EDGAR: A software framework for the comparative analysis of prokaryotic genomes (2009)
Blom, Jochen, Albaum, Stefan P, Doppmeier, Daniel, Pühler, Alfred, Vorhölter, Frank-Jörg, Zakrzewski, Martha, ...
Abstract Background The introduction of next generation sequencing approaches has caused a rapid increase in the number of completely sequenced genomes. As one result of this development, it is now...
Hellweg, Christoph, Pühler, Alfred, Weidner, Stefan
Abstract Background The symbiotic soil bacterium Sinorhizobium meliloti often has to face low pH in its natural habitats. To identify genes responding to pH stress a global transcriptional analysis...
Dondrup, Michael, Albaum, Stefan P, Griebel, Thasso, Henckel, Kolja, Jünemann, Sebastian, Kahlke, Tim, ...
Abstract Background Understanding transcriptional regulation by genome-wide microarray studies can contribute to unravel complex relationships between genes. Attempts to standardize the annotation of...
Rückert, Christian, Milse, Johanna, Albersmeier, Andreas, Koch, Daniel J, Pühler, Alfred, Kalinowski, Jörn
Abstract Background Regulation of sulphur metabolism in Corynebacterium glutamicum ATCC 13032 has been studied intensively in the last few years, due to its industrial as well as scientific...
Rückert, Christian, Milse, Johanna, Albersmeier, Andreas, Koch, Daniel J., Pühler, Alfred, Kalinowski, Jörn
Background: Regulation of sulphur metabolism in Corynebacterium glutamicum ATCC 13032 has been studied intensively in the last few years, due to its industrial as well as scientific importance....
Gross, Roy, Guzman, Carlos A, Sebaihia, Mohammed, Martins Dos Santos, Vítor AP, Pieper, Dietmar H, Koebnik, Ralf, ...
Abstract Background Bordetella petrii is the only environmental species hitherto found among the otherwise host-restricted and pathogenic members of the genus Bordetella . Phylogenetically, it...
Der Beitrag von Pflanzen mit neuartigen Eigenschaften zur Inwertsetzung ländlicher Räume (2008)
Serr, Anke, Pühler, Alfred, Broer, Inge
In den nächsten 20 Jahren müssen Landwirte mit Beihilfekürzungen, klimatischen Veränderungen, sich wandelnden Absatzmärkten durch verändertes Verbraucherverhalten und steigendem Bedarf an...
Neuweger, Heiko, Baumbach, Jan, Albaum, Stefan, Bekel, Thomas, Dondrup, Michael, Hüser, Andrea T, ...
Abstract Background The introduction of high-throughput genome sequencing and post-genome analysis technologies, e.g. DNA microarray approaches, has created the potential to unravel and scrutinize...
Gaigalat, Lars, Schlüter, Jan-Philip, Hartmann, Michelle, Mormann, Sascha, Tauch, Andreas, Pühler, Alfred, ...
Abstract Background The major uptake system responsible for the transport of fructose, glucose, and sucrose in Corynebacterium glutamicum ATCC 13032 is the phosphoenolpyruvate:sugar...
Complete genome sequence of the myxobacterium Sorangium cellulosum. (2007)
Schneiker, Susanne, Perlova, Olena, Kaiser, Olaf, Gerth, Klaus, Alici, Aysel, Altmeyer, Matthias, ...
GISMO--gene identification using a support vector machine for ORF classification (2007)
Krause, Lutz, McHardy, Alice C., Nattkemper, Tim W., Pühler, Alfred, Stoye, Jens, Meyer, Folker
We present the novel prokaryotic gene finder GISMO, which combines searches for protein family domains with composition-based classification based on a support vector machine. GISMO is highly...
Mormann, Sascha, Lömker, Alexander, Rückert, Christian, Gaigalat, Lars, Tauch, Andreas, Pühler, Alfred, ...
Abstract Background Corynebacterium glutamicum , a Gram-positive bacterium of the class Actinobacteria, is an industrially relevant producer of amino acids. Several methods for the targeted genetic...
