Enhanced Biodegradation of Alkane Hydrocarbons and Crude Oil by Mixed Strains and Bacterial Community Analysis

In this study, two strains, Acinetobacter sp. XM-02 and Pseudomonas sp. XM-01, were isolated from soil samples polluted by crude oil at Bohai offshore. The former one could degrade alkane hydrocarbons (crude oil and diesel, 1:4 (v/v)) and crude oil efficiently; the latter one failed to grow on alkane hydrocarbons but could produce rhamnolipid (a biosurfactant) with glycerol as sole carbon source. Compared with pure culture, mixed culture of the two strains showed higher capability in degrading alkane hydrocarbons and crude oil of which degradation rate were increased from 89.35 and 74.32?±?4.09 to 97.41 and 87.29?±?2.41 %, respectively. In the mixed culture, Acinetobacter sp. XM-02 grew fast with sufficient carbon source and produced intermediates which were subsequently utilized for the growth of Pseudomonas sp. XM-01 and then, rhamnolipid was produced by Pseudomonas sp. XM-01. Till the end of the process, Acinetobacter sp. XM-02 was inhibited by the rapid growth of Pseudomonas sp. XM-01. In addition, alkane hydrocarbon degradation rate of the mixed culture increased by 8.06 to 97.41 % compared with 87.29 % of the pure culture. The surface tension of medium dropping from 73.2?×?10^?3 to 28.6?×?10^?3 N/m. Based on newly found cooperation between the degrader and the coworking strain, rational investigations and optimal strategies to alkane hydrocarbons biodegradation were utilized for enhancing crude oil biodegradation.     

Isolation of Biphenyl and Polychlorinated Biphenyl-Degrading Bacteria and Their Degradation Pathway

Four strains of biphenyl-degrading bacteria were isolated from a sewage and identified from the Rhodococcus genus (SK-1, SK-3, and SK-4) and Aquamicrobium genus (SK-2) by 16S rRNA sequence. Among these strains, strain SK-2 was most suitable for biphenyl degradation. When 0.65, 1.3, 2.6, or 3.9 mM of biphenyl was used, the biphenyl was completely degraded within 24 and 96 h of culture, respectively. However, in the case of 6.5 and 9.75 mM of biphenyl, the biphenyl degradation yields were about 80 % and 46.7 % after 120 h of culture, respectively. The isolated strains could degrade a broad spectrum of aromatic compounds including high-chlorinated polychlorinated biphenyl (PCB) congeners in the presence of biphenyl. In addition, strain SK-2 could utilize PCB congeners containing one to six chlorine substituents such as 2,2′,4,4′,5,5′-hexachlorobiphenyl. The PCB utilization rate by the strain SK-2 was increased compared to that of other PCB congener-utilizing bacteria. The four isolates metabolized 4-chlorobiphenyl to 4-chlorobenzoic acid and 2-hydroxy-6-oxo-6-(4′-chlorophenyl)-hexa-2,4-dienoic acid. These results suggest the isolated strains might be good candidates for the bioremediation of PCB-contaminated soil, especially high-saline soils.     

Screening of potential antibiotic action of cellulolytic fungi

Twenty different strains of filamentous fungi were initially selected for evaluation of cellulolytic activity using a single test in a simple mineral salts culture medium with filter paper as the only carbon source. Those fungi strains that were capable of completely breaking the filter paper strip within 4–8 d were assayed also for antimicrobial action, using Staphyloccocus a ureus ATCC 6538P according to the so-called agar piece method. We screened three different strains with both capacities: the production of cellulolytic activity and antibiotic action. The experimental results suggest that the fungi Pinicillium sp. FOPCO1, Aspergillus sp. F0Q001, and Cephalosporium sp. F03800 have both capabilities because they grew rapidly on cellulose as the only carbon source and were able to produce an area of growth inhibition in S. aureus of approx 2.04, 1.57, and 2.39 cm, respectively, on agar plates using the agar piece method. Subsequently, the antibiotic production obtained with those cellulolytic strains was evaluated by submerged fermentation at the flask level, in a simple culture medium containing lactose without biosynthesis precursor, obtaining 3670, 2830, and 4060 antibiotic units/mL, referred to as penicillin G, whereas for cellulolytic activity, the results were 1.34, 1.81 and 0.57 FPU/mL, respectively.     

