Dynamics of Bacterial Community Structure in the Rhizosphere and Root Nodule of Soybean: Impacts of Growth Stages and Varieties

Bacterial communities in rhizosphere and root nodules have significant contributions to the growth and productivity of the soybean (Glycine max (L.) Merr.). In this report, we analyzed the physiological properties and dynamics of bacterial community structure in rhizosphere and root nodules at different growth stages using BioLog EcoPlate and high-throughput sequencing technology, respectively. The BioLog assay found that the metabolic capability of rhizosphere is in increasing trend in the growth of soybeans as compared to the bulk soil. As a result of the Illumina sequencing analysis, the microbial community structure of rhizosphere and root nodules was found to be influenced by the variety and growth stage of the soybean. At the phylum level, Actinobacteria were the most abundant in rhizosphere at all growth stages, followed by Alphaproteobacteria and Acidobacteria, and the phylum Bacteroidetes showed the greatest change. But, in the root nodules Alphaproteobacteria were dominant. The results of the OTU analysis exhibited the dominance of Bradyrhizobium during the entire stage of growth, but the ratio of non-rhizobial bacteria showed an increasing trend as the soybean growth progressed. These findings revealed that bacterial community in the rhizosphere and root nodules changed according to both the variety and growth stages of soybean in the field.     

基于16S rRNA 基因的戈登氏菌演化分析

探讨19种戈登氏菌共31株间16S rRNA基因演化关系。利用16S rRNA基因序列进行相似性分析和同源性比对,并运用Neighbor-Joining法构建进化树,进行演化分析。其中13条16S rRNA基因序列来自临床分离株,其他16S rRNA基因序列来自Genbank。结果表明：13株临床分离菌株包含4株Gordonia paraffinivorans,6株Gordonia bronchialis 和3株 Gordonia sputi,临床分离株的相似性百分比为93．5％-99．7％;16S rRNA基因序列在戈登氏菌不同种间存在较为明显的差异性（2％—6．2％）,可将临床分离株鉴定到种。进化分析结果显示：戈登氏菌分为两大类群,三种临床分离株在演化上按出现的先后依次为Gordonia bronchialis、Gor-donia sputi、Gordonia paraffinivorans。所做研究可为戈登氏菌相关疾病的流行、预防、治疗和控制提供一定的参考。     

Optimization of substrates for Bioelectricity production by Ochrobactrum pseudintermedium KF026284 in a single chambered microbial fuel cell

A new strain of bacterium Ochrobactrum pseudintermedium KF026284 was isolated from a single chambered microbial fuel cell operated with rumen fluid. The bacterium produced maximum power density of 114 mW/m² (0.7 V, 0.6 mA) when nutrient broth was used as the growth medium. The optimization of electricity generation by O. pseudintermedium KF026284 was carried out using various substrates like cellulose, cellobiose, starch, sucrose, and glucose. The bacterium when fed with cellobiose showed an appreciable and sustainable electricity generation with a power density of 150 mW/m² from the 5th day and a maximum power density of 247 mW/m² on the 11th day.     

A study of external mass transfer effect on biodegradation of phenol using low‐density polyethylene immobilized Bacillus flexus GS1 IIT (BHU) in a packed bed bioreactor

The impact of external mass transport on the biodegradation rate of phenol in a packed bed bioreactor (PBBR) was studied. A potential bacterial species, Bacillus flexus GS1 IIT (BHU), was isolated from the petroleum‐contaminated soil. Low‐density polyethylene (LDPE) immobilized with the B. flexus GS1 IIT (BHU) was used as packing material in the PBBR. The PBBR was operated by varying the inlet feed flow rate from 4 to 10 mL/min, and the corresponding degradation rate coefficients were found to be in the range of 0.119–0.157 L/g h. In addition, the highest removal rate of phenol was obtained to be 1.305 mg/g h at an inlet feed rate of 10 mL/min. The external mass transfer was studied using the model . A new empirical correlation for the biodegradation of phenol in the PBBR was developed after the evaluation at various values of K and n.     

