Personal Homepage of Dr. Jochen Blom

Publications

2023

Jähne, J., Le Thi, T., Blumenscheit, C., Schneider, A., Pham, T., Le Thi, P., Blom, J., Vater, J., Schweder, T., Lasch, P., others. (2023). Novel Plant-Associated Brevibacillus and Lysinibacillus Genomospecies Harbor a Rich Biosynthetic Potential of Antimicrobial Compounds. Multidisciplinary Digital Publishing Institute.Volume 11(1), 168.

Pulami, D., Schwabe, L., Blom, J., Schwengers, O., Wilharm, G., Kämpfer, P., Glaeser, S.. (2023). Genomic plasticity and adaptive capacity of the quaternary alkyl-ammonium compound and copper tolerant Acinetobacter bohemicus strain QAC-21b isolated from pig manure. Springer International Publishing.

2022

Berckx, F., Nguyen, T., Bandong, C., Lin, H., Yamanaka, T., Katayama, S., Wibberg, D., Blom, J., Kalinowski, J., Tateno, M., others. (2022). A tale of two lineages: how the strains of the earliest divergent symbiotic Frankia clade spread over the world. BioMed Central London.Volume 23(1), 602.

Eisenberg, T., Mühldorfer, K., Erhard, M., Fawzy, A., Kehm, S., Ewers, C., Semmler, T., Blom, J., Lipski, A., Rau, J., others. (2022). Erysipelothrix anatis sp. nov., Erysipelothrix aquatica sp. nov. and Erysipelothrix urinaevulpis sp. nov., three novel species of the genus, and emended description of Erysipelothrix. Microbiology Society.Volume 72(7), 005454.

Entfellner, E., Li, R., Jiang, Y., Ru, J., Blom, J., Deng, L., Kurmayer, R.. (2022). Toxic/Bioactive Peptide Synthesis Genes Rearranged by Insertion Sequence Elements Among the Bloom-Forming Cyanobacteria Planktothrix. Frontiers Media SA.Volume 13.

Kämpfer, P., Glaeser, S., Blom, J., Wolf, J., Benning, S., Schloter, M., Neumann-Schaal, M.. (2022). Rhodococcus pseudokoreensis sp. nov. isolated from the rhizosphere of young M26 apple rootstocks. Springer Berlin Heidelberg Berlin/Heidelberg.Volume 204(8), 505.

Fatton, M., Filippidou, S., Junier, T., Cailleau, G., Berge, M., Poppleton, D., Blum, T., Kaminek, M., Odriozola, A., Blom, J., others. (2022). Cryptosporulation in Kurthia spp. forces a rethinking of asporogenesis in Firmicutes. John Wiley \& Sons, Inc. Hoboken, USA.Volume 24(12), 6320--6335.

Guzman, J., Poehlein, A., Glaeser, S., Schwengers, O., Blom, J., Hollensteiner, J., Kämpfer, P., Vilcinskas, A.. (2022). Pseudocitrobacter corydidari sp. nov., isolated from the Asian emerald cockroach Corydidarum magnifica. Microbiology Society.Volume 72(8), 005497.

Sulja, A., Pothier, J., Blom, J., Moretti, C., Buonaurio, R., Rezzonico, F., Smits, T.. (2022). Comparative genomics to examine the endophytic potential of Pantoea agglomerans DAPP-PG 734. BioMed Central London.Volume 23(1), 742.

Maus, I., Wibberg, D., Belmann, P., Hahnke, S., Huang, L., Spröer, C., Bunk, B., Blom, J., Sczyrba, A., Pühler, A., others. (2022). The novel oligopeptide utilizing species Anaeropeptidivorans aminofermentans M3/9T, its role in anaerobic digestion and occurrence as deduced from large-scale fragment recruitment analyses. Frontiers Media SA.Volume 13.

Zboralski, A., Biessy, A., Ciotola, M., Cadieux, M., Albert, D., Blom, J., Filion, M.. (2022). Harnessing the genomic diversity of Pseudomonas strains against lettuce bacterial pathogens. Frontiers Media SA.Volume 13.

Volokhov, D., Furtak, V., Blom, J., Zagorodnyaya, T., Gao, Y., Gulland, F.. (2022). Mycoplasma miroungirhinis sp. nov. and Mycoplasma miroungigenitalium sp. nov., isolated from northern elephant seals (Mirounga angustirostris), Mycoplasma phocoenae sp. nov., isolated from harbour porpoise (Phocoena phocoena), and Mycoplasma phocoeninasale sp. nov., isolated from harbour porpoise and California sea lions (Zalophus californianus). Microbiology Society.Volume 72(1), 005224.

Blumenscheit, C., Jähne, J., Schneider, A., Blom, J., Schweder, T., Lasch, P., Borriss, R.. (2022). Genome sequence data of Bacillus velezensis BP1. 2A and BT2. 4. Elsevier.Volume 41, 107978.

Lau Vetter, M., Huang, B., Fenske, L., Blom, J.. (2022). Metabolism of the Genus Guyparkeria Revealed by Pangenome Analysis. MDPI.Volume 10(4), 724.

Ruinelli, M., Blom, J., Smits, T., Pothier, J.. (2022). Comparative genomics of Prunus-associated members of the Pseudomonas syringae species complex reveals traits supporting co-evolution and host adaptation. Frontiers Research Foundation.Volume 13(804681).

Fenske, L., Noll, I., Blom, J., Ewers, C., Semmler, T., Fawzy, A., Eisenberg, T.. (2022). A dominant clonal lineage of Streptococcus uberis in cattle in Germany. Springer International Publishing.

Neuzil-Bunesova, V., Ramirez Garcia, A., Modrackova, N., Makovska, M., Sabolova, M., Spröer, C., Bunk, B., Blom, J., Schwab, C.. (2022). Feed Insects as a Reservoir of Granadaene-Producing Lactococci. Frontiers.

Dia, N., Cottyn, B., Blom, J., Smits, T., Pothier, J.. (2022). Differentiation of the Xanthomonas hortorum--Xanthomonas hydrangeae species complex using sensitive and selective LAMP assays. Frontiers Research Foundation.Volume 4(898778).

2021

Blifernez-Klassen, O., Klassen, V., Wibberg, D., Cebeci, E., Henke, C., Rückert, C., Chaudhari, S., Rupp, O., Blom, J., Winkler, A., others. (2021). Phytoplankton consortia as a blueprint for mutually beneficial eukaryote-bacteria ecosystems based on the biocoenosis of Botryococcus consortia. Nature Publishing Group.Volume 11(1), 1--13.

Berger, C., Rückert, C., Blom, J., Rabaey, K., Kalinowski, J., Rosenbaum, M.. (2021). Estimation of pathogenic potential of an environmental Pseudomonas aeruginosa isolate using comparative genomics. Nature Publishing Group.Volume 11(1), 1--14.

Khilyas, I., Sorokina, A., Markelova, M., Belenikin, M., Shafigullina, L., Tukhbatova, R., Shagimardanova, E., Blom, J., Sharipova, M., Cohen, M.. (2021). Genomic and phenotypic analysis of siderophore-producing Rhodococcus qingshengii strain S10 isolated from an arid weathered serpentine rock environment. Springer Berlin Heidelberg.Volume 203(2), 855--860.

Glaeser, S., Rückert, C., Abdelmohsen, U., Winkler, A., Blom, J., Goesmann, A., Kalinowski, J., Hentschel, U., Busse, H., Kämpfer, P.. (2021). Streptomyces dysideae sp. nov., isolated from a marine Mediterranean sponge Dysidea tupha. Microbiology Society.Volume 71(3), 004672.

Naorem, R., Blom, J., Fekete, C.. (2021). Genome-wide comparison of four MRSA clinical isolates from Germany and Hungary. PeerJ Inc..Volume 9, e10185.

Lick, S., Wibberg, D., Winkler, A., Blom, J., Grimmler, C., Goesmann, A., Kalinowski, J., Kröckel, L.. (2021). Pseudomonas paracarnis sp. nov., isolated from refrigerated beef. Microbiology Society.Volume 71(2), 004652.

Pulami, D., Schauss, T., Eisenberg, T., Blom, J., Schwengers, O., Bender, J., Wilharm, G., Kämpfer, P., Glaeser, S.. (2021). Acinetobacter stercoris sp. nov. isolated from output source of a mesophilic german biogas plant with anaerobic operating conditions. Springer International Publishing.Volume 114(3), 235--251.

Eisenberg, T., Gronow, S., Falgenhauer, J., Imirzalioglu, C., Mühldorfer, K., Rau, J., Blom, J., Fawzy, A., Glaeser, S., Kämpfer, P.. (2021). Sneathia vaginalis sp. nov.(Fusobacteriales, Leptotrichiaceae) as a replacement of the species ‘Sneathia amnii’Harwich et al. 2012 and ‘Leptotrichia amnionii’Shukla et al. 2002, and emended description of Sneathia Collins et al. 2001. Microbiology Society.Volume 71(3), 004663.

Fernandes, C., Martins, L., Teixeira, M., Blom, J., Pothier, J., Fonseca, N., Tavares, F.. (2021). Comparative genomics of Xanthomonas euroxanthea and Xanthomonas arboricola pv. juglandis strains isolated from a single walnut host tree. MDPI.Volume 9(3), 624.

Panthee, S., Paudel, A., Hamamoto, H., Ogasawara, A., Iwasa, T., Blom, J., Sekimizu, K.. (2021). Complete genome sequence and comparative genomic analysis of Enterococcus faecalis EF-2001, a probiotic bacterium. Academic Press.Volume 113(3), 1534--1542.

Dieckmann, M., Beyvers, S., Nkouamedjo-Fankep, R., Hanel, P., Jelonek, L., Blom, J., Goesmann, A.. (2021). EDGAR3. 0: comparative genomics and phylogenomics on a scalable infrastructure. Oxford University Press.Volume 49(W1), W185--W192.

Volokhov, D., Zagorodnyaya, T., Shen, Z., Blom, J., Furtak, V., Eisenberg, T., Fan, P., Jeong, K., Gao, Y., Zhang, S., others. (2021). Streptococcus vicugnae sp. nov., isolated from faeces of alpacas (Vicugna pacos) and cattle (Bos taurus), Streptococcus zalophi sp. nov., and Streptococcus pacificus sp. nov., isolated from respiratory tract of California sea lions (Zalophus californianus). Microbiology Society.Volume 71(5), 004826.

