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1.
J Chem Educ ; 100(4): 1446-1454, 2023 Apr 11.
Artigo em Inglês | MEDLINE | ID: mdl-37067876

RESUMO

This laboratory exercise integrates chemistry and biology concepts to give third/fourth-year undergraduate students an opportunity to apply knowledge from different subject areas to address a real-world biomedical issue such as pathogen inhibition using composite materials. It involves the preparation of a bacteria-derived cellulosic biopolymer through microbial cultivation, impregnation of the bacterial cellulose (BC) with silver nanoparticles (AgNPs), followed by the analysis of the materials and the antimicrobial properties of the biomaterial-AgNPs composites. The methods are relatively simple and use inexpensive chemicals. A Tollens type approach is adopted to produce silver nanoparticles-bacterial cellulose (AgNPs-BC) composites by the reduction of [Ag(NH3)2]+ complex embedded in the cellulose matrix. The samples were dried by two different methods: freeze-drying or vacuum-drying. The dried AgNPs-BC films were evaluated for antimicrobial properties against a test organism, in this example, Pseudomonas aeruginosa, a Gram-negative biosafety containment level 2 (BSL 2) bacterium, using an agar diffusion test. For additional flexibility and customization, options for dividing the chemistry/biology content of this laboratory into smaller units with an emphasis on characterization techniques of nanomaterials for chemistry majors are also discussed.

2.
Curr Res Food Sci ; 3: 51-58, 2020 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-32914120

RESUMO

Fermented dairy products have become attractive functional foods for the delivery of probiotics and their biologically active metabolites. The aim of this study was to examine the immunomodulatory activity of milk fermented with the probiotic lactic acid bacterium Lactobacillus rhamnosus R0011 (LrF) on macrophages challenged with lipopolysaccharide (LPS), a potent pro-inflammatory stimulus. To this end, human THP-1 or U937 monocytes were differentiated into resting macrophages then stimulated with LPS and co-incubated with the LrF or with milk controls. Levels of pro-inflammatory and immunoregulatory cytokines were determined by enzyme-linked immunosorbent assays. Culturing of LPS-stimulated U937 macrophages with either the whole or filtered LrF resulted in an increase in Interleukin (IL)-1Ra production relative to the negative control. THP-1 macrophages cultured with the LrF demonstrated an increase in LPS-induced IL-10 and IL-1ß production, while production of LPS-induced IL-6, sCD54, IL-8, IL-1ß, TNF-α, IL-12p70 and Transforming Growth Factor-ß (TGF-ß) was unaffected. Further, the LrF induced the expression of DC-SIGN and CD206, markers of immunoregulatory M2 macrophage polarization, in LPS-challenged THP-1 macrophages. Taken together, milk fermented with L. rhamnosus R0011 increased regulatory cytokine production from LPS-challenged U937 and THP-1 macrophages, while simultaneously up-regulating the production of IL-1ß and expression of DC-SIGN and CD206, a profile characteristic of polarization into the immunoregulatory M2 macrophage phenotype.

3.
BMC Microbiol ; 19(1): 216, 2019 09 12.
Artigo em Inglês | MEDLINE | ID: mdl-31514737

RESUMO

BACKGROUND: Cellulose is synthesized by an array of bacterial species. Komagataeibacter xylinus is the best characterized as it produces copious amounts of the polymer extracellularly. Despite many advances in the past decade, the mechanisms underlying cellulose biosynthesis are not completely understood. Elucidation of these mechanisms is essential for efficient cellulose production in industrial applications. RESULTS: In an effort to gain a better understanding of cellulose biosynthesis and its regulation, cellulose crystallization was investigated in K. xylinus mutants resistant to an inhibitor of cellulose I formation, pellicin. Through the use of forward genetics and site-directed mutagenesis, A449T and A449V mutations in the K. xylinus BcsA protein were found to be important for conferring high levels of pellicin resistance. Phenotypic analysis of the bcsAA449T and bcsAA449V cultures revealed that the mutations affect cellulose synthesis rates and that cellulose crystallinity is affected in wet pellicles but not dry ones. CONCLUSIONS: A449 is located in a predicted transmembrane domain of the BcsA protein suggesting that the structure of the transmembrane domain influences cellulose crystallization either by affecting the translocation of the nascent glucan chain or by allosterically altering protein-protein interactions.


