26 results on '"Chubatsu, Leda S."'
Search Results
2. Genome Analysis of Entomopathogenic Bacillus sp. ABP14 Isolated from a Lignocellulosic Compost.
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Andreazza, Ana Paula, Cardoso, Rodrigo L A, Cocco, Jessica, Guizelini, Dieval, Faoro, Helisson, Tadra-Sfeir, Michelle Z, Balsanelli, Eduardo, Cruz, Leonardo M, Fadel-Picheth, Cyntia M T, Donatti, Lucélia, Souza, Emanuel M, Foerster, Luís A, Pedrosa, Fabio O, and Chubatsu, Leda S
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BACILLUS (Bacteria) ,CARBOXYMETHYLCELLULOSE ,BACILLUS thuringiensis ,GENOMES ,COMPOSTING ,INSECT nematodes - Abstract
We report the complete genome sequence of Bacillus sp. strain ABP14 isolated from lignocellulosic compost and selected by its ability in hydrolyzing carboxymethyl cellulose. This strain does not produce a Cry-like protein but showed an insecticidal activity against larvae of Anticarsia gemmatalis (Lepidoptera). Genome-based taxonomic analysis revealed that the ABP14 chromosome is genetically close to Bacillus thuringiensis serovar finitimus YBT020. ABP14 also carries one plasmid which showed no similarity with those from YBT020. Genome analysis of ABP14 identified unique genes related to cell surface structures, cell wall, metabolic competence, and virulence factors that may contribute for its survival and environmental adaptation, as well as its entomopathogenic activity. [ABSTRACT FROM AUTHOR]
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- 2019
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3. The NtrY-NtrX two-component system is involved in controlling nitrate assimilation in Herbaspirillum seropedicae strain SmR1.
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Bonato, Paloma, Alves, Lysangela R., Osaki, Juliana H., Rigo, Liu U., Pedrosa, Fabio O., Souza, Emanuel M., Zhang, Nan, Schumacher, Jörg, Buck, Martin, Wassem, Roseli, and Chubatsu, Leda S.
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NITROGEN metabolism ,NUCLEOTIDE sequencing ,HISTIDINE kinases ,METHYLTRANSFERASES ,NITROGEN fixation ,GENETIC code - Abstract
Herbaspirillum seropedicae is a diazotrophic β-Proteobacterium found endophytically associated with gramineae (Poaceae or graminaceous plants) such as rice, sorghum and sugar cane. In this work we show that nitrate-dependent growth in this organism is regulated by the master nitrogen regulatory two-component system NtrB-NtrC, and by NtrY-NtrX, which functions to specifically regulate nitrate metabolism. NtrY is a histidine kinase sensor protein predicted to be associated with the membrane and NtrX is the response regulator partner. The ntrYntrX genes are widely distributed in Proteobacteria. In α-Proteobacteria they are frequently located downstream from ntr BC, whereas in β-Proteobacteria these genes are located downstream from genes encoding an RNA methyltransferase and a proline-rich protein with unknown function. The NtrX protein of α-Proteobacteria has an AAA+ domain, absent in those from β-Proteobacteria. An ntrY mutant of H. seropedicae showed the wild-type nitrogen fixation phenotype, but the nitrate-dependent growth was abolished. Gene fusion assays indicated that NtrY is involved in the expression of genes coding for the assimilatory nitrate reductase as well as the nitrate-responsive two-component system NarX-NarL ( narK and narX promoters, respectively). The purified NtrX protein was capable of binding the narK and narX promoters, and the binding site at the narX promoter for the NtrX protein was determined by DNA footprinting. In silico analyses revealed similar sequences in other promoter regions of H. seropedicae that are related to nitrate assimilation, supporting the role of the NtrY-NtrX system in regulating nitrate metabolism in H. seropedicae. [ABSTRACT FROM AUTHOR]
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- 2016
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4. RNA-seq analyses reveal insights into the function of respiratory nitrate reductase of the diazotroph Herbaspirillum seropedicae.
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Bonato, Paloma, Batista, Marcelo B., Camilios ‐ Neto, Doumit, Pankievicz, Vânia C. S., Tadra ‐ Sfeir, Michelle Z., Monteiro, Rose Adele, Pedrosa, Fabio O., Souza, Emanuel M., Chubatsu, Leda S., Wassem, Roseli, and Rigo, Liu Un
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RNA sequencing ,NITRATE reductase ,NITROGEN-fixing bacteria ,PLANT roots ,PLANT genomes - Abstract
Herbaspirillum seropedicae is a nitrogen-fixing β-proteobacterium that associates with roots of gramineous plants. In silico analyses revealed that H. seropedicae genome has genes encoding a putative respiratory (NAR) and an assimilatory nitrate reductase (NAS). To date, little is known about nitrate metabolism in H. seropedicae, and, as this bacterium cannot respire nitrate, the function of NAR remains unknown. This study aimed to investigate the function of NAR in H. seropedicae and how it metabolizes nitrate in a low aerated-condition. RNA-seq transcriptional profiling in the presence of nitrate allowed us to pinpoint genes important for nitrate metabolism in H. seropedicae, including nitrate transporters and regulatory proteins. Additionally, both RNA-seq data and physiological characterization of a mutant in the catalytic subunit of NAR ( narG mutant) showed that NAR is not required for nitrate assimilation but is required for: (i) production of high levels of nitrite, (ii) production of NO and (iii) dissipation of redox power, which in turn lead to an increase in carbon consumption. In addition, wheat plants showed an increase in shoot dry weight only when inoculated with H. seropedicae wild type, but not with the narG mutant, suggesting that NAR is important to H. seropedicae-wheat interaction. [ABSTRACT FROM AUTHOR]
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- 2016
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5. Backup Expression of the PhaP2 Phasin Compensates for phaP1 Deletion in Herbaspirillum seropedicae, Maintaining Fitness and PHB Accumulation.