Lick, S., Wibberg, D., Winkler, A., Blom, J., Grimmler, C., Goesmann, A., Kalinowski, J., Kröckel, L.. (2021). Pseudomonas paraversuta sp. nov. isolated from refrigerated dry-aged beef. Microbiology Society.Volume 71(6), 004822.

Talamantes-Becerra, B., Carling, J., Blom, J., Georges, A.. (2021). Phylogenetic study of thermophilic genera Anoxybacillus, Geobacillus, Parageobacillus, and proposal of a new classification Quasigeobacillus gen. nov. Cold Spring Harbor Laboratory.

Hudec, C., Biessy, A., Novinscak, A., St-Onge, R., Lamarre, S., Blom, J., Filion, M.. (2021). Comparative genomics of potato common scab-causing Streptomyces spp. displaying varying virulence. Frontiers Media SA.Volume 12.

Stitz, M., Chaparro, C., Lu, Z., Olzog, V., Weinberg, C., Blom, J., Goesmann, A., Grunau, C., Grevelding, C.. (2021). Satellite-like W-elements: repetitive, transcribed, and putative mobile genetic factors with potential roles for biology and evolution of Schistosoma mansoni. Oxford University Press.Volume 13(10), evab204.

Schwengers, O., Jelonek, L., Dieckmann, M., Beyvers, S., Blom, J., Goesmann, A.. (2021). Bakta: rapid and standardized annotation of bacterial genomes via alignment-free sequence identification. Microbiology Society.Volume 7(11).

Wibberg, D., Genzel, F., Verwaaijen, B., Blom, J., Rupp, O., Goesmann, A., Zrenner, R., Grosch, R., Pühler, A., Schlüter, A.. (2021). Genome Analyses of the Less Aggressive Rhizoctonia solani AG1-IB Isolates 1/2/21 and O8/2 Compared to the Reference AG1-IB Isolate 7/3/14. MDPI.Volume 7(10), 832.

Van Le, V., Ko, S., Lee, S., Jin, L., Blom, J., Ahn, C., Oh, H.. (2021). Cochlodiniinecator piscidefendens gen. nov., sp. nov., an algicidal bacterium against the ichthyotoxic dinoflagellate Cochlodinium polykrikoides. Microbiology Society.Volume 71(11), 005124.

Dia, N., Van Vaerenbergh, J., Van Malderghem, C., Blom, J., Smits, T., Cottyn, B., Pothier, J.. (2021). Xanthomonas hydrangeae sp. nov., a novel plant pathogen isolated from Hydrangea arborescens. Microbiology Society.Volume 71(12), 005163.

Dia, N., Van Vaerenbergh, J., Van Malderghem, C., Blom, J., Smits, T., Cottyn, B., Pothier, J.. (2021). Xanthomonas hydrangeae sp: nov. Microbiology Society.Volume 71(12).

2020

Lick, S., Kröckel, L., Wibberg, D., Winkler, A., Blom, J., Goesmann, A., Kalinowski, J.. (2020). Pseudomonas bubulae sp. nov., isolated from beef. Microbiology Society.Volume 70(1), 292--301.

Madhaiyan, M., Saravanan, V., Blom, J., Smits, T., Rezzonico, F., Kim, S., Weon, H., Kwon, S., Whitman, W., Ji, L.. (2020). Phytobacter palmae sp. nov., a novel endophytic, N2 fixing, plant growth promoting Gammaproteobacterium isolated from oil palm (Elaeis guineensis Jacq.). Microbiology Society.Volume 70(2), 841--848.

Kämpfer, P., Fuglsang-Damgaard, D., Overballe-Petersen, S., Hasman, H., Hammerum, A., Fuursted, K., Blom, J., Glaeser, S., Hansen, F.. (2020). Taxonomic reassessment of the genus Pseudocitrobacter using whole genome sequencing: Pseudocitrobacter anthropi is a later heterotypic synonym of Pseudocitrobacter faecalis and description of Pseudocitrobacter vendiensis sp. nov.. Microbiology Society.Volume 70(2), 1315--1320.

Lick, S., Kröckel, L., Wibberg, D., Winkler, A., Blom, J., Bantleon, A., Goesmann, A., Kalinowski, J.. (2020). Pseudomonas carnis sp. nov., isolated from meat. Microbiology Society.Volume 70(3), 1528--1540.

Wu, L., Li, X., Ma, L., Blom, J., Wu, H., Gu, Q., Borriss, R., Gao, X.. (2020). The “pseudo-pathogenic” effect of plant growth-promoting bacilli on starchy plant storage organs is due to their $\alpha$-amylase activity which is stimulating endogenous opportunistic pathogens. Springer Berlin Heidelberg.Volume 104(6), 2701--2714.

Kumru, S., Tekedar, H., Blom, J., Lawrence, M., Karsi, A.. (2020). Genomic diversity in flavobacterial pathogens of aquatic origin. Academic Press.Volume 142, 104053.

Tekedar, H., Blom, J., Kalindamar, S., Nho, S., Karsi, A., Lawrence, M.. (2020). Comparative genomics of the fish pathogens Edwardsiella ictaluri 93-146 and Edwardsiella piscicida C07-087. Microbiology Society.Volume 6(2).

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2020). Proposal to reclassify Leptotrichia goodfellowii into a novel genus as Pseudoleptotrichia goodfellowii gen. nov., comb. nov.. Microbiology Society.Volume 70(3), 2084--2088.

Maus, I., Klocke, M., Derenkó, J., Stolze, Y., Beckstette, M., Jost, C., Wibberg, D., Blom, J., Henke, C., Willenbücher, K., others. (2020). Impact of process temperature and organic loading rate on cellulolytic/hydrolytic biofilm microbiomes during biomethanation of ryegrass silage revealed by genome-centered metagenomics and metatranscriptomics. BioMed Central.Volume 15(1), 1--21.

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2020). Proposal to reclassify Streptobacillus hongkongensis into a novel genus as Pseudostreptobacillus hongkongensis gen. nov., comb. nov.. Microbiology Society.Volume 70(4), 2366--2368.

Eisenberg, T., Heydel, C., Prenger-Berninghoff, E., Fawzy, A., Kling, U., Akimkin, V., Semmler, T., Mühldorfer, K., Kämpfer, P., Blom, J., others. (2020). Streptobacillus canis sp. nov. isolated from a dog. Microbiology Society.Volume 70(4), 2648--2656.

Liu, Y., Rao, Q., Blom, J., Lin, Q., Luo, T.. (2020). Pseudomonas piscis sp. nov., isolated from the profound head ulcers of farmed Murray cod (Maccullochella peelii peelii). Microbiology Society.Volume 70(4), 2732--2739.

Liu, A., Zhang, Y., Cheng, P., Peng, Y., Blom, J., Xue, Q.. (2020). Whole genome analysis calls for a taxonomic rearrangement of the genus Colwellia. Springer International Publishing.Volume 113(7), 919--931.

Volokhov, D., Blom, J., Amselle, M., Delmonte, P., Gao, Y., Shen, Z., Zhang, S., Gulland, F., Chizhikov, V., Eisenberg, T.. (2020). Oceanivirga miroungae sp. nov., isolated from oral cavity of northern elephant seal (Mirounga angustirostris). Microbiology Society.Volume 70(5), 3037--3048.

Palmer, M., Steenkamp, E., Blom, J., Hedlund, B., Venter, S.. (2020). All ANIs are not created equal: implications for prokaryotic species boundaries and integration of ANIs into polyphasic taxonomy. Microbiology Society.Volume 70(4), 2937--2948.

Huang, C., Chen, C., Liou, J., Lee, A., Blom, J., Lin, Y., Huang, L., Watanabe, K.. (2020). Genome-based reclassification of Lactobacillus casei: emended classification and description of the species Lactobacillus zeae. Microbiology Society.Volume 70(6), 3755--3762.

Rothen, J., Sapugahawatte, D., Li, C., Lo, N., Vogel, G., Foucault, F., Pflüger, V., Pothier, J., Blom, J., Daubenberger, C., others. (2020). A simple, rapid typing method for Streptococcus agalactiae based on ribosomal subunit proteins by MALDI-TOF MS. Nature Publishing Group.Volume 10(1), 1--8.

Tekedar, H., Arick, M., Hsu, C., Thrash, A., Blom, J., Lawrence, M., Abdelhamed, H.. (2020). Identification of antimicrobial resistance determinants in Aeromonas veronii strain MS-17-88 recovered from channel catfish (Ictalurus punctatus). Frontiers Media SA.Volume 10, 348.

Filippidou, S., Fatton, M., Junier, T., Berge, M., Poppleton, D., Blum, T., Kaminek, M., Odriozola, A., Blom, J., Johnson, S., others. (2020). Cryptosporulation in Kurthia spp. forces a rethinking of asporogenesis in Firmicutes. Cold Spring Harbor Laboratory.

Franco, A., Rückert, C., Blom, J., Busche, T., Reichert, J., Schubert, P., Goesmann, A., Kalinowski, J., Wilke, T., Kämpfer, P., others. (2020). High diversity of Vibrio spp. associated with different ecological niches in a marine aquaria system and description of Vibrio aquimaris sp. nov. Urban \& Fischer.Volume 43(5), 126123.

Eisenberg, T., Schlez, K., Fawzy, A., Völker, I., Hechinger, S., Curić, M., Schauerte, N., Geiger, C., Blom, J., Scholz, H.. (2020). Expanding the host range: infection of a reptilian host (Furcifer pardalis) by an atypical Brucella strain. Springer International Publishing.Volume 113(10), 1531--1537.

Liou, J., Huang, C., Ikeyama, N., Lee, A., Chen, I., Blom, J., Chen, C., Chen, C., Lin, Y., Hsieh, S., others. (2020). Prevotella hominis sp. nov., isolated from human faeces. Microbiology Society.Volume 70(8), 4767--4773.

Gétaz, M., Blom, J., Smits, T., Pothier, J.. (2020). Comparative genomics of Xanthomonas fragariae and Xanthomonas arboricola pv. fragariae reveals intra-and interspecies variations. BioMed Central.Volume 2(1), 1--19.