Assuntos
Proteínas de Bactérias/genética , Celulose/biossíntese , Gluconacetobacter xylinus/metabolismo , Glucosiltransferases/genética , Proteínas de Bactérias/química , Celulose/antagonistas & inibidores , Celulose/química , Chalconas/farmacologia , Cristalização , Farmacorresistência Bacteriana/genética , Gluconacetobacter xylinus/efeitos dos fármacos , Gluconacetobacter xylinus/genética , Gluconacetobacter xylinus/ultraestrutura , Glucosiltransferases/química , Mutação de Sentido Incorreto , Oxocinas/farmacologia , Domínios Proteicos
4.
Front Immunol ; 9: 2639, 2018.
Artigo em Inglês | MEDLINE | ID: mdl-30524427

RESUMO

Host intestinal epithelial cells (IEC) present at the gastrointestinal interface are exposed to pathogenic and non-pathogenic bacteria and their products. Certain probiotic lactic acid bacteria (LAB) have been associated with a range of host-immune modulatory activities including down-regulation of pro-inflammatory gene expression and cytokine production by IEC, with growing evidence suggesting that these bacteria secrete bioactive molecules with immunomodulatory activity. The aim of this study was to determine whether two lactobacilli with immunomodulatory activity [Lactobacillus rhamnosus R0011 (Lr) and Lactobacillus helveticus R0389 (Lh)], produce soluble mediators able to influence IEC responses to Pattern Recognition Receptor (PRR) ligands and pro-inflammatory cytokines [Tumor Necrosis Factor α (TNFα), Interleukin-1ß (IL-1ß)], signals inducing IEC chemokine production during infection. To this end, the effects of cell-free supernatants (CFS) from Lr and Lh on IEC production of the pro-inflammatory chemokines interleukin (IL)-8 and cytokine-induced neutrophil chemoattractant 1 (CINC-1) induced by a range of host- or pathogen-derived pro-inflammatory stimuli were determined, and the impact on human HT-29 IEC and a primary IEC line (rat IEC-6) was compared. The Lr-CFS and Lh-CFS did not significantly modulate basal IL-8 production from HT-29 IECs or CINC-1 production from IEC-6 cells. However, both Lr-CFS and Lh-CFS significantly down-regulated IL-8 production from HT-29 IECs challenged with varied PRR ligands. Lr-CFS and Lh-CFS had differential effects on PRR-induced CINC-1 production by rat IEC-6 IECs, with no significant down-regulation of CINC-1 observed from IEC-6 IECs cultured with Lh-CFS. Further analysis of the Lr-CFS revealed down-regulation of IL-8 production induced by the pro-inflammatory cytokines IL-1ß and TNFα Preliminary characterization of the bioactive constituent(s) of the Lr-CFS indicates that it is resistant to treatment with DNase, RNase, and an acidic protease, but is sensitive to alterations in pH. Taken together, these results indicate that these lactobacilli secrete bioactive molecules of low molecular weight that may modulate host innate immune activity through interactions with IEC.


Assuntos
Quimiocinas/imunologia , Células Epiteliais/imunologia , Células Epiteliais/microbiologia , Mucosa Intestinal/imunologia , Mucosa Intestinal/microbiologia , Lacticaseibacillus rhamnosus/imunologia , Lactobacillus helveticus/imunologia , Animais , Linhagem Celular Tumoral , Humanos , Ratos
5.
Front Plant Sci ; 9: 1152, 2018.
Artigo em Inglês | MEDLINE | ID: mdl-30197649

RESUMO

The cellulose synthase (CESA) proteins in Arabidopsis play an essential role in the production of cellulose in the cell walls. Herbicides such as isoxaben and flupoxam specifically target this production process and are prominent cellulose biosynthesis inhibitors (CBIs). Forward genetic screens in Arabidopsis revealed that mutations that can result in varying degrees of resistance to either isoxaben or flupoxam CBI can be attributed to single amino acid substitutions in primary wall CESAs. Missense mutations were almost exclusively present in the predicted transmembrane regions of CESA1, CESA3, and CESA6. Resistance to isoxaben was also conferred by modification to the catalytic residues of CESA3. This resulted in cellulose deficient phenotypes characterized by reduced crystallinity and dwarfism. However, mapping of mutations to the transmembrane regions also lead to growth phenotypes and altered cellulose crystallinity phenotypes. These results provide further genetic evidence supporting the involvement of CESA transmembrane regions in cellulose biosynthesis.