Isolation and Characterization of Pseudomonas sp. STM 997 from Soil Sample having Potentiality to Degrade 3,6-Dimethyl-1-keto-1,2,3,4-tetrahydrocarbazole: A Novel Approach

A pure colony of a bacterium from contaminated soil was isolated by exploiting 3,6-dimethyl-1-keto-1,2,3,4?Ctetrahydrocarbazole, a novel carbazole derivative, having indole moiety as well as 3-methyl functionality both in aromatic and hydro-aromatic moiety, as a sole source of carbon and energy. Taxonomical studies, biochemical analysis, and 16S rDNA sequence analysis indicated that the isolated strain has close similarity with Pseudomonas sp. Thin-layer chromatography followed by HPLC and mass spectroscopic study indicates that the isolated Pseudomonas sp. STM 997 degrades 3,6-dimethyl-1-keto-1,2,3,4?Ctetrahydrocarbazole, and this strain may be useful in the bioremediation of environments contaminated by the compounds containing carbazole moiety with methyl substituents at various reactive sites. This study also provides an evidence in favor of the suggested biodegradation of 3-methylcarbazole to carbazole in plants.     

Dégradation bactérienne de l'acide déhydroabiétique par un Pseudomonas et une Alcaligenes

Two new strains: Pseudomonas sp. and Alcaligenes Eutrophus were isolated by aerobic enrichment at 28° in a medium containing dehydroabietic acid 1a as only source of carbon and energy. Study of isolated intermediates suggests that both species use the same degradative pathway. Attack at C-7 is followed by hydroxylation of the aromatic ring before cleavage of ring B. The outlines of the degradative pathway of dehydroabietic acid by these two species in comparison with Flavobacterium Resinovorum are discussed.     

Microbial Degradation of Chlorogenic Acid by a <Emphasis Type="Italic">Sphingomonas</Emphasis> sp. Strain

In order to elucidate the metabolism of chlorogenic acid by environmental microbes, a strain of Sphingomonas sp. isolated from tobacco leaves was cultured under various conditions, and chlorogenic acid degradation and its metabolites were investigated. The strain converting chlorogenic acid was newly isolated and identified as a Sphingomonas sp. strain by 16S rRNA sequencing. The optimal conditions for growth and chlorogenic acid degradation were 37 °C and pH 7.0 with supplementation of 1.5 g/l (NH₄)₂SO₄ as the nitrogen source and 2 g/l chlorogenic acid as the sole carbon source. The maximum chlorogenic acid tolerating capability for the strain was 5 g/l. The main metabolites were identified as caffeic acid, shikimic acid, and 3,4-dihydroxybenzoic acid based on gas chromatography-mass spectrometry analysis. The analysis reveals the biotransformation mechanism of chlorogenic acid in microbial cells isolated from the environment.     

Characterization of a mesophilic aliphatic-aromatic copolyester-degrading fungus

We isolated 5 mesophilic microorganisms that form clear zones around the colony on an opaque medium containing the aliphatic-aromatic copolyester poly(60 mol% butylene adipate-co-40 mol% butylene terephthalate) (PBAT). Among all strains, the fungal strain NKCM1712 degraded PBAT at the fastest rate (3.5 ± 0.3 μg cm⁻² h⁻¹). Genetic and morphological analyses revealed that this strain was closely related to Isaria fumosorosea (phylum Ascomycota). Mass spectroscopic analysis revealed that the degradation products were T, AB, TB, BAB, and ABT (T, terephthalic acid unit; A, adipic acid unit; B, 1,4-butanediol unit)] in the culture of the strain that used PBAT as the sole carbon source. Furthermore, the PBAT degradation ability of this strain in terms of BOD suggested that it could utilize the PBAT degradation products as growth substrates. This is the first report of a mesophilic strain that can mineralize an aliphatic-aromatic polyester into carbon dioxide on its own.     

