Purification and properties of 4-hydroxyphenylacetic acid 3-hydroxylase from pseudomonas putida

4-Hydroxyphenylacetic acid 3-hydroxylase is a key enzyme in the pathway for the microbial degradation of phenylalanine, tyrosine and many aromatic amines. This enzyme was purified to homogeneity from Image by affinity chromatography. The protein had a molecular weight of 91,000 and was a dimer of identical subunits. It was a typical external flavoprotein monooxygenase and showed an absolute requirement of NADH for activity. The enzyme had a pH optimum of 7.5 and the Km values for 4-hydroxyphenylacetic acid and NADH were 2×10−4 M and 5.9×10−5 M respectively. It was strongly inhibited by heavy metal ions and thiol reagents, suggesting the possible involvement of -SH group(s) in enzyme reaction.

Affinity purification and characterization of 2,4-dichlorophenol hydroxylase from Pseudomonas cepacia

2,4-Dichlorophenol hydroxylase, a flavoprotein monooxygenase from Pseudomonas cepacia grown on 2,4-dichlorophenoxyacetic acid (2,4-D) as the sole source of carbon, was purified to homogeneity by a single-step affinity chromatography on 2,4-DCP-Sepharose CL-4B. The enzyme was eluted from the affinity matrix with the substrate 2,4-dichlorophenol. The enzyme has a molecular weight of 275,000 consisting of four identical subunits of molecular weight 69,000 and requires exogenous addition of FAD for its complete catalytic activity. The enzyme required an external electron donor NADPH for hydroxylation of 2,4-dichlorophenol to 3,5-dicholorocatechol. NADPH was preferred over NADH. The enzyme had Km value of 14 μImage for 2,4-dichlorophenol, and 100 μImage for NADPH. The enzyme activity was significantly inhibited by heavy metal ions like Hg2+ and Zn2+ and showed marked inhibition with thiol reagents. Trichlorophenols inhibited the enzyme competitively. The hydroxylase activity decreased as a function of increasing concentrations of Cibacron blue and Procion red dyes. The apoenzyme prepared showed complete loss of FAD when monitored spectrophotometrically and had no enzymatic activity. The inactive apoenzyme was reconstituted with exogenous FAD which completely restored the enzyme activity.

Purification of 3,5-Dichlorocatechol 1,2-Dioxygenase, a Nonheme Iron Dioxygenase and a Key Enzyme in the Biodegradation of a Herbicide, 2,4-Dichlorophenoxyacetic acid (2,4-D), from Pseudomonas cepacia CSV90

An enzyme which cleaves the benzene ring of 3,5-dichiorocatechol has been purified to homogeneity from Pseudomonas cepacia CSV90, grown with 2,4-dichlorophenoxyacetic acid (2,4-D) as the sole carbon source. The enzyme was a nonheme ferric dioxygenase and catalyzed the intradiol cleavage of all the examined catechol derivatives, 3,5-dichlorocatechol having the highest specificity constant of 7.3 μM−1 s−1 in an air-saturated buffer. No extradiol-cleaving activity was observed. Thus, the enzyme was designated as 3,5-dichlorocatechol 1,2-dioxygenase. The molecular weight of the native enzyme was ascertained to be 56,000 by light scattering method, while the Mr value of the enzyme denatured with 6 M guanidine-HCl or sodium dodecyl sulfate was 29,000 or 31,600, respectively, suggesting that the enzyme was a homodimer. The iron content was estimated to be 0.89 mol per mole of enzyme. The enzyme was deep red and exhibited a broad absorption spectrum with a maximum at around 425 nm, which was bleached by sodium dithionite, and shifted to 515 nm upon anaerobic 3,5-dichlorocatechol binding. The catalytic constant and the Km values for 3,5-dichlorocatechol and oxygen were 34.7 s−1 and 4.4 and 652 μM, respectively, at pH 8 and 25°C. Some heavy metal ions, chelating agents and sulfhydryl reagents inhibited the activity. The NH2-terminal sequence was determined up to 44 amino acid residues and compared with those of the other catechol dioxygenases previously reported.