6.
J Vis Exp ; (117)2016 11 10.
Artigo em Inglês | MEDLINE | ID: mdl-27911402

RESUMO

Ethylene (C2H4) is a gaseous phytohormone that is involved in numerous aspects of plant development, playing a dominant role in senescence and fruit ripening. Exogenous ethylene applied during early plant development triggers the triple response phenotype; a shorter and thicker hypocotyl with an exaggerated apical hook. Despite the intimate relationship between plants and bacteria, the effect of exogenous ethylene on bacteria has been greatly overlooked. This is partly due to the difficulty of controlling gaseous ethylene within the laboratory without specialized equipment. 2-Chloroethylphosphonic acid (CEPA) is a compound that decomposes into ethylene, chlorine, and phosphate in a 1:1:1:1 molar ratio when dissolved in an aqueous medium of pH 3.5 or greater. Here we describe the use of CEPA to produce in situ ethylene for the investigation of ethylene response in bacteria using the fruit-associated, cellulose-producing bacterium Komagataeibacter xylinus as a model organism. The protocols described herein include both the verification of ethylene production from CEPA via the Arabidopsis thaliana triple response assay and the effects of exogenous ethylene on K. xylinus cellulose production, pellicle properties and colonial morphology. These protocols can be adapted to examine the effect of ethylene on other microbes using appropriate growth media and phenotype analyses. The use of CEPA provides researchers with a simple and efficient alternative to pure ethylene gas for the routine determination of bacterial ethylene response.


Assuntos
Etilenos , Compostos Organofosforados , Arabidopsis , Bactérias , Hipocótilo , Reguladores de Crescimento de Plantas
7.
Front Microbiol ; 6: 1282, 2015.
Artigo em Inglês | MEDLINE | ID: mdl-26635751

RESUMO

Bacterial cellulose (BC) serves as a molecular glue to facilitate intra- and inter-domain interactions in nature. Biosynthesis of BC-containing biofilms occurs in a variety of Proteobacteria that inhabit diverse ecological niches. The enzymatic and regulatory systems responsible for the polymerization, exportation, and regulation of BC are equally as diverse. Though the magnitude and environmental consequences of BC production are species-specific, the common role of BC-containing biofilms is to establish close contact with a preferred host to facilitate efficient host-bacteria interactions. Universally, BC aids in attachment, adherence, and subsequent colonization of a substrate. Bi-directional interactions influence host physiology, bacterial physiology, and regulation of BC biosynthesis, primarily through modulation of intracellular bis-(3'→5')-cyclic diguanylate (c-di-GMP) levels. Depending on the circumstance, BC producers exhibit a pathogenic or symbiotic relationship with plant, animal, or fungal hosts. Rhizobiaceae species colonize plant roots, Pseudomonadaceae inhabit the phyllosphere, Acetobacteriaceae associate with sugar-loving insects and inhabit the carposphere, Enterobacteriaceae use fresh produce as vehicles to infect animal hosts, and Vibrionaceae, particularly Aliivibrio fischeri, colonize the light organ of squid. This review will highlight the diversity of the biosynthesis and regulation of BC in nature by discussing various examples of Proteobacteria that use BC-containing biofilms to facilitate host-bacteria interactions. Through discussion of current data we will establish new directions for the elucidation of BC biosynthesis, its regulation and its ecophysiological roles.

