Biodegradation of phenanthrene by Pseudomonas sp. BZ-3, isolated from crude oil contaminated soil

A phenanthrene (PHE) degrading bacterium strain BZ-3 was isolated from the crude oil contaminated soil in Binzhou, China. The isolate was identified as Pseudomonas sp. BZ-3 on the basis of 16S rRNA gene sequence. Various experiments were conducted to investigate the effect of pH, salinity and PHE concentration on the degradation efficiency of PHE. The degradation efficiency and degradation metabolites of PHE were detected by using GC–MS and HPLC-MS analyses. The strain BZ-3 could degrade 75% of PHE at an initial concentration of 50 mg/L under 20 g/L salinity in 7 days. PHE degradation kinetics was estimated in a first-order degradation rate model and the rate coefficient was calculated as 0.108 d⁻¹. On the basis of the identified degradation metabolites, the strain BZ-3 could degrade PHE in the salicylate metabolic pathway. In a mixture system consisting of PHE and other PAHs including naphthalene (NA), anthracene (ANTH), and pyrene (PYR), the strain BZ-3 showed an efficiently degradation capability. Further study showed that the strain BZ-3 could also use NA, ANTH, PYR, xylene, 1-hydroxy-2-naphthoic acid, and hexane as the sole carbon and energy source, but did not grow on nitrobenzene-containing medium.     

Indigenous butyric acid-degrading bacteria as surrogate pit latrine odour control: isolation,biodegradability performance and growth kinetics

Butyric acid is one of the volatile organic compounds that significantly contribute to malodour emission from pit latrines. The purpose of this work is to isolate and identify bacterial strains that have the capability to degrade butyric acid, determine their butyric acid degradation efficiencies and estimate their growth pattern parameters of microbiological relevance. Pure cultures of bacterial strains capable of degrading butyric acid were isolated from pit latrine faecal sludge using an enrichment technique and were identified based on 16S rRNA analysis. The bacterial strains were cultured in mineral salt medium (MSM) supplemented with 1000 mg L−1 butyric acid, as a sole carbon and energy source, at 30 ± 1 °C, pH 7 and 110 rpm under aerobic growth conditions. The modified Gompertz model was used to estimate growth pattern parameters of microbiological relevance. Bacterial strains were phylogenetically identified as Alcaligenes sp. strain SY1, Achromobacter animicus, Pseudomonas aeruginosa, Serratia marcescens, Achromobacter xylosoxidans, Bacillus cereus, Lysinibacillus fusiformis, Bacillus methylotrophicus and Bacillus subtilis. The bacterial strains in pure cultures degraded butyric acid of 1000 mg L−1 within 20–24 h. The growth kinetics of the bacterial strains in pure culture utilising butyric acid were well described by the modified Gompertz model. This work highlights the potential for use of these bacterial strains in microbial degradation of butyric acid for deodorisation of pit latrine faecal sludge. This work also contributes significantly to our understanding of bioremediation of faecal sludge odours and informs the development of appropriate odour control technologies that may improve odour emissions from pit latrines.     

Degradation of arylarsenic compounds by microorganisms

Microorganisms were not directly accumulated when soil contaminated to about 0.5 mM with diphenylarsinic acid (DPAA) was used as the sole source of carbon. However, using toluene as the carbon source yielded several isolates, which were then used in cultivation with DPAA as the sole source of carbon. By these methods, Kytococcus sedentarius strain NK0508, which can grow in up to 0.038 mM DPAA, was isolated. The toxicity of DPAA retarded the growth of K. sedentarius and the direct accumulation of DPAA-utilizing microorganisms from environmental samples. This strain can utilize about 80% of DPAA and phenylarsonic acid as the sole source of carbon for 3 days. Degradation products of DPAA were determined to be cis, cis, muconate and arsenic acid. When K. sedentarius was cultivated with methylphenylarsinic acid and diphenylmethylarsine, about 90% and 10% degradation of the two compounds, respectively, were observed. Diphenylmethylarsine oxide, possibly synthesized by methylation of DPAA, was detected as one of the transformation products. These results suggest that degradation is initiated by splitting of the phenyl groups from the arylarsenic compounds with subsequent hydroxylation of the phenyl groups and ring opening to yield cis, cis, muconate.     

