Characterization of different biodegradable scaffolds in tissue engineering.

The aim of the present study was to compare the characteristics of acellular dermal matrix (ADM), small intestinal submucosa (SIS) and Bio­Gide scaffolds with acellular vascular matrix (ACVM)­0.25% human­like collagen I (HLC­I) scaffold in tissue engineering blood vessels. The ACVM­0.25% HLC­I scaffold was prepared and compared with ADM, SIS and Bio­Gide scaffolds via hematoxylin and eosin (H&E) staining, Masson staining and scanning electron microscope (SEM) observations. Primary human gingival fibroblasts (HGFs) were cultured and identified. Then, the experiment was established via the seeding of HGFs on different scaffolds for 1, 4 and 7 days. The compatibility of four different scaffolds with HGFs was evaluated by H&E staining, SEM observation and Cell Counting Kit­8 assay. Then, a series of experiments were conducted to evaluate water absorption capacities, mechanical abilities, the ultra­microstructure and the cytotoxicity of the four scaffolds. The ACVM­0.25% HLC­I scaffold was revealed to exhibit the best cell proliferation and good cell architecture. ADM and Bio­Gide scaffolds exhibited good mechanical stability but cell proliferation was reduced when compared with the ACVM­0.25% HLC­I scaffold. In addition, SIS scaffolds exhibited the worst cell proliferation. The ACVM­0.25% HLC­I scaffold exhibited the best water absorption, followed by the SIS and Bio­Gide scaffolds, and then the ADM scaffold. In conclusion, the ACVM­0.25% HLC­I scaffold has good mechanical properties as a tissue engineering scaffold and the present results suggest that it has better biological characterization when compared with other scaffold types.

[Residue Levels and Health Risk Assessment of Organochlorine Pesticides in Rice from Shanghai].

As one of the main producers and consumers of pesticides in the world, China has historically used large quantities of organochlorine pesticides, such as DDT and HCH. Rice is a staple food crop in Shanghai, where the Qingpu and Chongming districts are two important rice planting areas. This study detected the residue levels of 24 organochlorine pesticides (OCPs) in rice samples collected from Qingpu and Chongming in Shanghai. The composition and health risk of OCPs in rice samples were investigated. The results revealed that DDTs and HCHs were the main OCPs in rice from the study area. The mean levels of 24 OCPs residues in rice from Qingpu and Chongming were 6.53 ng·g-1 and 4.70 ng·g-1, respectively. The analyses of all the target compounds met the China National Food Safety Standard. The concentrations of 4,4-DDE and ß-HCH were the highest in rice from Qingpu, while 2,4-DDT and ß-HCH were the main components in rice from Chongming. Source analysis showed that dicofol and lindane might be still used recently in some areas of Shanghai. The health risk assessment results indicated that there was no obvious risk to human health by eating rice from Shanghai based on the OCPs studied.

Aucubin protects against lipopolysaccharide-induced acute pulmonary injury through regulating Nrf2 and AMPK pathways.

Aucubin (Ai), a natural compound isolated from plants, including Aucuba japonica and Eucommia ulmoides, shows significant anti-inflammatory and anti-oxidative bioactivities. Here, we attempted to explore the protect effects of Ai on LPS-induced acute lung injury (ALI). Our results indicated that Ai increased the survival rate and ameliorated pathogenic processes in lipopolysaccharide (LPS)-induced mice. However, nuclear factor erythroid 2-related factor 2 (Nrf2) deletion may impede protective effect of Ai. Additionally, Ai reduced oxidative stress by down-regulating malondialdehyde (MDA) and O2· activity, and enhancing Nrf2-targeted signals, including heme oxygenase-1 (HO-1) and quinone oxidoreductase-1 (NQO-1). Also, Ai inhibited pro-inflammatory cytokines and phosphorylated-nuclear factor-κB (NF-κB) expression in LPS-administrated mice. However, these protective effects of Ai were suppressed in Nrf2-knockout mice. Importantly, Nrf2-deficiency showed no effects on phosphorylated AMP-activated protein kinase (p-AMPK) expression in mice treated with LPS and Ai. Similarly, in LPS-induced macrophages, Ai reduced reactive oxygen species (ROS) generation, elevated NQO-1 and HO-1 expression. LPS-stimulated pro-inflammatory cytokines and p-NF-κB were reversed by Ai. Of note, we found that Ai-induced Nrf2 activation was dependent on AMPK activation. Suppression of AMPK levels may inhibit Nrf2 activation, finally leading to up regulation of inflammatory response and oxidative stress. Thus, our findings indicated the crosstalk between Nrf2 and AMPK signaling pathways, and the interaction was essential for the anti-oxidant and anti-inflammatory effects of Ai in LPS-induced macrophages, which might be beneficial for finding new treatments against ALI.