Brune, Iris, Werner, Hendrikje, Hüser, Andrea T, Kalinowski, Jörn, Pühler, Alfred, Tauch, Andreas
Abstract Background The knowledge about complete bacterial genome sequences opens the way to reconstruct the qualitative topology and global connectivity of transcriptional regulatory networks. Since...
machine for ORF classification (2006)
Lutz Krause, Alice C. Mchardy, Tim W. Nattkemper, Alfred Pühler, Jens Stoye, Folker Meyer
GISMO—gene identification using a support vector
machine for ORF classification (2006)
Lutz Krause, Alice C. Mchardy, Tim W. Nattkemper, Alfred Pühler, Jens Stoye, Folker Meyer
GISMO—gene identification using a support vector
GISMO--gene identification using a support vector machine for ORF classification (2006)
Krause, Lutz, McHardy, Alice C., Nattkemper, Tim W., Pühler, Alfred, Stoye, Jens, Meyer, Folker
We present the novel prokaryotic gene finder GISMO, which combines searches for protein family domains with composition-based classification based on a support vector machine. GISMO is highly...
Finding novel genes in bacterial communities isolated from the environment (2006)
Krause, Lutz, Diaz, Naryttza N., Bartels, Daniela, Edwards, Robert A., Pühler, Alfred, Rohwer, Forest, ...
Motivation: Novel sequencing techniques can give access to organisms that are difficult to cultivate using conventional methods. When applied to environmental samples, the data generated has some...
GISMO--gene identification using a support vector machine for ORF classification (2006)
Krause, Lutz, McHardy, Alice C., Nattkemper, Tim W., Pühler, Alfred, Stoye, Jens, Meyer, Folker
We present the novel prokaryotic gene finder GISMO, which combines searches for protein family domains with composition-based classification based on a support vector machine. GISMO is highly...
Rückert, Christian, Koch, Daniel J, Rey, Daniel A, Albersmeier, Andreas, Mormann, Sascha, Pühler, Alfred, ...
Abstract Background Corynebacterium glutamicum is a high-GC Gram-positive soil bacterium of great biotechnological importance for the production of amino acids. To facilitate the rational design of...
Brune, Iris, Brinkrolf, Karina, Kalinowski, Jörn, Pühler, Alfred, Tauch, Andreas
Abstract Background The genus Corynebacterium includes Gram-positive microorganisms of great biotechnologically importance, such as Corynebacterium glutamicum and Corynebacterium efficiens , as well...
Fehlberg, Vera, Vieweg, Martin F., Dohmann, Esther M. N., Hohnjec, Natalija, Pühler, Alfred, Perlick, Andreas M., ...
In this study the further characterization of the Vicia faba leghaemoglobin promoter pVfLb29 is presented that was previously shown to be specifically active in the infected cells of root nodules and...
Fehlberg, Vera, Vieweg, Martin F., Dohmann, Esther M. N., Hohnjec, Natalija, Pühler, Alfred, Perlick, Andreas M., ...
In this study the further characterization of the Vicia faba leghaemoglobin promoter pVfLb29 is presented that was previously shown to be specifically active in the infected cells of root nodules and...
Bartels, Daniela, Kespohl, Sebastian, Albaum, Stefan, Drüke, Tanja, Goesmann, Alexander, Herold, Julia, ...
Summary: We provide the graphical tool BACCardI for the construction of virtual clone maps from standard assembler output files or BLAST based sequence comparisons. This new tool has been applied to...
Fehlberg, Vera, Vieweg, Martin F., Dohmann, Esther M. N., Hohnjec, Natalija, Pühler, Alfred, Perlick, Andreas M., ...
In this study the further characterization of the Vicia faba leghaemoglobin promoter pVfLb29 is presented that was previously shown to be specifically active in the infected cells of root nodules and...
BMC Genomics BioMed Central (2005)
Iris Brune, Karina Brinkrolf, Jörn Kalinowski, Alfred Pühler, Andreas Tauch, Andreas Tauch
Research article The individual and common repertoire of DNA-binding transcriptional regulators of Corynebacterium glutamicum, Corynebacterium efficiens, Corynebacterium diphtheriae and...