8.
Crit Rev Biotechnol ; 35(3): 281-93, 2015.
Artigo em Inglês | MEDLINE | ID: mdl-24156399

RESUMO

Lignocellulosic biomass (LB) is a promising sugar feedstock for biofuels and other high-value chemical commodities. The recalcitrance of LB, however, impedes carbohydrate accessibility and its conversion into commercially significant products. Two important factors for the overall economization of biofuel production is LB pretreatment to liberate fermentable sugars followed by conversion into ethanol. Sustainable biofuel production must overcome issues such as minimizing water and energy usage, reducing chemical usage and process intensification. Amongst available pretreatment methods, microorganism-mediated pretreatments are the safest, green, and sustainable. Native biodelignifying agents such as Phanerochaete chrysosporium, Pycnoporous cinnabarinus, Ceriporiopsis subvermispora and Cyathus stercoreus can remove lignin, making the remaining substrates amenable for saccharification. The development of a robust, integrated bioprocessing (IBP) approach for economic ethanol production would incorporate all essential steps including pretreatment, cellulase production, enzyme hydrolysis and fermentation of the released sugars into ethanol. IBP represents an inexpensive, environmentally friendly, low energy and low capital approach for second-generation ethanol production. This paper reviews the advancements in microbial-assisted pretreatment for the delignification of lignocellulosic substrates, system metabolic engineering for biorefineries and highlights the possibilities of process integration for sustainable and economic ethanol production.


Assuntos
Biocombustíveis , Biomassa , Biotecnologia/métodos , Lignina , Hidrólise , Lignina/química , Lignina/metabolismo
9.
Front Microbiol ; 6: 1459, 2015.
Artigo em Inglês | MEDLINE | ID: mdl-26733991

RESUMO

Komagataeibacter (formerly Gluconacetobacter) xylinus ATCC 53582 is a plant-associated model organism for bacterial cellulose (BC) biosynthesis. This bacterium inhabits the carposphere where it interacts with fruit through the bi-directional transfer of phytohormones. The majority of research regarding K. xylinus has been focused on identifying and characterizing structural and regulatory factors that control BC biosynthesis, but its ecophysiology has been generally overlooked. Ethylene is a phytohormone that regulates plant development in a variety of ways, but is most commonly known for its positive role on fruit ripening. In this study, we utilized ethephon (2-chloroethylphosphonic acid) to produce in situ ethylene to investigate the effects of this phytohormone on BC production and the expression of genes known to be involved in K. xylinus BC biosynthesis (bcsA, bcsB, bcsC, bcsD, cmcAx, ccpAx and bglAx). Using pellicle assays and reverse transcription quantitative polymerase chain reaction (RT-qPCR), we demonstrate that ethephon-derived ethylene enhances BC directly in K. xylinus by up-regulating the expression of bcsA and bcsB, and indirectly though the up-regulation of cmcAx, ccpAx, and bglAx. We confirm that IAA directly decreases BC biosynthesis by showing that IAA down-regulates bcsA expression. Similarly, we confirm that ABA indirectly influences BC biosynthesis by showing it does not affect the expression of bcs operon genes. In addition, we are the first to report the ethylene and indole-3-acetic acid (IAA) induced differential expression of genes within the bacterial cellulose synthesis (bcs) operon. Using bioinformatics we have identified a novel phytohormone-regulated CRP/FNRKx transcription factor and provide evidence that it influences BC biosynthesis in K. xylinus. Lastly, utilizing current and previous data, we propose a model for the phytohormone-mediated fruit-bacteria interactions that K. xylinus experiences in nature.

