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154 Publikationen

2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2576080
Toepel, J., Illmer-Kephalides, M., Jaenicke, S., Straube, J., May, P., Goesmann, A., Kruse, O.: New insights into Chlamydomonas reinhardtii hydrogen production processes by combined microarray/RNA-seq transcriptomics. Plant Biotechnology Journal. 11, 717-733 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2631956
Rückert, C., Szczepanowski, R., Albersmeier, A., Goesmann, A., Iftime, D., Musiol, E.M., Blin, K., Wohlleben, W., Pühler, A., Kalinowski, J., Weber, T.: Complete genome sequence of the kirromycin producer Streptomyces collinus Tü 365 consisting of a linear chromosome and two linear plasmids. Journal of Biotechnology. 168, 739-740 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2576539
Wichmann, F., Vorhölter, F.-J., Hersemann, L., Widmer, F., Blom, J., Niehaus, K., Reinhard, S., Conradin, C., Kölliker, R.: The noncanonical type III secretion system of Xanthomonas translucens pv. graminis is essential for forage grass infection. Molecular plant pathology. 14, 576-588 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2635526
Koeck, D.E., Wibberg, D., Koellmeier, T., Blom, J., Jaenicke, S., Winkler, A., Albersmeier, A., Zverlov, V.V., Pühler, A., Schwarz, W.H., Schlüter, A.: Draft genome sequence of the cellulolytic Clostridium thermocellum wild-type strain BC1 playing a role in cellulosic biomass degradation. Journal of Biotechnology. 168, 62-63 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2566922
Jünemann, S., Sedlazeck, F.J., Prior, K., Albersmeier, A., John, U., Kalinowski, J., Mellmann, A., Goesmann, A., von Haeseler, A., Stoye, J., Harmsen, D.: Updating benchtop sequencing performance comparison. Nature Biotechnology. 31, 294-296 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2557938
Mann, R.A., Smits, T.H.M., Bühlmann, A., Blom, J., Goesmann, A., Frey, J.E., Plummer, K.M., Beer, S.V., Luck, J., Duffy, B., Rodoni, B.: Comparative Genomics of 12 Strains of Erwinia amylovora Identifies a Pan-Genome with a Large Conserved Core. PLOS ONE. 8, e55644 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2561776
Trötschel, C., Albaum, S., Poetsch, A.: Proteome turnover in bacteria: current status for Corynebacterium glutamicum and related bacteria. Microbial biotechnology. 708-719 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2554079
Kuenne, C., Billion, A., Mraheil, M.A., Strittmatter, A., Daniel, R., Goesmann, A., Barbuddhe, S., Hain, T., Chakraborty, T.: 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, 47 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2548286
Luque-Almagro, V.M., Acera, F., Igeño, M.I., Wibberg, D., Roldán, M.D., Sáez, L.P., Hennig, M., Quesada, A., Huertas, M.J., Blom, J., Merchán, F., Escribano, M.P., Jaenicke, S., Estepa, J., Guijo, M.I., Martínez-Luque, M., Macías, D., Szczepanowski, R., Becerra, G., Ramirez, S., Carmona, M.I., Gutiérrez, O., Manso, I., Pühler, A., Castillo, F., Moreno-Vivián, C., Schlüter, A., Blasco, R.: Draft whole genome sequence of the cyanide-degrading bacterium Pseudomonas pseudoalcaligenes CECT5344. Environmental Microbiology. 15, 253-270 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2645668
Bogen, C., Al-Dilaimi, A., Albersmeier, A., Wichmann, J., Grundmann, M., Rupp, O., Lauersen, K.J., Blifernez-Klassen, O., Kalinowski, J., Goesmann, A., Mussgnug, J.H., Kruse, O.: Reconstruction of the lipid metabolism for the microalga Monoraphidium neglectum from its genome sequence reveals characteristics suitable for biofuel production. BMC Genomics. 14, 926 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2635520
Dam, B., Dam, S., Blom, J., Liesack, W.: Genome Analysis Coupled with Physiological Studies Reveals a Diverse Nitrogen Metabolism in Methylocystis sp Strain SC2. Plos One. 8, e74767 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2610129
Kessler, N., Bonte, A., Langenkämper, G., Niehaus, K., Goesmann, A., Nattkemper, T.W.: MeltDB 2.0 - Advances of the metabolomics software system. Bioinformatics. 29, 2452-2459 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2607974
Niu, B., Vater, J., Rückert, C., Blom, J., Lehmann, M., Ru, J.-J., Chen, X.-H., Wang, Q., Borriss, R.: Polymyxin P is the active principle in suppressing phytopathogenic Erwinia spp. by the biocontrol rhizobacterium Paenibacillus polymyxa M-1. BMC microbiology. 13, 137 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2529309
Bolzan de Campos, S., Youn, J.-W., Farina, R., Jaenicke, S., Jünemann, S., Szczepanowski, R., Beneduzi, A., Vargas, L.K., Wendisch, V.F., Passaglia, L.: Changes in Root Bacterial Communities Associated to Two Different Development Stages of Canola (*Brassica napus* L. var oleifera) Evaluated through Next-Generation Sequencing. Microbial Ecology. 65, 593-601 (2013).