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Alves, Luis P. S., Teixeira, Cícero S., Tirapelle, Evandro F., Donatti, Lucélia, Tadra-Sfeir, Michelle Z., Steffens, Maria B. R., de Souza, Emanuel M., de Oliveira Pedrosa, Fabio, Chubatsu, Leda S., and Müller-Santos, Marcelo
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GENE expression ,PROTEINS ,BIOMOLECULES ,ORGANIC compounds ,GENES - Abstract
Phasins are important proteins controlling poly-3-hydroxybutyrate (PHB) granules formation, their number into the cell and stability. The genome sequencing of the endophytic and diazotrophic bacterium Herbaspirillum seropedicae SmR1 revealed two homologous phasin genes. To verify the role of the phasins on PHB accumulation in the parental strain H. seropedicae SmR1, isogenic strains defective in the expression of phaP1, phaP2 or both genes were obtained by gene deletion and characterized in this work. Despite of the high sequence similarity between PhaP1 and PhaP2, PhaP1 is the major phasin in H. seropedicae, since its deletion reduced PHB accumulation by ≈50% in comparison to the parental and Δ phaP2. Upon deletion of phaP1, the expression of phaP2 was sixfold enhanced in the Δ phaP1 strain. The responsive backup expression of phaP2 partially rescued the Δ phaP1 mutant, maintaining about 50% of the parental PHB level. The double mutant Δ phaP1.2 did not accumulate PHB in any growth stage and showed a severe reduction of growth when glucose was the carbon source, a clear demonstration of negative impact in the fitness. The co-occurrence of phaP1 and phaP2 homologous in bacteria relatives of H. seropedicae, including other endophytes, indicates that the mechanism of phasin compensation by phaP2 expression may be operating in other organisms, showing that PHB metabolism is a key factor to adaptation and efficiency of endophytic bacteria. [ABSTRACT FROM AUTHOR]
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- 2016
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6. 2-Oxoglutarate levels control adenosine nucleotide binding by Herbaspirillum seropedicae PII proteins.
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Oliveira, Marco A. S., Gerhardt, Edileusa C. M., Huergo, Luciano F., Souza, Emanuel M., Pedrosa, Fábio O., and Chubatsu, Leda S.
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ADENINE nucleotides ,BACTERIAL proteins ,NITROGEN metabolism ,PROTEOBACTERIA ,CELL metabolism ,CELLULAR signal transduction - Abstract
Nitrogen metabolism in Proteobacteria is controlled by the Ntr system, in which PII proteins play a pivotal role, controlling the activity of target proteins in response to the metabolic state of the cell. Characterization of the binding of molecular effectors to these proteins can provide information about their regulation. Here, the binding of ATP, ADP and 2- oxoglutarate (2-OG) to the Herbaspirillum seropedicae PII proteins, GlnB and GlnK, was characterized using isothermal titration calorimetry. Results show that these proteins can bind three molecules of ATP, ADP and 2-OG with homotropic negative cooperativity, and 2-OG binding stabilizes the binding of ATP. Results also show that the affinity of uridylylated forms of GlnB and GlnK for nucleotides is significantly lower than that of the nonuridylylated proteins. Furthermore, fluctuations in the intracellular concentration of 2-OG in response to nitrogen availability are shown. Results suggest that under nitrogen-limiting conditions, PII proteins tend to bind ATP and 2-OG. By contrast, after an ammonium shock, a decrease in the 2-OG concentration is observed causing a decrease in the affinity of PII proteins for ATP. This phenomenon may facilitate the exchange of ATP for ADP on the ligand-binding pocket of PII proteins, thus it is likely that under low ammonium, low 2-OG levels would favor the ADP-bound state. [ABSTRACT FROM AUTHOR]
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- 2015
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7. Dual RNA-seq transcriptional analysis of wheat roots colonized by Azospirillum brasilense reveals up-regulation of nutrient acquisition and cell cycle genes.
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Camilios-Neto, Doumit, Bonato, Paloma, Wassem, Roseli, Tadra-Sfeir, Michelle Z., Brusamarello-Santos, Liziane C. C., Valdameri, Glaucio, Donatti, Lucélia, Faoro, Helisson, Weiss, Vinicius A., Chubatsu, Leda S., Pedrosa, Fábio O., and Souza, Emanuel M.