10.
PLoS One ; 6(12): e28015, 2011.
Artigo em Inglês | MEDLINE | ID: mdl-22174763

RESUMO

Pellicin ([2E]-3-phenyl-1-[2,3,4,5-tetrahydro-1,6-benzodioxocin-8-yl]prop-2-en-1-one) was identified in a chemical genetics screen of 10,000 small molecules for its ability to completely abolish pellicle production in Gluconacetobacter xylinus. Cells grown in the presence of pellicin grew 1.5 times faster than untreated cells. Interestingly, growth in pellicin also caused G. xylinus cells to elongate. Measurement of cellulose synthesis in vitro showed that cellulose synthase activity was not directly inhibited by pellicin. Rather, when cellulose synthase activity was measured in cells that were pre-treated with the compound, the rate of cellulose synthesis increased eight-fold over that observed for untreated cells. This phenomenon was also apparent in the rapid production of cellulose when cells grown in the presence of pellicin were washed and transferred to media lacking the inhibitor. The rate at which cellulose was produced could not be accounted for by growth of the organism. Pellicin was not detected when intracellular contents were analyzed. Furthermore, it was found that pellicin exerts its effect extracellularly by interfering with the crystallization of pre-cellulosic tactoidal aggregates. This interference of the crystallization process resulted in enhanced production of cellulose II as evidenced by the ratio of acid insoluble to acid soluble product in in vitro assays and confirmed in vivo by scanning electron microscopy and powder X-ray diffraction. The relative crystallinity index, RCI, of pellicle produced by untreated G. xylinus cultures was 70% while pellicin-grown cultures had RCI of 38%. Mercerized pellicle of untreated cells had RCI of 42%, which further confirms the mechanism of action of pellicin as an inhibitor of the cellulose I crystallization process. Pellicin is a useful tool for the study of cellulose biosynthesis in G. xylinus.


Assuntos
Celulose/antagonistas & inibidores , Chalconas/farmacologia , Técnicas de Química Combinatória/métodos , Gluconacetobacter xylinus/efeitos dos fármacos , Oxocinas/farmacologia , Bibliotecas de Moléculas Pequenas/análise , Bibliotecas de Moléculas Pequenas/farmacologia , Celulose/biossíntese , Chalconas/química , Cristalização , Meios de Cultura/farmacologia , Espaço Extracelular/efeitos dos fármacos , Espaço Extracelular/metabolismo , Gluconacetobacter xylinus/citologia , Gluconacetobacter xylinus/crescimento & desenvolvimento , Gluconacetobacter xylinus/ultraestrutura , Glucosiltransferases/metabolismo , Oxocinas/química , Bibliotecas de Moléculas Pequenas/química , Difração de Raios X
11.
J Ind Microbiol Biotechnol ; 37(1): 35-41, 2010 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-19784681

RESUMO

Streptomyces strains were isolated from a sagebrush rhizosphere soil sample on humic acid vitamin (HV) agar and water yeast extract (WYE) agar supplemented with 1.5% (w/w) phenol as a selective medium. Acidic, neutral and alkaline pH conditions were also used in the isolation procedures. The phenol treatment reduced the numbers of both actinomycetes and non-actinomycetes on plates under all three pH conditions. From phenol-amended HV and WYE agar, 16 strains were isolated in pure culture; 14 from the HV agar and two from the WYE agar. All the isolates were tested for their antifungal activities against Pythium ultimum P8 and five yeast strains, including two antifungal drug-resistant Candida albicans strains. HV isolates that showed broad-spectrum antifungal antibiotic activities were all found to be members of the Streptomyces violaceusniger clade, while those that did not were non-clade members. The phenol treatment was not selective for S. violaceusniger clade members. Therefore, we tested the spores of both S. violaceusniger clade and non-clade members using two biocides, phenol and hydrogen peroxide, as selection agents. Spores of non-clade members, such as S. coelicolor M145 and S. lividans TK 21, survived these two biocides just as well as S. violaceusniger clade members. Thus, in our hands, biocide resistance was not S. violaceusniger clade specific as previously reported. However, isolates showing broad-spectrum antifungal and antiyeast activity were all members of the clade. We conclude that screening of isolates for broad-spectrum antifungal/antiyeast activity is the preferred method of isolating S. violaceusniger clade strains rather than biocide-based selection. Phylogenetic analysis of the phenol-resistant isolates revealed that the HV isolates that exhibited broad-spectrum antifungal antibiotic activity were all clustered and closely related to the S. violaceusniger clade, while the isolates that did not exhibit antifungal antibiotic activity were all non-clade members.


