Construction of pha-operon-defined knockout mutants of Pseudomonas putida KT2442 and their applications in poly(hydroxyalkanoate) production

Pseudomonas putida KT2442 could accumulate medium-chain-length poly(hydroxyalkanoate)s (PHA) consisting of 3-hydroxyhexanoate, 3-hydroxyoctanoate, 3-hydroxydecanoate, and 3-hydroxydodecanoate from a wide range of carbon sources. In this study, the PHA synthase pha operon (phaC1-phaZ-phaC2) was knocked out and the vgb gene encoding vitreoscilla hemoglobin protein (VHb), which could enhance oxygen uptake rate especially at low oxygen concentration, was integrated into the P. putida KT2442 genome to replace the deleted fragment. The resulting mutant P. putida KTOY01 or gene-replaced mutant KTOY02 was used as the host to study PHA synthase properties and PHA production. Different PHA polymerase (PhaC) genes, phaC(Re) from Rastonia eutropha H16, phaC(Ac) from Aeromonas cavie, and phaC2(Ps) from Pseudomonas stutzeri 1317, were expressed in the mutant strains to test the PhaC enzyme substrate specificity. The result showed P. putida KTOY01 or KTOY02 could provide not only mcl PHA monomers but also 3-hydroxybutyrate from fatty acids, which may allow the production of copolyesters poly(3HB-co-mcl 3HA). Plasmid pCJY10 containing phaC2(Ps), phbA, and phbB genes encoding PHA polymerase, beta-ketothiolase, and acetoacetyl-CoA reductase, respectively, were transformed into P. putida KTOY01 and KTOY02. Shake-flask culture showed P. putida KTOY01 or KTOY02 (pCJY10) could accumulate poly(3HB-co-mcl 3HA) from glucose. The above result showed pha operon knockout mutant of P. putida KT2442 was a very useful host of great potential not only for studying PhaC synthase, but also for microbial production of copolyesters poly(3HB-co-mcl 3HA), which is very difficult to obtain.     

Cre/loxP-Mediated Multicopy Integration of the Mevalonate Operon into the Genome of <Emphasis Type="Italic">Methylobacterium extorquens</Emphasis> AM1

Methylobacterium extorquens AM1 is the model strain for methylotrophic bacteria that metabolize methanol as the sole carbon and energy source. Genetically modified M. extorquens AM1 is used as a methylotrophic cell factory (MeCF) for high value-added chemical production. We tested the Cre-loxP recombination system for its ability to mediate multicopy gene integration of the mvt3 operon (mvt3) in M. extorquens AM1. mvt3 controls the expression of the first three enzymes of the mevalonate synthesis pathway. We assayed for Cre-mediated multigene integration by screening for multicopy mutants via their survival in culture with a high kanamycin concentration (600 μg/mL). We identified mutant strains in which the mevalonate titer was increased by up to 1.9-fold compared with M2 (M. extorquens AM1ΔcelABCΔattTn7::mvt3::loxP) and confirmed mvt3 integration at 2–3 copies per genome. This result demonstrates the feasibility of multicopy integration in M. extorquens AM1 mediated by Cre-loxP recombination and its potential for improving the output of M. extorquens AM1 metabolic pathways, e.g., optimization of terpenoid synthesis.     

Construction of recombinant Escherichia coli strains for polyhydroxybutyrate production using soy waste as nutrient

Construction and comparison of recombinant Escherichia coli strains harboring the polyhydroxybutyrate (PHB) operon from Ralstonia entropha using vectors possessing different promotors, as well as the production of PHB from soy waste by the recombinant strain, are reported. The lac promotor was the most efficient on expression of the phb operon among the three promotors studied: i.e., lac promotor, T7 promotor and the normal σ⁷⁰ promotor. The pKS/PHB was the most efficient plasmid for phboperon expression among the three plasmids used: i.e., pKS⁻, pAED4, and pJM9131. It was observed that isopropyl-β-d-thiogalactopyranoside was not required for the induction of the expression of phb operon. The cell dry wt and polyhydroxyalkan cote content by E. coli XL-1 Blue (pKS/PHB) were 3.025 g/L and 27.83%, respectively.     