BIOINFORMATICS ORIGINAL PAPER (2004)
Genome Analysis, Daniela Bartels, Sebastian Kespohl, Stefan Albaum, Tanja Drüke, Er Goesmann, ...
BACCardI—a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison
Development of joint application strategies for two microbial gene finders (2004)
McHardy, Alice C., Goesmann, Alexander, Pühler, Alfred, Meyer, Folker
Motivation: As a starting point in annotation of bacterial genomes, gene finding programs are used for the prediction of functional elements in the DNA sequence. Due to the faster pace and increasing...
Development of joint application strategies for two microbial gene finders (2004)
McHardy, Alice C., Goesmann, Alexander, Pühler, Alfred, Meyer, Folker
Motivation: As a starting point in annotation of bacterial genomes, gene finding programs are used for the prediction of functional elements in the DNA sequence. Due to the faster pace and increasing...
Bartels, Daniela, Kespohl, Sebastian, Albaum, Stefan, Drüke, Tanja, Goesmann, Alexander, Herold, Julia, ...
Motivation: Genomic assemblies generated from sequence information need to be validated by independent methods such as physical maps. The time-consuming task of building physical maps can be...
Development of joint application strategies for two microbial gene finders (2004)
McHardy, Alice C., Goesmann, Alexander, Pühler, Alfred, Meyer, Folker
Motivation: As a starting point in annotation of bacterial genomes, gene finding programs are used for the prediction of functional elements in the DNA sequence. Due to the faster pace and increasing...
Bartels, Daniela, Kespohl, Sebastian, Albaum, Stefan, Drüke, Tanja, Goesmann, Alexander, Herold, Julia, ...
Motivation: Genomic assemblies generated from sequence information need to be validated by independent methods such as physical maps. The time-consuming task of building physical maps can be...
GenDB--an open source genome annotation system for prokaryote genomes (2003)
Meyer, Folker, Goesmann, Alexander, McHardy, Alice C., Bartels, Daniela, Bekel, Thomas, Clausen, Jörn, ...
The flood of sequence data resulting from the large number of current genome projects has increased the need for a flexible, open source genome annotation system, which so far has not existed. To...
Tauch,Andreas, Schneiker,Susanne, Selbitschka,Werner, Pühler,Alfred, Van Overbeek,Leo S., Smalla,Kornelia, ...
Plasmid pIPO2 is a cryptic, conjugative, broad-host-range plasmid isolated from the wheat rhizosphere. It efficiently self-transfers between , ß and Proteobacteria and has a...
Tauch, Andreas, Schneiker, Susanne, Selbitschka, Werner, Pühler, Alfred, Van Overbeek, Leo S., Smalla, Kornelia, ...
Plasmid pIPO2 is a cryptic, conjugative, broad-host-range plasmid isolated from the wheat rhizosphere. It efficiently self-transfers between , ß and Proteobacteria and has a...
Schneiker, Susanne, Keller, Mathias, Dröge, Marcus, Lanka, Erich, Pühler, Alfred, Selbitschka, Werner
Employing the biparental exogenous plasmid isolation method, conjugative plasmids conferring mercury resistance were isolated from the microbial community of the rhizosphere of field grown alfalfa...
Genetic Characterization of a Sinorhizobium meliloti Chromosomal Region Involved in (2000)
Lipopolysaccharide Biosynthesis, Antonio Lagares, Daniela F. Hozbor, Karsten Niehaus, Jens Lorenzen, ...
The genetic characterization of a 5.5-kb chromosomal region of Sinorhizobium meliloti 2011 that contains lpsB, a gene required for the normal development of symbiosis with Medicago spp., is...
Grönger, Petra, Manian, Sundaram S., Reiländer, Helmut, O'Connell, Michael, Priefer, Ursula B., Pühler, Alfred
By hybridization and heteroduplex studies the fixABC and nifA genes of the Rhizobium leguminosarum symbiotic plasmid pRL6JI have been identified. DNA sequencing of the region containing nifA showed...