Cyclic tetrapeptides from marine bacteria associated with the seaweed Diginea sp. and the sponge Halisarca ectofibrosa

A Pseudomonas sp. was cultured which was associated with the Japanese seaweed Diginea sp. Crude extracts prepared from this bacterial culture were found to inhibit the growth of other marine bacterial strains. From this bacterial culture, two new peptides cyclo-[phenylalanyl-prolyl-leucyl-prolyl] (3) and cyclo-[isoleucyl-prolyl-leucyl-alanyl] (4) have been isolated together with two known peptides (1) and (2). The crude extract from a culture of Pseudoalteromonas sp. associated with the Thai sponge Halisarca ectofibrosa was found to inhibit the growth of Bacillus subtilis and Vibrio anguillarum. Isolation studies yielded a fraction containing two peptides that were identified as cyclo-[phenylalanyl-leucyl]₂ (5) and cyclo-[leucyl-isoleucyl]₂ (6) by means of LC-MS and 2D NMR data. Absolute stereochemistry was confirmed by the synthesis of cyclo-[l-phenylalanyl-l-leucyl]₂. Peptides (1)-(3) were also isolated from this bacterial strain. None of the individual peptides isolated in this study showed antibiotic activity.     

Bacterial production of PHA from lactose and cheese whey permeate

Due to the large availability of agro-industry wastes containing potentially exploitable substrates, such as whey from dairy industry, a study on the bacterial conversion of lactose and whey permeate to poly(β-hydroxyalkanoate) (PHA) was undertaken. A first approach was carried out on culture collection strains. Among a number of strains tested, Hydrogenophaga pseudoflava DSM 1034 and Sinorhizobium meliloti 41 were found to grow on lactose and produce PHA. These findings suggested to investigate among a wider range of microorganisms by directly isolating new strains from soil. A number of soil bacteria were first isolated on a minimal medium containing lactose as unique carbon source and PHA-accumulating traits were then investigated. Three isolates, identified by 16S rDNA sequence analysis as Sinorhizobium sp., Bacillus megaterium and Bacillus sp., were selected for their efficient growth and PHA production using lactose as carbon source. The same strains were also tested for their ability to accumulate PHA by direct fermentation of whey and whey permeate. Our results suggest that production of the polymer from cheese whey or whey permeate may be possible, although further research is needed to determine whether these microorganisms have the potential for commercial production of such biodegradable polymers.     

固定化细菌去除苯甲酸类化合物的研究

用富集培养法，从工业废水中分离到能以苯甲酸类化合物为唯一碳源和能源而生长的细菌不动杆菌ＢＪ１和产碱杆菌ＳＢ１。用海藻酸钙共固定化的ＢＪ１和ＳＢ１菌株于３０℃培养７２ｈ以后，模拟工业废水中１ｇ／Ｌ的苯甲酸，邻羟基苯甲酸，间羟基苯甲酸，以羟基苯甲酸，邻苯二甲酸和苯乙酸的去除率分别为８９％，９８％，９７％，１００％，９０％和６１％。     

Biodegradation of n-hexadecane by bacterial strains B1 and B2 isolated from petroleum-contaminated soil

Two hydrocarbon-biodegrading bacterial strains,B1 and B2,were isolated from petroleum-contaminated soil collected from Tianjin,China.The strains were identified as Pseudomonas aeruginosa(B1) and Acinetobacter junii(B2).The degradation rate of n-hexadecane by B1 and B2 reached 96% and 78% respectively after 7 days,though the strains employed different mechanisms of degradation.The results showed that B2 was not able to use glucose as carbon source.B1 could produce glycolipid surfactants using glucose as the carbon source,according to the results of blue agar plate analysis and thin layer chromatography(TLC),and the bacterial culture of B1 had a high oil discharge and emulsification activity.Both B1 and B2 could produce biosurfactants with hexadecane as the sole carbon source,but their modes of action were different.The carbon source was found to affect the cell surface hydrophobicity.Cell surface hydrophobicity was poor with glucose as the carbon source,but enhanced when hexadecane was used as the carbon source.     