Functional genetic analysis reveals a 2-Alkyl-4-quinolone signaling system in the human pathogen Burkholderia pseudomallei and related bacteria

Pseudomonas aeruginosa synthesizes diverse 2-alkyl-4(1H)-quinolones (AHQs), including the signaling molecule 2-heptyl-3-hydroxy-4(1H)-quinolone (PQS), via the pqsABCDE locus. By examining the genome databases, homologs of the pqs genes were identified in other bacteria. However, apart from P. aeruginosa, only Burkholderia pseudomallei and B. thailandensis contained a complete pqsA-E operon (termed hhqA-E). By introducing the B. pseudomallei hhqA and hhqE genes into P. aeruginosa pqsA and pqsE mutants, we show that they are functionally conserved and restore virulence factor and PQS production. B. pseudomallei, B. thailandensis, B. cenocepacia, and P. putida each produced 2-heptyl-4(1H)-quinolone (HHQ), but not PQS. Mutation of hhqA in B. pseudomallei resulted in the loss of AHQ production, altered colony morphology, and enhanced elastase production, which was reduced to parental levels by exogenous HHQ. These data reveal a role for AHQs in bacterial cell-to-cell communication beyond that seen in P. aeruginosa.     

Differential gene expression in response to copper in Acidithiobacillus ferrooxidans analyzed by RNA arbitrarily primed polymerase chain reaction

Acidithiobacillus ferrooxidans is a chemoautotrophic bacterium that plays an important role in metal bioleaching processes. Despite the high level of tolerance to heavy metals shown by A. ferrooxidans, the genetic basis of copper resistance in this species remains unknown. We investigated the gene expression in response to copper in A. ferrooxidans LR using RNA arbitrarily primed polymerase chain reaction (RAP-PCR). One hundred and four differentially expressed genes were identified using eight arbitrary primers. Differential gene expression was confirmed by DNA slot blot hybridization, and approximately 70% of the RAP-PCR products were positive. The RAP-PCR products that presented the highest levels of induction or repression were cloned, sequenced and the sequences were compared with those in databases using the BLAST search algorithm. Seventeen sequences were obtained. The RAP-PCR product with the highest induction ratio showed similarity with the A. ferrooxidans cytochrome c. A high similarity with the thiamin biosynthesis gene thiC from Caulobacter crescentus was observed for another RAP-PCR product induced by copper. An RAP-PCR product repressed by copper showed significant similarity with the carboxysome operon that includes the ribulose-1,5-bisphosphate carboxylase/oxygenase complex from A. ferrooxidans and another copper-repressed product was significantly similar to the XyIN outer membrane protein from Pseudomonas putida. Finally, RAP-PCR products of unknown similarities were also present.     

Molecular analysis and heterologous expression of the gene encoding methylmalonyl—coenzyme a mutase from rifamycin SV-producing strain Amycolatopsis mediterranei U32

The conversion of succinyl-coenzyme A (CoA) into methylmalonyl-CoA, catalyzed by adenosylcobalamin-dependent methylmalonyl-CoA mutase (MCM), represents an important source of building blocks for rifamycin SV biosynthesis. The structural gene for MCM from rifamycin SV—producing strain Amycolatopsis mediterranei U32 was isolated by using a heterologous gene probe encoding the MCM of Streptomyces cinnamonensis. A 7.8-kbp fragment was sequenced and four complete open reading frames (ORFs) and two incomplete ORFs were found. Two central ORFs, ORF3 and ORF4, overlap by four nucleotides and were found to encode MCM small (602 residues) and large (721 residues) subunits, respectively. Comparison showed that the MCM gene of A. mediterranei U32 was quite similar to those from other sources. The functionally unknown ORF5, immediately downstream of the mut AB gene, was quite similar to the ORFs downstream of mut AB from S. cinnamonensis and Mycobacterium tuberculosis. Such a striking cross-species conservation of gene order suggested that ORF5 could also be involved in the metabolism of methylmalonyl-CoA. MCM gene was overexpressed in Escherichia coli under T7 promoter, and MCM activity could be detected in the recombinant E. coli clone harboring MCM gene after the addition of coenzyme B₁₂. A purification procedure based on the B₁₂ affinity column was established to purify the MCM from E. coli. The molecular weight of purified MCM from E. coli was determined by sodium dodecyl sulfate polyacrylamide gel electrophoresis, which corresponds to that calculated from the MCM protein sequence and is also the same size as that of the enzyme purified directly from A. mediterranei U32. MCM gene was overexpressed in polyketide monensin producing S. cinnamonensis, and the total monensin production was increased by 32%. Both authors contributed equally to this paper.     