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RNA sequencing ,GENETIC transcription in plants ,AZOSPIRILLUM brasilense ,WHEAT genetics ,PLANT nutrition ,PLANT cell cycle ,PLANT development - Abstract
Background The rapid growth of the world's population demands an increase in food production that no longer can be reached by increasing amounts of nitrogenous fertilizers. Plant growth promoting bacteria (PGPB) might be an alternative to increase nitrogenous use efficiency (NUE) in important crops such wheat. Azospirillum brasilense is one of the most promising PGPB and wheat roots colonized by A. brasilense is a good model to investigate the molecular basis of plant-PGPB interaction including improvement in plant-NUE promoted by PGPB. Results We performed a dual RNA-Seq transcriptional profiling of wheat roots colonized by A. brasilense strain FP2. cDNA libraries from biological replicates of colonized and noninoculated wheat roots were sequenced and mapped to wheat and A. brasilense reference sequences. The unmapped reads were assembled de novo. Overall, we identified 23,215 wheat expressed ESTs and 702 A. brasilense expressed transcripts. Bacterial colonization caused changes in the expression of 776 wheat ESTs belonging to various functional categories, ranging from transport activity to biological regulation as well as defense mechanism, production of phytohormones and phytochemicals. In addition, genes encoding proteins related to bacterial chemotaxi, biofilm formation and nitrogen fixation were highly expressed in the sub-set of A. brasilense expressed genes. Conclusions PGPB colonization enhanced the expression of plant genes related to nutrient up-take, nitrogen assimilation, DNA replication and regulation of cell division, which is consistent with a higher proportion of colonized root cells in the S-phase. Our data support the use of PGPB as an alternative to improve nutrient acquisition in important crops such as wheat, enhancing plant productivity and sustainability. [ABSTRACT FROM AUTHOR]
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- 2014
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8. Search for novel targets of the PII signal transduction protein in Bacteria identifies the BCCP component of acetyl- CoA carboxylase as a PII binding partner.
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Rodrigues, Thiago E., Gerhardt, Edileusa C. M., Oliveira, Marco A., Chubatsu, Leda S., Pedrosa, Fabio O., Souza, Emanuel M., Souza, Gustavo A., Müller‐Santos, Marcelo, and Huergo, Luciano F.
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CELLULAR signal transduction ,NITROGEN metabolism ,BIOSYNTHESIS ,IN vitro studies ,BIOTIN carboxylase - Abstract
The P
II family comprises a group of widely distributed signal transduction proteins. The archetypal function of PII is to regulate nitrogen metabolism in bacteria. As PII can sense a range of metabolic signals, it has been suggested that the number of metabolic pathways regulated by PII may be much greater than described in the literature. In order to provide experimental evidence for this hypothesis a PII protein affinity column was used to identify PII targets in A zospirillum brasilense. One of the PII partners identified was the biotin carboxyl carrier protein ( BCCP), a component of the acetyl- CoA carboxylase which catalyses the committed step in fatty acid biosynthesis. As BCCP had been previously identified as a PII target in A rabidopsis thaliana we hypothesized that the PII - BCCP interaction would be conserved throughout Bacteria. In vitro experiments using purified proteins confirmed that the PII - BCCP interaction is conserved in E scherichia coli. The BCCP- PII interaction required MgATP and was dissociated by increasing 2-oxoglutarate. The interaction was modestly affected by the post-translational uridylylation status of PII ; however, it was completely dependent on the post-translational biotinylation of BCCP. [ABSTRACT FROM AUTHOR]- Published
- 2014
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9. Identification of Proteins Associated with Polyhydroxybutyrate Granules from Herbaspirillum seropedicae SmR1 - Old Partners, New Players.
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Tirapelle, Evandro F., Müller-Santos, Marcelo, Tadra-Sfeir, Michelle Z., Kadowaki, Marco A. S., Steffens, Maria B. R., Monteiro, Rose A., Souza, Emanuel M., Pedrosa, Fabio O., and Chubatsu, Leda S.
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POLYHYDROXYBUTYRATE ,PROTEOBACTERIA ,CROPS ,POLYESTERS ,CARBON sequestration ,MASS spectrometry - Abstract
Herbaspirillum seropedicae is a diazotrophic ß-Proteobacterium found associated with important agricultural crops. This bacterium produces polyhydroxybutyrate (PHB), an aliphatic polyester, as a carbon storage and/or source of reducing equivalents. The PHB polymer is stored as intracellular insoluble granules coated mainly with proteins, some of which are directly involved in PHB synthesis, degradation and granule biogenesis. In this work, we have extracted the PHB granules from H. seropedicae and identified their associated-proteins by mass spectrometry. This analysis allowed us to identify the main phasin (PhaP1) coating the PHB granule as well as the PHB synthase (PhbC1) responsible for its synthesis. A phbC1 mutant is impaired in PHB synthesis, confirming its role in H. seropedicae. On the other hand, a phaP1 mutant produces PHB granules but coated mainly with the secondary phasin (PhaP2). Furthermore, some novel proteins not previously described to be involved with PHB metabolism were also identified, bringing new possibilities to PHB function in H. seropedicae. [ABSTRACT FROM AUTHOR]
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- 2013
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10. Genomic comparison of the endophyte Herbaspirillum seropedicae Sm R1 and the phytopathogen Herbaspirillum rubrisubalbicans M1 by suppressive subtractive hybridization and partial genome sequencing.
