尺度土壤微生物多样性方面的研究十分缺乏。【目的】明确不同温度带大尺度土壤微生物组成和功能的差异变化。【方法】从宏观的角度运用宏基因组技术对不同温度带土壤微生物群落的组成和功能进行分析。【结果】细菌的物种多样性随着温度带纬度的升高而增多,真菌的物种多样性在温带最多,在寒带最小且假丝酵母属(Candida)占绝对优势。3个温度带间除物种多样性存在差异外,微生物群落中物种丰度差异也较大,优势属和特殊属各有不同。其中值得注意的是,假单胞菌属(Pseudomonas)和芽孢杆菌属(Bacillus)的丰度在不同温度带间存在显著差异,且随着温度带纬度的升高而增多,而链霉菌属(Streptomyces)、地嗜皮菌属(Geodermatophilus)、红色杆菌属(Rubrobacter)和小单孢菌属(Micromonospora)的丰度随温度带纬度的升高而降低。在功能方面,发现与翻译后修饰、蛋白质周转、伴侣(posttranslational modification, protein turnover, chap...     

辣椒青枯病罹病与健康植株根际土壤微生物群落多样性研究

系统研究和分析辣椒青枯病常发地发病与健康植株土壤微生物群落结构特征,为辣椒青枯病的绿色防治提供理论依据.基于16SrDNA基因高通量测序技术,对辣椒青枯病发病和健康植株根际土壤微生物群落结构和组成进行分析,同时采用biologyeco平板培养技术研究其土壤微生物群落代谢多样性和功能多样性的特征.结果表明,辣椒青枯病发病和健康植株根际土壤微生物群落组成之间存在显著差异,辣椒青枯病发病土壤的OTU为4566个,辣椒青枯病健康土壤的OTU为4167个.依据OTU所属细菌物种信息对土壤细菌群落结构进行分析,变形菌门在发病和健康土壤中均为优势细菌类群,其次为放线菌门类群.其中健康植株根际土壤中芽单胞菌门(Gemmatimonadetes)、装甲菌门(Armatimonadetes)的相对丰度比发病植株的分别高出了4.37,3.87倍,而发病植株根际土壤中厚壁菌门(Firmicutes)的相对丰度比健康植株的高出了3.87倍.辣椒青枯病发病土壤和健康土壤的土壤微生物代谢多样性也存在显著差异,同时,健康土壤中其微生物群落代谢得到显著增强,特别是对酚类化合物的利用显著增多,对辣椒抗病性存在显著的影响.研究表明,辣椒青枯病发病和健康植株根际土壤微生物群落组成和结构之间存在显著差异,并且健康土壤的微生物群落对酚类化合物的利用显著增强.     

极端干旱区防护林地土壤微生物多样性

土壤微生物在森林土壤中有重要功能.采用传统培养、脂肪酸鉴定和PCR-DGGE 3种方法分别研究了塔里木沙漠公路防护林地土壤微生物数量、脂肪酸种类和细菌DNA片段的多样性,从微生物学角度为塔里木沙漠公路防护林的管理提供理论依据.结果表明,塔里木沙漠公路防护林的建设促进了风沙土土壤微生物的发育,随着防护林定植年限的增加,土壤微生物数量、脂肪酸和细菌DNA片段的多样性指数明显增大;土壤微生物区系组成中,细菌是优势类群,占微生物总数80%以上,而真菌很少,不到微生物总数1%,但在不同土层间有所差异;传统培养法与现代生物标记和分子生物学方法对塔里木沙漠公路防护林地土壤微生物多样性的研究结果基本一致,说明塔里木沙漠公路防护林的建设使林地土壤生物活性有所增强,有利于林地土壤养分循环与利用.     