By-products of the cider production: an alternative source of nutrients to produce bacterial cellulose

In the present work a culture process to produce bacterial cellulose (BC) using by-products of the cider production from the Basque Country was investigated. The apple pomace was mixed with sugar cane (AR/SC medium) and the mixture was found to be a potential carbon source for Gluconacetobacter medellinensis strain ID13488 since higher cellulose production was observed with respect to the commercial Hestrin and Shramm medium (H–S). The culture media were characterized in terms of pH, oxygen and sugars consumption. The expression level of the operon bcs (genes involved in BC biosynthesis) in apple residue containing medium respect to standard H–S medium was determined. It was found that in AR/SC medium the expression levels of bcsA gene, wich is the first gene of the bcs operon, was increased in 1.5-fold respect to the H–S media which correlates with the fact that BC production in AR/SC media is higher than in H–S media. The physico-chemical and mechanical properties, microstructure, crystallinity and water holding capacity of the biosynthesized BC membranes were analyzed and it was found that, in general, the BC obtained from AR/SC medium presented superior properties than that obtained from H–S medium. In this study an economic method for BC production is proposed with suitable properties for many applications.     

MCM-41负载钨磷杂多酸催化剂的性能研究

制备并表征MCM-41负载H~3PW~1~2O~4~0(PW)催化剂.PW杂多酸在MCM-41上负载量高达70%(质量分数)时,XRD中仍未检测到其晶相峰.PW杂多酸与MCM-41载体的相互作用要比与SiO~2载体的强.PW杂多酸中的质子位是非常强的酸中心,它们对NH~3的微分吸附热在160-180kJ/mol的范围.与PW杂多酸相比,PW/MCM-41催化剂的酸中心强度变弱并且分布不均匀,其酸量和酸中心分布可以通过改变PW杂多酸的负载量来调节.PW/MCM-41是一类适合于中强酸和弱酸催化反应的新型固体酸催化剂。     

Improvement of Nitrogen Supply for L-Threonine Production by a Recombinant Strain of Serratia marcescens

Serratia marcescens T-2000 was previously reported to be an l-threonine-producing strain that harbors the recombinant plasmid carrying the mutant-type threonine operon. This strain produced 55 g of l-threonine/L of the medium containing urea as a nitrogen source after 72 h of cultivation. In the urea-containing medium, transitory stop of the growth was observed during the early period of cultivation when the entire amount of ammonium ion formed from urea via heat decomposition disappeared in the medium. This indicated that the shortage of ammonium supply in cells might delay both the cell growth and the l-threonine production. The use of ammonia water as a nitrogen source for l-threonine production was therefore studied, because microbial cells generally assimilate this source more readily than urea. When ammonia water was automatically fed to the medium so as to maintain the pH of the medium at around 7, the growth was accelerated, and the l-threonine production reached a maximum of 65 g/L at 48 h. Under these conditions, sucrose, a carbon source, was continuously fed to the medium, resulting in the production of 100 g of l-threonine/L at 96 h. Thus, the l-threonine productivity of the recombinant l-threonine-producing strain could be increased by devising the method for supply of a nitrogen source.     