Selective Electrochemical Reduction of Carbon Dioxide Using Cu Based Metal Organic Framework for CO2 Capture.

The conversion efficiency and product selectivity of the electroreduction of carbon dioxide have been largely limited by the low CO2 solubility in aqueous solution. To relieve this problem, Cu3(BTC)2 (Cu-MOF) as CO2 capture agent was introduced into a carbon paper based gas diffusion electrode (GDE) in this study. The faradaic efficiencies (FEs) of CH4 on GDE with Cu-MOF weight ratio in the range of 7.5-10% are 2-3-fold higher than that of GDE without Cu-MOF addition under negative potentials (-2.3 to -2.5 V vs SCE), and the FE of the competitive hydrogen evolution reaction (HER) is reduced to 30%. This work paves the way to develop GDE with high catalytic activity for ERC.

Draft Genome Sequence of Paludibacter jiangxiensis NM7T, a Propionate-Producing Fermentative Bacterium.

We report here a high-quality draft genome sequence of Paludibacter jiangxiensis strain NM7T, a mesophilic, anaerobic, propionate-producing fermentative bacterium within the family Porphyromonadaceae of the phylum Bacteroidetes The genome comprises 3,664,884 bp in four contigs, has a G+C content of 42.92%, and contains 2,949 protein-coding sequences and 62 RNAs.

Draft Genome Sequence of Terrimicrobium sacchariphilum NM-5T, a Facultative Anaerobic Soil Bacterium of the Class Spartobacteria.

We report here a high-quality draft genome sequence of Terrimicrobium sacchariphilum strain NM-5T, a facultative anaerobic, mesophilic, fermentative bacterium belonging to the class Spartobacteria of the phylum Verrucomicrobia The genome comprises 4,751,807 bp in three contigs and has a G+C content of 60.19%. Annotation predicted 4,175 protein-coding sequences and 54 RNAs.

[Simultaneous production of hydrogen and volatile fatty acid from Macrocystis pyrifera].

Batch experiments were conducted to analyze the effects of pretreatment conditions, inoculum-substrate ratio (ISR) and initial pH on the hydrogen and volatile fatty acid (VFA) production from anaerobic digestion of Macrocystis pyrifera biomass. The results indicated that M. pyrifera could produce hydrogen and VFA simultaneously. In addition, thermo-alkaline pretreatment was proved as the best method for hydrogen and VFA production. The optimal pretreatment conditions, ISR, initial pH value were determined as thermal-alkaline pretreatment at 100 degrees C with 4 g x L(-1) NaOH, 0.3 and 6, respectively. Under these conditions, the maximum hydrogen production was 36.21 mL x g(-1) per unit volatile solids, which resulted in 77.82% improvement compared with the yield from untreated M. pyrifera. Furthermore, the TVFA yield under the optimal conditions was found to be 0.15 g x g(-1) per unit volatile solids and the VFAs mainly consisted of acetate and butvrate

Bioaugmentation with an acetate-type fermentation bacterium Acetobacteroides hydrogenigenes improves methane production from corn straw.

The effect of bioaugmentation with an acetate-type fermentation bacterium in the phylum Bacteroidetes on the anaerobic digestion of corn straw was evaluated by batch experiments. Acetobacteroides hydrogenigenes is a promising strain for bioaugmentation with relatively high growth rate, hydrogen yields and acetate tolerance, which ferments a broad spectrum of pentoses, hexoses and polyoses mainly into acetate and hydrogen. During corn straw digestion, bioaugmentation with A. hydrogenigenes led to 19-23% increase of the methane yield, with maximum of 258.1 mL/g-corn straw achieved by 10% inoculation (control, 209.3 mL/g-corn straw). Analysis of lignocellulosic composition indicated that A. hydrogenigenes could increase removal rates of cellulose and hemicelluloses in corn straw residue by 12% and 5%, respectively. Further experiment verified that the addition of A. hydrogenigenes could improve the methane yields of methyl cellulose and xylan (models for cellulose and hemicelluloses, respectively) by 16.8% and 7.0%.