Assuntos
Candida albicans/patogenicidade , Streptomyces/isolamento & purificação , Streptomyces/fisiologia , Antifúngicos/metabolismo , DNA Bacteriano/genética , DNA Ribossômico/genética , Concentração de Íons de Hidrogênio , Microbiologia Industrial , Fenol/farmacologia , Filogenia , Doenças das Plantas/microbiologia , Doenças das Plantas/prevenção & controle , Plantas/microbiologia , Microbiologia do Solo , Esporos Bacterianos/efeitos dos fármacos , Streptomyces/classificação , Streptomyces/genética
12.
Syst Appl Microbiol ; 32(4): 233-44, 2009 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-19217233

RESUMO

Many proteins produced by Bacillus species isolated from extreme environments have been utilized for industrial purposes, as these extreme environments often promote evolution of unique protein properties. The Borax Lake area is unusual due to its geothermal activity, elevated pH, and high arsenic and salt concentrations in its soils. Soils from this region are likely to harbor alkalitolerant, halotolerant, endospore-forming strains that may be of potential ecological and/or commercial interest. The objectives of this study were to develop new PCR primers that could target Bacillus or closely related 16S rRNA genes, to characterize the diversity of alkalitolerant, halotolerant, endospore-forming organisms in the soils surrounding Borax Lake, and to identify novel organisms that may ultimately provide new enzymes for applied use. A three-pronged approach was used to identify such bacteria in soil samples. Organisms were isolated using two different techniques. Finally, metagenomic DNA from soil samples was subjected to 16S rRNA gene amplification using the newly designed primers. Assays were performed to characterize the halotolerance and alkalitolerance of isolates. Four different endospore-forming genera and 22 different species were identified by sequencing their 16S rRNA genes. Twenty-five organisms had 96% or less identity to known organisms. Thus, the newly designed Bacillus-related PCR primer sets proved useful for the detection of new species of endospore-forming bacteria in these unique soils. Results indicate that the collection of strains obtained from the Borax Lake region represents a rich source of alkalitolerant, halotolerant, endospore formers.


Assuntos
Bacillus/classificação , Biodiversidade , Bactérias Formadoras de Endosporo/classificação , Microbiologia do Solo , Álcalis , Bacillus/genética , Bacillus/isolamento & purificação , Bactérias Aeróbias/classificação , Bactérias Aeróbias/genética , Bactérias Aeróbias/isolamento & purificação , Sequência de Bases , Primers do DNA , Bactérias Formadoras de Endosporo/genética , Bactérias Formadoras de Endosporo/isolamento & purificação , Dados de Sequência Molecular , Oregon , Filogenia , RNA Ribossômico 16S/classificação , RNA Ribossômico 16S/genética , Tolerância ao Sal
13.
Biodegradation ; 18(5): 525-39, 2007 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-17123025

RESUMO

Man-made polychlorinated phenols such as pentachlorophenol (PCP) have been used extensively since the 1920s as preservatives to prevent fungal attack on wood. During this time, they have become serious environmental contaminants. Despite the recent introduction of PCP in the environment on an evolutionary time scale, PCP-degrading bacteria are present in soils worldwide. The initial enzyme in the PCP catabolic pathway of numerous sphingomonads, PCP-4-monooxygenase (PcpB), catalyzes the para-hydroxylation of PCP to tetrachlorohydroquinone and is encoded by the pcpB gene. This review examines the literature concerning pcpB and supports the suggestion that pcpB/PcpB should be considered a model system for the study of recent evolution of catabolic pathways among bacteria that degrade xenobiotic molecules introduced into the environment during the recent past.


Assuntos
Biodegradação Ambiental , Oxigenases de Função Mista/genética , Oxigenases de Função Mista/fisiologia , Pentaclorofenol/metabolismo , Proteínas de Bactérias/metabolismo , Evolução Biológica , Catálise , Clonagem Molecular , Meio Ambiente , Técnicas de Transferência de Genes , Hidroxilação , Modelos Químicos , Modelos Genéticos , Filogenia , Sphingomonas/metabolismo , Xenobióticos/química
14.
Appl Environ Microbiol ; 71(4): 2016-25, 2005 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-15812034