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Monteiro, Rose A., Balsanelli, Eduardo, Tuleski, Thalita, Faoro, Helison, Cruz, Leonardo M., Wassem, Roseli, Baura, Valter A., Tadra-Sfeir, Michelle Z., Weiss, Vinícius, DaRocha, Wanderson D., Muller-Santos, Marcelo, Chubatsu, Leda S., Huergo, Luciano F., Pedrosa, Fábio O., and Souza, Emanuel M.
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ENDOPHYTES ,PHYTOPATHOGENIC microorganisms ,NUCLEIC acid hybridization ,NUCLEOTIDE sequence ,SUGARCANE diseases & pests ,SYMPTOMS ,LIPOPOLYSACCHARIDES - Abstract
Herbaspirillum rubrisubalbicans M1 causes the mottled stripe disease in sugarcane cv. B-4362. Inoculation of this cultivar with Herbaspirillum seropedicae Sm R1 does not produce disease symptoms. A comparison of the genomic sequences of these closely related species may permit a better understanding of contrasting phenotype such as endophytic association and pathogenic life style. To achieve this goal, we constructed suppressive subtractive hybridization ( SSH) libraries to identify DNA fragments present in one species and absent in the other. In a parallel approach, partial genomic sequence from H. rubrisubalbicans M1 was directly compared in silico with the H. seropedicae Sm R1 genome. The genomic differences between the two organisms revealed by SSH suggested that lipopolysaccharide and adhesins are potential molecular factors involved in the different phenotypic behavior. The cluster wss probably involved in cellulose biosynthesis was found in H. rubrisubalbicans M1. Expression of this gene cluster was increased in H. rubrisubalbicans M1 cells attached to the surface of maize root, and knockout of wssD gene led to decrease in maize root surface attachment and endophytic colonization. The production of cellulose could be responsible for the maize attachment pattern of H. rubrisubalbicans M1 that is capable of outcompeting H. seropedicae Sm R1. [ABSTRACT FROM AUTHOR]
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- 2012
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11. Crystal structure of the GlnZ-DraG complex reveals a different form of PII-target interaction.
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Rajendran, Chitra, Gerhardt, Edileusa C. M., Bjelic, Sasa, Gasperina, Antonietta, Scarduelli, Marcelo, Pedrosa, Fábio O., Chubatsu, Leda S., Merrick, Mike, Souza, Emanuel M., Winkler, Fritz K., Huergo, Luciano F., and Xiao-Dan Li
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CRYSTAL structure research ,NITROGEN ,PROTEIN-protein interactions ,POST-translational modification ,AZOSPIRILLUM ,CELL membranes - Abstract
Nitrogen metabolism in bacteria and archaea is regulated by a ubiquitous class of proteins belonging to the P
II family. PII proteins act as sensors of cellular nitrogen, carbon, and energy levels, and they control the activities of a wide range of target proteins by protein-protein interaction. The sensing mechanism relies on conformational changes induced by the binding of small molecules to PII and also by PII posttranslational modifications. In the diazotrophic bacterium Azospirillum brasilense, high levels of extracellular ammonium inactivate the nitrogenase regulatory enzyme DraG by relocalizing it from the cytoplasm to the cell membrane. Membrane localization of DraG occurs through the formation of a ternary complex in which the PII protein GlnZ interacts simultaneously with DraG and the ammonia channel AmtB. Here we describe the crystal structure of the GlnZ-DraG complex at 2.1 Å resolution, and confirm the physiological relevance of the structural data by site-directed mutagenesis. In contrast to other known PII complexes, the majority of contacts with the target protein do not involve the T-loop region of PII . Hence this structure identifies a different mode of PII interaction with a target protein and demonstrates the potential for PII proteins to interact simultaneously with two different targets. A structural model of the AmtB-GlnZ-DraG ternary complex is presented. The results explain how the intracellular levels of ATP, ADP, and 2-oxoglutarate regulate the interaction between these three proteins and how DraG discriminates GlnZ from its close paralogue GlnB. [ABSTRACT FROM AUTHOR]- Published
- 2011
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12. Role of PII proteins in nitrogen fixation control of Herbaspirillum seropedicae strain SmR1.
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Noindorf, Lilian, Bonatto, Ana C., Monteiro, Rose A., Souza, Emanuel M., Rigo, Liu U., Pedrosa, Fabio O., Steffens, Maria B. R., and Chubatsu, Leda S.