Rocha, D., Azevedo, V., Brenig, B., Silva, A., Blom, J., Ramos, R., Aguiar, E., Chapartegui-González, I., Fernández-Martínez, M., Martínez-Martínez, L., others. (2020). Whole-genome sequencing reveals misidentification of a multidrug-resistant urine clinical isolate as Corynebacterium urealyticum. Elsevier.Volume 23, 16--19.

Fawzy, A., Rau, J., Riße, K., Schauerte, N., Geiger, C., Blom, J., Imirzalioglu, C., Falgenhauer, J., Bach, A., Herden, C., others. (2020). Streptobacillus felis, a member of the oropharynx microbiota of the Felidae, isolated from a tropical rusty-spotted cat. Springer International Publishing.Volume 113(10), 1455--1465.

Clawson, M., Schuller, G., Dickey, A., Bono, J., Murray, R., Sweeney, M., Apley, M., DeDonder, K., Capik, S., Larson, R., others. (2020). Differences between predicted outer membrane proteins of genotype 1 and 2 Mannheimia haemolytica. BioMed Central.Volume 20(1), 1--18.

Pulami, D., Schauss, T., Eisenberg, T., Wilharm, G., Blom, J., Goesmann, A., Kämpfer, P., Glaeser, S.. (2020). Acinetobacter baumannii in manure and anaerobic digestates of German biogas plants. Oxford University Press.Volume 96(10), fiaa176.

Glaeser, S., Pulami, D., Blom, J., Eisenberg, T., Goesmann, A., Bender, J., Wilharm, G., Kämpfer, P.. (2020). The status of the genus Prolinoborus (Pot et al. 1992) and the species Prolinoborus fasciculus (Pot et al. 1992). Microbiology Society.Volume 70(9), 5165--5171.

Martins, L., Fernandes, C., Blom, J., Dia, N., Pothier, J., Tavares, F.. (2020). Xanthomonas euroxanthea sp. nov., a new xanthomonad species including pathogenic and non-pathogenic strains of walnut. Microbiology Society.Volume 70(12), 6024.

Mühldorfer, K., Szentiks, C., Wibbelt, G., van der Linden, M., Ewers, C., Semmler, T., Akimkin, V., Blom, J., Rau, J., Eisenberg, T.. (2020). Streptococcus catagoni sp. nov., isolated from the respiratory tract of diseased Chacoan peccaries (Catagonus wagneri). Microbiology Society.Volume 70(11), 5734--5739.

Herrera-Belaroussi, A., Normand, P., Pawlowski, K., Fernandez, M., Wibberg, D., Kalinowski, J., Brachmann, A., Berckx, F., Lee, N., Blom, J., others. (2020). Candidatus Frankia nodulisporulans sp. nov., an Alnus glutinosa-infective Frankia species unable to grow in pure culture and able to sporulate in-planta. Urban \& Fischer.Volume 43(6), 126134.

Wibberg, D., Price-Carter, M., Rückert, C., Blom, J., Möbius, P.. (2020). Complete Genome Sequence of Ovine Mycobacterium avium subsp. paratuberculosis Strain JIII-386 (MAP-S/type III) and Its Comparison to MAP-S/type I, MAP-C, and M. avium Complex Genomes. MDPI.Volume 9(1), 70.

2019

Biessy, A., Novinscak, A., Blom, J., Léger, G., Thomashow, L., Cazorla, F., Josic, D., Filion, M.. (2019). Diversity of phytobeneficial traits revealed by whole-genome analysis of worldwide-isolated phenazine-producing Pseudomonas spp.. John Wiley \& Sons, Inc. Hoboken, USA.Volume 21(1), 437--455.

Tekedar, H., Abdelhamed, H., Kumru, S., Blom, J., Karsi, A., Lawrence, M.. (2019). Comparative genomics of Aeromonas hydrophila secretion systems and mutational analysis of hcp1 and vgrG1 genes from T6SS. Frontiers Media SA.Volume 9, 3216.

Rutz, D., Frasson, D., Sievers, M., Blom, J., Rezzonico, F., Pothier, J., Smits, T.. (2019). High-quality draft genome sequence of Pseudomonas reidholzensis strain CCOS 865T. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 8(3), e01502--18.

Ludueña, L., Anzuay, M., Angelini, J., McIntosh, M., Becker, A., Rupp, O., Goesmann, A., Blom, J., Fabra, A., Taurian, T.. (2019). Genome sequence of the endophytic strain Enterobacter sp. J49, a potential biofertilizer for peanut and maize. Academic Press.Volume 111(4), 913--920.

Amiri Moghaddam, J., Dávila-Céspedes, A., Alanjary, M., Blom, J., König, G., Schäberle, T.. (2019). Genome analysis of the marine bacterium Labrenzia sp. strain 011, a potential protective agent of mollusks. MDPI.Volume 4(1), 33.

Rothen, J., Pothier, J., Foucault, F., Blom, J., Nanayakkara, D., Li, C., Ip, M., Tanner, M., Vogel, G., Pflüger, V., others. (2019). Subspecies typing of Streptococcus agalactiae based on ribosomal subunit protein mass variation by MALDI-TOF MS. Frontiers Media SA.Volume 10, 471.

Ruinelli, M., Blom, J., Smits, T., Pothier, J.. (2019). Comparative genomics and pathogenicity potential of members of the Pseudomonas syringae species complex on Prunus spp. BioMed Central.Volume 20(1), 1--16.

Smits, T., Duffy, B., Blom, J., Ishimaru, C., Stockwell, V.. (2019). Pantocin A, a peptide-derived antibiotic involved in biological control by plant-associated Pantoea species. Springer Berlin Heidelberg.Volume 201(6), 713--722.

Liou, J., Huang, C., Wang, C., Lee, A., Mori, K., Tamura, T., Watanabe, M., Blom, J., Huang, L., Watanabe, K.. (2019). Lactobacillus suantsaii sp. nov., isolated from suan-tsai, a traditional Taiwanese fermented mustard green. Microbiology Society.Volume 69(5), 1484--1489.

Avontuur, J., Palmer, M., Beukes, C., Chan, W., Coetzee, M., Blom, J., Stępkowski, T., Kyrpides, N., Woyke, T., Shapiro, N., others. (2019). Genome-informed Bradyrhizobium taxonomy: where to from here?. Urban \& Fischer.Volume 42(4), 427--439.

Guan, Y., Ngugi, D., Vinu, M., Blom, J., Alam, I., Guillot, S., Ferry, J., Stingl, U.. (2019). Comparative genomics of the genus Methanohalophilus, including a newly isolated strain from Kebrit deep in the Red Sea. Frontiers Media SA.Volume 10, 839.

Ramdhan, N., Blom, J., Sutcliffe, I., Pereira-Ribeiro, P., Santos, C., Mattos-Guaraldi, A., Burkovski, A., Sangal, V.. (2019). Genomic analysis of a novel nontoxigenic Corynebacterium diphtheriae strain isolated from a cancer patient. Elsevier.Volume 30, 100544.

Palmer, M., Venter, S., McTaggart, A., Coetzee, M., Van Wyk, S., Avontuur, J., Beukes, C., Fourie, G., Santana, Q., Van Der Nest, M., others. (2019). The synergistic effect of concatenation in phylogenomics: the case in Pantoea. PeerJ Inc..Volume 7, e6698.

Bouhired, S., Rupp, O., Blom, J., Schäberle, T., Schiefer, A., Kehraus, S., Pfarr, K., Goesmann, A., Hoerauf, A., König, G.. (2019). Complete Genome Sequence of the Corallopyronin A-Producing Myxobacterium Corallococcus coralloides B035. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 8(17), e00050--19.

López, J., Lozano, M., Lagares Jr, A., Fabre, M., Draghi, W., Del Papa, M., Pistorio, M., Becker, A., Wibberg, D., Schlüter, A., others. (2019). Codon usage Heterogeneity in the multipartite prokaryote genome: selection-based coding bias associated with gene location, expression level, and ancestry. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 10(3), e00505--19.

Chen, S., Soehnlen, M., Blom, J., Terrapon, N., Henrissat, B., Walker, E.. (2019). Comparative genomic analyses reveal diverse virulence factors and antimicrobial resistance mechanisms in clinical Elizabethkingia meningoseptica strains. Public Library of Science San Francisco, CA USA.Volume 14(10), e0222648.

Wu, H., Gu, Q., Xie, Y., Lou, Z., Xue, P., Fang, L., Yu, C., Jia, D., Huang, G., Zhu, B., others. (2019). Cold-adapted Bacilli isolated from the Qinghai--Tibetan Plateau are able to promote plant growth in extreme environments. John Wiley \& Sons, Inc. Hoboken, USA.Volume 21(9), 3505--3526.

Panthee, S., Paudel, A., Blom, J., Hamamoto, H., Sekimizu, K.. (2019). Complete genome sequence of Weissella hellenica 0916-4-2 and its comparative genomic analysis. Frontiers Media SA.Volume 10, 1619.

Paterson, M., Ranasinghe, D., Blom, J., Dover, L., Sutcliffe, I., Lopes, B., Sangal, V.. (2019). Genomic analysis of a novel Rhodococcus (Prescottella) equi isolate from a bovine host. Springer Berlin Heidelberg.Volume 201(9), 1317--1321.

Silva, S., Blom, J., Keller-Costa, T., Costa, R.. (2019). Comparative genomics reveals complex natural product biosynthesis capacities and carbon metabolism across host-associated and free-living Aquimarina (Bacteroidetes, Flavobacteriaceae) species. John Wiley \& Sons, Inc. Hoboken, USA.Volume 21(11), 4002--4019.

Nguyen, T., Wibberg, D., Vigil-Stenman, T., Berckx, F., Battenberg, K., Demchenko, K., Blom, J., Fernandez, M., Yamanaka, T., Berry, A., others. (2019). Frankia-enriched metagenomes from the earliest diverging symbiotic Frankia cluster: they come in teams. Oxford University Press.Volume 11(8), 2273--2291.

Huang, C., Wang, C., Liou, J., Lee, A., Blom, J., Huang, L., Watanabe, K.. (2019). Reclassification of Micrococcus aloeverae and Micrococcus yunnanensis as later heterotypic synonyms of Micrococcus luteus. Microbiology Society.Volume 69(11), 3512--3518.

