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157 Publikationen

2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2761035
Arnold, Martin, Wibberg, Daniel, Blom, Jochen, Schatschneider, Sarah, Winkler, Anika, Kutter, Yvonne, Rückert, Christian, et al. 2015. “Draft Genome Sequence of Pseudomonas aeruginosa Strain WS136, a Highly Cytotoxic ExoS-Positive Wound Isolate Recovered from Pyoderma Gangrenosum”. Genome announcements 3 (4).
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2719679
Vinardell, JM, Acosta-Jurado, S, Göttfert, M, Zehner, S, Becker, A, Baena-Ropero, I, Blom, J, et al. 2015. “The Sinorhizobium fredii HH103 genome: a comparative analysis with S. fredii strains differing in their symbiotic behaviour with soybean”. Molecular Plant-Microbe Interactions 28 (7): 811-824.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2658539
Smits, Theo H. M., Guerrero-Prieto, Víctor M., Hernández-Escarcega, Germán, Blom, Jochen, Goesmann, Alexander, Rezzonico, Fabio, Duffy, Brion, and Stockwell, Virginia O. 2014. “Whole-Genome Sequencing of Erwinia amylovora Strains from Mexico Detects Single Nucleotide Polymorphisms in rpsL Conferring Streptomycin Resistance and in the avrRpt2 Effector Altering Host Interactions”. Genome announcements 2 (1).
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2694652
Bonte, Anja, Neuweger, Heiko, Goesmann, Alexander, Thonar, Cécile, Mäder, Paul, Langenkämper, Georg, and Niehaus, Karsten. 2014. “Metabolite profiling on wheat grain to enable a distinction of samples from organic and conventional farming systems”. Journal of the science of food and agriculture 94 (13): 2605-2612.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2690174
Christiansen, Guntram, Goesmann, Alexander, and Kurmayer, Rainer. 2014. “Elucidation of insertion elements carried on plasmids and in vitro construction of shuttle vectors from the toxic cyanobacterium planktothrix”. Applied and environmental microbiology 80 (16): 4887-4897.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2674387
Hilker, Rolf, Stadermann, Kai Bernd, Doppmeier, Daniel, Kalinowski, Jörn, Stoye, Jens, Straube, Jasmin, Winnebald, Jörn, and Goesmann, Alexander. 2014. “ReadXplorer - Visualization and Analysis of Mapped Sequences”. Bioinformatics 30 (16): 2247-2254.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2676552
Becker, Jennifer, Timmermann, Christina, Rupp, Oliver, Albaum, Stefan, Brinkrolf, Karina, Goesmann, Alexander, Pühler, Alfred, Tauch, Andreas, and Noll, Thomas. 2014. “Transcriptome analyses of CHO cells with the next-generation microarray CHO41K: Development and validation by analysing the influence of the growth stimulating substance IGF-1 substitute LongR(3.)”. Journal of biotechnology 178: 23-31.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2656773
Rupp, Oliver, Becker, Jennifer, Brinkrolf, Karina, Timmermann, Christina, Borth, Nicole, Pühler, Alfred, Noll, Thomas, and Goesmann, Alexander. 2014. “Construction of a Public CHO Cell Line Transcript Database Using Versatile Bioinformatics Analysis Pipelines”. PLoS ONE 9 (1): e85568.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2694682
Wegmann, Udo, Louis, Petra, Goesmann, Alexander, Henrissat, Bernard, Duncan, Sylvia H., and Flint, Harry J. 2014. “Complete genome of a new Firmicutes species belonging to the dominant human colonic microbiota ('Ruminococcus bicirculans') reveals two chromosomes and a selective capacity to utilize plant glucans”. Environmental microbiology 16 (9): 2879-2890.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2643946
Dohm, Juliane C, Minoche, André E, Holtgräwe, Daniela, Capella-Gutiérrez, Salvador, Zakrzewski, Falk, Tafer, Hakim, Rupp, Oliver, et al. 2014. “The genome of the recently domesticated crop plant sugar beet (Beta vulgaris)”. Nature 505 (7484): 546-549.
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2651944
Tielen, Petra, Wibberg, Daniel, Blom, Jochen, Rosin, Nathalie, Meyer, Ann-Kathrin, Bunk, Boyke, Schobert, Max, et al. 2014. “Genome Sequence of the Small-Colony Variant Pseudomonas aeruginosa MH27, Isolated from a Chronic Urethral Catheter Infection”. Genome announcements 2 (1).