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NITROGEN fixation ,PROTEINS ,DNA ,BIOGEOCHEMICAL cycles ,AMMONIUM - Abstract
Background: The PII protein family comprises homotrimeric proteins which act as transducers of the cellular nitrogen and carbon status in prokaryotes and plants. In Herbaspirillum seropedicae, two PII-like proteins (Gln B and GlnK), encoded by the genes gln B and glnK, were identified. The gln B gene is monocistronic and its expression is constitutive, while glnK is located in the nlmAglnKamt B operon and is expressed under nitrogen-limiting conditions. Results: In order to determine the involvement of the H. seropedicae gln B and glnK gene products in nitrogen fixation, a series of mutant strains were constructed and characterized. The glnK- mutants were deficient in nitrogen fixation and they were complemented by plasmids expressing the GlnK protein or an N-truncated form of NifA. The nitrogenase post-translational control by ammonium was studied and the results showed that the glnK mutant is partially defective in nitrogenase inactivation upon addition of ammonium while the gln B mutant has a wild-type phenotype. Conclusions: Our results indicate that GlnK is mainly responsible for NifA activity regulation and ammoniumdependent post-translational regulation of nitrogenase in H. seropedicae. [ABSTRACT FROM AUTHOR]
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- 2011
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13. Proteomic analysis of Herbaspirillum seropedicae reveals ammonium-induced AmtB-dependent membrane sequestration of PII proteins.
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Huergo, Luciano F., Noindorf, Lilian, Gimenes, Camila, Lemgruber, Renato S. P., Cordellini, Daniela F., Falarz, Lucas J., Cruz, Leonardo M., Monteiro, Rose A., Pedrosa, Fábio O., Chubatsu, Leda S., Souza, Emanuel M., and Steffens, Maria B. R.
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PROTEINS ,PROTEOMICS ,MOLECULAR biology ,BIOMOLECULES ,NITROGEN-fixing microorganisms ,ELECTROPHORESIS ,BACTERIA ,CELL membranes ,NITROGEN - Abstract
This study was aimed at describing the spectrum and dynamics of proteins associated with the membrane in the nitrogen-fixing bacterium Herbaspirillum seropedicae according to the availability of fixed nitrogen. Using two-dimensional electrophoresis we identified 79 protein spots representing 45 different proteins in the membrane fraction of H. seropedicae. Quantitative analysis of gel images of membrane extracts indicated two spots with increased levels when cells were grown under nitrogen limitation in comparison with nitrogen sufficiency; these spots were identified as the GlnK protein and as a conserved noncytoplasmic protein of unknown function which was encoded in an operon together with GlnK and AmtB. Comparison of gel images of membrane extracts from cells grown under nitrogen limitation or under the same regime but collected after an ammonium shock revealed two proteins, GlnB and GlnK, with increased levels after the shock. The P
II proteins were not present in the membrane fraction of an amtB mutant. The results reported here suggest that changes in the cellular localization of PII might play a role in the control of nitrogen metabolism in H. seropedicae. [ABSTRACT FROM AUTHOR]- Published
- 2010
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14. Ternary complex formation between AmtB, GlnZ and the nitrogenase regulatory enzyme DraG reveals a novel facet of nitrogen regulation in bacteria.
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Huergo, Luciano F., Merrick, Mike, Pedrosa, Fábio O., Chubatsu, Leda S., Araujo, Luíza M., and Souza, Emanuel M.
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AZOSPIRILLUM ,AMMONIUM ,BIOLOGICAL membranes ,PROTEINS ,NUCLEOTIDES ,ENZYMES - Abstract
Ammonium movement across biological membranes is facilitated by a class of ubiquitous channel proteins from the Amt/Rh family. Amt proteins have also been implicated in cellular responses to ammonium availability in many organisms. Ammonium sensing by Amt in bacteria is mediated by complex formation with cytosolic proteins of the P
II family. In this study we have characterized in vitro complex formation between the AmtB and PII proteins (GlnB and GlnZ) from the diazotrophic plant-associative bacterium Azospirillum brasilense. AmtB–PII complex formation only occurred in the presence of adenine nucleotides and was sensitive to 2-oxoglutarate when Mg2+ and ATP were present, but not when ATP was substituted by ADP. We have also shown in vitro complex formation between GlnZ and the nitrogenase regulatory enzyme DraG, which was stimulated by ADP. The stoichiometry of this complex was 1:1 (DraG monomer : GlnZ trimer). We have previously reported that in vivo high levels of extracellular ammonium cause DraG to be sequestered to the cell membrane in an AmtB and GlnZ-dependent manner. We now report the reconstitution of a ternary complex involving AmtB, GlnZ and DraG in vitro. Sequestration of a regulatory protein by the membrane-bound AmtB–PII complex defines a new regulatory role for Amt proteins in Prokaryotes. [ABSTRACT FROM AUTHOR]- Published
- 2007
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15. Identification of NH-regulated genes of Herbaspirillum seropedicae by random insertional mutagenesis.
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Schwab, Stefan, Ramos, Humberto J., Souza, Emanuel M., Pedrosa, Fábio O., Yates, Marshall G., Chubatsu, Leda S., and Rigo, Liu U.