Tekedar, H., Kumru, S., Blom, J., Perkins, A., Griffin, M., Abdelhamed, H., Karsi, A., Lawrence, M.. (2019). Comparative genomics of Aeromonas veronii: Identification of a pathotype impacting aquaculture globally. Public Library of Science San Francisco, CA USA.Volume 14(8), e0221018.

Suarez, C., Ratering, S., Hain, T., Fritzenwanker, M., Goesmann, A., Blom, J., Chakraborty, T., Bunk, B., Spröer, C., Overmann, J., others. (2019). Complete genome sequence of the plant growth-promoting bacterium hartmannibacter diazotrophicus strain E19T. Hindawi.Volume 2019.

Smits, T., Rezzonico, F., Frasson, D., Vesga, P., Vacheron, J., Blom, J., Pothier, J., Keel, C., Maurhofer, M., Sievers, M.. (2019). Updated genome sequence and annotation for the full genome of Pseudomonas protegens CHA0. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 8(39), e01002--19.

Rutz, D., Frasson, D., Sievers, M., Blom, J., Rezzonico, F., Pothier, J., Smits, T.. (2019). Comparative genomic analysis of the biotechnological potential of the novel species Pseudomonas wadenswilerensis CCOS 864T and Pseudomonas reidholzensis CCOS 865T. MDPI.Volume 11(11), 204.

Wibberg, D., Batut, B., Belmann, P., Blom, J., Glöckner, F., Grüning, B., Hoffmann, N., Kleinbölting, N., Rahn, R., Rey, M., others. (2019). The de. NBI/ELIXIR-DE training platform-Bioinformatics training in Germany and across Europe within ELIXIR. Faculty of 1000 Ltd.Volume 8.

Alexandraki, V., Kazou, M., Blom, J., Pot, B., Papadimitriou, K., Tsakalidou, E.. (2019). Comparative genomics of Streptococcus thermophilus support important traits concerning the evolution, biology and technological properties of the species. Frontiers Media SA.Volume 10, 2916.

2018

Landwehr, W., Kämpfer, P., Glaeser, S., Rückert, C., Kalinowski, J., Blom, J., Goesmann, A., Mack, M., Schumann, P., Atasayar, E., others. (2018). Taxonomic analyses of members of the Streptomyces cinnabarinus cluster, description of Streptomyces cinnabarigriseus sp. nov. and Streptomyces davaonensis sp. nov.. Microbiology Society.Volume 68(1), 382--393.

Ludueña, L., Anzuay, M., Angelini, J., McIntosh, M., Becker, A., Rupp, O., Goesmann, A., Blom, J., Fabra, A., Taurian, T.. (2018). Strain Serratia sp. S119: a potential biofertilizer for peanut and maize and a model bacterium to study phosphate solubilization mechanisms. Elsevier.Volume 126, 107--112.

Kazou, M., Alexandraki, V., Blom, J., Pot, B., Tsakalidou, E., Papadimitriou, K.. (2018). Comparative genomics of Lactobacillus acidipiscis ACA-DC 1533 isolated from traditional Greek Kopanisti cheese against species within the Lactobacillus salivarius clade. Frontiers Media SA.Volume 9, 1244.

Verwaaijen, B., Wibberg, D., Nelkner, J., Gordin, M., Rupp, O., Winkler, A., Bremges, A., Blom, J., Grosch, R., Pühler, A., others. (2018). Assembly of the Lactuca sativa, L. cv. Tizian draft genome sequence reveals differences within major resistance complex 1 as compared to the cv. Salinas reference genome. Elsevier.Volume 267, 12--18.

Maus, I., Rumming, M., Bergmann, I., Heeg, K., Pohl, M., Nettmann, E., Jaenicke, S., Blom, J., Pühler, A., Schlüter, A., others. (2018). Characterization of Bathyarchaeota genomes assembled from metagenomes of biofilms residing in mesophilic and thermophilic biogas reactors. BioMed Central.Volume 11(1), 1--13.

Gétaz, M., Baeyen, S., Blom, J., Maes, M., Cottyn, B., Pothier, J.. (2018). High-quality draft genome sequences of five Xanthomonas arboricola pv. fragariae isolates. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 6(7), e01585--17.

Douriet-Gámez, N., Maldonado-Mendoza, I., Ibarra-Laclette, E., Blom, J., Calderón-Vázquez, C.. (2018). Genomic analysis of Bacillus sp. strain B25, a biocontrol agent of maize pathogen Fusarium verticillioides. Springer US.Volume 75(3), 247--255.

Pillonetto, M., Arend, L., Faoro, H., D’Espindula, H., Blom, J., Smits, T., Mira, M., Rezzonico, F.. (2018). Emended description of the genus Phytobacter, its type species Phytobacter diazotrophicus (Zhang 2008) and description of Phytobacter ursingii sp. nov.. Microbiology Society.Volume 68(1), 176--184.

Riesco, R., Carro, L., Román-Ponce, B., Prieto, C., Blom, J., Klenk, H., Normand, P., Trujillo, M.. (2018). Defining the species Micromonospora saelicesensis and Micromonospora noduli under the framework of genomics. Frontiers Media SA.Volume 9, 1360.

Palmer, M., Steenkamp, E., Coetzee, M., Avontuur, J., Chan, W., Van Zyl, E., Blom, J., Venter, S.. (2018). Mixta gen. nov., a new genus in the Erwiniaceae. Microbiology Society.

Bartz, J., Blom, J., Busse, H., Mvie, J., Hardt, M., Schubert, P., Wilke, T., Goessmann, A., Wilharm, G., Bender, J., others. (2018). Parendozoicomonas haliclonae gen. nov. sp. nov. isolated from a marine sponge of the genus Haliclona and description of the family Endozoicomonadaceae fam. nov. comprising the genera Endozoicomonas, Parendozoicomonas, and Kistimonas. Elsevier.Volume 41(2), 73--84.

Palmer, M., Steenkamp, E., Coetzee, M., Blom, J., Venter, S.. (2018). Genome-based characterization of biological processes that differentiate closely related bacteria. Frontiers Media SA.Volume 9, 113.

Karimi, E., Slaby, B., Soares, A., Blom, J., Hentschel, U., Costa, R.. (2018). Metagenomic binning reveals versatile nutrient cycling and distinct adaptive features in alphaproteobacterial symbionts of marine sponges. Oxford University Press.Volume 94(6), fiy074.

Wei, Y., Mao, H., Xu, Y., Zou, W., Fang, J., Blom, J.. (2018). Pseudomonas abyssi sp. nov., isolated from the abyssopelagic water of the Mariana Trench. Microbiology Society.Volume 68(8), 2462--2467.

Kämpfer, P., Rückert, C., Blom, J., Goesmann, A., Wink, J., Kalinowski, J., Glaeser, S.. (2018). Streptomyces ciscaucasicus Sveshnikova et al. 1983 is a later subjective synonym of Streptomyces canus Heinemann et al. 1953. Microbiology Society.Volume 68(1), 42--46.

Åvall-Jääskeläinen, S., Taponen, S., Kant, R., Paulin, L., Blom, J., Palva, A., Koort, J.. (2018). Comparative genome analysis of 24 bovine-associated Staphylococcus isolates with special focus on the putative virulence genes. PeerJ Inc..Volume 6, e4560.

Aliyu, H., Lebre, P., Blom, J., Cowan, D., De Maayer, P.. (2018). Corrigendum to" Phylogenomic re-assessment of the thermophilic genus Geobacillus"[Syst. Appl. Microbiol. 39 (2016) 527-533].. Volume 41(5), 529--530.

Sangal, V., Goodfellow, M., Blom, J., Tan, G., Klenk, H., Sutcliffe, I.. (2018). Revisiting the taxonomic status of the biomedically and industrially important genus Amycolatopsis, using a phylogenomic approach. Frontiers Media SA.Volume 9, 2281.

Shibl, A., Ngugi, D., Talarmin, A., Thompson, L., Blom, J., Stingl, U.. (2018). The genome of a novel isolate of Prochlorococcus from the Red Sea contains transcribed genes for compatible solute biosynthesis. Oxford University Press.Volume 94(12), fiy182.

Fernandes, C., Blom, J., Pothier, J., Tavares, F.. (2018). High-quality draft genome sequence of Xanthomonas sp. strain CPBF 424, a Walnut-Pathogenic strain with atypical features. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 7(15), e00921--18.

Rutz, D., Frasson, D., Sievers, M., Blom, J., Rezzonico, F., Pothier, J., Smits, T.. (2018). High-quality draft genome sequence of Pseudomonas wadenswilerensis CCOS 864T. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 7(16), e01059--18.

Fernandes, C., Blom, J., Pothier, J., Tavares, F.. (2018). High-quality draft genome sequence of Xanthomonas arboricola pv. juglandis CPBF 1521, isolated from leaves of a symptomatic walnut tree in Portugal without a past of phytosanitary treatment. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 7(16), e00887--18.

Amiri Moghaddam, J., Crüsemann, M., Alanjary, M., Harms, H., Dávila-Céspedes, A., Blom, J., Poehlein, A., Ziemert, N., König, G., Schäberle, T.. (2018). Analysis of the genome and metabolome of marine myxobacteria reveals high potential for biosynthesis of novel specialized metabolites. Nature Publishing Group.Volume 8(1), 1--14.

2017

Beukes, C., Palmer, M., Manyaka, P., Chan, W., Avontuur, J., van Zyl, E., Huntemann, M., Clum, A., Pillay, M., Palaniappan, K., others. (2018). Genome Data Provides High Support for Generic Boundaries in Burkholderia Sensu Lato (vol 8, 1154, 2017). FRONTIERS MEDIA SA PO BOX 110, EPFL INNOVATION PARK, BUILDING I, LAUSANNE~….Volume 9.

Ngugi, D., Miyake, S., Cahill, M., Vinu, M., Hackmann, T., Blom, J., Tietbohl, M., Berumen, M., Stingl, U.. (2017). Genomic diversification of giant enteric symbionts reflects host dietary lifestyles. National Academy of Sciences.Volume 114(36), E7592--E7601.

Palmer, M., Steenkamp, E., Coetzee, M., Chan, W., Van Zyl, E., De Maayer, P., Coutinho, T., Blom, J., Smits, T., Duffy, B., others. (2017). Phylogenomic resolution of the bacterial genus Pantoea and its relationship with Erwinia and Tatumella. Springer International Publishing.Volume 110(10), 1287--1309.