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2664976
Rückert, Christian, Szczepanowski, Rafael, Albersmeier, Andreas, Goesmann, Alexander, Fischer, Nicole, Steinkämper, Anne, Pühler, Alfred, Biener, Richard, Schwartz, Dirk, and Kalinowski, Jörn. 2014. “Complete Genome Sequence of the Actinobacterium Actinoplanes friuliensis HAG 010964, producer of the lipopeptide antibiotic friulimycin”. Journal of biotechnology 178: 41-42.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2555342
He, Pengfei, Hao, Kun, Blom, Jochen, Rückert, Christian, Vater, Joachim, Mao, Zichao, Wu, Yixin, et al. 2013. “Genome sequence of the plant growth promoting strain Bacillus amyloliquefaciens subsp. plantarum B9601-Y2 and expression of mersacidin and other secondary metabolites”. Journal of biotechnology 164 (2): 281-291.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2552500
Soares, S.C., Silva, A., Trost, Eva, Blom, Jochen, Ramos, R., Carneiro, A., Ali, A., et al. 2013. “The Pan-Genome of the Animal Pathogen Corynebacterium pseudotuberculosis Reveals Differences in Genome Plasticity between the Biovar ovis and equi Strains”. PLoS ONE 8 (1): e53818.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2549908
Wibberg, Daniel, Jelonek, Lukas, Rupp, Oliver, Kröber, Magdalena, Eikmeyer, Felix Gregor, Goesmann, Alexander, Hartmann, Anton, et al. 2013. “Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14”. Journal of Biotechnology 167 (2): 142-155.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2606943
Vences, Miguel, Hauswaldt, Susanne, Steinfartz, Sebastian, Rupp, Oliver, Goesmann, Alexander, Künzel, Sven, Orozco-Terwengel, Pablo, et al. 2013. “Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana”. Molecular phylogenetics and evolution 68 (3): 657-670.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2602756
Smits, Theo H. M., Rezzonico, Fabio, López, María M., Blom, Jochen, Goesmann, Alexander, Frey, Jürg E., and Duffy, Brion. 2013. “Phylogenetic position and virulence apparatus of the pear flower necrosis pathogen Erwinia piriflorinigrans CFBP 5888(T) as assessed by comparative genomics”. Systematic and applied microbiology 36 (7): 449-456.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2641228
Jünemann, Sebastian, Sedlazeck, Fritz Joachim, Prior, Karola, Albersmeier, Andreas, John, Uwe, Kalinowski, Jörn, Mellmann, Alexander, et al. 2013. “Corrigendum: Updating benchtop sequencing performance comparison”. Nature biotechnology 31 (12): 1148.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2633427
Wibberg, Daniel, Blom, Jochen, Rückert, Christian, Winkler, Anika, Albersmeier, Andreas, Pühler, Alfred, Schlüter, Andreas, and Scharf, Birgit E. 2013. “Draft Genome Sequence of Sinorhizobium meliloti RU11/001, a model organism for flagellum structure, motility and chemotaxis”. Journal of Biotechnology 168 (4): 731-733.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2637220
Wu, Huijun, Qiao, Junqing, Blom, Jochen, Rückert, Christian, Reva, Oleg, Gao, Xuewen, and Borriss, Rainer. 2013. “The Rhizobacterium Bacillus amyloliquefaciens subsp. plantarum NAU-B3 Contains a Large Inversion within the Central Portion of the Genome”. Genome announcements 1 (6): e00941-13.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2632946
Köhler, Kirsten A. K., Rückert, Christian, Schatschneider, Sarah, Vorhölter, Frank-Jörg, Szczepanowski, Rafael, Blank, Lars M., Niehaus, Karsten, et al. 2013. “Complete genome sequence of Pseudomonas sp. strain VLB120 a solvent tolerant, styrene degrading bacterium, isolated from forest soil”. Journal of Biotechnology 168 (4): 729-730.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2622238
Barbe, S., Llop, P., Blom, Jochen, Cabrefiga, J., Goesmann, Alexander, Duffy, B., Montesinos, E., Smits, T. H. M., and Lopez, M. M. 2013. “Complete sequence of Erwinia piriflorinigrans plasmids pEPIR37 and pEPIR5 and role of pEPIR37 in pathogen virulence”. Plant Pathology 62 (4): 786-798.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2615581
Brinkrolf, Karina, Rupp, Oliver, Laux, Holger, Kollin, Florian, Ernst, Wolfgang, Linke, Burkhard, Kofler, Rudolf, et al. 2013. “Chinese hamster genome sequenced from sorted chromosomes”. Nature Biotechnology 31 (8): 694-695.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2564601
Riedel, Thomas, Gómez-Consarnau, Laura, Tomasch, Jürgen, Martin, Madeleine, Jarek, Michael, González, José M, Spring, Stefan, et al. 2013. “Genomics and Physiology of a Marine Flavobacterium Encoding a Proteorhodopsin and a Xanthorhodopsin-Like Protein”. PLOS ONE 8 (3): e57487.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2558460
Roetzer, Andreas, Diel, Roland, Kohl, Thomas A, Rückert, Christian, Nübel, Ulrich, Blom, Jochen, Wirth, Thierry, et al. 2013. “Whole Genome Sequencing versus Traditional Genotyping for Investigation of a Mycobacterium tuberculosis Outbreak: A Longitudinal Molecular Epidemiological Study”. PLoS medicine 10 (2): e1001387.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2560837
Fritzenwanker, Moritz, Kuenne, Carsten, Billion, André, Hain, Torsten, Zimmermann, Kurt, Goesmann, Alexander, Chakraborty, Trinad, and Domann, Eugen. 2013. “Complete Genome Sequence of the Probiotic Enterococcus faecalis Symbioflor 1 Clone DSM 16431”. Genome Announcements 1 (1): e00165-12.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2576080