Waste Biogas Residue from Cassava Dregs as Carbon Source to Produce Galactomyces sp. Cczu11-1 Cellulase and its Enzymatic Saccharification

In the conversion of cassava starch dregs to biogas by anaerobic fermentation, the biogas residue (BR) containing lignocellulosic materials still remained in the environment. In order to effectively utilize BR, the complexed 1-methyl-3-methylimidazolium dimethyl phosphate ([Mmim]DMP) media were used for pretreating cellulosic materials. After the optimization of pretreatment, the IL [Mmim]DMP-HCl-water (78.5:1.5:20, w/w/w) pretreament media were used for pretreating BR at 130 °C for 30 min. Furthermore, BR pretreated could be effectively saccharified by cellulase of Galactomyces sp. CCZU11-1. Moreover, BR could be used as a cheap carbon source for the production of Galactomyces sp. CCZU11-1 cellulase. After the culture optimization, the optimal culture conditions were obtained as follows: BR 5 g/L, (NH₄)₂SO₄ 5 g/L, K₂HPO₄ 2 g/L, MgSO₄ 0.2 g/L, NaCl 1 g/L, PEG6000 4 g/L, pH 5.5, and culture temperature 30 °C. After the fermentation for 6 days, the FPA and CMCase were 26.2 and 52.8 U/mL, respectively. In conclusion, waste BR could be chosen as a promising feedstock for biofuels.     

Screening and Production Study of Microbial Xylanase Producers from Brazilian Cerrado

Hemicelluloses are polysaccharides of low molecular weight containing 100 to 200 glycosidic residues. In plants, the xylans or the hemicelluloses are situated between the lignin and the collection of cellulose fibers underneath. The xylan is the most common hemicellulosic polysaccharide in cell walls of land plants, comprising a backbone of xylose residues linked by β-1,4-glycosidic bonds. So, xylanolytic enzymes from microorganism have attracted a great deal of attention in the last decade, particularly because of their biotechnological characteristics in various industrial processes, related to food, feed, ethanol, pulp, and paper industries. A microbial screening of xylanase producer was carried out in Brazilian Cerrado area in Selviria city, Mato Grosso do Sul State, Brazil. About 50 bacterial strains and 15 fungal strains were isolated from soil sample at 35 °C. Between these isolated microorganisms, a bacterium Lysinibacillus sp. and a fungus Neosartorya spinosa as good xylanase producers were identified. Based on identification processes, Lysinibacillus sp. is a new species and the xylanase production by this bacterial genus was not reported yet. Similarly, it has not reported about xylanase production from N. spinosa. The bacterial strain P5B1 identified as Lysinibacillus sp. was cultivated on submerged fermentation using as substrate xylan, wheat bran, corn straw, corncob, and sugar cane bagasse. Corn straw and wheat bran show a good xylanase activity after 72 h of fermentation. A fungus identified as N. spinosa (strain P2D16) was cultivated on solid-state fermentation using as substrate source wheat bran, wheat bran plus sawdust, corn straw, corncob, cassava bran, and sugar cane bagasse. Wheat bran and corncobs show the better xylanase production after 72 h of fermentation. Both crude xylanases were characterized and a bacterial xylanase shows optimum pH for enzyme activity at 6.0, whereas a fungal xylanase has optimum pH at 5.0–5.5. They were stable in the pH range 5.0–10.0 and 5.5–8.5 for bacterial and fungal xylanase, respectively. The optimum temperatures were 55C and 60 °C for bacterial and fungal xylanase, respectively, and they were thermally stable up to 50 °C.     

Biochemical Basis of Mercury Remediation and Bioaccumulation by Enterobacter sp. EMB21