Duar, R., Frese, S., Lin, X., Fernando, S., Burkey, T., Tasseva, G., Peterson, D., Blom, J., Wenzel, C., Szymanski, C., others. (2017). Experimental evaluation of host adaptation of Lactobacillus reuteri to different vertebrate species. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 83(12), e00132--17.

Petkauskaite, R., Blom, J., Goesmann, A., Kuisiene, N.. (2017). Draft genome sequence of pectic polysaccharide-degrading moderate thermophilic bacterium Geobacillus thermodenitrificans DSM 101594. Sociedade Brasileira de Microbiologia.Volume 48, 7--8.

Lopes, R., Cerdeira, L., Tavares, G., Ruiz, J., Blom, J., Horácio, E., Mantovani, H., Queiroz, M.. (2017). Genome analysis reveals insights of the endophytic Bacillus toyonensis BAC3151 as a potentially novel agent for biocontrol of plant pathogens. Springer Netherlands.Volume 33(10), 1--15.

Celis, J., Edgell, D., Stelbrink, B., Wibberg, D., Hauffe, T., Blom, J., Kalinowski, J., Wilke, T.. (2017). Evolutionary and biogeographical implications of degraded LAGLIDADG endonuclease functionality and group I intron occurrence in stony corals (Scleractinia) and mushroom corals (Corallimorpharia). Public Library of Science San Francisco, CA USA.Volume 12(3), e0173734.

Tomazetto, G., Hahnke, S., Langer, T., Wibberg, D., Blom, J., Maus, I., Pühler, A., Klocke, M., Schlüter, A.. (2017). The completely annotated genome and comparative genomics of the Peptoniphilaceae bacterium str. ING2-D1G, a novel acidogenic bacterium isolated from a mesophilic biogas reactor. Elsevier.Volume 257, 178--186.

Klughammer, J., Dittrich, M., Blom, J., Mitesser, V., Vogel, U., Frosch, M., Goesmann, A., Müller, T., Schoen, C.. (2017). Comparative genome sequencing reveals within-host genetic changes in Neisseria meningitidis during invasive disease. Public Library of Science San Francisco, CA USA.Volume 12(1), e0169892.

Eisenberg, T., Riße, K., Schauerte, N., Geiger, C., Blom, J., Scholz, H.. (2017). Isolation of a novel ‘atypical’Brucella strain from a bluespotted ribbontail ray (Taeniura lymma). Springer International Publishing.Volume 110(2), 221--234.

Wöchtl, B., Gunzer, F., Gerner, W., Gasse, H., Koch, M., Bagó, Z., Ganter, M., Weissenböck, H., Dinhopl, N., Coldewey, S., others. (2017). Comparison of clinical and immunological findings in gnotobiotic piglets infected with Escherichia coli O104: H4 outbreak strain and EHEC O157: H7. BioMed Central.Volume 9(1), 1--18.

Kämpfer, P., Rückert, C., Blom, J., Goesmann, A., Wink, J., Kalinowski, J., Glaeser, S.. (2017). Streptomyces phaeopurpureus Shinobu 1957 (Approved Lists 1980) and Streptomyces griseorubiginosus (Ryabova and Preobrazhenskaya 1957) Pridham et al. 1958 (Approved Lists 1980) are heterotypic subjective synonyms. Microbiology Society.Volume 67(8), 3111--3116.

Chen, S., Blom, J., Walker, E.. (2017). Genomic, physiologic, and symbiotic characterization of Serratia marcescens strains isolated from the mosquito Anopheles stephensi. Frontiers Media SA.Volume 8, 1483.

Wibberg, D., Genzel, F., Verwaaijen, B., Blom, J., Rupp, O., Goesmann, A., Zrenner, R., Grosch, R., Pühler, A., Schlüter, A.. (2017). Draft genome sequence of the potato pathogen Rhizoctonia solani AG3-PT isolate Ben3. Springer Berlin Heidelberg.Volume 199(7), 1065--1068.

Makarewicz, O., Lucas, M., Brandt, C., Herrmann, L., Albersmeier, A., Rückert, C., Blom, J., Goesmann, A., van der Linden, M., Kalinowski, J., others. (2017). Whole genome sequencing of 39 invasive Streptococcus pneumoniae sequence type 199 isolates revealed switches from serotype 19A to 15B. Public Library of Science.Volume 12(1), e0169370.

De Maayer, P., Aliyu, H., Vikram, S., Blom, J., Duffy, B., Cowan, D., Smits, T., Venter, S., Coutinho, T.. (2017). Phylogenomic, pan-genomic, pathogenomic and evolutionary genomic insights into the agronomically relevant enterobacteria Pantoea ananatis and Pantoea stewartii. Frontiers.

Gétaz, M., van der Wolf, J., Blom, J., Pothier, J.. (2017). Complete genome sequences of three isolates of Xanthomonas fragariae, the bacterium responsible for angular leaf spots on strawberry plants. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 5(32), e00642--17.

Glaeser, S., Alabid, I., Guo, H., Kumar, N., Imani, J., Kämpfer, P., Hardt, M., Busche, T., Kalinowski, J., Blom, J., others. (2017). Detection and characterization of endobacteria in the fungal endophyte Piriformospora indica. Springer, Cham.

Stadermann, K., Blom, J., Borgmeier, C., Sciberras, N., Herbold, S., Kipker, M., Meurer, G., Molck, S., Petri, D., Pelzer, S., others. (2017). First complete genome sequence of Bacillus glycinifermentans B-27. Elsevier.Volume 257, 187--191.

Alexandraki, V., Kazou, M., Blom, J., Pot, B., Tsakalidou, E., Papadimitriou, K.. (2017). The complete genome sequence of the yogurt isolate Streptococcus thermophilus ACA-DC 2. BioMed Central.Volume 12(1), 1--10.

Chen, S., Blom, J., Loch, T., Faisal, M., Walker, E.. (2017). The emerging fish pathogen Flavobacterium spartansii isolated from chinook salmon: comparative genome analysis and molecular manipulation. Frontiers Media SA.Volume 8, 2339.

Fan, B., Blom, J., Klenk, H., Borriss, R.. (2017). Bacillus amyloliquefaciens, Bacillus velezensis, and Bacillus siamensis form an “operational group B. amyloliquefaciens” within the B. subtilis species complex. Frontiers Media SA.Volume 8, 22.

Schatschneider, S., Schneider, J., Blom, J., Létisse, F., Niehaus, K., Goesmann, A., Vorhölter, F.. (2017). Systems and synthetic biology perspective of the versatile plant-pathogenic and polysaccharide-producing bacterium Xanthomonas campestris. Microbiology Society.Volume 163(8), 1117--1144.

Hersemann, L., Wibberg, D., Blom, J., Goesmann, A., Widmer, F., Vorhölter, F., Kölliker, R.. (2017). Comparative genomics of host adaptive traits in Xanthomonas translucens pv. graminis. BioMed Central.Volume 18(1), 1--18.

Jeong, D., Heo, S., Ryu, S., Blom, J., Lee, J.. (2017). Genomic insights into the virulence and salt tolerance of Staphylococcus equorum. Nature Publishing Group.Volume 7(1), 1--11.

Yu, J., Blom, J., Sczyrba, A., Goesmann, A.. (2017). Rapid protein alignment in the cloud: HAMOND combines fast DIAMOND alignments with Hadoop parallelism. Elsevier.Volume 257, 58--60.

Langlois, P., Snelling, J., Hamilton, J., Bragard, C., Koebnik, R., Verdier, V., Triplett, L., Blom, J., Tisserat, N., Leach, J.. (2017). Characterization of the Xanthomonas translucens complex using draft genomes, comparative genomics, phylogenetic analysis, and diagnostic LAMP assays. Volume 107(5), 519--527.

Yu, J., Blom, J., Glaeser, S., Jaenicke, S., Juhre, T., Rupp, O., Schwengers, O., Spänig, S., Goesmann, A.. (2017). A review of bioinformatics platforms for comparative genomics. Recent developments of the EDGAR 2.0 platform and its utility for taxonomic and phylogenetic studies. Elsevier.Volume 261, 2--9.

Grosse-Kock, S., Kolodkina, V., Schwalbe, E., Blom, J., Burkovski, A., Hoskisson, P., Brisse, S., Smith, D., Sutcliffe, I., Titov, L., others. (2017). Genomic analysis of endemic clones of toxigenic and non-toxigenic Corynebacterium diphtheriae in Belarus during and after the major epidemic in 1990s. BioMed Central.Volume 18(1), 1--10.

Jimenez-Infante, F., Ngugi, D., Vinu, M., Blom, J., Alam, I., Bajic, V., Stingl, U.. (2017). Genomic characterization of two novel SAR11 isolates from the Red Sea, including the first strain of the SAR11 Ib clade. Oxford University Press.Volume 93(7).

Beukes, C., Palmer, M., Manyaka, P., Chan, W., Avontuur, J., van Zyl, E., Huntemann, M., Clum, A., Pillay, M., Palaniappan, K., others. (2017). Genome data provides high support for generic boundaries in Burkholderia sensu lato. Frontiers Media SA.Volume 8, 1154.

Ampattu, B., Hagmann, L., Liang, C., Dittrich, M., Schlüter, A., Blom, J., Krol, E., Goesmann, A., Becker, A., Dandekar, T., others. (2017). Transcriptomic buffering of cryptic genetic variation contributes to meningococcal virulence. BioMed Central.Volume 18(1), 1--36.

Entfellner, E., Frei, M., Christiansen, G., Deng, L., Blom, J., Kurmayer, R.. (2017). Evolution of anabaenopeptin peptide structural variability in the cyanobacterium Planktothrix. Frontiers Media SA.Volume 8, 219.

Ruinelli, M., Blom, J., Pothier, J.. (2017). Complete genome sequence of Pseudomonas viridiflava CFBP 1590, isolated from diseased cherry in France. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 5(30), e00662--17.

2016

Jimenez-Infante, F., Ngugi, D., Vinu, M., Alam, I., Kamau, A., Blom, J., Bajic, V., Stingl, U.. (2016). Comprehensive genomic analyses of the OM43 clade, including a novel species from the Red Sea, indicate ecotype differentiation among marine methylotrophs. American Society for Microbiology.Volume 82(4), 1215--1226.