RESUMO

PCR amplification, restriction fragment length polymorphism, and phylogenetic analysis of oxygenase genes were used for the characterization of in situ methane- and ammonia-oxidizing bacteria from free-living and attached communities in the Eastern Snake River Plain aquifer. The following three methane monooxygenase (MMO) PCR primer sets were used: A189-A682, which amplifies an internal region of both the pmoA gene of the MMO particulate form and the amoA gene of ammonia monooxygenase; A189-mb661, which specifically targets the pmoA gene; and mmoXA-mmoXB, which amplifies the mmoX gene of the MMO soluble form (sMMO). Whole-genome amplification (WGA) was used to amplify metagenomic DNA from each community to assess its applicability for generating unbiased metagenomic template DNA. The majority of sequences in each archive were related to oxygenases of type II-like methanotrophs of the genus Methylocystis. A small subset of type I sequences found only in free-living communities possessed oxygenase genes that grouped nearest to Methylobacter and Methylomonas spp. Sequences similar to that of the amoA gene associated with ammonia-oxidizing bacteria (AOB) most closely matched a sequence from the uncultured bacterium BS870 but showed no substantial alignment to known cultured AOB. Based on these functional gene analyses, bacteria related to the type II methanotroph Methylocystis sp. were found to dominate both free-living and attached communities. Metagenomic DNA amplified by WGA showed characteristics similar to those of unamplified samples. Overall, numerous sMMO-like gene sequences that have been previously associated with high rates of trichloroethylene cometabolism were observed in both free-living and attached communities in this basaltic aquifer.


Assuntos
Variação Genética , Methylococcaceae/classificação , Methylocystaceae/classificação , Oxigenases/genética , Rios/microbiologia , Abastecimento de Água , Amônia/metabolismo , DNA Bacteriano/análise , Idaho , Metano/metabolismo , Methylococcaceae/enzimologia , Methylococcaceae/genética , Methylocystaceae/enzimologia , Methylocystaceae/genética , Oxirredução , Oxirredutases/genética , Oxirredutases/metabolismo , Oxigenases/metabolismo , Filogenia , Reação em Cadeia da Polimerase , Polimorfismo de Fragmento de Restrição , Análise de Sequência de DNA
15.
J Ind Microbiol Biotechnol ; 31(6): 278-88, 2004 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-15221668

RESUMO

Prolonged use of broad-spectrum antibiotics has led to the emergence of drug-resistant pathogens, both in medicine and in agriculture. New threats such as biological warfare have increased the need for novel and efficacious antimicrobial agents. Natural habitats not previously examined as sources of novel antibiotic-producing microorganisms still exist. One such habitat is the rhizosphere of desert shrubs. Here, we show that one desert shrub habitat, the rhizosphere of desert big sagebrush ( Artemisia tridentata) is a source of actinomycetes capable of producing an extensive array of antifungal metabolites. Culturable microbial populations from both the sagebrush rhizosphere and nearby bulk soils from three different sites were enumerated and compared, using traditional plate-count techniques and antibiotic activity bioassays. There were no statistical differences between the relative numbers of culturable non-actinomycete eubacteria, actinomycetes and fungi in the rhizosphere versus bulk soils, but PCR amplification of the 16S rRNA gene sequences of the total soil DNA and denaturing gradient gel electrophoresis showed that the community structure was different between the rhizosphere and the bulk soils. A high percentage of actinomycetes produced antimicrobials; and the percentage of active producers was significantly higher among the rhizosphere isolates, as compared with the bulk soil isolates. Also, the rhizosphere strains were more active in the production of antifungal compounds than antibacterial compounds. 16S rRNA gene sequence analysis showed that sagebrush rhizospheres contained a variety of Streptomyces species possessing broad spectrum antifungal activity. Scanning electron microscopy studies of sagebrush root colonization by one of the novel sagebrush rhizosphere isolates, Streptomyces sp. strain RG, showed that it aggressively colonized young sagebrush roots, whereas another plant rhizosphere-colonizing strain, S. lydicus WYEC108, not originally isolated from sagebrush, was a poor colonizer of the roots of this plant, as were two other Streptomyces isolates from forest soil. These results support the hypothesis that the rhizosphere of desert big sagebrush is a promising source of habitat-adapted actinomycetes, producing antifungal antibiotics.