Toepel, Jörg, Illmer-Kephalides, Maike, Jaenicke, Sebastian, Straube, Jasmin, May, Patrick, Goesmann, Alexander, and Kruse, Olaf. 2013. “New insights into Chlamydomonas reinhardtii hydrogen production processes by combined microarray/RNA-seq transcriptomics”. Plant Biotechnology Journal 11 (6): 717-733.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2576539
Wichmann, Fabienne, Vorhölter, Frank-Jörg, Hersemann, Lena, Widmer, Franco, Blom, Jochen, Niehaus, Karsten, Reinhard, Sonja, Conradin, Constanze, and Kölliker, Roland. 2013. “The noncanonical type III secretion system of Xanthomonas translucens pv. graminis is essential for forage grass infection”. Molecular plant pathology 14 (6): 576-588.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2631956
Rückert, Christian, Szczepanowski, Rafael, Albersmeier, Andreas, Goesmann, Alexander, Iftime, Dumitrita, Musiol, Ewa Maria, Blin, Kai, et al. 2013. “Complete genome sequence of the kirromycin producer Streptomyces collinus Tü 365 consisting of a linear chromosome and two linear plasmids”. Journal of Biotechnology 168 (4): 739-740.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2566922
Jünemann, Sebastian, Sedlazeck, Fritz Joachim, Prior, Karola, Albersmeier, Andreas, John, Uwe, Kalinowski, Jörn, Mellmann, Alexander, et al. 2013. “Updating benchtop sequencing performance comparison”. Nature Biotechnology 31 (4): 294-296.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2635526
Koeck, Daniela E., Wibberg, Daniel, Koellmeier, Tanja, Blom, Jochen, Jaenicke, Sebastian, Winkler, Anika, Albersmeier, Andreas, et al. 2013. “Draft genome sequence of the cellulolytic Clostridium thermocellum wild-type strain BC1 playing a role in cellulosic biomass degradation”. Journal of Biotechnology 168 (1): 62-63.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2557779
Weidner, Stefan, Baumgarth, Birgit, Göttfert, Michael, Jaenicke, Sebastian, Pühler, Alfred, Schneiker-Bekel, Susanne, Serrania, Javier, Szczepanowski, Rafael, and Becker, Anke. 2013. “Genome Sequence of Sinorhizobium meliloti Rm41”. Genome Announcements 1 (1): e00013-12.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2557938
Mann, Rachel A, Smits, Theo H M, Bühlmann, Andreas, Blom, Jochen, Goesmann, Alexander, Frey, Jürg E, Plummer, Kim M, et al. 2013. “Comparative Genomics of 12 Strains of Erwinia amylovora Identifies a Pan-Genome with a Large Conserved Core”. PLOS ONE 8 (2): e55644.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2561776
Trötschel, Christian, Albaum, Stefan, and Poetsch, Ansgar. 2013. “Proteome turnover in bacteria: current status for Corynebacterium glutamicum and related bacteria”. Microbial biotechnology, 708-719.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2554079
Kuenne, Carsten, Billion, André, Mraheil, Mobarak Abu, Strittmatter, Axel, Daniel, Rolf, Goesmann, Alexander, Barbuddhe, Sukhadeo, Hain, Torsten, and Chakraborty, Trinad. 2013. “Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome”. BMC Genomics 14 (1): 47.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2548286
Luque-Almagro, Víctor M, Acera, Felipe, Igeño, Ma Isabel, Wibberg, Daniel, Roldán, Ma Dolores, Sáez, Lara P, Hennig, Magdalena, et al. 2013. “Draft whole genome sequence of the cyanide-degrading bacterium Pseudomonas pseudoalcaligenes CECT5344”. Environmental Microbiology 15 (1): 253-270.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2645668
Bogen, Christian, Al-Dilaimi, Arwa, Albersmeier, Andreas, Wichmann, Julian, Grundmann, Michael, Rupp, Oliver, Lauersen, Kyle J., et al. 2013. “Reconstruction of the lipid metabolism for the microalga Monoraphidium neglectum from its genome sequence reveals characteristics suitable for biofuel production”. BMC Genomics 14 (1): 926.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2635520
Dam, Bomba, Dam, Somasri, Blom, Jochen, and Liesack, Werner. 2013. “Genome Analysis Coupled with Physiological Studies Reveals a Diverse Nitrogen Metabolism in Methylocystis sp Strain SC2”. Plos One 8 (10): e74767.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2610129
Kessler, Nikolas, Bonte, Anja, Langenkämper, Georg, Niehaus, Karsten, Goesmann, Alexander, and Nattkemper, Tim Wilhelm. 2013. “MeltDB 2.0 - Advances of the metabolomics software system”. Bioinformatics 29 (19): 2452-2459.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2607974
Niu, Ben, Vater, Joachim, Rückert, Christian, Blom, Jochen, Lehmann, Maik, Ru, Jin-Jiang, Chen, Xiao-Hua, Wang, Qi, and Borriss, Rainer. 2013. “Polymyxin P is the active principle in suppressing phytopathogenic Erwinia spp. by the biocontrol rhizobacterium Paenibacillus polymyxa M-1”. BMC microbiology 13 (1): 137.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2529202
Zakrzewski, Martha, Bekel, Thomas, Ander, Christina, Pühler, Alfred, Rupp, Oliver, Stoye, Jens, Schlüter, Andreas, and Goesmann, Alexander. 2013. “MetaSAMS - A novel software platform for taxonomic classification, functional annotation and comparative analysis of metagenome datasets”. Journal of Biotechnology 167 (2): 156-165.