Aliyu, H., Lebre, P., Blom, J., Cowan, D., De Maayer, P.. (2016). Phylogenomic re-assessment of the thermophilic genus Geobacillus. Elsevier.Volume 39(8), 527--533.

Anton, B., Harhay, G., Smith, T., Blom, J., Roberts, R.. (2016). Comparative methylome analysis of the occasional ruminant respiratory pathogen Bibersteinia trehalosi. Public Library of Science San Francisco, CA USA.Volume 11(8), e0161499.

Pathak, A., Chauhan, A., Blom, J., Indest, K., Jung, C., Stothard, P., Bera, G., Green, S., Ogram, A.. (2016). Comparative genomics and metabolic analysis reveals peculiar characteristics of Rhodococcus opacus strain M213 particularly for naphthalene degradation. Public Library of Science San Francisco, CA USA.Volume 11(8), e0161032.

Nguyen, T., Wibberg, D., Battenberg, K., Blom, J., Vanden Heuvel, B., Berry, A., Kalinowski, J., Pawlowski, K.. (2016). An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH. BioMed Central.Volume 17(1), 1--17.

Dickey, A., Loy, J., Bono, J., Smith, T., Apley, M., Lubbers, B., DeDonder, K., Capik, S., Larson, R., White, B., others. (2016). Large genomic differences between Moraxella bovoculi isolates acquired from the eyes of cattle with infectious bovine keratoconjunctivitis versus the deep nasopharynx of asymptomatic cattle. BioMed Central.Volume 47(1), 1--11.

Ngugi, D., Blom, J., Stepanauskas, R., Stingl, U.. (2016). Diversification and niche adaptations of Nitrospina-like bacteria in the polyextreme interfaces of Red Sea brines. Nature Publishing Group.Volume 10(6), 1383--1399.

Scholz, H., Revilla-Fernández, S., Al Dahouk, S., Hammerl, J., Zygmunt, M., Cloeckaert, A., Koylass, M., Whatmore, A., Blom, J., Vergnaud, G., others. (2016). Brucella vulpis sp. nov., isolated from mandibular lymph nodes of red foxes (Vulpes vulpes). Microbiology Society.Volume 66(5), 2090--2098.

Sun, Y., Wang, Z., Zhang, S., Li, X., Gao, H., Zhang, C., Abdel-Shafy, H., Mansour, M., Kuppusamy, S., Thavamani, P., others. (2016). Purification and properties of NADH-ferredoxinNAP reductase, a component of naphthalene dioxygenase from Pseudomonas sp. strain NCIB 9816.. orgz.Volume 16(4-6), 107--123.

Scholz, H., Mühldorfer, K., Shilton, C., Benedict, S., Whatmore, A., Blom, J., Eisenberg, T.. (2016). The change of a medically important genus: worldwide occurrence of genetically diverse novel Brucella species in exotic frogs. Public Library of Science San Francisco, CA USA.Volume 11(12), e0168872.

Ghatak, S., Blom, J., Das, S., Sanjukta, R., Puro, K., Mawlong, M., Shakuntala, I., Sen, A., Goesmann, A., Kumar, A., others. (2016). Pan-genome analysis of Aeromonas hydrophila, Aeromonas veronii and Aeromonas caviae indicates phylogenomic diversity and greater pathogenic potential for Aeromonas hydrophila. Springer International Publishing.Volume 109(7), 945--956.

Gonzalez-Perez, M., Murcia, M., Parra-Lopez, C., Blom, J., Tauch, A.. (2016). Deciphering the virulence factors of the opportunistic pathogen Mycobacterium colombiense. Elsevier.Volume 14, 98--105.

Papadimitriou, K., Baharidis, P., Georgoulis, A., Engel, M., Louka, M., Karamolegkou, G., Tsoka, A., Blom, J., Pot, B., Malecki, P., others. (2016). Analysis of the complete genome sequence of the archaeon Pyrococcus chitonophagus DSM 10152 (formerly Thermococcus chitonophagus). Springer Japan.Volume 20(3), 351--361.

Maus, I., Cibis, K., Bremges, A., Stolze, Y., Wibberg, D., Tomazetto, G., Blom, J., Sczyrba, A., König, H., Pühler, A., others. (2016). Genomic characterization of Defluviitoga tunisiensis L3, a key hydrolytic bacterium in a thermophilic biogas plant and its abundance as determined by metagenome fragment recruitment. Elsevier.Volume 232, 50--60.

Hofer, E., Hammerl, J., Zygmunt, M., Cloeckaert, A., Koylass, M., Whatmore, A., Blom, J., Revilla-Fernández, S., Witte, A., Scholz, H., others. (2016). Brucella vulpis sp. nov., a novel Brucella species isolated from mandibular lymph nodes of red foxes (Vulpes vulpes) in Austria. Volume 66(5), 2090--2098.

Blom, J., Kreis, J., Spänig, S., Juhre, T., Bertelli, C., Ernst, C., Goesmann, A.. (2016). EDGAR 2.0: an enhanced software platform for comparative gene content analyses. Oxford University Press.Volume 44(W1), W22--W28.

Azarbaijani, R., Yeganeh, L., Blom, J., Younesi, H., Fazeli, S., Tabatabaei, M., Salekdeh, G.. (2016). Comparative genome analysis of Oceanimonas sp. GK1, a halotolerant bacterium with considerable xenobiotics degradation potentials. BioMed Central.Volume 66(2), 703--716.

Fernández-Natal, I., Saez-Nieto, J., Rodríguez-Lázaro, D., Valdezate-Ramos, S., Parras-Padilla, T., Medina, M., Rodríguez-Pollán, R., Blom, J., Tauch, A., Soriano, F.. (2016). Phenotypic, molecular characterization, antimicrobial susceptibility and draft genome sequence of Corynebacterium argentoratense strains isolated from clinical samples. Elsevier.Volume 10, 116--121.

Hersemann, L., Wibberg, D., Blom, J., Widmer, F., Kölliker, R.. (2016). Draft genome sequence of the Xanthomonas bromi type strain LMG 947. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 4(5), e00961--16.

Kupferschmied, P., Chai, T., Flury, P., Blom, J., Smits, T., Maurhofer, M., Keel, C.. (2016). Specific surface glycan decorations enable antimicrobial peptide resistance in plant-beneficial pseudomonads with insect-pathogenic properties. Wiley Online Library.Volume 18(11), 4265--4281.

Glaeser, S., Imani, J., Alabid, I., Guo, H., Kumar, N., Kämpfer, P., Hardt, M., Blom, J., Goesmann, A., Rothballer, M., others. (2016). Non-pathogenic Rhizobium radiobacter F4 deploys plant beneficial activity independent of its host Piriformospora indica. Nature Publishing Group.Volume 10(4), 871--884.

Wibberg, D., Andersson, L., Tzelepis, G., Rupp, O., Blom, J., Jelonek, L., Pühler, A., Fogelqvist, J., Varrelmann, M., Schlüter, A., others. (2016). Genome analysis of the sugar beet pathogen Rhizoctonia solani AG2-2IIIB revealed high numbers in secreted proteins and cell wall degrading enzymes. BioMed Central.Volume 17(1), 1--12.

Sangal, V., Goodfellow, M., Jones, A., Schwalbe, E., Blom, J., Hoskisson, P., Sutcliffe, I.. (2016). Next-generation systematics: an innovative approach to resolve the structure of complex prokaryotic taxa. Nature Publishing Group.Volume 6(1), 1--12.

Blifernez-Klassen, O., Wibberg, D., Winkler, A., Blom, J., Goesmann, A., Kalinowski, J., Kruse, O.. (2016). Complete chloroplast and mitochondrial genome sequences of the hydrocarbon oil-producing green microalga Botryococcus braunii Race B (Showa). American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 4(3), e00524--16.

Rezzonico, F., Smits, T., Born, Y., Blom, J., Frey, J., Goesmann, A., Cleenwerck, I., De Vos, P., Bonaterra, A., Duffy, B., others. (2016). Erwinia gerundensis sp. nov., a cosmopolitan epiphyte originally isolated from pome fruit trees. Microbiology Society.Volume 66(3), 1583--1592.

Flury, P., Aellen, N., Ruffner, B., Péchy-Tarr, M., Fataar, S., Metla, Z., Dominguez-Ferreras, A., Bloemberg, G., Frey, J., Goesmann, A., others. (2016). Insect pathogenicity in plant-beneficial pseudomonads: phylogenetic distribution and comparative genomics. Nature Publishing Group.Volume 10(10), 2527--2542.

Jaenicke, S., Bunk, B., Wibberg, D., Spröer, C., Hersemann, L., Blom, J., Winkler, A., Schatschneider, S., Albaum, S., Kölliker, R., others. (2016). Complete genome sequence of the barley pathogen Xanthomonas translucens pv. translucens DSM 18974T (ATCC 19319T). American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 4(6), e01334--16.

2015

Zischka, M., Künne, C., Blom, J., Wobser, D., Sakınç, T., Schmidt-Hohagen, K., Dabrowski, P., Nitsche, A., Hübner, J., Hain, T., others. (2015). Comprehensive molecular, genomic and phenotypic analysis of a major clone of Enterococcus faecalis MLST ST40. BioMed Central.Volume 16(1), 1--20.

Doijad, S., Weigel, M., Barbuddhe, S., Blom, J., Goesmann, A., Hain, T., Chakraborty, T.. (2015). Phylogenomic grouping of Listeria monocytogenes. NRC Research Press.Volume 61(9), 637--646.

Kamanda Ngugi, D., Blom, J., Alam, I., Rashid, M., Ba-Alawi, W., Zhang, G., Hikmawan, T., Guan, Y., Antunes, A., Siam, R., others. (2015). Comparative genomics reveals adaptations of a halotolerant thaumarchaeon in the interfaces of brine pools in the Red Sea. Nature Publishing Group.Volume 9(2), 396--411.

De Maayer, P., Chan, W., Martin, D., Blom, J., Venter, S., Duffy, B., Cowan, D., Smits, T., Coutinho, T.. (2015). Integrative conjugative elements of the ICE Pan family play a potential role in Pantoea ananatis ecological diversification and antibiosis. Frontiers Media SA.Volume 6, 576.