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2529202
Zakrzewski, M., Bekel, T., Ander, C., Pühler, A., Rupp, O., Stoye, J., Schlüter, A., Goesmann, A.: MetaSAMS - A novel software platform for taxonomic classification, functional annotation and comparative analysis of metagenome datasets. Journal of Biotechnology. 167, 156-165 (2013).
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2013 | Konferenzbeitrag | Im Druck | PUB-ID: 2538625
Bonte, A., Kessler, N., Nattkemper, T.W., Goesmann, A., Cecile, T., Mäder, P., Niehaus, K., Langenkämper, G.: 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 (In Press).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2498160
Schröder, J., Maus, I., Meyer, K., Wördemann, S., Blom, J., Jaenicke, S., Schneider, J., Trost, E., Tauch, A.: Complete genome sequence, lifestyle, and multi-drug resistance of the human pathogen Corynebacterium resistens DSM 45100 isolated from blood samples of a leukemia patient. BMC Genomics. 13, : 141 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2484618
Zakrzewski, M., Goesmann, A., Jaenicke, S., Jünemann, S., Eikmeyer, F.G., Szczepanowski, R., Al-Soud, W.A., Sørensen, S., Pühler, A., Schlüter, A.: Profiling of the metabolically active community from a production-scale biogas plant by means of high-throughput metatranscriptome sequencing. Journal of Biotechnology. 158, 248-258 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2513347
Trost, E., Blom, J., de Castro Soares, S., Huang, I.-H., Al-Dilaimi, A., Schröder, J., Jaenicke, S., Dorella, F.A., Rocha, F.S., Miyoshi, A., Azevedo, V., Schneider, M.P., Silva, A., Camello, T.C., Sabbadini, P.S., Santos, C.S., Santos, L.S., Hirata, R.J., Mattos-Guaraldi, A.L., Efstratiou, A., Schmitt, M.P., Ton-That, H., Tauch, A.: Pangenomic Study of Corynebacterium diphtheriae That Provides Insights into the Genomic Diversity of Pathogenic Isolates from Cases of Classical Diphtheria, Endocarditis, and Pneumonia. Journal of bacteriology. 194, 3199-3215 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500990
Rose, M.T., Rose, T.J., Pariasca-Tanaka, J., Yoshihashi, T., Neuweger, H., Goesmann, A., Frei, M., Wissuwa, M.: Root metabolic response of rice (Oryza sativa L.) genotypes with contrasting tolerance to zinc deficiency and bicarbonate excess. Planta. 236, 959-973 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2490949
Zschuttig, A., Zimmermann, K., Blom, J., Goesmann, A., Pohlmann, C., Gunzer, F.: Identification and Characterization of Microcin S, a New Antibacterial Peptide Produced by Probiotic Escherichia coli G3/10. PLoS ONE. 7, e33351 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2530221
Jankowitsch, F., Schwarz, J., Rückert, C., Gust, B., Szczepanowski, R., Blom, J., Pelzer, S., Kalinowski, J., Mack, M.: The genome sequence of the bacterium Streptomyces davawensis JCM 4913 and heterologous production of the unique antibiotic roseoflavin. Journal of bacteriology. 194, 6818-6827 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2527519
Ruijter, J.M., Pfaffl, M.W., Zhao, S., Spiess, A.N., Boggy, G., Blom, J., Rutledge, R.G., Sisti, D., Lievens, A., De Preter, K., Derveaux, S., Hellemans, J., Vandesompele, J.: Evaluation of qPCR curve analysis methods for reliable biomarker discovery: Bias, resolution, precision, and implications. Methods. A companion to methods in enzymology (San Diego, Calif.). 59, 32-46 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2471858
Ausec, L., Zakrzewski, M., Goesmann, A., Schlüter, A., Mandic-Mulec, I.: Correction: bioinformatic analysis reveals high diversity of bacterial genes for laccase-like enzymes. PLoS ONE. 7, (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2553455
De Maayer, P., Chan, W.-Y., Blom, J., Venter, S.N., Duffy, B., Smits, T.H.M., Coutinho, T.A.: The large universal Pantoea plasmid LPP-1 plays a major role in biological and ecological diversification. Bmc Genomics. 13, 625 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2490535
Heinl, S., Wibberg, D., Eikmeyer, F.G., Szczepanowski, R., Blom, J., Linke, B., Goesmann, A., Grabherr, R., Schwab, H., Pühler, A., Schlüter, A.: Insights into the completely annotated genome of Lactobacillus buchneri CD034, a strain isolated from stable grass silage. Journal of Biotechnology. 161, 153-166 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2471681