Schröder, Joachim, Hillebrand, Annette, Klipp, Werner, Pühler, Alfred
Fragment EcoRI 7 from Ti-plasmid pTi Ach5, a part of the T-DNA in octo-pine tumors, was cloned in both orientations into pACYC184 and expressed in E.coli minicells. The cells synthesized four...
Analysis of the chromosome sequence of the legume symbiont Sinorhizobium meliloti strain 1021
Capela, Delphine, Barloy-Hubler, Frédérique, Gouzy, Jérôme, Bothe, Gordana, Ampe, Frédéric, Batut, Jacques, ...
Sinorhizobium meliloti is an α-proteobacterium that forms agronomically important N2-fixing root nodules in legumes. We report here the complete sequence of the largest constituent of its genome, a...
Finan, Turlough M., Weidner, Stefan, Wong, Kim, Buhrmester, Jens, Chain, Patrick, Vorhölter, Frank J., ...
Analysis of the 1,683,333-nt sequence of the pSymB megaplasmid from the symbiotic N2-fixing bacterium Sinorhizobium meliloti revealed that the replicon has a high gene density with a total of 1,570...
Del Papa, María F., Balagué, Laura J., Sowinski, Susana Castro, Wegener, Caren, Segundo, Eduardo, Abarca, Francisco Martínez, ...
We describe the isolation and characterization of alfalfa-nodulating rhizobia from acid soils of different locations in Central Argentina and Uruguay. A collection of 465 isolates was assembled, and...
Dusch, Nicole, Pühler, Alfred, Kalinowski, Jörn
The Corynebacterium glutamicum panD gene was identified by functional complementation of an Escherichia coli panD mutant strain. Sequence analysis revealed that the coding region of panD comprises...
Lagares, Antonio, Hozbor, Daniela F., Niehaus, Karsten, Lorenzen, Jens, Arnold, Walter, ...
The genetic characterization of a 5.5-kb chromosomal region of Sinorhizobium meliloti 2011 that contains lpsB, a gene required for the normal development of symbiosis with Medicago spp., is...
Schneiker, Susanne, Keller, Mathias, Dröge, Marcus, Lanka, Erich, Pühler, Alfred, Selbitschka, Werner
Employing the biparental exogenous plasmid isolation method, conjugative plasmids conferring mercury resistance were isolated from the microbial community of the rhizosphere of field grown alfalfa...
Aguilar, O. Mario, López, María Verónica, Riccillo, Pablo M., González, Ramón A., Pagano, Marcela, Grasso, Daniel H., ...
A collection of rhizobial isolates from nodules of wild beans, Phaseolus vulgaris var. aborigineus, found growing in virgin lands in 17 geographically separate sites in northwest Argentina was...
The production of the acidic exopolysaccharide succinoglycan (EPS I) by Rhizobium meliloti exoP* mutants expressing an ExoP protein lacking its C-terminal cytoplasmic domain and by mutants...
Katzen, Federico, Ferreiro, Diego U., Oddo, Cristian G., Ielmini, M. Verónica, Becker, Anke, Pühler, Alfred, ...
Xanthan is an industrially important exopolysaccharide produced by the phytopathogenic, gram-negative bacterium Xanthomonas campestris pv. campestris. It is composed of polymerized pentasaccharide...
Claes, Wilfried A., Pühler, Alfred, Kalinowski, Jörn
Genome sequencing revealed that the Corynebacterium glutamicum genome contained, besides gltA, two additional citrate synthase homologous genes (prpC) located in two different prpDBC gene clusters,...
GenDB—an open source genome annotation system for prokaryote genomes
Meyer, Folker, Goesmann, Alexander, McHardy, Alice C., Bartels, Daniela, Bekel, Thomas, Clausen, Jörn, ...
The flood of sequence data resulting from the large number of current genome projects has increased the need for a flexible, open source genome annotation system, which so far has not existed. To...
Conjugal Transfer of Megaplasmid 2 between Rhizobium meliloti Strains in Alfalfa Nodules
Pretorius-Güth, Inge-M., Pühler, Alfred, Simon, Reinhard
A DNA fragment containing the RP4 mob function, as well as the gentamicin and spectinomycin resistance genes, was inserted by gene replacement onto the megaplasmid 2 (pM2) of Rhizobium meliloti 0540...