The role of dietary copper,manganese, selenium,and vitamin E in lipid peroxidation in tissues of the rat

The role of dietary Cu and Mn in maintaining tissue integrity, through the effects of these metals on activity of the superoxide dismutase (SOD) enzyme, and their interactions in peroxidative pathways involving Se and vitamin E was investigated. Weanling rats were fed diets deficient in Mn, Cu, Se, and/or vitamin E for 35 days, in a factorial experimental design. Dietary effects on peroxidation, measured in mitochondrial fractions prepared from liver and heart tissue, were compared with changes in the activities of glutathione peroxidase and the Cu and MnSOD enzymes. Decreased heart MnSOD and CuSOD activities, resulting from dietary Mn and Cu deficiencies, were both associated with increased peroxidation. Adequate Se (and glutathione peroxidase activity) prevented the peroxidation associated with either of these deficiencies, but was ineffective with a combined Cu−Mn deficiency. These effects of Se were only observed in tissue lacking glutathione transferase activity. Effects of Cu, Mn, and Se on peroxidation appeared to be present at both levels of vitamin E, although in both tissues, vitamin E deficiency greatly increased the overall peroxidation. Comparison of these in vitro peroxidation results with the deficiency associated lesions observed in vivo indicates that changes in SOD activities and peroxidation pathways may be the dominant cause of these lesions in only some cases. In others, the roles of Cu and Mn in different metabolic pathways appear to be of greater importance.     

转Bt基因水稻根际土壤微生物多样性的磷脂脂肪酸(PLFAs)表征

以亲本水稻为对照,应用13C脉冲标记和磷脂脂肪酸技术,分析转Bt基因对水稻根际微生物多样性的影响.结果表明:转Bt基因水稻与亲本水稻根际均以饱和脂肪酸和支链脂肪酸为主,单不饱和脂肪酸次之,多不饱和脂肪酸最少.苗期、拔节期和抽穗期,转成基因水稻根际革兰氏阳性菌(G+)代表性磷脂脂肪酸含量显著低于亲本水稻;革兰氏阴性菌(G-)代表性磷脂脂肪酸含量显著高于亲本水稻.水稻各生育期,转Bt基因未对水稻根际土壤真菌、放线菌磷脂脂肪酸含量造成显著影响,且转Bt基因水稻与亲本水稻根际微生物磷脂脂肪酸13C含量无显著性差异.表明外源Bt基因插入仅对水稻根际微生物多样性造成短暂影响,不具有持续性.     

The Role of Heterotrophic Microbial Communities in Estuarine C Budgets and the Biogeochemical C Cycle with Implications for Global Warming: Research Opportunities and Challenges

Estuaries are among the most productive and economically important marine ecosystems at the land–ocean interface and contribute significantly to exchange of CO₂ with the atmosphere. Estuarine microbial communities are major links in the biogeochemical C cycle and flow of C in food webs from primary producers to higher consumers. Considerable attention has been given to bacteria and autotrophic eukaryotes in estuarine ecosystems, but less research has been devoted to the role of heterotrophic eukaryotic microbes. Current research is reviewed here on the role of heterotrophic eukaryotic microbes in C biogeochemistry and ecology of estuaries, with particular attention to C budgets, trophodynamics, and the metabolic fate of C in microbial communities. Some attention is given to the importance of these processes in climate change and global warming, especially in relation to sources and sinks of atmospheric CO₂, while also documenting the current paucity of research on the role of eukaryotic microbes that contribute to this larger question of C biogeochemistry and the environment. Some recommendations are made for future directions of research and opportunities of applying newer technologies and analytical approaches to a more refined analysis of the role of C in estuarine microbial community processes and the biogeochemical C cycle.     

Microbial Community Analysis and Effects of Fe(II)/Mn(II) Ratio on Denitrification in the Mixotrophic Biological Reactor

In this study, the denitrification performance of the mixotrophic biological reactor was investigated under varying Fe(II)/Mn(II) molar ratio conditions. Results indicate that the optimal nitrate removal ratio occurred at an Fe(II)/Mn(II) molar ratio of 9:1, pH of 7, with an HRT of 10?h. When the reactor was performing under optimal conditions, the nitrate removal reached 100.00% at a rate of 0.116?mmol·L^?1·h^?1. The proportion of oxidized Fe(II) and Mn(II) reached 99.29% and 21.88%, respectively. High-throughput sequencing results show that Pseudomonas was the dominant species in the mixotrophic biological reactor. Furthermore, the relative abundance of Pseudomonas and denitrification performance was significantly influenced by variation in the Fe(II)/Mn(II) molar ratio.     