The aims of this study were to isolate metal bioaccumulating bacterial strains and to study their applications in removal of environmental problematic heavy metals like mercury. Five bacterial strains belonging to genera Enterobacter, Bacillus, and Pseudomonas were isolated from oil-spilled soil. Among these, one of the strains Enterobacter sp. EMB21 showed mercury bioaccumulation inside the cells simultaneous to its bioremediation. The bioaccumulation of remediated mercury was confirmed by transmission electron microscopy and energy dispersive X-ray. The mercury-resistant loci in the Enterobacter sp. EMB21 cells were plasmid-mediated as confirmed by transformation of mercury-sensitive Escherichia coli DH5α by Enterobacter sp. EMB21 plasmid. Effect of different culture parameters viz-a-viz inoculum size, pH, carbon, and nitrogen source revealed that alkaline pH and presence of dextrose and yeast extract favored better remediation. The results indicated the usefulness of Enterobacter sp. EMB21 for the effective remediation of mercury in bioaccumulated form. The Enterobacter sp. EMB21 seems promising for heavy metal remediation wherein the remediated metal can be trapped inside the cells. The process can further be developed for the synthesis of valuable high-end functional alloy, nanoparticles, or metal conjugates from the metal being remediated.     

Characteristics of Bacterial Strains with Desirable Flavor Compounds from Korean Traditional Fermented Soybean Paste (Doenjang)

To identify and analyze the characteristics of the microorganisms involved in the formation of the desirable flavor of Doenjang, a total of 179 strains were isolated from ninety-four Doenjang collected from six regions in South Korea, and fourteen strains were selected through a sensory evaluation of the aroma of each culture. The enzyme activities of amylase, protease and lipase was shown in the various strains. Bacillus sp.-K3, Bacillus sp.-K4 and Bacillus amyloliquefaciens-J2 showed relatively high protease activity, at 317.1 U, 317.3 U and 319.5 U, respectively. The Bacillus sp.-K1 showed the highest lipase activity at 2453.6 U. In the case of amylase, Bacillus subtilis-H6 showed the highest activity at 4105.5 U. The results of the PCA showed that Bacillus subtilis-H2, Bacillus subtilis-H3, and Bacillus sp.-K2 were closely related to the production of 3-hydroxy-2-butanone (23.51%~43.37%), and that Bacillus subtilis-H5 and Bacillus amyloliquefaciens-J2 were significantly associated with the production of phenethyl alcohol (0.39% and 0.37%). The production of peptides was observed to vary among the Bacillus cultures such as Val-Val-Pro-Pro-Phe-Leu and Pro-Ala-Glu-Val-Leu-Asp-Ile. These peptides are precursors of related volatile flavor compounds created in Doenjang via the enzymatic or non-enzymatic route; it is expected that these strains could be used to enhance the flavor of Doenjang.     

Effects of carbon source on expression of alcohol oxidase activity and on morphologic pattern of YR-1 strain, a filamentous fungus isolated from petroleum-contaminated soils

Soluble alcohol oxidase (AO) activity was detected in the supernatant fraction of a high-speed centrifugation procedure after ballistic cellular homogenization to break the mycelium from a filamentous fungus strain named YR-1, isolated from petroleum-contaminated soils. AO activity from aerobically grown mycelium was detected in growth media containing different carbon sources, including alcohols and hydrocarbons but not in glucose. In previous work, zymogram analysis conducted with crude extracts from aerobic mycelium of YR-1 strain indicated the existence of two AO enzymes originally named AO-1 and AO-2. In the present study, we were able to separate the AO-1 band into two bands depending on culture conditions, carbon source, and polyacrylamide gel electrophoresis (PAGE) separation conditions; the enzyme activity pattern in zymograms from cell-free extracts exhibited three different bands after native PAGE. New nomenclature was used for upper bands AO-1 and AO-2 and lower band AO-3, respectively. The expression of AO activity was studied in the absence of glucose in the culture media and in the presence of hydrocarbons or petroleum as sole carbon source, suggesting that AO expression could be subjected to two regulatory possibilities: carbon catabolite regulation by glucose and induction by hydrocarbons. The possibility of catabolic inhibition of AO by glucose in the active enzyme was also tested, and the results confirm that this kind of regulatory mechanism is not present in AO activity.     

Submerged culture screening of two strains ofStreptomyces sp. with high keratinolytic activity

Keratinases can be used for the production of potentially important hydrolyzed proteins and chemicals. This study investigated the keratinolytic activity ofStreptomyces sp on keratinaceous materials like wool. High levels of proteolytic and keratinolytic activity were obtained after 96 h of culture when two Streptomyces sp strains were grown on basal medium containing mineral salts and 3% (w/v) of defatted wool as a source of energy, carbon, and nitrogen. The cell-free culture filtrates exhibited rapid proteolytic digestion of keratin powder. Currently, the authors are testing whether the enzymatic activity obtained is in fact keratinolytic, and not only an alkaline protease activity.     