The genome of Syntrophorhabdus aromaticivorans strain UI provides new insights for syntrophic aromatic compound metabolism and electron flow.

How aromatic compounds are degraded in various anaerobic ecosystems (e.g. groundwater, sediments, soils and wastewater) is currently poorly understood. Under methanogenic conditions (i.e. groundwater and wastewater treatment), syntrophic metabolizers are known to play an important role. This study explored the draft genome of Syntrophorhabdus aromaticivorans strain UI and identified the first syntrophic phenol-degrading phenylphosphate synthase (PpsAB) and phenylphosphate carboxylase (PpcABCD) and syntrophic terephthalate-degrading decarboxylase complexes. The strain UI genome also encodes benzoate degradation through hydration of the dienoyl-coenzyme A intermediate as observed in Geobacter metallireducens and Syntrophus aciditrophicus. Strain UI possesses electron transfer flavoproteins, hydrogenases and formate dehydrogenases essential for syntrophic metabolism. However, the biochemical mechanisms for electron transport between these H2 /formate-generating proteins and syntrophic substrate degradation remain unknown for many syntrophic metabolizers, including strain UI. Analysis of the strain UI genome revealed that heterodisulfide reductases (HdrABC), which are poorly understood electron transfer genes, may contribute to syntrophic H2 and formate generation. The genome analysis further identified a putative ion-translocating ferredoxin : NADH oxidoreductase (IfoAB) that may interact with HdrABC and dissimilatory sulfite reductase gamma subunit (DsrC) to perform novel electron transfer mechanisms associated with syntrophic metabolism.

Historical development and future perspectives of Environmental Specimen Bank in China: a mini review.

Environmental problems as well as their related ecosystem stress and human health risk in China have raised wide concerns along with the rapid economic development in recent years. Numerous studies with a sharp increase in publication number have addressed the ubiquitous of anthropogenic chemicals in various environmental compartments and human tissues. However, very few data were available to clarify the temporal trend and to give the retrospective analysis of chemical pollution in China. Environmental Specimen Bank (ESB) is a system for the systematic collection and long-term storage of specimens, which has been established since the 1970s in developed counties and recognized as a fundamental complement for environmental monitoring and scientific research. Currently, the value of ESB is becoming more broadly recognized globally, and China is still at the early stage. This article described the history and status and put forwarded the future key points of Chinese ESB development for illustrating the intensive environmental changes in China and the world.

[Methanogenic activity and methanogen diversity in marine gas field sediments].

Methanogens play an important role in marine sediments, which are related to methane production and methane hydrate deposits. Methanogenic activity of marine gas field sediments was investigated using substrates that methanogens usually used as carbon sources. H2/CO2, methanol, methylamines and trimethylamines could support the growth and methane production of gas field sediments. 16S rRNA gene sequence analysis indicated that the predominant methanogens in the enrichment cultures were related to known cultured methanogens in the family Methanosarcinaceae of the order Methanosarcinales and the family Methanomicrobiales of the order Methanomicrobiales, with genera Methanococcoides, Methanogenium and Methanosarcina as major methanogens.

Acetobacteroides hydrogenigenes gen. nov., sp. nov., an anaerobic hydrogen-producing bacterium in the family Rikenellaceae isolated from a reed swamp.