Utilization of Iron Gallate and Other Organic Iron Complexes by Bacteria from Water Supplies

The degradation of four soluble organic iron compounds by bacteria isolated from surface waters and the precipitation of iron from these complexes by the isolates was studied. All eight isolates brought about the precipitation of iron when grown on ferric ammonium citrate agar. Three isolates were able to degrade ferric malonate, and three others degraded ferric malate with iron precipitation. Only three isolates, two strains of Pseudomonas and one of Moraxella, were able to degrade gallic acid when this was supplied as the sole carbon source. One strain of Pseudomonas was found to be active in degrading ferric gallate. Electron microscopy of cells of this bacterium after growth in ferric gallate as the sole carbon source yielded results indicating uniform deposition of the iron on or in the bacterial cells. Seven of the isolates could degrade the iron gallate complex if supplied with additional carbon in the form of yeast extract.     

Biodegradation of methyl parathion and p-nitrophenol by a newly isolated Agrobacterium sp. strain Yw12

Strain Yw12, isolated from activated sludge, could completely degrade and utilize methyl parathion as the sole carbon, phosphorus and energy sources for growth in the basic salt media. It could also completely degrade and utilize p-nitrophenol as the sole carbon and energy sources for growth in the minimal salt media. Phenotypic features, physiological and biochemical characteristics, and phylogenetic analysis of 16S rRNA sequence showed that this strain belongs to the genus of Agrobacterium sp. Response surface methodology was used to optimize degradation conditions. Under its optimal degradation conditions, 50 mg l⁻¹ MP was completely degraded within 2 h by strain Yw12 and the degradation product PNP was also completely degraded within 6 h. Furthermore, strain Yw12 could also degrade phoxim, methamidophos, chlorpyrifos, carbofuran, deltamethrin and atrazine when provided as the sole carbon and energy sources. Enzymatic analysis revealed that the MP degrading enzyme of strain Yw12 is an intracellular enzyme and is expressed constitutively. These results indicated that strain Yw12 might be used as a potential and effective organophosphate pesticides degrader for bioremediation of contaminated sites.     

聚乳酸降解菌株筛选鉴定及降解过程优化

【目的】筛选能够降解聚乳酸的微生物, 提高聚乳酸的降解速率并鉴定聚乳酸降解酶种类。【方法】以明胶为唯一碳源, 筛选能够降解聚乳酸的微生物; 通过优化明胶添加浓度、聚乳酸添加量以及金属离子种类提高聚乳酸的降解速率; 通过分析降解过程中代谢产物和酶活力变化明确聚乳酸降解酶类别。【结果】筛选获得一株聚乳酸降解菌株, 鉴定为Lentzea waywayandensis; 经优化培养, 聚乳酸在25 d后失重84.8%; 降解过程中, 检测到乳酸的产生, 体外酶活实验仅检测到蛋白酶活力。【结论】明胶作为唯一碳源适用于聚乳酸降解菌株的筛选; 明胶作为碳源的同时可以作为诱导剂诱导菌株L. waywayandensis降解聚乳酸; 此外, 研究表明蛋白酶在聚乳酸降解过程中发挥重要作用。     

Biodegradation of malathion by <Emphasis Type="Italic">Brevibacillus</Emphasis> sp. strain KB2 and <Emphasis Type="Italic">Bacillus cereus</Emphasis> strain PU

We report here the degradation of a pesticide, malathion, by Brevibacillus sp. strain KB2 and Bacillus cereus strain PU, isolated from soil samples collected from malathion contaminated field and an army firing range respectively. Both the strains were cultured in the presence of malathion under aerobic and energy-limiting conditions. Both strains grew well in the medium having malathion concentration up to 0.15%. Reverse phase HPLC–UV analysis indicated that Strain KB2 was able to degrade 72.20% of malaoxon (an analogue of malathion) and 36.22% of malathion, while strain PU degraded 87.40% of malaoxon and 49.31% of malathion, after 7 days of incubation. The metabolites mal-monocarboxylic acid and mal-dicarboxylic acid were identified by Gas chromatography/mass spectrometry. The factors affecting biodegradation efficiency were investigated and effect of malathion concentration on degradation rate was also determined. The strain was analyzed for carboxylesterase activity and maximum activity 210 ± 2.5 U ml⁻¹ and 270 U ± 2.7 ml⁻¹ was observed for strains KB2 and PU, respectively. Cloning and sequencing of putative malathion degrading carboxylesterase gene was done using primers based PCR approach.     