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AMMONIUM ,NITROGEN fixation ,GENE expression ,NITROGEN compounds ,MUTAGENESIS - Abstract
Random mutagenesis using transposons with promoterless reporter genes has been widely used to examine differential gene expression patterns in bacteria. Using this approach, we have identified 26 genes of the endophytic nitrogen-fixing bacterium Herbaspirillum seropedicae regulated in response to ammonium content in the growth medium. These include nine genes involved in the transport of nitrogen compounds, such as the high-affinity ammonium transporter AmtB, and uptake systems for alternative nitrogen sources; nine genes coding for proteins responsible for restoring intracellular ammonium levels through enzymatic reactions, such as nitrogenase, amidase, and arginase; and a third group includes metabolic switch genes, coding for sensor kinases or transcription regulation factors, whose role in metabolism was previously unknown. Also, four genes identified were of unknown function. This paper describes their involvement in response to ammonium limitation. The results provide a preliminary profile of the metabolic response of Herbaspirillum seropedicae to ammonium stress. [ABSTRACT FROM AUTHOR]
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- 2007
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16. The glnAntrBC operon of Herbaspirillum seropedicae is transcribed by two oppositely regulated promoters upstream of glnA.
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Schwab, Stefan, Souza, Emanuel M, Yates, Marshall G., Persuhn, Darlene C., Steffens, M. Berenice R., Chubatsu, Leda S., Pedrosa, Fábio O., and Rigo, Liu U
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BACTERIA ,OPERONS ,NITROGEN ,GENES ,MICROORGANISMS ,GENETIC transcription - Abstract
Copyright of Canadian Journal of Microbiology is the property of Canadian Science Publishing and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
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- 2007
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17. The expression of nifB gene from Herbaspirillum seropedicae is dependent upon the NifA and RpoN proteins.
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Rego, Fabiane G. M., Pedrosa, Fábio O, Chubatsu, Leda S., Yates, M. Geoffrey, Wassem, Roseli, Steffens, Maria B. R., Rigo, Liu U., and Souza, Emanuel M.
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GENE expression ,ESCHERICHIA coli ,BIOMOLECULES ,DETERMINATIVE mineralogy ,PHOTOSYNTHETIC oxygen evolution ,BACTERIAL proteins ,BACTERIAL genetics ,HEREDITY - Abstract
Copyright of Canadian Journal of Microbiology is the property of Canadian Science Publishing and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
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- 2006
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18. Interactions between PII proteins and the nitrogenase regulatory enzymes DraT and DraG in Azospirillum brasilense
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Huergo, Luciano F., Chubatsu, Leda S., Souza, Emanuel M., Pedrosa, Fábio O., Steffens, Maria B.R., and Merrick, Mike
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CELLULAR signal transduction ,CELL membranes ,NITROGEN compounds ,PROTEINS - Abstract
Abstract: In Azospirillum brasilense ADP-ribosylation of dinitrogenase reductase (NifH) occurs in response to addition of ammonium to the extracellular medium and is mediated by dinitrogenase reductase ADP-ribosyltransferase (DraT) and reversed by dinitrogenase reductase glycohydrolase (DraG). The P
II proteins GlnB and GlnZ have been implicated in regulation of DraT and DraG by an as yet unknown mechanism. Using pull-down experiments with His-tagged versions of DraT and DraG we have now shown that DraT binds to GlnB, but only to the deuridylylated form, and that DraG binds to both the uridylylated and deuridylylated forms of GlnZ. The demonstration of these specific protein complexes, together with our recent report of the ability of deuridylylated GlnZ to be sequestered to the cell membrane by the ammonia channel protein AmtB, offers new insights into the control of NifH ADP-ribosylation. [Copyright &y& Elsevier]- Published
- 2006
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19. ADP-ribosylation of dinitrogenase reductase in Azospirillum brasilense is regulated by AmtB-dependent membrane sequestration of DraG.
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Huergo, Luciano F., Souza, Emanuel M., Araujo, Mariana S., Pedrosa, Fábio O., Chubatsu, Leda S., Steffens, Maria B. R., and Merrick, Mike
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RESEARCH ,ADP-ribosylation ,AZOSPIRILLUM ,NITROGEN fixation ,ENZYMES ,BIOLOGICAL membranes ,PROTEINS ,AMMONIA ,NITROGENASES ,MOLECULAR microbiology - Abstract
Nitrogen fixation in some diazotrophic bacteria is regulated by mono-ADP-ribosylation of dinitrogenase reductase (NifH) that occurs in response to addition of ammonium to the extracellular medium. This process is mediated by dinitrogenase reductase ADP-ribosyltransferase (DraT) and reversed by dinitrogenase reductase glycohydrolase (DraG), but the means by which the activities of these enzymes are regulated are unknown. We have investigated the role of the P
II proteins (GlnB and GlnZ), the ammonia channel protein AmtB and the cellular localization of DraG in the regulation of the NifH-modification process in Azospirillum brasilense. GlnB, GlnZ and DraG were all membrane-associated after an ammonium shock, and both this membrane sequestration and ADP-ribosylation of NifH were defective in an amtB mutant. We now propose a model in which membrane association of DraG after an ammonium shock creates a physical separation from its cytoplasmic substrate NifH thereby inhibiting ADP-ribosyl-removal. Our observations identify a novel role for an ammonia channel (Amt) protein in the regulation of bacterial nitrogen metabolism by mediating membrane sequestration of a protein other than a PII family member. They also suggest a model for control of ADP-ribosylation that is likely to be applicable to all diazotrophs that exhibit such post-translational regulation of nitrogenase. [ABSTRACT FROM AUTHOR]- Published
- 2006
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20. Characterization of the orf1glnKamtB operon of Herbaspirillum seropedicae.