A strictly anaerobic, mesophilic, carbohydrate-fermenting, hydrogen-producing bacterium, designated strain RL-C(T), was isolated from a reed swamp in China. Cells were Gram-stain-negative, catalase-negative, non-spore-forming, non-motile rods measuring 0.7-1.0 µm in width and 3.0-8.0 µm in length. The optimum temperature for growth of strain RL-C(T) was 37 °C (range 25-40 °C) and pH 7.0-7.5 (range pH 5.7-8.0). The strain could grow fermentatively on yeast extract, tryptone, arabinose, glucose, galactose, mannose, maltose, lactose, glycogen, pectin and starch. The main end products of glucose fermentation were acetate, H2 and CO2. Organic acids, alcohols and amino acids were not utilized for growth. Yeast extract was not required for growth; however, it stimulated growth slightly. Nitrate, sulfate, sulfite, thiosulfate, elemental sulfur and Fe(III) nitrilotriacetate were not reduced as terminal electron acceptors. Aesculin was hydrolysed but not gelatin. Indole and H2S were produced from yeast extract. The G+C content of the genomic DNA was 51.2 mol%. The major cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0 and C16 : 0. The most abundant polar lipid of strain RL-C(T) was phosphatidylethanolamine. 16S rRNA gene sequence analysis revealed that the isolate belongs to the uncultured Blvii28 wastewater-sludge group (http://www.arb-silva.de/) in the family Rikenellaceae of the phylum Bacteroidetes, and shared low sequence similarities with the related species Alistipes shahii WAL 8301(T) (81.8 %), Rikenella microfusus ATCC 29728(T) (81.7 %) and Anaerocella delicata WN081(T) (80.9 %). On the basis of these data, a novel species in a new genus of the family Rikenellaceae is proposed, Acetobacteroides hydrogenigenes gen. nov., sp. nov. The type strain of the type species is RL-C(T) ( = JCM 17603(T) = DSM 24657(T) = CGMCC 1.5173(T)).

Lactivibrio alcoholicus gen. nov., sp. nov., an anaerobic, mesophilic, lactate-, alcohol-, carbohydrate- and amino-acid-degrading bacterium in the phylum Synergistetes.

A mesophilic, obligately anaerobic, lactate-, alcohol-, carbohydrate- and amino-acid- degrading bacterium, designated strain 7WAY-8-7(T), was isolated from an upflow anaerobic sludge blanket reactor treating high-strength organic wastewater from isomerized sugar production processes. Cells of strain 7WAY-8-7(T) were motile, curved rods (0.7-1.0×5.0-8.0 µm). Spore formation was not observed. The strain grew optimally at 37 °C (range for growth was 25-40 °C) and pH 7.0 (pH 6.0-7.5), and could grow fermentatively on yeast extract, glucose, ribose, xylose, malate, tryptone, pyruvate, fumarate, Casamino acids, serine and cysteine. The main end-products of glucose fermentation were acetate and hydrogen. In co-culture with the hydrogenotrophic methanogen Methanospirillum hungatei DSM 864(T), strain 7WAY-8-7(T) could utilize lactate, glycerol, ethanol, 1-propanol, 1-butanol, L-glutamate, alanine, leucine, isoleucine, valine, histidine, asparagine, glutamine, arginine, lysine, threonine, 2-oxoglutarate, aspartate and methionine. A Stickland reaction was not observed with some pairs of amino acids. Yeast extract was required for growth. Nitrate, sulfate, thiosulfate, elemental sulfur, sulfite and Fe (III) were not used as terminal electron acceptors. The G+C content of the genomic DNA was 61.4 mol%. 16S rRNA gene sequence analysis revealed that the isolate belongs to the uncultured environmental clone clade (called 'PD-UASB-13' in the Greengenes database) in the bacterial phylum Synergistetes, showing less than 90% sequence similarity with closely related described species such as Aminivibrio pyruvatiphilus and Aminobacterium colombiense (89.7% and 88.7%, respectively). The major cellular fatty acids were iso-C(13 : 0), iso-C(15 : 0), anteiso-C(15 : 0), C(18 : 1), C(19 : 1), C(20 : 1) and C(21 : 1). A novel genus and species, Lactivibrio alcoholicus gen. nov., sp. nov. is proposed to accommodate strain 7WAY-8-7(T) ( = JCM 17151(T) = DSM 24196(T) = CGMCC 1.5159(T)).

Hydrogenispora ethanolica gen. nov., sp. nov., an anaerobic carbohydrate-fermenting bacterium from anaerobic sludge.