Chao, Tzu-Chiao, Becker, Anke, Buhrmester, Jens, Pühler, Alfred, Weidner, Stefan
Sinorhizobium meliloti is an alpha-proteobacterium able to induce nitrogen-fixing nodules on roots of specific legumes. In order to propagate in the soil and for successful symbiotic interaction the...
El Yahyaoui, Fikri, Küster, Helge, Amor, Besma Ben, Hohnjec, Natalija, Pühler, Alfred, Becker, Anke, ...
In this study, we describe a large-scale expression-profiling approach to identify genes differentially regulated during the symbiotic interaction between the model legume Medicago truncatula and the...
Mapping and expression of a regulatory nitrogen fixation gene (fixD) of Rhizobium meliloti
Weber, Gerhard, Reiländer, Helmut, Pühler, Alfred
A 3.5-kb HindIII fragment from the main nif/fix (nitrogen fixation) gene cluster of Rhizobium meliloti was characterized by studying its expression in Escherichia coli minicells. A coding region for...
Silberbach, Maike, Schäfer, Mathias, Hüser, Andrea T., Kalinowski, Jörn, Pühler, Alfred, Krämer, Reinhard, ...
Theresponse of Corynebacterium glutamicum to ammonium limitation was studied by transcriptional and proteome profiling of cells grown in a chemostat. Our results show that ammonium-limited growth of...
Hüser, Andrea T., Chassagnole, Christophe, Lindley, Nic D., Merkamm, Muriel, Guyonvarch, Armel, Elišáková, Veronika, ...
A “second-generation” production strain was derived from a Corynebacterium glutamicum pantothenate producer by rational design to assess its potential to synthesize and accumulate the vitamin...
Chao, Tzu-Chiao, Buhrmester, Jens, Hansmeier, Nicole, Pühler, Alfred, Weidner, Stefan
A regulatory network of Sinorhizobium meliloti genes involved in adaptation to iron-limiting conditions and the involvement of the rhizobial iron regulator gene (rirA) were analyzed by mutation and...
Rückert, Christian, Koch, Daniel J, Rey, Daniel A, Albersmeier, Andreas, Mormann, Sascha, Pühler, Alfred, ...
Thieme, Frank, Koebnik, Ralf, Bekel, Thomas, Berger, Carolin, Boch, Jens, Büttner, Daniela, ...
The gram-negative plant-pathogenic bacterium Xanthomonas campestris pv. vesicatoria is the causative agent of bacterial spot disease in pepper and tomato plants, which leads to economically important...
Hohnjec, Natalija, Vieweg, Martin F., Pühler, Alfred, Becker, Anke, Küster, Helge
Arbuscular mycorrhiza (AM) is a widespread symbiotic association between plants and fungal microsymbionts that supports plant development under nutrient-limiting and various stress conditions. In...
Tauch, Andreas, Kaiser, Olaf, Hain, Torsten, Goesmann, Alexander, Weisshaar, Bernd, Albersmeier, Andreas, ...
Corynebacterium jeikeium is a “lipophilic” and multidrug-resistant bacterial species of the human skin flora that has been recognized with increasing frequency as a serious nosocomial pathogen....
The clc Element of Pseudomonas sp. Strain B13, a Genomic Island with Various Catabolic Properties
Gaillard, Muriel, Vallaeys, Tatiana, Vorhölter, Frank Jörg, Minoia, Marco, Werlen, Christoph, Sentchilo, Vladimir, ...
Pseudomonas sp. strain B13 is a bacterium known to degrade chloroaromatic compounds. The properties to use 3- and 4-chlorocatechol are determined by a self-transferable DNA element, the clc element,...
Mormann, Sascha, Lömker, Alexander, Rückert, Christian, Gaigalat, Lars, Tauch, Andreas, Pühler, Alfred, ...
Analysis of the chromosome sequence of the legume symbiont Sinorhizobium meliloti strain 1021
Capela, Delphine, Barloy-Hubler, Frédérique, Gouzy, Jérôme, Bothe, Gordana, Ampe, Frédéric, Batut, Jacques, ...