Rademacher, A., Zakrzewski, M., Schlüter, A., Schonberg, M., Szczepanowski, R., Goesmann, A., Pühler, A., Klocke, M.: Characterization of microbial biofilms in a thermophilic biogas system by high-throughput metagenome sequencing. FEMS Microbiology Ecology. 79, 785-799 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2513256
Filippini, M., Qi, W., Blom, J., Goesmann, A., Smits, T.H.M., Bagheri, H.C.: Genome Sequence of Fibrella aestuarina BUZ 2T, a Filamentous Marine Bacterium. Journal of bacteriology. 194, 3555 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2498232
Trötschel, C., Albaum, S., Wolff, D., Schröder, S., Goesmann, A., Nattkemper, T.W., Poetsch, A.: Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation. Molecular & Cellular Proteomics. 11, 512-526 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2487853
Brankatschk, K., Blom, J., Goesmann, A., Smits, T.H.M., Duffy, B.: Comparative genomic analysis of Salmonella enterica subsp. enterica serovar Weltevreden foodborne strains with other serovars. International journal of food microbiology. 155, 247-256 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2486204
Blom, J., Rückert, C., Niu, B., Wang, Q., Borriss, R.: The Complete Genome of Bacillus amyloliquefaciens subsp. plantarum CAU B946 Contains a Gene Cluster for Nonribosomal Synthesis of Iturin A. Journal of bacteriology. 194, 1845-1846 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2478526
Hackl, M., Jadhav, V., Jakobi, T., Rupp, O., Brinkrolf, K., Goesmann, A., Pühler, A., Noll, T., Borth, N., Grillari, J.: Computational identification of microRNA gene loci and precursor microRNA sequences in CHO cell lines. Journal of Biotechnology. 158, 151-155 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2405255
Persicke, M., Rückert, C., Plassmeier, J., Stutz, L., Kessler, N., Kalinowski, J., Goesmann, A., Neuweger, H.: MSEA: metabolite set enrichment analysis in the MeltDB metabolomics software platform: metabolic profiling of Corynebacterium glutamicum as an example. Metabolomics. 8, 310-322 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2510984
Hilker, R., Sickinger, C., Pedersen, C.N.S., Stoye, J.: UniMoG - A unifying framework for genomic distance calculation and sorting based on DCJ. Bioinformatics. 28, 2509-2511 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500959
Kahlke, T., Goesmann, A., Hjerde, E., Willassen, N.P., Haugen, P.: Unique core genomes of the bacterial family vibrionaceae: Insights into niche adaptation and speciation. BMC genomics. 13, 179 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500966
Hain, T., Ghai, R., Billion, A., Kuenne, C.T., Steinweg, C., Izar, B., Mohamed, W., Mraheil, M., Domann, E., Schaffrath, S., Kärst, U., Goesmann, A., Oehm, S., Pühler, A., Merkl, R., Vorwerk, S., Glaser, P., Garrido, P., Rusniok, C., Buchrieser, C., Goebel, W., Chakraborty, T.: Comparative genomics and transcriptomics of lineages I, II, and III strains of Listeria monocytogenes. BMC Genomics. 13, 144 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2544774
Schneider, J., Andrea, H., Blom, J., Jaenicke, S., Rückert, C., Schorsch, C., Szczepanowski, R., Farwick, M., Goesmann, A., Pühler, A., Schaffer, S., Tauch, A., Köhler, T., Brinkrolf, K.: Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. Eukaryotic Cell. 11, 1582-1583 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2542210
Parreira, V.R., Costa, M., Eikmeyer, F.G., Blom, J., Prescott, J.F.: Sequence of Two Plasmids from Clostridium perfringens Chicken Necrotic Enteritis Isolates and Comparison with C. perfringens Conjugative Plasmids. PLoS ONE. 7, e49753 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500937
Rezzonico, F., Braun-Kiewnick, A., Mann, R.A., Rodoni, B., Goesmann, A., Duffy, B., Smits, T.H.M.: Lipopolysaccharide biosynthesis genes discriminate between Rubus- and Spiraeoideae-infective genotypes of Erwinia amylovora. Molecular plant pathology. 13, 975-984 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2501081
De Maayer, P., Chan, W.Y., Rezzonico, F., Bühlmann, A., Venter, S.N., Blom, J., Goesmann, A., Frey, J.E., Smits, T.H.M., Duffy, B., Coutinho, T.A.: Complete genome sequence of clinical isolate Pantoea ananatis LMG 5342. Journal of Bacteriology. 194, 1615-1616 (2012).