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2013 | Konferenzbeitrag | Im Druck | PUB-ID: 2538625
Bonte, Anja, Kessler, Nikolas, Nattkemper, Tim Wilhelm, Goesmann, Alexander, Cecile, Thonar, Mäder, Paul, Niehaus, Karsten, and Langenkämper, Georg. In Press. “Einsatz von Protein- und Metabolit-Profiling-Methoden zur Unterscheidung von ökologischem und konventionellem Weizen”. Presented at the 12. Wissenschaftstagung Ökologischer Landbau „Ideal und Wirklichkeit – Perspektiven Ökologischer Landbewirtschaftung“, Bonn, Germany .
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2473849
Weidner, Stefan, Becker, A., Bonilla, I., Jaenicke, Sebastian, Lloret, J., Margaret, I., Pühler, Alfred, et al. 2012. “Genome Sequence of the Soybean Symbiont Sinorhizobium fredii HH103”. Journal of Bacteriology 194 (6): 1617-1618.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2484618
Zakrzewski, Martha, Goesmann, Alexander, Jaenicke, Sebastian, Jünemann, Sebastian, Eikmeyer, Felix Gregor, Szczepanowski, Rafael, Al-Soud, Waleed Abu, Sørensen, Søren, Pühler, Alfred, and Schlüter, Andreas. 2012. “Profiling of the metabolically active community from a production-scale biogas plant by means of high-throughput metatranscriptome sequencing”. Journal of Biotechnology 158 (4): 248-258.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500990
Rose, Michael T, Rose, Terry J, Pariasca-Tanaka, Juan, Yoshihashi, Tadashi, Neuweger, Heiko, Goesmann, Alexander, Frei, Michael, and Wissuwa, Matthias. 2012. “Root metabolic response of rice (Oryza sativa L.) genotypes with contrasting tolerance to zinc deficiency and bicarbonate excess”. Planta 236 (4): 959-973.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2471858
Ausec, Luka, Zakrzewski, Martha, Goesmann, Alexander, Schlüter, Andreas, and Mandic-Mulec, Ines. 2012. “Correction: bioinformatic analysis reveals high diversity of bacterial genes for laccase-like enzymes”. PLoS ONE 7 (1).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2471681
Rademacher, Antje, Zakrzewski, Martha, Schlüter, Andreas, Schonberg, Mandy, Szczepanowski, Rafael, Goesmann, Alexander, Pühler, Alfred, and Klocke, Michael. 2012. “Characterization of microbial biofilms in a thermophilic biogas system by high-throughput metagenome sequencing”. FEMS Microbiology Ecology 79 (3): 785-799.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2513256
Filippini, Manuela, Qi, Weihong, Blom, Jochen, Goesmann, Alexander, Smits, Theo H M, and Bagheri, Homayoun C. 2012. “Genome Sequence of Fibrella aestuarina BUZ 2T, a Filamentous Marine Bacterium”. Journal of bacteriology 194 (13): 3555.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2498232
Trötschel, C, Albaum, Stefan, Wolff, D, Schröder, S, Goesmann, Alexander, Nattkemper, Tim Wilhelm, and Poetsch, A. 2012. “Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation”. Molecular & Cellular Proteomics 11 (8): 512-526.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2487853
Brankatschk, K, Blom, Jochen, Goesmann, Alexander, Smits, T H M, and Duffy, B. 2012. “Comparative genomic analysis of Salmonella enterica subsp. enterica serovar Weltevreden foodborne strains with other serovars”. International journal of food microbiology 155 (3): 247-256.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2486204
Blom, Jochen, Rückert, Christian, Niu, Ben, Wang, Qi, and Borriss, Rainer. 2012. “The Complete Genome of Bacillus amyloliquefaciens subsp. plantarum CAU B946 Contains a Gene Cluster for Nonribosomal Synthesis of Iturin A”. Journal of bacteriology 194 (7): 1845-1846.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2474002