Sinorhizobium meliloti is an α-proteobacterium that forms agronomically important N2-fixing root nodules in legumes. We report here the complete sequence of the largest constituent of its genome, a...
Finan, Turlough M., Weidner, Stefan, Wong, Kim, Buhrmester, Jens, Chain, Patrick, Vorhölter, Frank J., ...
Analysis of the 1,683,333-nt sequence of the pSymB megaplasmid from the symbiotic N2-fixing bacterium Sinorhizobium meliloti revealed that the replicon has a high gene density with a total of 1,570...
Del Papa, María F., Balagué, Laura J., Sowinski, Susana Castro, Wegener, Caren, Segundo, Eduardo, Abarca, Francisco Martínez, ...
We describe the isolation and characterization of alfalfa-nodulating rhizobia from acid soils of different locations in Central Argentina and Uruguay. A collection of 465 isolates was assembled, and...
Dusch, Nicole, Pühler, Alfred, Kalinowski, Jörn
The Corynebacterium glutamicum panD gene was identified by functional complementation of an Escherichia coli panD mutant strain. Sequence analysis revealed that the coding region of panD comprises...
Lagares, Antonio, Hozbor, Daniela F., Niehaus, Karsten, Lorenzen, Jens, Arnold, Walter, ...
The genetic characterization of a 5.5-kb chromosomal region of Sinorhizobium meliloti 2011 that contains lpsB, a gene required for the normal development of symbiosis with Medicago spp., is...
Schneiker, Susanne, Keller, Mathias, Dröge, Marcus, Lanka, Erich, Pühler, Alfred, Selbitschka, Werner
Employing the biparental exogenous plasmid isolation method, conjugative plasmids conferring mercury resistance were isolated from the microbial community of the rhizosphere of field grown alfalfa...
Aguilar, O. Mario, López, María Verónica, Riccillo, Pablo M., González, Ramón A., Pagano, Marcela, Grasso, Daniel H., ...
A collection of rhizobial isolates from nodules of wild beans, Phaseolus vulgaris var. aborigineus, found growing in virgin lands in 17 geographically separate sites in northwest Argentina was...
The production of the acidic exopolysaccharide succinoglycan (EPS I) by Rhizobium meliloti exoP* mutants expressing an ExoP protein lacking its C-terminal cytoplasmic domain and by mutants...
Katzen, Federico, Ferreiro, Diego U., Oddo, Cristian G., Ielmini, M. Verónica, Becker, Anke, Pühler, Alfred, ...
Xanthan is an industrially important exopolysaccharide produced by the phytopathogenic, gram-negative bacterium Xanthomonas campestris pv. campestris. It is composed of polymerized pentasaccharide...
Claes, Wilfried A., Pühler, Alfred, Kalinowski, Jörn
Genome sequencing revealed that the Corynebacterium glutamicum genome contained, besides gltA, two additional citrate synthase homologous genes (prpC) located in two different prpDBC gene clusters,...
GenDB—an open source genome annotation system for prokaryote genomes
Meyer, Folker, Goesmann, Alexander, McHardy, Alice C., Bartels, Daniela, Bekel, Thomas, Clausen, Jörn, ...
The flood of sequence data resulting from the large number of current genome projects has increased the need for a flexible, open source genome annotation system, which so far has not existed. To...
Conjugal Transfer of Megaplasmid 2 between Rhizobium meliloti Strains in Alfalfa Nodules
Pretorius-Güth, Inge-M., Pühler, Alfred, Simon, Reinhard
A DNA fragment containing the RP4 mob function, as well as the gentamicin and spectinomycin resistance genes, was inserted by gene replacement onto the megaplasmid 2 (pM2) of Rhizobium meliloti 0540...
Chao, Tzu-Chiao, Becker, Anke, Buhrmester, Jens, Pühler, Alfred, Weidner, Stefan
Sinorhizobium meliloti is an alpha-proteobacterium able to induce nitrogen-fixing nodules on roots of specific legumes. In order to propagate in the soil and for successful symbiotic interaction the...