PUB | DOI | WoS | PubMed | Europe PMC | GenBank
 
2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2526269
Strobel, T., Al-Dilaimi, A., Blom, J., Gessner, A., Kalinowski, J., Luzhetska, M., Pühler, A., Szczepanowski, R., Bechthold, A., Rückert, C.: Complete genome sequence of Saccharothrix espanaensis DSM 44229T and comparison to the other completely sequenced Pseudonocardiaceae. BMC Genomics. 13, 465 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2529610
Schork, S., Schlüter, A., Blom, J., Schneiker-Bekel, S., Pühler, A., Goesmann, A., Frosch, M., Schoen, C.: Genome Sequence of a Neisseria meningitidis Capsule Null Locus Strain from the Clonal Complex of Sequence Type 198. Journal of Bacteriology. 194, 5144-5145 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2526281
Zischka, M., Kuenne, C., Blom, J., Dabrowski, P.W., Linke, B., Hain, T., Nitsche, A., Goesmann, A., Larsen, J., Jensen, L.B., Witte, W., Werner, G.: Complete Genome Sequence of the Porcine Isolate Enterococcus faecalis D32. Journal of Bacteriology. 194, 5490-5491 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2526298
Maus, I., Wibberg, D., Stantscheff, R., Eikmeyer, F.G., Seffner, A., Boelter, J., Szczepanowski, R., Blom, J., Jaenicke, S., König, H., Pühler, A., Schlüter, A.: Complete Genome Sequence of the Hydrogenotrophic, Methanogenic Archaeon Methanoculleus bourgensis Strain MS2T, Isolated from a Sewage Sludge Digester. Journal of Bacteriology. 194, 5487-5488 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2526933
Dohrmann, A.B., Küting, M., Jünemann, S., Jaenicke, S., Schlüter, A., Tebbe, C.C.: Importance of rare taxa for bacterial diversity in the rhizosphere of Bt- and conventional maize varieties. The ISME journal. 7, 37-49 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2517230
Jünemann, S., Prior, K., Szczepanowski, R., Harks, I., Ehmke, B., Goesmann, A., Stoye, J., Harmsen, D.: Bacterial Community Shift in Treated Periodontitis Patients Revealed by Ion Torrent 16S rRNA Gene Amplicon Sequencing. PLoS ONE. 7, e41606 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2500946
Mann, R.A., Blom, J., Bühlmann, A., Plummer, K.M., Beer, S.V., Luck, J.E., Goesmann, A., Frey, J.E., Rodoni, B.C., Duffy, B., Smits, T.H.M.: 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, 6-12 (2012).