A multiplex-conventional PCR assay for bovine,ovine, caprine and fish species identification in feedstuffs: Highly sensitive and specific

A multiplex PCR assay was developed for rapid and reliable identification of bovine, ovine, caprine and fish species in feedstuffs simultaneously. The method merges the use of bovine, ovine, caprine and fish primers that amplify fragments (ovine; 119 bp, caprine; 142 bp, fish; 224 bp and bovine; 271 bp) of the mitochondrial t.glu gene forward and cyt b reverse, 12S rRNA, 12S rRNA, and ATPase subunit 8 genes respectively, and a universal 18S rRNA primers that amplifies a 99 bp from eukaryotic DNA. To evaluate the effect of heat treatment, a severe sterilization condition (133 °C at 300 kPa for 20 min) was applied. Multiplex analysis of the reference feedstuff samples showed that the detection limit of the assay was 0.01% for each species. Taken together, all data indicated that this multiplex PCR assay was a simple, rapid, sensitive, specific, and cost-effective detection method for bovine, ovine, caprine and fish species in feedstuffs.     

A highly efficient method for concentrating DNA from river water by combined coagulation and foam separation

ABSTRACT

Both Escherichia coli and Enterococci were collected in foam within 7 min from 500 mL of bacteria-spiked water by coagulation and foam separation using ferric chloride and milk casein. These bacterial DNA isolated in the 100 µL of extract from the foam more than 87.5% recovery using the DNeasy PowerWater® Kit. To test this method with water from three natural rivers, 0.67–2.70 µg of DNA were concentrated in 100 µL of extract from 1,000 mL of river water. When the DNA extract was subjected to 16S rRNA gene sequencing analysis, information on the bacterial flora could be obtained.     

Cultivable bacterial diversity and amylase production in three typical Daqus of Chinese spirits

Both culture‐dependent method and molecular technique were firstly used to simultaneously investigate the cultivable bacterial diversity and amylase production in three typical Daqus of Chinese spirits. The results showed that both cultivable bacterial diversity and amylase production were obviously different. The species of nine bacteria from Deshan, nine from Baisha and six from Wuling Daqus were identified. The total bacterial strains of 17, 15 and 14, and 9, 16 and 10 could produce α‐amylase and glucoamylase, respectively, from the Daqus, and the enzyme yields were different. Bacillus licheniformis, Bacillus subtilis and Bacillus amyloliquefaciens not only were dominant bacteria in the Daqus, but also possessed high activities of α‐amylase and glucoamylase. By comparison, Bacillus cereus and Bacillus oleronius were found to be another predominant bacterial species and good producers of α‐amylase and glucoamylase in Deshan and Wuling Daqus, respectively.     

Electricity generation and microbial community structure of air-cathode microbial fuel cells powered with the organic fraction of municipal solid waste and inoculated with different seeds

The organic fraction of municipal solid waste (OFMSW), normally exceeding 60% of the waste stream in developing countries, could constitute a valuable source of feed for microbial fuel cells (MFCs). This study tested the start-up of two sets of OFMSW-fed air-cathode MFCs inoculated with wastewater sludge or cattle manure. The maximum power density obtained was 123 ± 41 mW m⁻² in the manure-seeded MFCs and 116 ± 29 mW m⁻² in the wastewater-seeded MFCs. Coulombic efficiencies ranged between 24 ± 5% (manure-seeded MFCs) and 23 ± 2% (wastewater-seeded MFCs). Chemical oxygen demand removal was >86% in all the MFCs and carbohydrate removal >98%. Microbial community analysis using 16S rRNA gene pyrosequencing demonstrated the dominance of the phylum Firmicutes (67%) on the anode suggesting the possible role of members of this phylum in electricity generation. Principal coordinate analysis showed that the microbial community structure in replicate MFCs converged regardless of the inoculum source. This study demonstrates efficient electricity production coupled with organic treatment in OFMSW-fueled MFCs inoculated with manure or wastewater.