Evidence for the involvement of multiple pathways in the biodegradation of 1- and 2-methylnaphthalene by pseudomonas putida CSV86

Pseudomonas putida CSV86, a soil bacterium, grows on 1- and 2-methylnaphthalene as the sole source of carbon and energy. In order to deduce the pathways for the biodegradation of 1- and 2-methylnaphthalene, metabolites were isolated from the spent medium and purified by thin layer chromatography. Emphasis has been placed on the structural characterisation of isolated intermediates by CC-MS, demonstration of enzyme activities in the cell free extracts and measurement of oxygen uptake by whole cells in the presence of various probable metabolic intermediates. The data obtained from such a study suggest the possibility of occurrence of multiple pathways in the degradation of 1- and 2-methylnaphthalene. We propose that, in one of the pathways, the aromatic ring adjacent to the one bearing the methyl moiety is oxidized leading to the formation of methylsalicylates and methylcatechols. In another pathway the methyl side chain is hydroxylated to -CH2-OH which is further converted to -CHO and -COOH resulting in the formation of naphthoic acid as the end product. In addition to this, 2-hydroxymethylnaphthalene formed by the hydroxylation of the methyl group of 2-methylnaphthalene undergoes aromatic ring hydroxylation. The resultant dihydrodiol is further oxidised by a series of enzyme catalysed reactions to form 4-hydroxymethyl catechol as the end product of the pathway.

Identification and characterization of a new plasmid carrying genes for degradation of 2,4-dichlorophenoxyacetate from Pseudomonas cepacia CSV90

Pseudomonas cepacia CSV90 is able to utilize 2,4-dichlorophenoxyacetate (2,4-D) and 2-methyl-4-chlorophenoxyacetate as sole sources of carbon and energy. Mutants of the strain CSV90 which had lost this ability appeared spontaneously on a nonselective medium. The wild-type strain harbored a 90-kb plasmid, pMAB1, whereas 2,4-D-negative mutants either lost the plasmid or had a 70-kb plasmid, pMAB2. The plasmid pMAB2 was found to have undergone a deletion Of a 20-kb fragment of pMAB1. The plasmid-free mutants regained the ability to degrade 2,4-D after introduction of purified pMAB1 by electroporation. Cloning in Escherichia coli of a 10-kb BamHI fragment from pMAB1, the region absent in pMAB2, resulted in the expression of the gene tfdC encoding 3,5-dichlorocatechol 1,2-dioxygenase. After subcloning, the tfdC gene was located in a 1.6-kb HindIII fragment. The nucleotide sequence of the tfdC gene and the restriction map of its contiguous region are identical to those of the well-characterized 2,4-D-degradative plasmid pJP4 of Alcaligenes eutrophus, whereas the overall restriction maps of the two plasmids are different. The N-terminal 44-amino-acid sequence of the enzyme purified from the strain CSV90 confirmed the reading frame in the DNA sequence for tfdC and indicated that the initiation codon GUG is read as methionine instead of valine.

Thermolabile ribonucleases from antarctic psychrotrophic bacteria: detection of the enzyme in various bacteria and purification from Pseudomonas fluorescens

Thirteen terrestrial psychrotrophic bacteria from Antarctica were screened for the presence of a thermolabile ribonuclease (RNAase-HL). The enzyme was detected in three isolates of Pseudomonas fluorescens and one isolate of Pseudomonas syringae. It was purified from one P. Fluorescens isolate and the molecular mass of the enzyme as determined by SDS-PAGE was 16 kDa. RNAase-HL exhibited optimum activity around 40 degrees C at pH 7.4. It could hydrolyse Escherichia coli RNA and the synthetic substrates poly(A), poly(C), poly(U) and poly(A-U). Unlike the crude RNAase from mesophilic P. Fluorescens and pure bovine pancreatic RNAase A which were active even at 65 degrees C, RNAase-HL was totally and irreversibly inactivated at 65 degrees C.