- Author
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Noindorf, Lilian, Rego, Fabiane G. M., Baura, Valter A., Monteiro, Rose A., Wassem, Roseli, Cruz, Leonardo M., Rigo, Liu U., Souza, Emanuel M., Steffens, Maria B. R., Pedrosa, Fabio O., and Chubatsu, Leda S.
- Subjects
ENDOPHYTES ,BACTERIA ,GENES ,MOLECULAR genetics ,PROTEINS ,NITROGEN ,NITROGENASES ,OXIDOREDUCTASES ,AMMONIUM - Abstract
Herbaspirillum seropedicae is an endophytic nitrogen-fixing bacterium that colonizes economically important grasses. In this organism, the amtB gene is co-transcribed with two other genes: glnK that codes for a PII-like protein and orf1 that codes for a probable periplasmatic protein of unknown function. The expression of the orf1glnKamtB operon is increased under nitrogen-limiting conditions and is dependent on NtrC. An amtB mutant failed to transport methylammonium. Post-translational control of nitrogenase was also partially impaired in this mutant, since a complete switch-off of nitrogenase after ammonium addition was not observed. This result suggests that the AmtB protein is involved in the signaling pathway for the reversible inactivation of nitrogenase in H. seropedicae. [ABSTRACT FROM AUTHOR]
- Published
- 2006
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21. Effect of the over-expression of PII and PZ proteins on the nitrogenase activity of Azospirillum brasilense
- Author
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Huergo, Luciano F., Filipaki, Angela, Chubatsu, Leda S., Yates, M. Geoffrey, Steffens, Maria Berenice, Pedrosa, Fabio O., and Souza, Emanuel M.
- Subjects
AZOSPIRILLUM ,PROTEINS ,AZOTOBACTERACEAE ,GENES - Abstract
Abstract: The Azospirillum brasilense PII and PZ proteins, encoded by the glnB and glnZ genes respectively, are intracellular transducers of nitrogen levels with distinct functions. The PII protein participates in nif regulation by controlling the activity of the transcriptional regulator NifA. PII is also involved in transducing the prevailing nitrogen levels to the Fe-protein ADP-ribosylation system. PZ regulates negatively ammonium transport and is involved in nitrogenase reactivation. To further investigate the role of PII and PZ in the regulation of nitrogen fixation, broad-host-range plasmids capable of over-expressing the glnB and glnZ genes under control of the ptac promoter were constructed and introduced into A. brasilense. The nitrogenase activity and nitrate-dependent growth was impaired in A. brasilense cells over-expressing the PII protein. Using immunoblot analysis we observed that the reduction of nitrogenase activity in cells over-expressing PII was due to partial ADP-ribosylation of the Fe-protein under derepressing conditions and a reduction in the amount of Fe-protein. These results support the hypothesis that the unmodified PII protein act as a signal to the DraT enzyme to ADP-ribosylate the Fe-protein in response to ammonium shock, and that it also inhibits nif gene expression. In cells over-expressing the PZ protein the nitrogenase reactivation after an ammonium shock was delayed indicating that the PZ protein is involved in regulation of DraG activity. [Copyright &y& Elsevier]
- Published
- 2005
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22. Effects of over-expression of the regulatory enzymes DraT and DraG on the ammonium-dependent post-translational regulation of nitrogenase reductase inAzospirillum brasilense.
- Author
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Huergo, Luciano F., Souza, Emanuel M., Steffens, Maria B. R., Yates, M. Geoffrey, Pedrosa, Fábio O., and Chubatsu, Leda S.
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CELLULAR signal transduction ,BIOGEOCHEMICAL cycles ,ENZYMES ,GENETIC translation ,PROTEIN synthesis ,CELLS - Abstract
Nitrogen fixation inAzospirillum brasilenseis regulated at transcriptional and post-translational levels. Post-translational control occurs through the reversible ADP-ribosylation of dinitrogenase reductase (Fe Protein), mediated by the dinitrogenase reductase ADP-ribosyltransferase (DraT) and dinitrogenase reductase glycohydrolase (DraG). Although the DraT and DraG activities are regulated in vivo, the molecules responsible for such regulation remain unknown. We have constructed broad-host-range plasmids capable of over-expressing, upon IPTG induction, the regulatory enzymes DraT and DraG as six-histidine-N-terminal fused proteins (His). Both DraT-His and DraG-His are functional in vivo. We have analyzed the effects of DraT-His and DraG-His over-expression on the post-translational modification of Fe Protein. The DraT-His over-expression led to Fe Protein modification in the absence of ammonium addition, while cells over-expressing DraG-His showed only partial ADP-ribosylation of Fe Protein by adding ammonium. These results suggest that both DraT-His and DraG-His lose their regulation upon over-expression, possible by titrating out negative regulators. [ABSTRACT FROM AUTHOR]
- Published
- 2005
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23. Endophytic Herbaspirillum seropedicae expresses nif genes in gramineous plants
- Author
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Roncato-Maccari, Lauren D.B., Ramos, Humberto J.O., Pedrosa, Fabio O., Alquini, Yedo, Chubatsu, Leda S., Yates, Marshall G., Rigo, Liu U., Steffens, Maria Berenice R., and Souza, Emanuel M.