An anaerobic, spore-forming, ethanol-hydrogen-coproducing bacterium, designated LX-BT, was isolated from an anaerobic sludge treating herbicide wastewater. Cells of strain LX-BT were non-motile rods (0.3-0.5×3.0-18.0 µm). Spores were terminal with a bulged sporangium. Growth occurred at 20-50 °C (optimum 37-45 °C), pH 5.0-8.0 (optimum pH 6.0-7.7) and 0-2.5% (w/v) NaCl. The strain could grow fermentatively on glucose, maltose, arabinose, fructose, xylose, ribose, galactose, mannose, raffinose, sucrose, pectin, starch, glycerol, fumarate, tryptone and yeast extract. The major end-products of glucose fermentation were acetate, ethanol and hydrogen. Yeast extract was not required but stimulated growth. Nitrate, sulfate, thiosulfate, elemental sulfur, sulfite, anthraquinone-2,6-disulfonate, fumarate and Fe (III) nitrilotriacetate were not used as terminal electron acceptors. The G+C content of the genomic DNA was 56.1 mol%. The major cellular fatty acids were anteiso-C15:0, iso-C14:0 and C16:0. The most abundant polar lipids of strain LX-BT were diphosphatidylglycerol and phosphatidylglycerol. 16S rRNA gene sequence analysis revealed that it belongs to an as-yet-unidentified taxon at the order- or class-level (OPB54) within the phylum Firmicutes, showing 86.5% sequence similarity to previously described species of the Desulfotomaculum cluster. The name Hydrogenispora ethanolica gen. nov., sp. nov. is proposed to accommodate strain LX-BT (=DSM 25471T=JCM 18117T=CGMCC 1.5175T) as the type strain.

Draft Genome Sequence of Syntrophorhabdus aromaticivorans Strain UI, a Mesophilic Aromatic Compound-Degrading Syntroph.

Syntrophorhabdus aromaticivorans strain UI is a mesophilic bacterium capable of degrading aromatic substrates in syntrophic cooperation with a partner methanogen. The draft genome sequence is 3.7 Mb, with a G+C content of 52.0%.

Terrimicrobium sacchariphilum gen. nov., sp. nov., an anaerobic bacterium of the class 'Spartobacteria' in the phylum Verrucomicrobia, isolated from a rice paddy field.

A strictly anaerobic, mesophilic, carbohydrate-fermenting bacterium, designated NM-5T, was isolated from a rice paddy field. Cells of strain NM-5(T) were Gram-stain-negative, non-motile, non-spore-forming, short rods (0.5-0.7 µm×0.6-1.2 µm). The strain grew optimally at 37 °C (growth range 20-40 °C) and pH 7.0 (pH 5.5-8.0). The strain could grow fermentatively on arabinose, xylose, fructose, galactose, glucose, ribose, mannose, cellobiose, lactose, maltose and sucrose. The main end-products of glucose fermentation were acetate and propionate. Organic acids, alcohols and amino acids were not utilized for growth. Yeast extract was not required but stimulated the growth. Nitrate, sulfate, thiosulfate, elemental sulfur, sulfite, and Fe (III) nitrilotriacetate were not used as terminal electron acceptors. The DNA G+C content was 46.3 mol%. The major cellular fatty acids were iso-C14:0, C18:0 and C16:0. 16S rRNA gene sequence analysis revealed that strain NM-5T belongs to the class 'Spartobacteria', subdivision 2 of the bacterial phylum Verrucomicrobia. Phylogenetically, the closest species was 'Chthoniobacter flavus' (89.6% similarity in 16S rRNA gene sequence). A novel genus and species, Terrimicrobium sacchariphilum gen. nov., sp. nov., is proposed. The type strain of the type species is NM-5T (=JCM 17479T=CGMCC 1.5168T).

Paludibacter jiangxiensis sp. nov., a strictly anaerobic, propionate-producing bacterium isolated from rice paddy field.

A mesophilic, obligately anaerobic, propionate-producing fermentative bacterium, designated strain NM7(T), was isolated from rural rice paddy field. Cells of strain NM7(T) are Gram-negative, non-motile, non-spore-forming, short rods, and negative for catalase. The strain grew optimally at 37 °C (the range for growth 15-40 °C) and pH 7.0 (pH 5.0-7.5). The strain could grow fermentatively on various sugars, including arabinose, xylose, fructose, galactose, glucose, mannose, cellobiose, lactose, maltose, sucrose, pectin and starch. The main end products of glucose fermentation were acetate and propionate. Yeast extract was not required but stimulated the growth. Nitrate, sulfate, thiosulfate, elemental sulfur, sulfite, and Fe(III) nitrilotriacetate were not used as terminal electron acceptors. The G+C content of genomic DNA was 42.8 mol%. The major cellular fatty acids were C15:0, anteiso-C15:0, C16:0, and C17:0. The most abundant polar lipid of strain NM7(T) was phosphatidylethanolamine. 16S rRNA gene sequence analysis revealed that it belongs to the family Porphyromonadaceae of the phylum Bacteroidetes. The closest recognized species was Paludibacter propionicigenes (91.4 % similarity in 16S rRNA gene sequence). A novel species, Paludibacter jiangxiensis sp. nov., is proposed to accommodate strain NM7(T) (=JCM 17480(T) = CGMCC 1.5150(T) = KCTC 5844(T)).