Assessment of the Parameters Influencing Microbial Calcite Precipitation in Injection Experiments Using Taguchi Methodology

Soil improvement is one of the major concerns in civil engineering. Therefore, a variety of approaches have been employed for different soil types. The loose granular soils and sediments have always imposed challenges due to their low strength and bearing capacity as well as presenting difficulties in drilling and excavation. Biomediated soil improvement, i.e., utilizing some bacteria to precipitate calcite on soil particles, has recently been introduced as a novel link of biotechnology and civil engineering to improve the problematic soils. Biogrout as a branch of biomediated soil improvement is based upon microbial calcium carbonate precipitation (MICP). In the present study, the Taguchi method with the aim of optimizing the process was utilized to design the experiments (DOE). A standard L9 orthogonal array with four parameters comprising bacterial cell concentration, molar concentration ratio of nutrient solution, curing time, and flow rate, each assigned to three levels, was selected. In this regard, soil samples were stabilized in sandy soil columns. Two-phase injections were conducted by injecting the bacterium Sporosarcina pasteurii PTCC 1642 in the first phase and nutrient in the second phase. Specimens were subjected to an unconfined compressive strength (UCS) test. ANOVA pointed out how effectual each parameter was. The most effective parameter was curing time, which accounted for 45.97% of the overall variance of the experimental data followed by bacterial cell concentration (22.01%), nutrient strength (19.98%), and flow rate (12.04%). Predicted UCS values for the optimum condition were validated in a confirmation test. Indeed, the UCS of the soil increased from 85 kPa in the control sample to 930 kPa for the optimally treated specimen. It was concluded that rather than curing time, the other parameters are almost equally influential in the applied injection procedure.     

Variation in Microbial Community Composition and Culturability in the Rhizosphere of Leucanthemopsis alpina (L.) Heywood and Adjacent Bare Soil Along an Alpine Chronosequence

We compared the size, culturability, diversity, and dominant species similarity of the bacterial communities of Leucanthemopsis alpina (L.) Heywood rhizosphere and adjacent bare soil (interspace) along a chronosequence of soil development time (5, 50, and 70 years) in the forefield of the Dammaglacier (Switzerland). We found no evidence that the size of the bacterial community was significantly affected by either soil age or the presence of L. alpina. In contrast, the proportion of the bacterial community that could be cultured on nonselective agars, and which was taken as an indication of the proportion of r-selected populations, was significantly higher in the 50- and 70-year-old soils than in the 5-year-old soil, and was also significantly higher in the rhizosphere of L. alpina at all time points. RDA indicated significant correlations between the increased culturability of the bacterial community over time and increasing concentrations of labile N, and between the increased culturability in the rhizosphere and increased concentrations of labile C and N. HaeIII-amplified ribosomal DNA (rDNA) restriction analysis of a library of 120 clones of 16S rDNA revealed 85 distinct phylotypes. Hurlbert's probability of interspecific encounter (PIE) values derived from this library ranged from 0.95 to 1.0, indicating a very high genetic diversity. There was no significant difference in the PIE values of rhizosphere and interspace communities. Detrended correspondence analysis (DCA) of 16S ribosomal RNA (rRNA) denaturing gradient gel electrophoresis (DGGE) community profiles clearly distinguished the rhizosphere from the interspace community in the 5-year-old soils and also clearly distinguished between these communities and the rhizosphere and interspace communities of the 50- and 70-year-old soils. However, 16S rRNA DGGE revealed little difference between rhizosphere and interspace communities in the 50- and 70-year-old soils. The relative similarity of the 16S rRNA profiles strongly reflected labile carbon and nitrogen availability. Overall, our results suggest that improved C and N availability in the rhizosphere of L. alpina increases the size of r-selected bacterial species populations, but that the influence of L. alpina depends on soil age, being maximal in the youngest soils and minimal in the oldest. The reduced influence of L. alpina in the older soils may reflect a feedback between improved nutrient availability and reduced rhizodeposition.