Production of Lipids Containing High Levels of Docosahexaenoic Acid by a Newly Isolated Microalga, <Emphasis Type="Italic">Aurantiochytrium</Emphasis> sp. KRS101

In the present study, a novel oleaginous Thraustochytrid containing a high content of docosahexaenoic acid (DHA) was isolated from a mangrove ecosystem in Malaysia. The strain identified as an Aurantiochytrium sp. by 18S rRNA sequencing and named KRS101 used various carbon and nitrogen sources, indicating metabolic versatility. Optimal culture conditions, thus maximizing cell growth, and high levels of lipid and DHA production, were attained using glucose (60 g l⁻¹) as carbon source, corn steep solid (10 g l⁻¹) as nitrogen source, and sea salt (15 g l⁻¹). The highest biomass, lipid, and DHA production of KRS101 upon fed-batch fermentation were 50.2 g l⁻¹ (16.7 g l⁻¹ day⁻¹), 21.8 g l⁻¹ (44% DCW), and 8.8 g l⁻¹ (40% TFA), respectively. Similar values were obtained when a cheap substrate like molasses, rather than glucose, was used as the carbon source (DCW of 52.44 g l⁻¹, lipid and DHA levels of 20.2 and 8.83 g l⁻¹, respectively), indicating that production of microbial oils containing high levels of DHA can be produced economically when the novel strain is used.     

Biodegradation of Mixed Phenolic Compounds Under High Salt Conditions and Salinity Fluctuations by <Emphasis Type="Italic">Arthrobacter</Emphasis> sp. W1

High salt concentration and salinity fluctuations in wastewater challenge the efficiency of microbial strains used for cleanup of pollutants. In this study, it was investigated that the new isolated Arthrobacter sp. W1 degraded mixed phenolic compounds under complex salt conditions. The results showed that Arthrobacter sp. W1 was able to utilize various phenolic compounds as carbon source under high salt conditions. It can degrade phenol and p-cresol mixture at 10% NaCl, although rates of degradation and cell growth were lower compared to 5% NaCl. The presence of trace p-cresol significantly inhibited phenol biodegradation. When salinity fluctuations were between 1% and 10% NaCl, strain W1 was able to degrade substrates and survived. It was also suggested that the presence of salts (i.e., NaCl, KCl, Na₂SO₄, and K₂SO₄) had almost no effects on the microbial growth and biodegradation process. Therefore, Arthrobacter sp. W1 would be a promising candidate for bioremediation of phenolic compounds under complex salt conditions.     

Screening of a Glucoside 3-Dehydrogenase-Producing Strain,Sphingobacterium faecium,Based on a High-Throughput Screening Method and Optimization of the Culture Conditions for Enzyme Production

The objective of this study was to screen glucoside 3-dehydrogenase (G3DH)-producing strain based on a high-throughput G3DH screening method. Optimization of culture conditions of the isolated strain was also applied in this study. This screening method employed electron transfer reaction in 96-well microtiter plates, α-methyl-d-glucoside, galactose, 2-deoxy-d-glucose, and 3-O-methyl-d-glucose were used as substrates. Using this screening method, one out of 78 strains isolated from different soil samples was obtained with high G3DH activity. The accuracy of the screening method was proved by alkaline treatment analysis of 3-keto sugars. The isolated strain was identified as Sphingobacterium faecium ZJF-D6 by phenotypic characterization and 16S rDNA sequence analysis. The culture conditions of S. faecium for G3DH production were optimized. Sucrose was found as the most suitable carbon source for the G3DH production. The highest G3DH production and cell growth were achieved using the medium at the initial pH of 7.0 at 25 °C for 36 h with activity of 8.03?×?10^?2 U/mL culture. This strain appears promising for potential application in the industry to produce 3-keto sugars. To our knowledge, this is the first report on S. faecium for G3DH production. The method described herein represents a useful tool for the high-throughput isolation of G3DH.