Modeling anaerobic digestion of blue algae: stoichiometric coefficients of amino acids acidogenesis and thermodynamics analysis.

In order to facilitate the application of Anaerobic Digestion Model No. 1 (ADM1), an approach for a detailed calculation of stoichiometric coefficients for amino acids acidogenesis during the anaerobic digestion of blue algae is presented. The simulation results obtained support the approach by good predictions of the dynamic behavior of cumulative methane production, pH values as well as the concentrations of acetate, propionate, butyrate, valerate and inorganic nitrogen. The sensitivity analysis based on Monte Carlo simulation showed that the stoichiometric coefficients for amino acids acidogenesis had high sensitivities to the outputs of the model. The model further indicated that the Gibbs free energies from the uptake of long-chain fatty acids (LCFA), valerate and butyrate were positive through the digestion, while the free energies for other components were negative. During the digestion, the cumulative heat productions from microbial activities and methane were 77.69 kJ and 185.76 kJ, respectively. This result suggested that proper heat preservation of anaerobic digesters could minimize the external heating needs due to the heat produced from microbial activities.

Molecular characterization of bacterial and archaeal communities in a full-scale anaerobic reactor treating corn straw.

A 16S rRNA gene-based method was used to characterize the structure of bacterial and archaeal communities in a full-scale, anaerobic reactor treating corn straw. Degradability experiment indicated biogas slurry had high microbial activity, the TS removal rate was 53% and the specific methanogenic activity was 86 mL CH4 g VSS(-1) d(-1). During anaerobic degradation of corn straw, volatile acids and aromatic compounds (p-cresol, phenylpropionate, phenol and benzoate) were detected as transient intermediates. Phylogenetic analysis revealed bacterial community exhibited high diversity, 69 bacterial phylotypes in 13 phyla were identified. Firmicutes (48.3%), Chloroflexi (20.1%), Actinobacteria (9.1%), Bacteroidetes (7.7%), and Proteobacteria (7.2%) represented the most abundant bacterial phyla. Hydrolytic and fermentative bacteria were major bacterial populations. Moreover, a relatively high proportion of syntrophic propionate and aromatic compounds degrading bacteria were detected. In the archaeal clone library, 11 archaeal phylotypes affiliated with two phyla of Crenarchaeota (10%) and Euryarchaeota (90%) were identified.

[Phylogenetic analysis of methanogenic corn stalk degrading microbial communities].

Methanogenic corn stalk degrading enrichment cultures were constructed using corn stalk as the sole carbon source and eight types of environmental samples as inocula. All the cultures could degrade corn stalk within 30-50 days and the total solids (TS) removal rates were in the range of 30%-40%. In six out of eight cultures, the cumulative methane yields per gram TS were 62.1-118.4 mL x g(-1), with acetate, propionate and butyrate as the major volatile fatty acids (100-500 mg x L(-1)), and the final pH were 6.5-6.7. In the other two cultures, the cumulative methane yields per gram TS were 8.5-9.7 mL xg(-1), while the concentrations of acetate were high (1200 mg x L(-1)), and the final pH were low (5.6-5.9). The bacterial and archaeal structures in eight enrichments were investigated with a 16S rRNA genes-based clone library method. Clones belonging to the bacterial phyla Firmicutes, Bacteroidetes, Synergistetes and Thermotogae were observed in abundance within the bacterial clone libraries, which accounted for 37.8%, 34.3%, 11.6% and 6.4% of the total number of bacterial clones, respectively. Within the domain Archaea, clones affiliated with the classes Methanomicrobia and Methanobacteria were found to be abundant in the archaeal clone libraries, which accounted for 61.1% and 38.9% of the total number of archaeal clones, respectively.