A pathway for biodegradation of 1-naphthoic acid by Pseudomonas maltophilia CSV89

Pseudomonas maltophilia CSV89, a bacterium isolated from soil in our laboratory, grows on 1-naphthoic acid as the sole source of carbon and energy. To elucidate the pathway for degradation of 1-naphthoic acid, the metabolites were isolated from spent medium, purified by TLC, and characterized by gas chromatography-mass spectrometry. The involvement of various metabolites as intermediates in the pathway was established by demonstrating relevant enzyme activities in cell-free extracts, oxygen uptake and transformation of metabolites by the whole cells. The results obtained from such studies suggest that the degradation of 1-naphthoic acid is initiated by double hydroxylation of the aromatic ring adjacent to the one bearing the carboxyl group, resulting in the formation of 1,2-dihydroxy-8-carboxynaphthalene. The resultant diol was oxidized via 3-formyl salicylate, 2-hydroxyisophthalate, salicylate and catechol to TCA cycle intermediates.

Production of biosurfactant “Biosur-Pm” by Pseudomonas maltophila CSV89: characterization and role in hydrocarbon uptake

Pseudomonas maltophilia CSV89, a soil bacterium, produces an extracellular biosurfactant, ''Biosur-Pm''. The partially purified product is nondialyzable and chemically composed of 50% protein and 12-15% sugar, which indicates the complex nature of Biosur-Pm. It reduces the surface tension of water from 73 to 53 x 10(-3) N m(-1) and has a critical micellar concentration of 80 mg/l. Compared to aliphatic hydrocarbons, Biosur-Pm shows good activity against aromatic hydrocarbons. The emulsion formed is stable and does not require any metal ions for emulsification. The kinetics of Biosur-Pm production suggest that its synthesis isa growth-associated and pH-dependent process. At pH 7.0, cells produced more Biosur-Pm with less cell surface hydrophobicity. At pH 8.0, however, the cells produced less Biosur-Pm with more cell surface hydrophobicity and showed a twofold higher affinity for aromatic hydrocarbons compared to the cells grown at pH 7.0. The Biosur-Pm showed a pH-dependent release, stimulated growth of the producer strain on mineral salts medium with 1-naphthoic acid when added externally, and facilitated the conversion of salicylate to catechol. All these results suggest that Biosur-Pm is probably a cell-wall component and helps in hydrocarbon assimilation/uptake.

Biodegradation of sodium isopropyl xanthate by Paenibacillus polymyxa and Pseudomonas putida

Biodegradation of sodium isopropyl xanthate using two types of bacterial strains, Paenibacillus polymyxa and Pseudomonas putida, is demonstrated. At concentrations higher than 50 mg/L, the presence of xanthate in the growth medium resulted in bacterial toxicity, retarding growth kinetics. Adaptation through serial subculturing in the presence of higher xanthate concentrations resulted in the development of xanthate-tolerant bacterial strains. Stress proteins secreted by bacterial cells grown in the presence of xanthate were isolated. Bacterial cells could utilize xanthate as a growth substrate, degrading xanthate species in the process. Acidic metabolic products generated by bacterial metabolism promoted efficient xanthate decomposition. Probable mechanisms for the biodegradation of isopropyl xanthate are illustrated.

Evaluación de enmiendas y microorganismos antagonistas para el manejo de pseudomonas solanacearum E.F. Smith en cultivo de tomate (Lycopersicon esculentum L.)