Schneider, Jessica, Rupp, Oliver, Trost, Eva, Jaenicke, Sebastian, Passoth, V., Goesmann, Alexander, Tauch, Andreas, and Brinkrolf, Karina. 2012. “Genome sequence of Wickerhamomyces anomalus DSM 6766 reveals genetic basis of biotechnologically important antimicrobial activities”. FEMS Yeast Research 12 (3): 382-386.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2478526
Hackl, Matthias, Jadhav, Vaibhav, Jakobi, Tobias, Rupp, Oliver, Brinkrolf, Karina, Goesmann, Alexander, Pühler, Alfred, Noll, Thomas, Borth, Nicole, and Grillari, Johannes. 2012. “Computational identification of microRNA gene loci and precursor microRNA sequences in CHO cell lines”. Journal of Biotechnology 158 (3): 151-155.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2405255
Persicke, Marcus, Rückert, Christian, Plassmeier, Jens, Stutz, Leonhard, Kessler, Nikolas, Kalinowski, Jörn, Goesmann, Alexander, and Neuweger, Heiko. 2012. “MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example”. Metabolomics 8 (2): 310-322.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2510984
Hilker, Rolf, Sickinger, Corinna, Pedersen, Christian N. S., and Stoye, Jens. 2012. “UniMoG - A unifying framework for genomic distance calculation and sorting based on DCJ”. Bioinformatics 28 (19): 2509-2511.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500959
Kahlke, Tim, Goesmann, Alexander, Hjerde, Erik, Willassen, Nils Peder, and Haugen, Peik. 2012. “Unique core genomes of the bacterial family vibrionaceae: Insights into niche adaptation and speciation”. BMC genomics 13 (1): 179.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500966
Hain, Torsten, Ghai, Rohit, Billion, Andre, Kuenne, Carsten Tobias, Steinweg, Christiane, Izar, Benjamin, Mohamed, Walid, et al. 2012. “Comparative genomics and transcriptomics of lineages I, II, and III strains of Listeria monocytogenes”. BMC Genomics 13 (1): 144.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2530487
Filippini, Manuela, Qi, Weihong, Jaenicke, Sebastian, Goesmann, Alexander, Smits, Theo H. M., and Bagheri, Homayoun C. 2012. “Genome Sequence of the Filamentous Bacterium Fibrisoma limi BUZ 3(T)”. Journal of Bacteriology 194 (16): 4445.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500937
Rezzonico, Fabio, Braun-Kiewnick, Andrea, Mann, Rachel A, Rodoni, Brendan, Goesmann, Alexander, Duffy, Brion, and Smits, Theo H M. 2012. “Lipopolysaccharide biosynthesis genes discriminate between Rubus- and Spiraeoideae-infective genotypes of Erwinia amylovora”. Molecular plant pathology 13 (8): 975-984.
PUB | DOI | WoS | PubMed | Europe PMC
 
2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2501081
De Maayer, Pieter, Chan, Wai Yin, Rezzonico, Fabio, Bühlmann, Andreas, Venter, Stephanus N, Blom, Jochen, Goesmann, Alexander, et al. 2012. “Complete genome sequence of clinical isolate Pantoea ananatis LMG 5342”. Journal of Bacteriology 194 (6): 1615-1616.
PUB | DOI | WoS | PubMed | Europe PMC | GenBank
 
2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2530885
Brinkrolf, Karina, Schneider, Jessica, Knecht, Marina, Rückert, Christian, and Tauch, Andreas. 2012. “Draft Genome Sequence of Turicella otitidis ATCC 51513, Isolated from Middle Ear Fluid from a Child with Otitis Media”. Journal of Bacteriology 194 (21): 5968-5969.
PUB | DOI | WoS | PubMed | Europe PMC
 
2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2517230
Jünemann, Sebastian, Prior, Karola, Szczepanowski, Rafael, Harks, Inga, Ehmke, Benjamin, Goesmann, Alexander, Stoye, Jens, and Harmsen, Dag. 2012. “Bacterial Community Shift in Treated Periodontitis Patients Revealed by Ion Torrent 16S rRNA Gene Amplicon Sequencing”. PLoS ONE 7 (8): e41606.