El Yahyaoui, Fikri, Küster, Helge, Amor, Besma Ben, Hohnjec, Natalija, Pühler, Alfred, Becker, Anke, ...
In this study, we describe a large-scale expression-profiling approach to identify genes differentially regulated during the symbiotic interaction between the model legume Medicago truncatula and the...
Mapping and expression of a regulatory nitrogen fixation gene (fixD) of Rhizobium meliloti
Weber, Gerhard, Reiländer, Helmut, Pühler, Alfred
A 3.5-kb HindIII fragment from the main nif/fix (nitrogen fixation) gene cluster of Rhizobium meliloti was characterized by studying its expression in Escherichia coli minicells. A coding region for...
Silberbach, Maike, Schäfer, Mathias, Hüser, Andrea T., Kalinowski, Jörn, Pühler, Alfred, Krämer, Reinhard, ...
Theresponse of Corynebacterium glutamicum to ammonium limitation was studied by transcriptional and proteome profiling of cells grown in a chemostat. Our results show that ammonium-limited growth of...
Hohnjec, Natalija, Vieweg, Martin F., Pühler, Alfred, Becker, Anke, Küster, Helge
Arbuscular mycorrhiza (AM) is a widespread symbiotic association between plants and fungal microsymbionts that supports plant development under nutrient-limiting and various stress conditions. In...
Tauch, Andreas, Kaiser, Olaf, Hain, Torsten, Goesmann, Alexander, Weisshaar, Bernd, Albersmeier, Andreas, ...
Corynebacterium jeikeium is a “lipophilic” and multidrug-resistant bacterial species of the human skin flora that has been recognized with increasing frequency as a serious nosocomial pathogen....
Hüser, Andrea T., Chassagnole, Christophe, Lindley, Nic D., Merkamm, Muriel, Guyonvarch, Armel, Elišáková, Veronika, ...
A “second-generation” production strain was derived from a Corynebacterium glutamicum pantothenate producer by rational design to assess its potential to synthesize and accumulate the vitamin...
Chao, Tzu-Chiao, Buhrmester, Jens, Hansmeier, Nicole, Pühler, Alfred, Weidner, Stefan
A regulatory network of Sinorhizobium meliloti genes involved in adaptation to iron-limiting conditions and the involvement of the rhizobial iron regulator gene (rirA) were analyzed by mutation and...
Rückert, Christian, Koch, Daniel J, Rey, Daniel A, Albersmeier, Andreas, Mormann, Sascha, Pühler, Alfred, ...
Thieme, Frank, Koebnik, Ralf, Bekel, Thomas, Berger, Carolin, Boch, Jens, Büttner, Daniela, ...
The gram-negative plant-pathogenic bacterium Xanthomonas campestris pv. vesicatoria is the causative agent of bacterial spot disease in pepper and tomato plants, which leads to economically important...
The clc Element of Pseudomonas sp. Strain B13, a Genomic Island with Various Catabolic Properties
Gaillard, Muriel, Vallaeys, Tatiana, Vorhölter, Frank Jörg, Minoia, Marco, Werlen, Christoph, Sentchilo, Vladimir, ...
Pseudomonas sp. strain B13 is a bacterium known to degrade chloroaromatic compounds. The properties to use 3- and 4-chlorocatechol are determined by a self-transferable DNA element, the clc element,...
Mormann, Sascha, Lömker, Alexander, Rückert, Christian, Gaigalat, Lars, Tauch, Andreas, Pühler, Alfred, ...
Bönemann, Gabriele, Stiens, Michael, Pühler, Alfred, Schlüter, Andreas
Plasmid-encoded quinolone resistance was previously reported for different bacteria isolated from patients not only in the United States and Asia but also in Europe. Here we describe the isolation,...
Hain, Torsten, Steinweg, Christiane, Kuenne, Carsten Tobias, Billion, André, Ghai, Rohit, Chatterjee, Som Subhra, ...
We present the complete genome sequence of Listeria welshimeri, a nonpathogenic member of the genus Listeria. Listeria welshimeri harbors a circular chromosome of 2,814,130 bp with 2,780 open reading...