Se estudió el efecto de dos enmiendas y tres microorganismos como posibles factores supresívos y antagonistas respectivamente al agente causal de la marchitez bacteriana Pseudomonas solanacearum E.F.Srnlth. Los experimentos fueron conducidos en campo e invernadero en el Centro Agronómíco Tropical de Investigación y Enseñanza (CATIE), Turrialba, Costa Rica. Se establecieron en diseño de parcelas divididas con cuatro repeticiones en el campo y tres en el invernadero. Las parcelas principales se dispusieron en bloques completamente al azar. Se evaluaron tres tratamientos (compost comercial, cal dolomítica y un tratamiento sin enmiendas) en las parcelas principales y ocho tratamientos (Pseudomonas cepacia, Bacillus cereus y Glomus occultum solos y en combínación) en las subparcelas. Los tratamientos con enmiendas se asignaron a las parcelas principales, mientras que los tratamientos con antagonistas se asignaron a las subparcelas. Las variables evaluadas fueron incidencia y severidad de la enfermedad y área bajo la curva de progreso de la enfermedad (ABCPE). Se determinó el efecto de las enmiendas sobre las poblaciones de P. solanacearum en tres momentos. En el campo no hubo diferencias significativas en las varia~ bles evaluadas. Las poblaciones de P. solanocearum fueron reducidas significativamente en el suelo. En invernadero, las enmiendas redujeron significativamente la severidad de la enfermedad y el ABCPE. Los antagonistas no redujeron significativamente la incidencia y la severidad en el campo e invernadero.

Estudio de tres métodos para el diagnóstico de Pseudomonas solanacearum E. Smith en suelos cultivados con papa (Solanum tuberosum L.) en la I y VI regiones de Nicaragua

Para evaluar la eficiencia del método historial de campo el diagnóstico del grado de infección de suelos por Pseudimonas solanacearum se recolectaron 20 muestras de suelo en las regiones I y VI en Nicaragua. De cada región en base al historial de campo se colectaron tres hasta cuatro muestras de suelos con grados alto, medio y cero grado de infección por PS. Solanacearum respectivamente. La recolección de las muestras de suelos se realizaron en los meses de Mayo y en Octubre de 1989 efectuándose una recolección en época seca (Mayo) y otra época lluviosa (Octubre) sobre los mismos suelos. A los suelos colectados en época seca se les realizó conteo de colonias de PS. Solanacearum por método In vitro y con los colectados en época lluviosa además del conteo In Vitro se realizaron bioensayos con plantas de tomate, tabaco y berengena. Los resultados del análisis In Vitro sobre las muestras de suelos en platos Petri indicaron que todas las muestras de suelos colectados presentaron algún número de colonias de PS. Solanacearum por lo cual no existió ningún suelo libre de infestación según el historial de campo, 19 de los 20 suelos colectados en época lluviosa posibilitaron el desarrollo de síntomas de la enfermedad, resultando las plantas de berengena las más susceptibles en menor tiempo por el método del bioensayo. En suelos colectados en época seca el número de colonias fue mayor en relación al número de colonias encontradas en época lluviosa en los mismos suelos. Aunque no fue posible encontrar una correlación efectivo entre el diagnóstico del grado de infestación del suelo por el método del historial de . campo y los otros dos métodos de estudio, se observó algún grado de asociación entre el diagnóstico por el historial y conteo In Vitro para el caso de los suelos de la primera región cuando se trató de suelos catalogados como alto y medio grados de infestación, según el método historial ele campo únicamente.

Avaliação dos efeitos da disponibilidade de luz sobre o crescimento e competição entre cepas de Planktothrix agardhii e Microcystis aeruginosa