Isolation,Characterization of a Strain Capable of Degrading Imazethapyr and Its Use in Degradation of the Herbicide in Soil

One strain of bacterium IM-4, capable of degrading imazethapyr (IMZT), was isolated from the IMZT-contaminated soil. The isolate was identified as Pseudomonas sp. according to its physiological characteristics, biochemical tests, and 16S rRNA gene phylogenetic analysis. This strain could utilize IMZT as the sole carbon and energy source. About 73.4% of the 50 mg l⁻¹ initially added IMZT was degraded after 7 days of inoculation with strain IM-4. This strain also showed the capability to degrade other imidazolinone herbicides such as imazapyr, imazapic, and imazamox. The inoculation strain IM-4 to soil treated with IMZT resulted in a higher degradation rate than in noninoculated soil regardless if the soil was sterilized or nonsterilized. Inoculation of strain IM-4 could also mitigate the phytotoxic effects of IMZT on the growth of maize.     

Microbial degradation of triclosan by a novel strain of Dyella sp.

A novel strain capable of degrading triclosan was isolated from the acclimated activated sludge and identified to be Dyella sp. WW1 based on 16S rDNA analysis. The effect of initial concentration of triclosan (0.2, 1, 5, and 10 mg/L), temperature (15, 25, and 35 °C), pH (5, 7, and 9), and additional carbon source on the degradation of triclosan was investigated in a mineral medium. The results showed that Dyella sp. WW1 can use triclosan as sole carbon source and degrade it when initial triclosan concentration was in the range of 0.2–10 mg/L. The optimal condition for Dyella sp. WW1 to degrade triclosan was 15 °C and pH 7. TOC removal efficiency was more than 90%. Dyella sp. WW1 can degrade 3,5-dichloro-4-hydrobenzoic via co-metabolism in the presence of triclosan, but cannot degrade trimethoprim, sulfamethoxazole, carbamazepine, and diclofenac. In the presence of glucose, Dyella sp. WW1 firstly utilized glucose to synthesize the biomass and then degraded triclosan. When triclosan concentration decreased to an extent (1.2 mg/L in this study), Dyella sp. WW1 started to use glucose again. The wastewater components did not significantly affect the activity of Dyella sp. WW1 to degrade triclosan. During the biodegradation process, six metabolite products were identified. Based on the metabolites, two degradation pathways were tentatively proposed. In summary, Dyella sp. WW1 could be used for degrading triclosan in the real wastewater.

     

Degradation of malic acid by Issatchenkia orientalis KMBL 5774, an acidophilic yeast strain isolated from Korean grape wine pomace

Several yeast strains degrading malic acid as a sole carbon and energy source were isolated from Korean wine pomace after enrichment culture in the presence of malic acid. Among them, the strain designated as KMBL 5774 showed the highest malic acid degrading ability. It was identified as Issatchenkia orientalis based on its morphological and physiological characteristics as well as the nucleotide sequences of the internal transcribed spacer (ITS) I-5.8S rDNA-ITS II region. Phylogenetic analysis of the ITS I-5.8S rDNAITS II sequences showed that the KMBL 5774 is the closest to I. orientalis zhuan 192. Identity of the sequences of the KMBL 5774 was 99.5% with those of I. orientalis zhuan 192. The optimal pH of the media for the growth and malic acid degradation by the yeast was between 2.0 and 3.0, suggesting that the strain is an acidophile. Under the optimized conditions, the yeast could degrade 95.5% of the malic acid after 24 h of incubation at 30 degrees in YNB media containing 2% malic acid as a sole carbon and energy source.     

Isolation and characterization of a bacterium which utilizes polyester polyurethane as a sole carbon and nitrogen source

Abstract Various soil samples were screened for the presence of microorganisms which have the ability to degrade polyurethane compounds. Two strains with good polyurethane degrading activity were isolated. The more active strain was tentatively identified as Comamonas acidovorans . This strain could utilize polyester-type polyurethanes but not the polyether-type polyurethanes as sole carbon and nitrogen sources. Adipic acid and diethylene glycol were probably the main degradation products when polyurethane was supplied as a sole carbon and nitrogen source. When ammonium nitrate was used as nitrogen source, only diethylene glycol was detected after growth on polyurethane.     