PUB | DOI | WoS | PubMed | Europe PMC
 
2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500946
Mann, Rachel A, Blom, Jochen, Bühlmann, Andreas, Plummer, Kim M, Beer, Steven V, Luck, Joanne E, Goesmann, Alexander, et al. 2012. “Comparative analysis of the Hrp pathogenicity island of Rubus- and Spiraeoideae-infecting Erwinia amylovora strains identifies the IT region as a remnant of an integrative conjugative element”. Gene 504 (1): 6-12.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2300063
Albaum, Stefan, Hahne, H., Otto, A., Haußmann, U., Becher, D., Poetsch, A., Goesmann, Alexander, and Nattkemper, Tim Wilhelm. 2011. “A guide through the computational analysis of isotope-labeled mass spectrometry-based quantitative proteomics data: an application study”. Proteome Science 9 (1): 30.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2451800
Toepel, Jörg, Albaum, Stefan, Arvidsson, S., Goesmann, Alexander, La Russa, Marco, Rogge, Kristin, and Kruse, Olaf. 2011. “Construction and evaluation of a whole genome microarray of Chlamydomonas reinhardtii”. BMC Genomics 12 (1): 579-589.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2375634
Pothier, Joël F., Vorhölter, Frank-Jörg, Blom, Jochen, Goesmann, Alexander, Pühler, Alfred, Smits, TH, and Duffy, B. 2011. “The ubiquitous plasmid pXap41 in the invasive phytopathogen Xanthomonas arboricola pv. pruni: complete sequence and comparative genomic analysis”. FEMS Microbiology Letters 323 (1): 52-60.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2354731
Wibberg, Daniel, Blom, Jochen, Jaenicke, Sebastian, Kollin, Florian, Rupp, Oliver, Scharf, Birgit, Schneiker-Bekel, Susanne, et al. 2011. “Complete genome sequencing of Agrobacterium sp. H13-3, the former Rhizobium lupini H13-3, reveals a tripartite genome consisting of a circular and a linear chromosome and an accessory plasmid but lacking a tumor-inducing Ti-plasmid”. Journal of Biotechnology 155 (1): 50-62.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2317371
Küberl, Andreas, Schneider, Jessica, Thallinger, Gerhard G., Anderl, Ingund, Wibberg, Daniel, Hajek, Tanja, Jaenicke, Sebastian, et al. 2011. “High-quality genome sequence of Pichia pastoris CBS7435”. Journal of Biotechnology 154 (4): 312-320.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2396576
Becker, Jennifer, Hackel, M, Jakobi, Tobias, Rupp, Oliver, Schneider, Jessica, Szczepanowski, Rafael, Bekel, Thomas, et al. 2011. “Unraveling the Chinese hamster ovary cell line transcriptome by next-generation sequencing”. Journal of Biotechnology 156 (3): 227-235.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289576
Thomas, Vincent, Bertelli, Claire, Collyn, Francois, Casson, Nicola, Telenti, Amalio, Goesmann, Alexander, Croxatto, Antony, and Greub, Gilbert. 2011. “Lausannevirus, a giant amoebal virus encoding histone doublets”. Environmental Microbiology 13 (6): 1454-1466.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2411830
Ausec, Luka, Zakrzewski, Martha, Goesmann, Alexander, Schlüter, Andreas, and Mandic-Mulec, Ines. 2011. “Bioinformatic analysis reveals high diversity of bacterial genes for laccase-like enzymes”. PLoS ONE 6 (10): e25724.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2326445
Schneider, Jessica, Blom, Jochen, Jaenicke, Sebastian, Linke, Burkhard, Brinkrolf, Karina, Neuweger, Heiko, Tauch, Andreas, and Goesmann, Alexander. 2011. “RAPYD - Rapid Annotation Platform for Yeast Data”. Journal of Biotechnology 155 (1): 118-126.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2447730
Gonzalez, Jose M., Pinhassi, Jarone, Fernández-Gómez, Beatriz, Coll-Llado, Montserrat, Gonzalez-Velazquez, Monica, Puigbo, Pere, Jaenicke, Sebastian, et al. 2011. “Genomics of the proteorhodopsin-containing marine flavobacterium Dokdonia sp. MED134”. Applied and Environmental Microbiology 77 (24): 8676-8686.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2307104
Smits, Theo H. M., Rezzonico, Fabio, Kamber, Tim, Blom, Jochen, Goesmann, Alexander, Ishimaru, Carol A., Frey, Juerg E., Stockwell, Virginia O., and Duffy, Brion. 2011. “Metabolic Versatility and Antibacterial Metabolite Biosynthesis Are Distinguishing Genomic Features of the Fire Blight Antagonist Pantoea vagans C9-1”. PLoS ONE 6 (7): e22247.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2326455
Krol, Elizaveta, Blom, Jochen, Winnebald, Jörn, Berhoerster, Alexander, Barnett, Melanie J., Goesmann, Alexander, Baumbach, Jan, and Becker, Anke. 2011. “RhizoRegNet-A database of rhizobial transcription factors and regulatory networks”. Journal of Biotechnology 155 (1): 127-134.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2397780
Doppmeier, Daniel, Stracke, Ralf, Lutter, Petra, Goesmann, Alexander, Niehaus, Karsten, and Weisshaar, Bernd. 2011. “Using the GUS Reporter Gene for Quantitative Studies of Promotor Activity in A.thaliana Seedlings”. Presented at the ICSB 2011 Heidelberg/Mannheim, Heidelberg/Mannheim, Germany , 218.