A synthetic DNA and fusion PCR approach to the ectopic expression of high levels of the D1 protein of photosystem II in Synechocystis sp. PCC 6803

A hybrid approach involving synthetic DNA, fusion PCR, and ectopic expression has been used to genetically manipulate the expression of the D1 protein of photosystem II (PSII) in the model cyanobacterium Synechocystis sp. PCC6803. Due to the toxicity of the full-length psbA gene in E. coli, a chimeric psbA2 gene locus was commercially synthesised and cloned in two halves. High-fidelity fusion PCR utilizing sequence overlap between the two synthetic gene halves allowed the production of a DNA fragment that was able to recombine the full-length psbA2 gene into the Synechocystis chromosome at an ectopic (non-native) location. This was accomplished by designing the synthetic DNA/fusion PCR product to have the psbA2 gene, with control sequences, interposed between chimeric sequences corresponding to an ectopic target chromosomal location. Additionally, a recipient strain of Synechocystis lacking all three psbA genes was produced by a combination of traditional marker replacement and markerless replacement techniques. Transformation of this multiple deletion strain by the synthetic DNA/fusion PCR product faithfully restored D1 expression in terms of its expression and PSII repair capacity. The advantages and potential issues for using this approach to rapidly introduce chimeric sequence characteristics as a general tool to produce novel genetic constructs are discussed.     

Construction and evaluation of nagR-nagAa::lux fusion strains in biosensing for salicylic acid derivatives

The NagR protein is a response regulatory protein found in the bacterium Ralstonia sp. U2 that is involved in sensing for salicylic acid and the subsequent induction of the operon just upstream of its gene. The genes encoded for in this operon are involved in the degradation of salicylic acid. Escherichia coli strain RFM443 carrying a fusion of the Photorhabdus luminescens luxCDABE operon with the nagR gene and upstream region of the nagAa gene was constructed and characterized with respect to its optimum temperature, its response time and kinetics, and its ability to detect numerous benzoic acid derivatives. Although capable of detecting 0.5 mM salicylic acid at any temperature between 28 and 40 degrees C, this E. coli strain, labeled DNT5, showed its greatest relative activity at 30 degrees C, i.e., the temperature at which the largest induction was seen. Furthermore, experiments done with numerous benzoic acid derivatives found the NagR protein to be responsive to only a few of the compounds tested, including salicylic acid and 3-methyl salicylic acid, and acetyl salicylic acid was the strongest inducer. The lower limits of detection for these compounds with E. coli strain DNT5 were also established, with the native inducer, salicylic acid, giving the most sensitive response and detectable down to a concentration of about 2 microM. A second lux fusion plasmid was also constructed and transformed into an NahR background, Pseudomonas putida KCTC1768. Within this strain, NAGK-1768, the supplemental activity of the NahR protein on the nagAa promoter, was shown to extend both the range of chemicals detected and the sensitivity.     

An artificial pathway to 3,4-dihydroxybenzoic acid allows generation of new aminocoumarin antibiotic recognized by catechol transporters of E. coli

An artificial operon was synthesized, consisting of the genes for chorismate pyruvate-lyase of E. coli and for 4-hydroxybenzoate 3-hydroxylase of Corynebacterium cyclohexanicum. This operon, directing the biosynthesis of 3,4-dihdroxybenzoate, was expressed in the heterologous expression host Streptomyces coelicolor M512, together with a modified biosynthetic gene cluster for the aminocoumarin antibiotic clorobiocin. The resulting strain produced a clorobiocin derivative containing a 3,4-dihdroxybenzoyl moiety. Its structure was confirmed by MS and NMR analysis, and it was found to be a potent inhibitor of the gyrases from Escherichia coli and Staphylococcus aureus. Bioassays against different E. coli mutants suggested that this compound is actively imported by catechol siderophore transporters in the cell envelope. This study provides an example of the structure of a natural product that can be rationally modified by synthetic biology.     