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2490286
Vogel, U., Szczepanowski, R., Claus, H., Jünemann, S., Prior, K., Harmsen, D.: Ion Torrent PGM sequencing for genomic typing of Neisseria meningitidis for rapid determination of multiple layers of typing information. Journal of clinical microbiology. 50, 1889-1894 (2012).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2300063
Albaum, S., Hahne, H., Otto, A., Haußmann, U., Becher, D., Poetsch, A., Goesmann, A., Nattkemper, T.W.: A guide through the computational analysis of isotope-labeled mass spectrometry-based quantitative proteomics data: an application study. Proteome Science. 9, 30 (2011).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2451800
Toepel, J., Albaum, S., Arvidsson, S., Goesmann, A., La Russa, M., Rogge, K., Kruse, O.: Construction and evaluation of a whole genome microarray of Chlamydomonas reinhardtii. BMC Genomics. 12, 579-589 (2011).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2375634
Pothier, J.F., Vorhölter, F.-J., Blom, J., Goesmann, A., Pühler, A., Smits, T.H., Duffy, B.: The ubiquitous plasmid pXap41 in the invasive phytopathogen Xanthomonas arboricola pv. pruni: complete sequence and comparative genomic analysis. FEMS Microbiology Letters. 323, 52-60 (2011).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2404767
Niu, B., Rückert, C., Blom, J., Wang, Q., Borriss, R.: The Genome of the Plant Growth-Promoting Rhizobacterium Paenibacillus polymyxa M-1 Contains Nine Sites Dedicated to Nonribosomal Synthesis of Lipopeptides and Polyketides. Journal of Bacteriology. 193, 5862-5863 (2011).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2354731
Wibberg, D., Blom, J., Jaenicke, S., Kollin, F., Rupp, O., Scharf, B., Schneiker-Bekel, S., Szczepanowski, R., Goesmann, A., Setubal, J.C., Schmitt, R., Pühler, A., Schlüter, A.: 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, 50-62 (2011).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2317371
Küberl, A., Schneider, J., Thallinger, G.G., Anderl, I., Wibberg, D., Hajek, T., Jaenicke, S., Brinkrolf, K., Goesmann, A., Szczepanowski, R., Pühler, A., Schwab, H., Glieder, A., Pichler, H.: High-quality genome sequence of Pichia pastoris CBS7435. Journal of Biotechnology. 154, 312-320 (2011).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2326511
Rückert, C., Blom, J., Chen, X.H., Reva, O., Borriss, R.: Genome sequence of B. amyloliquefaciens type strain DSM7(T) reveals differences to plant-associated B. amyloliquefaciens FZB42. Journal of Biotechnology. 155, 78-85 (2011).
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2394493
Hinse, D., Vollmer, T., Rückert, C., Blom, J., Kalinowski, J., Knabbe, C., Dreier, J.: Complete genome and comparative analysis of Streptococcus gallolyticus subsp gallolyticus, an emerging pathogen of infective endocarditis. BMC Genomics. 12, 400 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2396576
Becker, J., Hackel, M., Jakobi, T., Rupp, O., Schneider, J., Szczepanowski, R., Bekel, T., Borth, N., Goesmann, A., Grillari, J., Kaltschmidt, C., Noll, T., Pühler, A., Tauch, A., Brinkrolf, K.: Unraveling the Chinese hamster ovary cell line transcriptome by next-generation sequencing. Journal of Biotechnology. 156, 227-235 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289576
Thomas, V., Bertelli, C., Collyn, F., Casson, N., Telenti, A., Goesmann, A., Croxatto, A., Greub, G.: Lausannevirus, a giant amoebal virus encoding histone doublets. Environmental Microbiology. 13, 1454-1466 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2375954
Borriss, R., Chen, X.-H., Rückert, C., Blom, J., Becker, A., Baumgarth, B., Fan, B., Pukall, R., Schumann, P., Sproer, C., Junge, H., Vater, J., Pühler, A., Klenk, H.-P.: Relationship of Bacillus amyloliquefaciens clades associated with strains DSM 7T and FZB42T: a proposal for Bacillus amyloliquefaciens subsp. amyloliquefaciens subsp. nov. and Bacillus amyloliquefaciens subsp. plantarum subsp. nov. based on complete genome sequence comparisons. Int J Syst Evol Microbiol. 61, 1786-1801 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2472468
Llop, P., Cabrefiga, J., Smits, T.H.M., Dreo, T., Barbé, S., Pulawska, J., Bultreys, A., Blom, J., Duffy, B., Montesinos, E., Lopez, M.M.: Erwinia amylovora novel plasmid pEI70: Complete sequence, biogeography, and role in aggressiveness in the fire blight phytopathogen. PLoS one. 6, e28651 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2411830