PUB
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2290032
Joseph, Biju, Schwarz, Roland F., Linke, Burkhard, Blom, Jochen, Becker, Anke, Claus, Heike, Goesmann, Alexander, et al. 2011. “Virulence Evolution of the Human Pathogen Neisseria meningitidis by Recombination in the Core and Accessory Genome”. PLoS ONE 6 (4): e18441.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093389
Schoen, Christoph, Weber-Lehmann, Jacqueline, Blom, Jochen, Joseph, Biju, Goesmann, Alexander, Strittmatter, Axel, and Frosch, Matthias. 2011. “Whole-Genome Sequence of the Transformable Neisseria meningitidis Serogroup A Strain WUE2594”. Journal of Bacteriology 193 (8): 2064-2065.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289902
De Gregoris, Tristano Bacchetti, Rupp, Oliver, Klages, Sven, Knaust, Florian, Bekel, Thomas, Kube, Michael, Burgess, J. Grant, et al. 2011. “Deep sequencing of naupliar-, cyprid- and adult-specific normalised Expressed Sequence Tag (EST) libraries of the acorn barnacle Balanus amphitrite”. Biofouling 27 (4): 367-374.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289952
Blom, Jochen, Jakobi, Tobias, Doppmeier, Daniel, Jaenicke, Sebastian, Kalinowski, Jörn, Stoye, Jens, and Goesmann, Alexander. 2011. “Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming”. Bioinformatics 27 (10): 1351-1358.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Im Druck | PUB-ID: 2017892
Schneiker-Bekel, Susanne, Wibberg, Daniel, Bekel, Thomas, Blom, Jochen, Linke, Burkhard, Neuweger, Heiko, Stiens, Michael, et al. In Press. “The complete genome sequence of the dominant Sinorhizobium meliloti field isolate SM11 extends the S. meliloti pan-genome”. Journal of Biotechnology 155 (1): 20-33.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2003276
Jaenicke, Sebastian, Ander, Christina, Bekel, Thomas, Bisdorf, Regina, Dröge, Marcus, Gartemann, Karl-Heinz, Jünemann, Sebastian, et al. 2011. “Comparative and Joint Analysis of Two Metagenomic Datasets from a Biogas Fermenter Obtained by 454-Pyrosequencing”. PLoS ONE 6 (1): e14519.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2036058
Margaret, Isabel, Becker, Anke, Blom, Jochen, Bonilla, Ildefonso, Goesmann, Alexander, Göttfert, Michael, Lloret, Javier, et al. 2011. “Symbiotic properties and first analyses of the genomic sequence of the fast growing model strain Sinorhizobium fredii HH103 nodulating soybean”. Journal of Biotechnology 155 (1): 11-19.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2087955
Hackl, Matthias, Jakobi, Tobias, Blom, Jochen, Doppmeier, Daniel, Brinkrolf, Karina, Szczepanowski, Rafael, Bernhart, Stephan H, et al. 2011. “Next-generation sequencing of the Chinese hamster ovary microRNA transcriptome: Identification, annotation and profiling of microRNAs as targets for cellular engineering”. Journal of Biotechnology 153 (1-2): 62-75.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093578
Linke, Burkhard, Giegerich, Robert, and Goesmann, Alexander. 2011. “Conveyor: a workflow engine for bioinformatic analyses”. Bioinformatics 27 (7): 903-911.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093398
Brankatschk, Kerstin, Blom, Jochen, Goesmann, Alexander, Smits, Theo H. M., and Duffy, Brion. 2011. “Genome of a European Fresh-Vegetable Food Safety Outbreak Strain of Salmonella enterica subsp enterica Serovar Weltevreden”. Journal of Bacteriology 193 (8): 2066.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1929692
Schneider, Jessica, Vorhölter, Frank-Jörg, Trost, Eva, Blom, Jochen, Musa, Y. R., Neuweger, Heiko, Niehaus, Karsten, Schatschneider, Sarah, Tauch, Andreas, and Goesmann, Alexander. 2010. “CARMEN - Comparative Analysis and in silico Reconstruction of organism-specific MEtabolic Networks”. Genetics and Molecular Research 9 (3): 1660-1672.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1966439
Trost, Eva, Ott, Lisa, Schneider, Jessica, Schröder, Jasmin, Jaenicke, Sebastian, Goesmann, Alexander, Husemann, Peter, et al. 2010. “The complete genome sequence of Corynebacterium pseudotuberculosis FRC41 isolated from a 12-year-old girl with necrotizing lymphadenitis reveals insights into gene-regulatory networks contributing to virulence”. BMC Genomics 11 (1): 728.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1795508