Maus, I., Wibberg, D., Stantscheff, R., Stolze, Y., Blom, J., Eikmeyer, F., Fracowiak, J., König, H., Pühler, A., Schlüter, A.. (2015). Insights into the annotated genome sequence of Methanoculleus bourgensis MS2T, related to dominant methanogens in biogas-producing plants. Elsevier.Volume 201, 43--53.

Smits, T., Pothier, J., Ruinelli, M., Blom, J., Frasson, D., Koechli, C., Fabbri, C., Brandl, H., Duffy, B., Sievers, M.. (2015). Complete genome sequence of the cyanogenic phosphate-solubilizing Pseudomonas sp. strain CCOS 191, a close relative of Pseudomonas mosselii. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 3(3), e00616--15.

Heggelund, L., Gaustad, P., Håvelsrud, O., Blom, J., Borgen, L., Sundset, A., Sørum, H., Frøland, S.. (2015). Corynebacterium pseudotuberculosis pneumonia in a veterinary student infected during laboratory work. Volume 2(2), ofv053.

Wibberg, D., Rupp, O., Jelonek, L., Kröber, M., Verwaaijen, B., Blom, J., Winkler, A., Goesmann, A., Grosch, R., Pühler, A., others. (2015). Improved genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB 7/3/14 as established by deep mate-pair sequencing on the MiSeq (Illumina) system. Elsevier.Volume 203, 19--21.

Wibberg, D., Rupp, O., Blom, J., Jelonek, L., Kröber, M., Verwaaijen, B., Goesmann, A., Albaum, S., Grosch, R., Pühler, A., others. (2015). Development of a Rhizoctonia solani AG1-IB specific gene model enables comparative genome analyses between phytopathogenic R. solani AG1-IA, AG1-IB, AG3 and AG8 isolates. Public Library of Science San Francisco, CA USA.Volume 10(12), e0144769.

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2015). Leptotrichiaceae. John Wiley \& Sons, Ltd.

Li, X., Blom, J., Zeng, Y.. (2015). Whole genome sequences of a free-living Pseudomonas sp. strain ML96 isolated from a freshwater Maar Lake. Elsevier.Volume 24, 219--221.

Arnold, M., Wibberg, D., Blom, J., Schatschneider, S., Winkler, A., Kutter, Y., Rückert, C., Albersmeier, A., Albaum, S., Goesmann, A., others. (2015). Draft genome sequence of Pseudomonas aeruginosa strain WS136, a highly cytotoxic ExoS-positive wound isolate recovered from pyoderma gangrenosum. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 3(4), e00680--15.

Burgsdorf, I., Slaby, B., Handley, K., Haber, M., Blom, J., Marshall, C., Gilbert, J., Hentschel, U., Steindler, L.. (2015). Lifestyle evolution in cyanobacterial symbionts of sponges. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 6(3), e00391--15.

Guimarães, L., Soares, S., Trost, E., Blom, J., Ramos, R., Silva, A., Barh, D., Azevedo, V.. (2015). Genome informatics and vaccine targets in Corynebacterium urealyticum using two whole genomes, comparative genomics, and reverse vaccinology. BioMed Central.Volume 16(5), 1--9.

Kweon, O., Kim, S., Blom, J., Kim, S., Kim, B., Baek, D., Park, S., Sutherland, J., Cerniglia, C.. (2015). Comparative functional pan-genome analyses to build connections between genomic dynamics and phenotypic evolution in polycyclic aromatic hydrocarbon metabolism in the genus Mycobacterium. BioMed Central.Volume 15(1), 1--23.

Morley, L., McNally, A., Paszkiewicz, K., Corander, J., Méric, G., Sheppard, S., Blom, J., Manning, G.. (2015). Gene loss and lineage-specific restriction-modification systems associated with niche differentiation in the Campylobacter jejuni sequence type 403 clonal complex. American Society for Microbiology.Volume 81(11), 3641--3647.

Vorhölter, F., Tielen, P., Wibberg, D., Narten, M., Schobert, M., Tüpker, R., Blom, J., Schatschneider, S., Winkler, A., Albersmeier, A., others. (2015). Genome sequence of the urethral catheter isolate Pseudomonas aeruginosa MH19. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 3(2), e00115--15.

Sangal, V., Blom, J., Sutcliffe, I., von Hunolstein, C., Burkovski, A., Hoskisson, P.. (2015). Adherence and invasive properties of Corynebacterium diphtheriae strains correlates with the predicted membrane-associated and secreted proteome. BioMed Central.Volume 16(1), 1--15.

Huja, S., Oren, Y., Trost, E., Brzuszkiewicz, E., Biran, D., Blom, J., Goesmann, A., Gottschalk, G., Hacker, J., Ron, E., others. (2015). Genomic avenue to avian colisepticemia. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 6(1), e01681--14.

Zschüttig, A., Auerbach, C., Meltke, S., Eichhorn, C., Brandt, M., Blom, J., Goesmann, A., Jarek, M., Scharfe, M., Zimmermann, K., others. (2015). Complete sequence of probiotic symbioflor 2 Escherichia coli strain G3/10 and draft sequences of symbioflor 2 E. coli strains G1/2, G4/9, G5, G6/7, and G8. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 3(2), e01330--14.

Wibberg, D., Tielen, P., Narten, M., Schobert, M., Blom, J., Schatschneider, S., Meyer, A., Neubauer, R., Albersmeier, A., Albaum, S., others. (2015). Genome sequence of the urethral isolate Pseudomonas aeruginosa RN21. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 3(4), e00788--15.

Humphreys, C., McLean, S., Schatschneider, S., Millat, T., Henstra, A., Annan, F., Breitkopf, R., Pander, B., Piatek, P., Rowe, P., others. (2015). Whole genome sequence and manual annotation of Clostridium autoethanogenum, an industrially relevant bacterium. BioMed Central.Volume 16(1), 1--10.

Smits, T., Rezzonico, F., Blom, J., Goesmann, A., Abelli, A., Kron Morelli, R., Vanneste, J., Duffy, B.. (2015). Draft genome sequence of the commercial biocontrol strain Pantoea agglomerans P10c. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 3(6), e01448--15.

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2015). Sebaldella. John Wiley \& Sons, Ltd.

Eisenberg, T., Glaeser, S., Blom, J., Rau, J., Kämpfer, P.. (2015). Streptobacillus. John Wiley \& Sons, Ltd Chichester, UK.

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2015). Leptotrichia. John Wiley \& Sons, Ltd Chichester, UK.

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2015). Caviibacter. John Wiley \& Sons, Ltd Chichester, UK.

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2015). Oceanivirga. John Wiley \& Sons, Ltd Chichester, UK.

Blom, J., Glaeser, S., Juhre, T., Kreis, J., Hanel, P., Schrader, J., Kämpfer, P., Goesmann, A.. (2015). EDGAR: a versatile tool for phylogenomics. John Wiley \& Sons, Ltd Chichester, UK.

Eisenberg, T., Glaeser, S., Blom, J., Kämpfer, P.. (2015). Sneathia. John Wiley \& Sons, Ltd Chichester, UK.

2014

Ismail, E., Blom, J., Bultreys, A., Ivanović, M., Obradović, A., van Doorn, J., Bergsma-Vlami, M., Maes, M., Willems, A., Duffy, B., others. (2014). A novel plasmid pEA68 of Erwinia amylovora and the description of a new family of plasmids. Springer Berlin Heidelberg.Volume 196(12), 891--899.

Sangal, V., Burkovski, A., Hunt, A., Edwards, B., Blom, J., Hoskisson, P.. (2014). A lack of genetic basis for biovar differentiation in clinically important Corynebacterium diphtheriae from whole genome sequencing. Elsevier.Volume 21, 54--57.

Smits, T., Guerrero-Prieto, V., Hernández-Escarcega, G., Blom, J., Goesmann, A., Rezzonico, F., Duffy, B., Stockwell, V.. (2014). Whole-genome sequencing of Erwinia amylovora strains from Mexico detects SNPs in rpsL conferring streptomycin resistance and in the avrRpt2 effector altering host interactions. American Society for Microbiology.Volume 2(1).

Anastasiou, R., Mavrogonatou, E., Blom, J., Papandreou, N., Hamodrakas, S., Ferreira, S., Renault, P., Supply, P., Pot, B., Tsakalidou, E.. (2014). Comparative genomics of the dairy isolate Streptococcus macedonicus ACA-DC 198 against related members of the Streptococcus bovis/Streptococcus equinus complex.

Tielen, P., Wibberg, D., Blom, J., Rosin, N., Meyer, A., Bunk, B., Schobert, M., Tüpker, R., Schatschneider, S., Rückert, C., others. (2014). Genome sequence of the small-colony variant Pseudomonas aeruginosa MH27, isolated from a chronic urethral catheter infection. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 2(1), e01174--13.

Vorhölter, F., Arnold, M., Wibberg, D., Blom, J., Winkler, A., Viehoever, P., Albersmeier, A., Goesmann, A., Zange, S., Heesemann, J., others. (2014). Draft genome sequence of Pseudomonas aeruginosa strain WS394, a multidrug-resistant and highly cytotoxic wound isolate from chronic ulcus cruris. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 2(6), e01325--14.

Papadimitriou, K., Anastasiou, R., Mavrogonatou, E., Blom, J., Papandreou, N., Hamodrakas, S., Ferreira, S., Renault, P., Supply, P., Pot, B., others. (2014). Comparative genomics of the dairy isolate Streptococcus macedonicus ACA-DC 198 against related members of the Streptococcus bovis/Streptococcus equinus complex. BioMed Central.Volume 15(1), 1--21.

Guan, Y., Ngugi, D., Blom, J., Ali, S., Ferry, J., Stingl, U.. (2014). Draft genome sequence of an obligately methylotrophic methanogen, Methanococcoides methylutens, isolated from marine sediment. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 2(6), e01184--14.

Wibberg, D., Tielen, P., Blom, J., Rosin, N., Schobert, M., Tüpker, R., Schatschneider, S., Spilker, D., Albersmeier, A., Goesmann, A., others. (2014). Genome sequence of the acute urethral catheter isolate Pseudomonas aeruginosa MH38. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 2(2), e00161--14.