Adhesion of Pseudomonas putida NCIB 9816-4 to a naphthalene-contaminated soil

The effect of a soil contaminant on the initial adhesion to the soil of a contaminant-degrading soil microorganism in the exponential phase was investigated using naphthalene as the soil contaminant and Pseudomonas putida strain NCIB 9816-4 as the naphthalene-degrading bacteria. P. putida strain DK-1, which is not capable of degrading naphthalene, was used as a control. P. putida NCIB 9816-4 in the exponential phase showed the more adhesion to the soil than that in the stationary phase. In contrast, P. putida DK-1 showed the increased adhesion to the soil when it was in the stationary phase. P. putida NCIB 9816-4 in the exponential phase showed the preferred adhesion to the naphthalene-contaminated soil, whereas the adhesion of P. putida DK-1 was not affected by naphthalene. From the data of surface hydrophobicities of the cells and the soil, the microbial adhesion, especially the initial adhesion to the naphthalene-contaminated soil, takes place through the hydrophobic interaction. We suspect that the surface hydrophobicity of P. putida NCIB 9816-4 in the exponential phase might be increased during the uptake of naphthalene, which caused the preferred adhesion to the naphthalene-contaminated soil.     

双组元Y／MCM-41中微孔复合分子筛的合成和表征

通过原位处理分步晶化、水热合成的方法，首次从NaY凝胶出发制备了含有Y和 MCM-41两种分子筛成分的Y/MCM-41中微孔复合分子筛新材料，考察了合成条件对复 合分子筛晶化的影响。利用层厚法和相对结晶度工作曲线法确定了复合材料中两种 分子筛的相对含量。通过XRD，MAS NMR，SEM，XPS，IR，N_2吸附脱附、热处理等 手段对复合材料进行了表征，并与MCM-41和Y型分子筛的有关性能进行了对比研究 。结果表明，复合分子筛材料的热和水热稳定性高于相同分子筛比例的机械混合样 品。与机械混合物样品相比，其中孔表现出孔径缩小、也道规整性变差、孔壁增厚 和部发结晶化的特点，复合材料中两种分子筛之间存在界面效应，推测Y/MCM-41复 合分子筛材具有“包覆式”结构特征。以模型化合物理学，3，5-三异丙基为进料 考察了其催化裂化活性，中微孔复合分子筛的催化裂化活性优于机械混合样品。     

孔壁含有沸石次级结构单元的MCM-48的合成及催化研究

以双表面活性剂（双极性头表面活性剂和三乙醇胺）为模板，以含有沸石次级结构单元的溶胶为前驱体，在碱性条件下合成了新型介孔分子筛MCM 48。研究了沸石前驱体和三乙醇胺对产物MCM 48形成的影响，XRD和TEM表征结果表明，样品具有较高的结晶度和规则的孔径；FTIR和N2吸附表征结果表明，产物MCM 48的孔壁中含有沸石的次级结构单元，从而使得样品具有更大的比表面积。产物的重芳烃轻质化反应催化活性表明，实验样品对重芳烃的转化率比常规的MCM 48高，转化率约高出11%，进一步证明了实验样品的孔壁中含有沸石的结构单元。     

Preparation of MCM-41 in Industrial Scale and Its Application in Heavy Oil Processing

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INDUCTION OF UMUC+ GENE EXPRESSION IN Escherichia coli IRRADIATED BY NEAR ULTRAVIOLET LIGHT

Abstract— The induction of umu + gene expression caused by irradiation with near ultraviolet light (BLB; black light blue) was studied in Escherichia coli K-12 strains with special reference to the effects of SOS repair deficiencies. The umuC + gene expression was measured as the enzymic activity of (J-galactosidase which is regulated by the promoter of the umuC + operon carried in a plasmid DNA carrying a promoter of umuC* operon, a umuD + gene and a umuC +- lacZ + gene fusion. A high induction of the umuC + gene expression was observed in the uvrA cells in the case of BLB or UV irradiation as compared with the parental wild-type cells. Caffeine inhibited the induction of the umuC* gene expression due to BLB or UV irradiation in both strains. There was very little induction in lexA and recA mutants. In contrast with UV irradiation, there was no killing of cells by BLB irradiation in any strain (wild, uvrA, lexA and recA). Possible implications of the present experimental results were discussed.