Assuntos
Actinobacteria/isolamento & purificação , Artemisia/microbiologia , Raízes de Plantas/microbiologia , Microbiologia do Solo , Streptomyces/isolamento & purificação , Actinobacteria/classificação , Actinobacteria/enzimologia , Actinobacteria/genética , RNA Ribossômico 16S/análise , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Streptomyces/classificação , Streptomyces/enzimologia , Streptomyces/genética
17.
Appl Environ Microbiol ; 68(5): 2161-71, 2002 May.
Artigo em Inglês | MEDLINE | ID: mdl-11976085

RESUMO

A previously undescribed plant-microbe interaction between a root-colonizing Streptomyces species, S. lydicus WYEC108, and the legume Pisum sativum is described. The interaction is potentially of great importance to the health and growth in nature of this nodulating legume. The root-colonizing soil actinomycete S. lydicus WYEC108 influences pea root nodulation by increasing root nodulation frequency, possibly at the level of infection by Rhizobium spp. S. lydicus also colonizes and then sporulates within the surface cell layers of the nodules. Colonization leads to an increase in the average size of the nodules that form and improves the vigor of bacteroids within the nodules by enhancing nodular assimilation of iron and possibly other soil nutrients. Bacteroid accumulation of the carbon storage polymer, poly-beta-hydroxybutyrate, is reduced in colonized nodules. Root nodules of peas taken from agricultural fields in the Palouse hills of northern Idaho were also found to be colonized by actinomycete hyphae. We hypothesize that root and nodule colonization is one of several mechanisms by which Streptomyces acts as a naturally occurring plant growth-promoting bacterium in pea and possibly other leguminous plants.


Assuntos
Pisum sativum/fisiologia , Streptomyces/fisiologia , Simbiose/fisiologia , Pisum sativum/citologia , Streptomyces/citologia
18.
Microbiology (Reading) ; 146 ( Pt 9): 2161-2173, 2000 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-10974104

RESUMO

A cloned 2.5 kb DNA fragment that can restore antibiotic production and sporulation to a bldG mutant encodes a 113 aa protein showing similarity to a family of anti-anti-sigma factors from Bacillus and Staphylococcus; and the deduced product of a closely spaced downstream ORF, designated ORF3, shows similarity to cognate anti-sigma factors. The homologues in Bacillus regulate the activity of sporulation- and stress-response-specific sigma factors. However, there is no sigma factor gene near bldG and ORF3. bldG is transcribed both as a monocistronic and a polycistronic mRNA, the latter including the downstream ORF3 gene. The two transcripts were present at all time points during growth and both were upregulated when aerial mycelium and pigmented antibiotics were seen. At all time points, the monocistronic bldG transcript was two- to threefold more abundant than the polycistronic transcript. Mapping of the mRNA 5' ends indicated that bldG transcription is initiated from two transcription start sites located 82 and 123 bp upstream of the bldG translation start. A constructed bldG null mutant had the same phenotype as previously isolated bldG point mutations, some of which were shown to have potentially significant base changes within bldG. When compared to the wild-type strain, the null mutant showed no differences in the levels of transcription from the two bldG promoters. These results suggest that bldG is not involved in autoregulation.


Assuntos
Antibacterianos/biossíntese , Proteínas de Bactérias/genética , Regulação Bacteriana da Expressão Gênica , Proteínas Repressoras , Fator sigma/antagonistas & inibidores , Streptomyces/fisiologia , Sequência de Aminoácidos , Proteínas de Bactérias/química , Proteínas de Bactérias/metabolismo , Proteínas de Bactérias/fisiologia , Sequência de Bases , Clonagem Molecular , Deleção de Genes , Genes Bacterianos , Dados de Sequência Molecular , Fases de Leitura Aberta/genética , Mutação Puntual , Regiões Promotoras Genéticas , Alinhamento de Sequência , Análise de Sequência de DNA , Esporos Bacterianos/fisiologia , Streptomyces/genética , Streptomyces/metabolismo , Transcrição Gênica
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