Bertelli, Claire, Collyn, Francois, Croxatto, Antony, Rückert, Christian, Polkinghorne, Adam, Kebbi-Beghdadi, Carole, Goesmann, Alexander, Vaughan, Lloyd, and Greub, Gilbert. 2010. “The Waddlia Genome: A Window into Chlamydial Biology”. PLOS ONE 5 (5): e10890.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1795628
Smits, Theo H. M., Rezzonico, Fabio, Pelludat, Cosima, Goesmann, Alexander, Frey, Juerg E., and Duffy, Brion. 2010. “Genomic and phenotypic characterization of a nonpigmented variant of Pantoea vagans biocontrol strain C9-1 lacking the 530-kb megaplasmid pPag3”. FEMS MICROBIOLOGY LETTERS 308 (1): 48-54.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785504
Yang, Ines, John, Uwe, Beszteri, Sára, Glöckner, Gernot, Krock, Bernd, Goesmann, Alexander, and Cembella, Allan D. 2010. “Comparative gene expression in toxic versus non-toxic strains of the marine dinoflagellate Alexandrium minutum”. BMC Genomics 11 (1): 248.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785275
Trost, Eva, Götker, Susanne, Schneider, Jessica, Schneiker-Bekel, Susanne, Szczepanowski, Rafael, Tilker, Alexandra, Viehöver, Prisca, et al. 2010. “Complete genome sequence and lifestyle of black-pigmented Corynebacterium aurimucosum ATCC 700975 (formerly C. nigricans CN-1) isolated from a vaginal swab of a woman with spontaneous abortion”. BMC Genomics 11 (1): 91.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1796445
Smits, Theo H. M., Rezzonico, Fabio, Kamber, Tim, Blom, Jochen, Goesmann, Alexander, Frey, Juerg E., and Duffy, Brion. 2010. “Complete Genome Sequence of the Fire Blight Pathogen Erwinia amylovora CFBP 1430 and Comparison to Other Erwinia spp.”. MOLECULAR PLANT-MICROBE INTERACTIONS 23 (4): 384-393.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 1894907
Mittard-Runte, Virginie, Bekel, Thomas, Blom, Jochen, Dondrup, Michael, Henckel, Kolja, Jaenicke, Sebastian, Krause, Lutz, et al. 2010. “Practical Guide: Genomic Techniques and How to Apply Them to Marine Questions”. In Introduction to Marine Genomics (Advances in Marine Genomics), ed. J. Mark Cock, Kristin Tessmar-Raible, Catherine Boyen, and Frédérique Viard, 1:315-396. Netherlands: Springer Netherlands.
PUB | DOI
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1796644
Smits, Theo H. M., Jaenicke, Sebastian, Rezzonico, Fabio, Kamber, Tim, Goesmann, Alexander, Frey, Jürg E, and Duffy, Brion. 2010. “Complete genome sequence of the fire blight pathogen Erwinia pyrifoliae DSM 12163(T) and comparative genomic insights into plant pathogenicity”. BMC Genomics 11 (1): 2.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785579
Farnbacher, Max, Jahns, Thomas, Willrodt, Dirk, Daniel, Rolf, Haas, Rainer, Goesmann, Alexander, Kurtz, Stefan, and Rieder, Gabriele. 2010. “Sequencing, annotation, and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain B8”. BMC Genomics 11 (1): 335.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588692
Steinweg, Christiane, Kuenne, Carsten T., Billion, Andre, Mraheil, Mobarak A., Domann, Eugen, Ghai, Rohit, Barbuddhe, Sukhadeo B., et al. 2010. “Complete Genome Sequence of Listeria seeligeri, a Nonpathogenic Member of the Genus Listeria”. Journal of Bacteriology 192 (5): 1473-1474.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1794039
Kuenne, Carsten, Voget, Sonja, Pischimarov, Jordan, Oehm, Sebastian, Goesmann, Alexander, Daniel, Rolf, Hain, Torsten, and Chakraborty, Trinad. 2010. “Comparative Analysis of Plasmids in the Genus Listeria”. PLOS ONE 5 (9): e12511.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1894319
Henckel, Kolja, Küster, Helge, Stutz, Leonhard, and Goesmann, Alexander. 2010. “MediPlEx - a tool to combine in silico and experimental gene expression profiles of the model legume Medicago truncatula.”. BMC Research Notes 3 (1): 262.
PUB | PDF | DOI | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1968262
Smits, Theo H. M., Rezzonico, Fabio, Kamber, Tim, Goesmann, Alexander, Ishimaru, Carol A., Stockwell, Virginia O., Frey, Juerg E., and Duffy, Brion. 2010. “Genome Sequence of the Biocontrol Agent Pantoea vagans Strain C9-1”. Journal of Bacteriology 192 (24): 6486-6487.
PUB | DOI | WoS | PubMed | Europe PMC
 

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