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ENDOPHYTIC fungi ,BACTERIA - Abstract
The interactions between maize, sorghum, wheat and rice plants and Herbaspirillum seropedicae were examined microscopically following inoculation with the H. seropedicae LR15 strain, a Nif
+ (Pnif::gusA) mutant obtained by the insertion of a gusA-kanamycin cassette into the nifH gene of the H. seropedicae wild-type strain. The expression of the Pnif::gusA fusion was followed during the association of the diazotroph with the gramineous species. Histochemical analysis of seedlings of maize, sorghum, wheat and rice grown in vermiculite showed that strain LR15 colonized root surfaces and inner tissues. In early steps of the endophytic association, H. seropedicae colonized root exudation sites, such as axils of secondary roots and intercellular spaces of the root cortex; it then occupied the vascular tissue and there expressed nif genes. The expression of nif genes occurred in roots, stems and leaves as detected by the GUS reporter system. The expression of nif genes was also observed in bacterial colonies located in the external mucilaginous root material, 8 days after inoculation. Moreover, the colonization of plant tissue by H. seropedicae did not depend on the nitrogen-fixing ability, since similar numbers of cells were isolated from roots or shoots of the plants inoculated with Nif+ or Nif− strains. [Copyright &y& Elsevier]- Published
- 2003
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24. Regulation of glnB gene promoter expression in Azospirillum brasilense by the NtrC protein
- Author
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Huergo, Luciano F., Souza, Emanuel M., Steffens, M. Berenice R., Yates, M. Geoffrey, Pedrosa, Fabio O., and Chubatsu, Leda S.
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GENE expression ,GENETIC mutation - Abstract
In Azospirillum brasilense the glnB and glnA genes are clustered in an operon regulated by three different promoters: two located upstream of glnB (glnBp1-σ
70 , and glnBp2-σN ) and one as yet unidentified promoter, in the glnBA intergenic region. We have investigated the expression of the glnB gene promoter using glnB-lacZ gene fusions, mutation analysis, heterologous expression and DNA band-shift assays. Deletion of the glnB promoter region showed that NtrC-binding sequences were essential for glnB expression under nitrogen limitation. The A. brasilense NtrC protein activated transcription of glnB-lacZ fusions in the heterologous genetic background of Escherichia coli. Expression of glnB-lacZ fusions in two A. brasilense ntrC mutants differed from that in the wild-type strain. In vitro studies also indicated that the purified NtrC protein from E. coli was able to bind to the glnB promoter region of A. brasilense. Our results show that the NtrC protein activates glnBglnA expression under nitrogen limitation in A. brasilense. [Copyright &y& Elsevier]- Published
- 2003
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25. The recX gene product is involved in the SOS response in Herbaspirillum seropedicae.
- Author
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Galvao, Carolina W., Pedrosa, Fabio O., souza, Emanuel M., Yates, M. Geoffrey, Chubatsu, Leda S., and Steffens, Maria Berenice R.
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GENES ,DNA repair ,BACTERIA - Abstract
Focuses on a study which investigated the role of sequenced recX and recA genes in the SOS response in Herbaspirillum seropedicae. Background on the SOS response and DNA repair; Bacterial strains and plasmids used in the study; Implications of the absence of the SOS regulon.
- Published
- 2003
26. Control of autogenous activation of Herbaspirillum seropedicae nifA promoter by the IHF protein
- Author
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Wassem, Roseli, Pedrosa, Fábio O., Yates, Marshall G., Rego, Fabiane G.M., Chubatsu, Leda S., Rigo, Liu U., and Souza, Emanuel M.
- Subjects
NITROGEN fixation ,ESCHERICHIA coli - Abstract
Analysis of the expression of the Herbaspirillum seropedicae nifA promoter in Escherichia coli and Herbaspirillum seropedicae, showed that nifA expression is primarily dependent on NtrC but also required NifA for maximal expression under nitrogen-fixing conditions. Deletion of the IHF (integration host factor)-binding site produced a promoter with two-fold higher activity than the native promoter in the H. seropedicae wild-type strain but not in a nifA strain, indicating that IHF controls NifA auto-activation. IHF is apparently required to prevent overexpression of the NifA protein via auto-activation under nitrogen-fixing conditions in H. seropedicae. [Copyright &y& Elsevier]
- Published
- 2002
- Full Text
- View/download PDF
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