Molecular diversity of tannic acid degrading bacteria isolated from tannery soil

AIMS: The aim of this study was to enrich and isolate bacteria from a tannery soil that were capable of utilizing tannic acid and gallic acid as sole source of carbon aerobically, and to characterize their diversity in order to identify efficient strains that can be used for tannin bioremediation. METHODS AND RESULTS: Bacterial strains were isolated after enrichment in minimal medium with tannic acid or gallic acid as sole carbon source. Polymerase chain reaction (PCR) restricted fragment length polymorphism of 16S rDNA [amplified ribosomal DNA restriction analysis (ARDRA)] and BOX-PCR was used to characterize their diversity. Two strains showing relatively high efficiency in degrading tannic acid and gallic acid were identified on the basis of carbon source utilization pattern (BIOLOG) and 16S rDNA sequence. CONCLUSIONS: Bacterial strains capable of degrading tannic acid and gallic acid could be grouped into six and seven clusters on the basis of ARDRA and BOX-PCR, respectively. On the basis of 16S rDNA sequence, the most efficient isolate degrading tannic acid belonged to Pseudomonas citronellolis, whereas the most efficient gallic acid degrader showed maximum phylogenetic relatedness to P. plecoglossicida. SIGNIFICANCE AND IMPACT OF THE STUDY: Aerobic tannic acid degraders such as the two strains isolated in this study can be used for tannin bioremediation, and in the study of genes involved in the production of tannase, an industrially important enzyme.     

Biodegradation of phenoxyacetic acid in soil by Pseudomonas putida PP0301(pR0103), a constitutive degrader of 2, 4–dichlorophenoxyacetate

The efficacy of using genetically engineered microbes (GEMs) to degrade recalcitrant environmental toxicants was demonstrated by the application of Pseudomonas putida PP0301(pR0103) to an Oregon agricultural soil amended with 500 micrograms/g of a model xenobiotic, phenoxyacetic acid (PAA). P. putida PP0301(pR0103) is a constitutive degrader of 2,4-dichlorophenoxyacetate (2,4-D) and is also active on the non-inducing substrate, PAA. PAA is the parental compound of 2,4-dichlorophenoxyacetic acid (2,4-D) and whilst the indigenous soil microbiota degraded 500 micrograms/g 2,4-D to less than 10 micrograms/g, PAA degradation was insignificant during a 40-day period. No significant degradation of PAA occurred in soil inoculated with the parental strain P. putida PP0301 or the inducible 2,4-D degrader P. putida PP0301(pR0101). Moreover, co-amendment of soil with 2,4-D and PAA induced the microbiota to degrade 2,4-D; PAA was not degraded. P. putida PP0301-(pR0103) mineralized 500-micrograms/g PAA to trace levels within 13 days and relieved phytotoxicity of PAA to Raphanus sativus (radish) seeds with 100% germination in the presence of the GEM and 7% germination in its absence. In unamended soil, survival of the plasmid-free parental strain P. putida PP0301 was similar to the survival of the GEM strain P. putida PP0301(pR0103). However, in PAA amended soil, survival of the parent strain was over 10,000-fold lower (< 3 colony forming units per gram of soil) than survival of the GEM strain after 39 days.     

Catabolism of homophthalic acid by a soil bacterium

A microorganism capable of degrading homophthalic acid as a sole source of carbon was isolated from soil. The strain was tentatively identified as Pseudomonas sp. Oxygen uptake studies were carried out with possible intermediates. Assays for several different enzymes were performed. Homophthalic acid may be metabolized by this bacterium via p-hydroxyphenyl acetic acid and homogentisic acid intermediates.     

Isolation,Identification and Characteristics of an Endophytic Quinclorac Degrading Bacterium Bacillus megaterium Q3

In this study, we isolated an endophytic quinclorac-degrading bacterium strain Q3 from the root of tobacco grown in quinclorac contaminated soil. Based on morphological characteristics, Biolog identification, and 16S rDNA sequence analysis, we identified strain Q3 as Bacillus megaterium. We investigated the effects of temperature, pH, inoculation size, and initial quinclorac concentration on growth and degrading efficiency of Q3. Under the optimal degrading condition, Q3 could degrade 93% of quinclorac from the initial concentration of 20 mg/L in seven days. We analyzed the degradation products of quinclorac using liquid chromatography–tandem mass spectrometry (LC-MS/MS). The major degradation products by Q3 were different from those of previously identified quinclorac degrading strains, which suggests that Q3 may employ new pathways for quinclorac degradation. Our indoor pot experiments demonstrated that Q3 can effectively alleviate the quinclorac phytotoxicity in tobacco. As the first endophytic microbial that is capable of degrading quinclorac, Q3 can be a good bioremediation bacterium for quinclorac phytotoxicity.     

Degradation of pentachlorophenol by <Emphasis Type="Italic">Kocuria</Emphasis> sp. CL2 isolated from secondary sludge of pulp and paper mill

A pentachlorophenol (PCP) degrading bacterium was isolated and characterized from sludge of pulp and paper mill. This isolate used PCP as its sole source of carbon and energy and was capable of degrading this compound, as indicated by stoichiometric release of chloride and biomass formation. Based on morphology, biochemical tests, and 16S rRNA gene sequence analysis this strain was identified as Kocuria sp. CL2. High Performance Liquid Chromatography (HPLC) analysis revealed that this strain was able to degrade PCP up to a concentration of 600 mg/l. This is first time we are reporting the degradation of PCP by the Kocuria species. This isolate was also able to remove 58.64% of PCP from the sludge within two weeks. This study showed that the removal efficiency of PCP by CL2 was found to be very effective and can be used in degradation of PCP containing pulp paper mill waste in the environment.     