Ausec, L., Zakrzewski, M., Goesmann, A., Schlüter, A., Mandic-Mulec, I.: Bioinformatic analysis reveals high diversity of bacterial genes for laccase-like enzymes. PLoS ONE. 6, : e25724 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2326445
Schneider, J., Blom, J., Jaenicke, S., Linke, B., Brinkrolf, K., Neuweger, H., Tauch, A., Goesmann, A.: RAPYD - Rapid Annotation Platform for Yeast Data. Journal of Biotechnology. 155, 118-126 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2307104
Smits, T.H.M., Rezzonico, F., Kamber, T., Blom, J., Goesmann, A., Ishimaru, C.A., Frey, J.E., Stockwell, V.O., Duffy, B.: Metabolic Versatility and Antibacterial Metabolite Biosynthesis Are Distinguishing Genomic Features of the Fire Blight Antagonist Pantoea vagans C9-1. PLoS ONE. 6, e22247 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2447730
Gonzalez, J.M., Pinhassi, J., Fernández-Gómez, B., Coll-Llado, M., Gonzalez-Velazquez, M., Puigbo, P., Jaenicke, S., Gomez-Consarnau, L., Fernandez-Guerra, A., Goesmann, A., Pedros-Alio, C.: Genomics of the proteorhodopsin-containing marine flavobacterium Dokdonia sp. MED134. Applied and Environmental Microbiology. 77, 8676-8686 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2448409
Imperi, F., Antunes, L., Blom, J., Villa, L., Iacono, M., Visca, P., Carattoli, A.: The genomics of Acinetobacter baumannii: Insights into genome plasticity, antimicrobial resistance and pathogenicity. IUBMB life. 63, 1068-1074 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2326455
Krol, E., Blom, J., Winnebald, J., Berhoerster, A., Barnett, M.J., Goesmann, A., Baumbach, J., Becker, A.: RhizoRegNet-A database of rhizobial transcription factors and regulatory networks. Journal of Biotechnology. 155, 127-134 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2326518
Szczepanowski, R., Eikmeyer, F.G., Harfmann, J., Blom, J., Rogers, L.M., Top, E.M., Schlüter, A.: Sequencing and comparative analysis of IncP-1 alpha antibiotic resistance plasmids reveal a highly conserved backbone and differences within accessory regions. Journal of Biotechnology. 155, 95-103 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2453768
Becker, J., Timmermann, C., Jakobi, T., Rupp, O., Szczepanowski, R., Hackl, M., Goesmann, A., Tauch, A., Borth, N., Grillari, J., Pühler, A., Noll, T., Brinkrolf, K.: Next-generation sequencing of the CHO cell transcriptome. BMC Proceedings. 5, P6 (2011).
PUB | DOI
 
2011 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2397780
Doppmeier, D., Stracke, R., Lutter, P., Goesmann, A., Niehaus, K., Weisshaar, B.: 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 (2011).
PUB
 
2011 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2382565
Borriss, R., Rückert, C., Blom, J., Bezuidt, O., Reva, O., Klenk, H.P.: Whole Genome Sequence Comparisons in Taxonomy. In: Rainey, F. and Oren, A. (eds.) Taxonomy of Prokaryotes (Methods in Microbiology). Academic Press,, Waltham, MA, USA (2011).
PUB | DOI | WoS
 
2011 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2447751
Jaenicke, S., Zakrzewski, M., Jünemann, S., Pühler, A., Goesmann, A., Schlüter, A.: Analysis of the Metagenome from a Biogas-Producing Microbial Community by Means of Bioinformatics Methods. In: de Bruijn, F.J. (ed.) Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats. p. 403-414. Wiley-Blackwell (2011).
PUB | DOI
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2290032
Joseph, B., Schwarz, R.F., Linke, B., Blom, J., Becker, A., Claus, H., Goesmann, A., Frosch, M., Mueller, T., Vogel, U., Schoen, C.: Virulence Evolution of the Human Pathogen Neisseria meningitidis by Recombination in the Core and Accessory Genome. PLoS ONE. 6, e18441 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093389
Schoen, C., Weber-Lehmann, J., Blom, J., Joseph, B., Goesmann, A., Strittmatter, A., Frosch, M.: Whole-Genome Sequence of the Transformable Neisseria meningitidis Serogroup A Strain WUE2594. Journal of Bacteriology. 193, 2064-2065 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2289887
Hinse, D., Vollmer, T., Rückert, C., Blom, J., Kalinowski, J., Knabbe, C., Dreier, J.: Complete Genome Analysis of Streptococcus gallolyticus subsp gallolyticus, an Emerging Pathogen of Infective Endocarditis. Clinical Chemistry and Laboratory Medicine. 49, S837 (2011).