As cianobactérias Microcystis aeruginosa e Planktothrix agardhii são espécies formadoras de florações comuns em ecossistemas aquáticos eutrofizados. Nestes ambientes, a disponibilidade de luz é um dos fatores determinantes para o desenvolvimento e estruturação da comunidade fitoplanctônica. O presente estudo teve como objetivo investigar o efeito da luz na fisiologia de cepas de cianobactérias (M. aeruginosa e P. agardhii), avaliando o crescimento, a variabilidade inter e intra-específica e a competição por luz. Para tanto foram realizados cultivos estanques em diferentes intensidades luminosas (10, 40, 60, 100 e 500 mol m-2 s-1) e calculadas as taxas de crescimento e os rendimentos máximos das culturas. O requerimento mínimo de luz de cada cepa foi determinado em experimentos com monoculturas em sistemas de cultivo contínuo (quimiostatos) sob condições de limitação de luz. A competição por luz foi avaliada através de experimentos com biculturas em quimiostatos. Foi observada variabilidade intra e inter-específica das cepas, nas diferentes intensidades luminosas testadas. Em 500 μmol m-2 s-1, as cepas de M. aeruginosa obtiveram maior biomassa do que P. agardhii, corroborando a maior sensibilidade de P. agardhii luz. Embora com rendimento máximo menor, P. agardhii cresceu em intensidades luminosas consideradas elevadas para a espécie, 100 e 500 μmol m-2 s-1. Estes resultados evidenciam a capacidade de P. agardhii ocorrer em ambientes com grandes amplitudes de luminosidade. Na intensidade de 10 μmol m-2 s-1, M. aeruginosa e P. agardhii apresentaram crescimento semelhante, demonstrando a habilidade das duas espécies em crescer com pouca luz. Nas monoculturas em quimiostato, sob condições de limitação de luz, as cepas de M. aeruginosa atingiram maior biomassa durante o equilíbrio (steady-state) do que P. agadhii, refletindo uma capacidade suporte mais elevada, enquanto que os valores de requerimento mínimo de luz foram semelhantes entre as duas espécies. Ao competirem, M. aeruginosa superou P. agardhii imediatamente após o início do experimento. Esse rápido crescimento resultou na dominância de M. aeruginosa em todos os pares de cepas testados e, em dois casos, ocorreu exclusão competitiva de P. agardhii. Quando não ocorreu exclusão, P. agardhii conseguiu manter-se no sistema com uma baixa biomassa (ca.15%). Estes resultados ajudam a entender a co-ocorrência destas espécies no ambiente e a dominância de M. aeruginosa mesmo em condições de baixa luminosidade.

Global transcriptional responses of the toxic cyanobacterium, Microcystis aeruginosa, to nitrogen stress, phosphorus stress, and growth on organic matter

Whole transcriptome shotgun sequencing (RNA-seq) was used to assess the transcriptomic response of the toxic cyanobacterium Microcystis aeruginosa during growth with low levels of dissolved inorganic nitrogen (low N), low levels of dissolved inorganic phosphorus (low P), and in the presence of high levels of high molecular weight dissolved organic matter (HMWDOM). Under low N, one third of the genome was differentially expressed, with significant increases in transcripts observed among genes within the nir operon, urea transport genes (urtBCDE), and amino acid transporters while significant decreases in transcripts were observed in genes related to photosynthesis. There was also a significant decrease in the transcription of the microcystin synthetase gene set under low N and a significant decrease in microcystin content per Microcystis cell demonstrating that N supply influences cellular toxicity. Under low P, 27% of the genome was differentially expressed. The Pho regulon was induced leading to large increases in transcript levels of the alkaline phosphatase phoX, the Pst transport system (pstABC), and the sphX gene, and transcripts of multiple sulfate transporter were also significantly more abundant. While the transcriptional response to growth on HMWDOM was smaller (5–22% of genes differentially expressed), transcripts of multiple genes specifically associated with the transport and degradation of organic compounds were significantly more abundant within HMWDOM treatments and thus may be recruited by Microcystis to utilize these substrates. Collectively, these findings provide a comprehensive understanding of the nutritional physiology of this toxic, bloom-forming cyanobacterium and the role of N in controlling microcystin synthesis.

Survival of antibiotic resistant Pseudomonas strains in different types of water

A study was conducted to investigate the survival of five Pseudomonas strains resistant to antibiotics in different types of water. The selected Pseudomonas strains were designated as strain P1 (CT-29), strain P2 (CT-25), strain P3 (CT-36), strain P4 (CT-20) and strain P5 (CT-27) which were only recovered from farmed fishes. Six types of water viz., distilled water, saline water, tap water, deionized water, pond water and river water were used. Among these experimental waters, river water was found to be the most suitable for long-term survival of these strains. Deionized water did not support survival of all these Pseudomonas strains. Pond water, tap water and distilled water were moderately suitable for strain P1 and strain P4. Saline water was also found to be highly suitable for long-term survival in case of the strain P3 and moderately suitable for normal survival of strain P2 and strain P5.