一株阿特拉津降解菌的分离鉴定及降解特性

从农药厂废水处理池的活性污泥中分离到一株阿特拉津降解菌X-4, 根据其生理生化特性和16S rRNA基因序列相似性分析, 将其初步鉴定为节杆菌属(Arthrobacter sp.)。该菌能以阿特拉津为唯一碳氮源生长, 42 h内对100 mg/L的阿特拉津降解效果为95.7%, 降解阿特拉津的最适温度为30 °C, pH为7.0。该菌对多种重金属离子都存在抗性, 显示了其在去除阿特拉津和重金属复合污染方面的应用潜力。对其降解基因的初步研究显示, 该菌含有trzN、atzB和atzC 3个阿特拉津降解相关基因。     

Aerobic degradation of 3-chlorobenzoic acid by an indigenous strain isolated from a polluted river

An indigenous strain of Pseudomonas putida capable of degrading 3-chlorobenzoic acid as the sole carbon source was isolated from the Riachuelo, a polluted river in Buenos Aires. Aerobic biodegradation assays were performed using a 2-l microfermentor. Biodegradation was evaluated by spectrophotometry, chloride release, gas chromatography and microbial growth. Detoxification was evaluated by using Vibrio fischeri, Pseudokirchneriella subcapitata and Lactuca sativa as test organisms. The indigenous bacterial strain degrades 100 mg l⁻¹ 3-chlorobenzoic acid in 14 h with a removal efficiency of 92.0 and 86.1% expressed as compound and chemical oxygen demand removal, respectively. The strain was capable of degrading up to 1,000 mg of the compound l⁻¹. Toxicity was not detected at the end of the biodegradation process. Besides initial concentration, the effect of different factors, such as initial pH, initial inoculum, adaptation to the compound and presence of other substrates and toxic related compounds, was studied.     

Isolation of new 6-methylnicotinic-acid-degrading bacteria, one of which catalyses the regioselective hydroxylation of nicotinic acid at position C2

2-Hydroxynicotinic acid is an important building block for herbicides and pharmaceuticals. Enrichment strategies to increase the chances of finding microorganisms capable of hydroxylating at the C2 position and to avoid the degradation of nicotinic acid via the usual intermediate, 6-hydroxynicotinic acid, were used. Three bacterial strains (Mena 23/3–3c, Mena 25/4–1, and Mena 25/ 4–3) were isolated from enrichment cultures with 6-methylnicotinic acid as the sole source of carbon and energy. Partial characterization of these strains indicated that they represent new bacterial species. All three strains completely degraded 6-methylnicotinic acid, and evidence is presented that the first step in the degradation pathway of strain Mena 23/3–3c is hydroxylation at the C2 position. Resting cells of this strain grown on 6-methylnicotinic acid also hydroxylated nicotinic acid at the C2 position, but did not further degrade the product. Strain Mena 23/ 3–3c showed the highest degree of 16S rRNA sequence similarity to members of the genera Ralstonia and Burkholderia. Received: 4 April 1997 / Accepted: 10 June 1997     

Study of Biochemical Pathway and Enzyme Involved in Metsulfuron-Methyl Degradation by <Emphasis Type="Italic">Ancylobacter</Emphasis> sp. XJ-412-1 Isolated from Soil

Ancylobacter sp. XJ-412-1, capable of degrading metsulfuron-methyl, was isolated from sulfonylurea-contaminated soil. When metsulfuron-methyl was provided as the sole carbon source, more than 90.5% of metsulfuron-methyl at concentration of 50 mg l⁻¹ was degraded by strain XJ-412-1 after incubation at 30°C for 7 days. The initial degradation products of metsulfuron-methyl (MSM), thifensulfuron-methyl (TSM), and bensulfuron-methyl (BSM) by XJ-412-1 were identified as corresponding deesterified derivatives by liquid chromatography-mass spectrometry, which indicated a primary pathway of the deesterification of these three sulfonylurea herbicides. The carboxyesterase activity of the cell-free extracts was assayed and strongly inhibited by 4-chloromercuribenzoic acid (PCMB), diethyl pyrocarbonate (DEPC), phenylmethylsulfonyl fluoride (PMSF), and malathion.