PUB | WoS
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289902
De Gregoris, T.B., Rupp, O., Klages, S., Knaust, F., Bekel, T., Kube, M., Burgess, J.G., Arnone, M.I., Goesmann, A., Reinhardt, R., Clare, A.S.: Deep sequencing of naupliar-, cyprid- and adult-specific normalised Expressed Sequence Tag (EST) libraries of the acorn barnacle Balanus amphitrite. Biofouling. 27, 367-374 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289952
Blom, J., Jakobi, T., Doppmeier, D., Jaenicke, S., Kalinowski, J., Stoye, J., Goesmann, A.: Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming. Bioinformatics. 27, 1351-1358 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2289928
Kant, R., Blom, J., Palva, A., Siezen, R.J., de Vos, W.M.: Comparative genomics of Lactobacillus. Microbial Biotechnology. 4, 323-332 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Im Druck | PUB-ID: 2017892
Schneiker-Bekel, S., Wibberg, D., Bekel, T., Blom, J., Linke, B., Neuweger, H., Stiens, M., Vorhölter, F.-J., Weidner, S., Goesmann, A., Pühler, A., Schlüter, A.: The complete genome sequence of the dominant Sinorhizobium meliloti field isolate SM11 extends the S. meliloti pan-genome. Journal of Biotechnology. 155, 20-33 (In Press).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2003276
Jaenicke, S., Ander, C., Bekel, T., Bisdorf, R., Dröge, M., Gartemann, K.-H., Jünemann, S., Kaiser, O., Krause, L., Tille, F., Zakrzewski, M., Pühler, A., Schlüter, A., Goesmann, A.: Comparative and Joint Analysis of Two Metagenomic Datasets from a Biogas Fermenter Obtained by 454-Pyrosequencing. PLoS ONE. 6, e14519 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2036058
Margaret, I., Becker, A., Blom, J., Bonilla, I., Goesmann, A., Göttfert, M., Lloret, J., Mittard-Runte, V., Rückert, C., Ruiz-Sainz, J.-E., Vinardell, J.M., Weidner, S.: Symbiotic properties and first analyses of the genomic sequence of the fast growing model strain Sinorhizobium fredii HH103 nodulating soybean. Journal of Biotechnology. 155, 11-19 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2087955
Hackl, M., Jakobi, T., Blom, J., Doppmeier, D., Brinkrolf, K., Szczepanowski, R., Bernhart, S.H., Höner zu Siederdissen, C., Bort, J.A.H., Wieser, M., Kunert, R., Jeffs, S., Hofacker, I.L., Goesmann, A., Pühler, A., Borth, N., Grillari, J.: 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, 62-75 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2003418
Powney, R., Smits, T.H.M., Sawbridge, T., Frey, B., Blom, J., Frey, J.E., Plummer, K.M., Beer, S.V., Luck, J., Duffy, B., Rodoni, B.: Genome Sequence of an Erwinia amylovora Strain with Pathogenicity Restricted to Rubus Plants. Journal of Bacteriology. 193, 785-786 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093578
Linke, B., Giegerich, R., Goesmann, A.: Conveyor: a workflow engine for bioinformatic analyses. Bioinformatics. 27, 903-911 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093398
Brankatschk, K., Blom, J., Goesmann, A., Smits, T.H.M., Duffy, B.: Genome of a European Fresh-Vegetable Food Safety Outbreak Strain of Salmonella enterica subsp enterica Serovar Weltevreden. Journal of Bacteriology. 193, 2066 (2011).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1929692
Schneider, J., Vorhölter, F.-J., Trost, E., Blom, J., Musa, Y.R., Neuweger, H., Niehaus, K., Schatschneider, S., Tauch, A., Goesmann, A.: CARMEN - Comparative Analysis and in silico Reconstruction of organism-specific MEtabolic Networks. Genetics and Molecular Research. 9, 1660-1672 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1966439
Trost, E., Ott, L., Schneider, J., Schröder, J., Jaenicke, S., Goesmann, A., Husemann, P., Stoye, J., Alves Dorella, F., Souza Rocha, F., de Castro Soares, S., D'Afonseca, V., Miyoshi, A., Ruiz, J., Silva, A., Azevedo, V., Burkovski, A., Guiso, N., Join-Lambert, O.F., Kayal, S., Tauch, A.: 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, : 728 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1795508
Bertelli, C., Collyn, F., Croxatto, A., Rückert, C., Polkinghorne, A., Kebbi-Beghdadi, C., Goesmann, A., Vaughan, L., Greub, G.: The Waddlia Genome: A Window into Chlamydial Biology. PLOS ONE. 5, e10890 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1795628
Smits, T.H.M., Rezzonico, F., Pelludat, C., Goesmann, A., Frey, J.E., Duffy, B.: 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, 48-54 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785275
Trost, E., Götker, S., Schneider, J., Schneiker-Bekel, S., Szczepanowski, R., Tilker, A., Viehöver, P., Arnold, W., Bekel, T., Blom, J., Gartemann, K.-H., Linke, B., Goesmann, A., Pühler, A., Shukla, S.K., Tauch, A.: 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, : 91 (2010).