GISMO—gene identification using a support vector machine for ORF classification
Krause, Lutz, McHardy, Alice C., Nattkemper, Tim W., Pühler, Alfred, Stoye, Jens, Meyer, Folker
We present the novel prokaryotic gene finder GISMO, which combines searches for protein family domains with composition-based classification based on a support vector machine. GISMO is highly...
Szczepanowski, Rafael, Krahn, Irene, Bohn, Nadine, Pühler, Alfred, Schlüter, Andreas
The macrolide resistance plasmid pRSB111 was isolated from bacteria residing in the final effluents of a wastewater treatment plant. The 47-kb plasmid confers resistance to azithromycin,...
Brune, Iris, Jochmann, Nina, Brinkrolf, Karina, Hüser, Andrea T., Gerstmeir, Robert, Eikmanns, Bernhard J., ...
The transcriptional regulator Cg1486 of Corynebacterium glutamicum ATCC 13032 is a member of the IclR protein family and belongs to the conserved set of regulatory proteins in corynebacteria. A...
Nakunst, Diana, Larisch, Christof, Hüser, Andrea T., Tauch, Andreas, Pühler, Alfred, Kalinowski, Jörn
The gene for the extracytoplasmic function (ECF) sigma factor SigM was deleted from the chromosome of the gram-positive soil bacterium Corynebacterium glutamicum to elucidate the role of the SigM...
Schlüter, Andreas, Krahn, Irene, Kollin, Florian, Bönemann, Gabriele, Stiens, Michael, Szczepanowski, Rafael, ...
Plasmid pGNB1 was isolated from bacteria residing in the activated sludge compartment of a wastewater treatment plant by using a transformation-based approach. This 60-kb plasmid confers resistance...
Neuweger, Heiko, Baumbach, Jan, Albaum, Stefan, Bekel, Thomas, Dondrup, Michael, Hüser, Andrea T, ...
Gaigalat, Lars, Schlüter, Jan-Philip, Hartmann, Michelle, Mormann, Sascha, Tauch, Andreas, Pühler, Alfred, ...
Gartemann, Karl-Heinz, Abt, Birte, Bekel, Thomas, Burger, Annette, Engemann, Jutta, Flügel, Monika, ...
Clavibacter michiganensis subsp. michiganensis is a plant-pathogenic actinomycete that causes bacterial wilt and canker of tomato. The nucleotide sequence of the genome of strain NCPPB382 was...
Gross, Roy, Guzman, Carlos A, Sebaihia, Mohammed, Martins Dos Santos, Vítor AP, Pieper, Dietmar H, Koebnik, Ralf, ...
Rückert, Christian, Milse, Johanna, Albersmeier, Andreas, Koch, Daniel J, Pühler, Alfred, Kalinowski, Jörn
EMMA 2 – A MAGE-compliant system for the collaborative analysis and integration of microarray data
Dondrup, Michael, Albaum, Stefan P, Griebel, Thasso, Henckel, Kolja, Jünemann, Sebastian, Kahlke, Tim, ...
Strauch, Eckhard, Hammerl, Jens Andre, Konietzny, Antje, Schneiker-Bekel, Susanne, Arnold, Walter, Goesmann, Alexander, ...
The production of Shiga toxin (Stx) (verocytotoxin) is a major virulence factor of Escherichia coli O157:H7 strains (Shiga toxin-producing E. coli [STEC] O157). Two types of Shiga toxins, designated...
EDGAR: A software framework for the comparative analysis of prokaryotic genomes
Blom, Jochen, Albaum, Stefan P, Doppmeier, Daniel, Pühler, Alfred, Vorhölter, Frank-Jörg, Zakrzewski, Martha, ...
Strittmatter, Axel W, Liesegang, Heiko, Rabus, Ralf, Decker, Iwona, Amann, Judith, Andres, Sönke, ...
Sulfate-reducing bacteria (SRB) belonging to the metabolically versatile Desulfobacteriaceae are abundant in marine sediments and contribute to the global carbon cycle by complete oxidation of...