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785504
Yang, I., John, U., Beszteri, S., Glöckner, G., Krock, B., Goesmann, A., Cembella, A.D.: Comparative gene expression in toxic versus non-toxic strains of the marine dinoflagellate Alexandrium minutum. BMC Genomics. 11, 248 (2010).
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1796445
Smits, T.H.M., Rezzonico, F., Kamber, T., Blom, J., Goesmann, A., Frey, J.E., Duffy, B.: Complete Genome Sequence of the Fire Blight Pathogen Erwinia amylovora CFBP 1430 and Comparison to Other Erwinia spp. MOLECULAR PLANT-MICROBE INTERACTIONS. 23, 384-393 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 1894907
Mittard-Runte, V., Bekel, T., Blom, J., Dondrup, M., Henckel, K., Jaenicke, S., Krause, L., Linke, B., Neuweger, H., Schneiker-Bekel, S., Goesmann, A.: Practical Guide: Genomic Techniques and How to Apply Them to Marine Questions. In: Cock, J.M., Tessmar-Raible, K., Boyen, C., and Viard, F. (eds.) Introduction to Marine Genomics (Advances in Marine Genomics). 1, p. 315-396. Springer Netherlands, Netherlands (2010).
PUB | DOI
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1796644
Smits, T.H.M., Jaenicke, S., Rezzonico, F., Kamber, T., Goesmann, A., Frey, J.E., Duffy, B.: Complete genome sequence of the fire blight pathogen Erwinia pyrifoliae DSM 12163(T) and comparative genomic insights into plant pathogenicity. BMC Genomics. 11, 2 (2010).
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785579
Farnbacher, M., Jahns, T., Willrodt, D., Daniel, R., Haas, R., Goesmann, A., Kurtz, S., Rieder, G.: Sequencing, annotation, and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain B8. BMC Genomics. 11, 335 (2010).
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588692
Steinweg, C., Kuenne, C.T., Billion, A., Mraheil, M.A., Domann, E., Ghai, R., Barbuddhe, S.B., Kaerst, U., Goesmann, A., Pühler, A., Weisshaar, B., Wehland, J., Lampidis, R., Kreft, J., Goebel, W., Chakraborty, T., Hain, T.: Complete Genome Sequence of Listeria seeligeri, a Nonpathogenic Member of the Genus Listeria. Journal of Bacteriology. 192, 1473-1474 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1794039
Kuenne, C., Voget, S., Pischimarov, J., Oehm, S., Goesmann, A., Daniel, R., Hain, T., Chakraborty, T.: Comparative Analysis of Plasmids in the Genus Listeria. PLOS ONE. 5, e12511 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1894319
Henckel, K., Küster, H., Stutz, L., Goesmann, A.: MediPlEx - a tool to combine in silico and experimental gene expression profiles of the model legume Medicago truncatula. BMC Research Notes. 3, 262 (2010).
PUB | PDF | DOI | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1968262
Smits, T.H.M., Rezzonico, F., Kamber, T., Goesmann, A., Ishimaru, C.A., Stockwell, V.O., Frey, J.E., Duffy, B.: Genome Sequence of the Biocontrol Agent Pantoea vagans Strain C9-1. Journal of Bacteriology. 192, 6486-6487 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1990186
Gehlenborg, N., O'Donoghue, S.I., Baliga, N.S., Goesmann, A., Hibbs, M.A., Kitano, H., Kohlbacher, O., Neuweger, H., Schneider, R., Tenenbaum, D., Gavin, A.-C.: Visualization of omics data for systems biology. Nat Methods. 7, S56-S68 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1930110
Joseph, B., Schneiker-Bekel, S., Schramm-Glueck, A., Blom, J., Claus, H., Linke, B., Schwarz, R.F., Becker, A., Goesmann, A., Frosch, M., Schoen, C.: Comparative Genome Biology of a Serogroup B Carriage and Disease Strain Supports a Polygenic Nature of Meningococcal Virulence. JOURNAL OF BACTERIOLOGY. 192, 5363-5377 (2010).
PUB | DOI | WoS | PubMed | Europe PMC
 

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