Liu, Y., Chen, X., Blom, J., Yi, Z., Wen, J., Zeng, R.. (2014). Draft genome of formaldehyde-degrading strain, Pseudomonas monteilii IOFA19. Elsevier.Volume 15, 1--2.

2013

Smits, T., Rezzonico, F., López, M., Blom, J., Goesmann, A., Frey, J., Duffy, B.. (2013). Phylogenetic position and virulence apparatus of the pear flower necrosis pathogen Erwinia piriflorinigrans CFBP 5888T as assessed by comparative genomics. Elsevier.Volume 36(7), 449--456.

Ruijter, J., Pfaffl, M., Zhao, S., Spiess, A., Boggy, G., Blom, J., Rutledge, R., Sisti, D., Lievens, A., De Preter, K., others. (2013). Evaluation of qPCR curve analysis methods for reliable biomarker discovery: bias, resolution, precision, and implications. Elsevier.Volume 59(1), 32--46.

Wichmann, F., Vorhölter, F., Hersemann, L., Widmer, F., Blom, J., Niehaus, K., Reinhard, S., Conradin, C., Kölliker, R.. (2013). The noncanonical type III secretion system of X anthomonas translucens pv. graminis is essential for forage grass infection. Wiley Online Library.Volume 14(6), 576--588.

Soares, S., Silva, A., Trost, E., Blom, J., Ramos, R., Carneiro, A., Ali, A., Santos, A., Pinto, A., Diniz, C., others. (2013). The pan-genome of the animal pathogen Corynebacterium pseudotuberculosis reveals differences in genome plasticity between the biovar ovis and equi strains. Public Library of Science.Volume 8(1), e53818.

Barbé, S., Llop, P., Blom, J., Cabrefiga, J., Goesmann, A., Duffy, B., Montesinos, E., Smits, T., López, M.. (2013). Complete sequence of E rwinia piriflorinigrans plasmids p EPIR 37 and p EPIR 5 and role of p EPIR 37 in pathogen virulence. Volume 62(4), 786--798.

Pereira, U., Soares, S., Blom, J., Leal, C., Ramos, R., Guimaraes, L., Oliveira, L., Almeida, S., Hassan, S., Santos, A., others. (2013). In silico prediction of conserved vaccine targets in Streptococcus agalactiae strains isolated from fish, cattle, and human samples. Volume 12(3), 2902--2912.

Dam, B., Dam, S., Blom, J., Liesack, W.. (2013). Genome analysis coupled with physiological studies reveals a diverse nitrogen metabolism in Methylocystis sp. strain SC2. Public Library of Science.Volume 8(10), e74767.

Mann, R., Smits, T., Bühlmann, A., Blom, J., Goesmann, A., Frey, J., Plummer, K., Beer, S., Luck, J., Duffy, B., others. (2013). Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core. Public Library of Science.Volume 8(2), e55644.

Wu, H., Qiao, J., Blom, J., Rueckert, C., Reva, O., Gao, X., Borriss, R.. (2013). The rhizobacterium Bacillus amyloliquefaciens subsp. plantarum NAU-B3 contains a large inversion within the central portion of the genome. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 1(6), e00941--13.

Vassen, V., Eichhorn, C., Goesmann, A., Blom, J., Strauch, E., Gunzer, F.. (2013). Characterization and curing of plasmid pVN0028 from the Vibrio parahaemolyticus patient isolate VN-0028. Volume 303, 110--110.

Guimarães, L., Soares, S., Albersmeier, A., Blom, J., Jaenicke, S., Azevedo, V., Soriano, F., Tauch, A., Trost, E.. (2013). Complete genome sequence of Corynebacterium urealyticum strain DSM 7111, isolated from a 9-year-old patient with alkaline-encrusted cystitis. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 1(3), e00264--13.

Koeck, D., Wibberg, D., Koellmeier, T., Blom, J., Jaenicke, S., Winkler, A., Albersmeier, A., Zverlov, V., Pühler, A., Schwarz, W., others. (2013). Draft genome sequence of the cellulolytic Clostridium thermocellum wild-type strain BC1 playing a role in cellulosic biomass degradation. Elsevier.Volume 168(1), 62--63.

Eichhorn, C., Claudia, Z., Auerbach, C., Goesmann, A., Blom, J., Alter, T., Huehn, S., Strauch, E., Gunzer, F.. (2013). Genome sequencing, annotation and gap closure of four V. parahaemolyticus strains isolated in Germany. Volume 303, 112--112.

He, P., Hao, K., Blom, J., Rückert, C., Vater, J., Mao, Z., Wu, Y., Hou, M., He, P., He, Y., others. (2013). Genome sequence of the plant growth promoting strain Bacillus amyloliquefaciens subsp. plantarum B9601-Y2 and expression of mersacidin and other secondary metabolites. Elsevier.Volume 164(2), 281--291.

Niu, B., Vater, J., Rueckert, C., Blom, J., Lehmann, M., Ru, J., Chen, X., Wang, Q., Borriss, R.. (2013). Polymyxin P is the active principle in suppressing phytopathogenic Erwinia spp. by the biocontrol rhizobacterium Paenibacillus polymyxa M-1. BioMed Central.Volume 13(1), 1--13.

Roetzer, A., Diel, R., Kohl, T., Rückert, C., Nübel, U., Blom, J., Wirth, T., Jaenicke, S., Schuback, S., Rüsch-Gerdes, S., others. (2013). Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study. Public Library of Science San Francisco, USA.Volume 10(2), e1001387.

Wibberg, D., Blom, J., Rückert, C., Winkler, A., Albersmeier, A., Pühler, A., Schlüter, A., Scharf, B.. (2013). Draft genome sequence of Sinorhizobium meliloti RU11/001, a model organism for flagellum structure, motility and chemotaxis. Elsevier.Volume 168(4), 731--733.

Luque-Almagro, V., Acera, F., Igeño, M., Wibberg, D., Roldán, M., Sáez, L., Hennig, M., Quesada, A., Huertas, M., Blom, J., others. (2013). Draft whole genome sequence of the cyanide-degrading bacterium P seudomonas pseudoalcaligenes CECT 5344. Wiley Online Library.Volume 15(1), 253--270.

2012

Blom, J., Rueckert, C., Niu, B., Wang, Q., Borriss, R.. (2012). The complete genome of Bacillus amyloliquefaciens subsp. plantarum CAU B946 contains a gene cluster for nonribosomal synthesis of iturin A. American Society for Microbiology 1752 N St., NW, Washington, DC.

Jankowitsch, F., Schwarz, J., Rückert, C., Gust, B., Szczepanowski, R., Blom, J., Pelzer, S., Kalinowski, J., Mack, M.. (2012). Genome sequence of the bacterium Streptomyces davawensis JCM 4913 and heterologous production of the unique antibiotic roseoflavin. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 194(24), 6818--6827.

Strobel, T., Al-Dilaimi, A., Blom, J., Gessner, A., Kalinowski, J., Luzhetska, M., Pühler, A., Szczepanowski, R., Bechthold, A., Rückert, C.. (2012). Complete genome sequence of Saccharothrix espanaensis DSM 44229T and comparison to the other completely sequenced Pseudonocardiaceae. BioMed Central.Volume 13(1), 1--13.

Hao, K., He, P., Blom, J., Rueckert, C., Mao, Z., Wu, Y., He, Y., Borriss, R.. (2012). The genome of plant growth-promoting Bacillus amyloliquefaciens subsp. plantarum strain YAU B9601-Y2 contains a gene cluster for mersacidin synthesis. American Society for Microbiology 1752 N St., NW, Washington, DC.

Zischka, M., Kuenne, C., Blom, J., Dabrowski, P., Linke, B., Hain, T., Nitsche, A., Goesmann, A., Larsen, J., Jensen, L., others. (2012). Complete genome sequence of the porcine isolate Enterococcus faecalis D32. American Society for Microbiology 1752 N St., NW, Washington, DC.

Schneider, J., Andrea, H., Blom, J., Jaenicke, S., Rückert, C., Schorsch, C., Szczepanowski, R., Farwick, M., Goesmann, A., Pühler, A., others. (2012). Draft genome sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. American Society for Microbiology 1752 N St., NW, Washington, DC.

Maus, I., Wibberg, D., Stantscheff, R., Eikmeyer, F., Seffner, A., Boelter, J., Szczepanowski, R., Blom, J., Jaenicke, S., König, H., others. (2012). Complete genome sequence of the hydrogenotrophic, methanogenic archaeon Methanoculleus bourgensis strain MS2T, isolated from a sewage sludge digester. American Society for Microbiology 1752 N St., NW, Washington, DC.

Trost, E., Blom, J., de Castro Soares, S., Huang, I., Al-Dilaimi, A., Schröder, J., Jaenicke, S., Dorella, F., Rocha, F., Miyoshi, A., others. (2012). Pangenomic study of Corynebacterium diphtheriae that provides insights into the genomic diversity of pathogenic isolates from cases of classical diphtheria, endocarditis, and pneumonia. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 194(12), 3199--3215.

Brankatschk, K., Blom, J., Goesmann, A., Smits, T., Duffy, B.. (2012). Comparative genomic analysis of Salmonella enterica subsp. enterica serovar Weltevreden foodborne strains with other serovars. Elsevier.Volume 155(3), 247--256.

Schröder, J., Maus, I., Meyer, K., Wördemann, S., Blom, J., Jaenicke, S., Schneider, J., Trost, E., Tauch, A.. (2012). Complete genome sequence, lifestyle, and multi-drug resistance of the human pathogen Corynebacterium resistens DSM 45100 isolated from blood samples of a leukemia patient. BioMed Central.Volume 13(1), 1--19.

Mann, R., Blom, J., Bühlmann, A., Plummer, K., Beer, S., Luck, J., Goesmann, A., Frey, J., Rodoni, B., Duffy, B., others. (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. Elsevier.Volume 504(1), 6--12.

Schork, S., Schlüter, A., Blom, J., Schneiker-Bekel, S., Pühler, A., Goesmann, A., Frosch, M., Schoen, C.. (2012). Genome sequence of a Neisseria meningitidis capsule null locus strain from the clonal complex of sequence type 198. American Society for Microbiology 1752 N St., NW, Washington, DC.

Filippini, M., Qi, W., Blom, J., Goesmann, A., Smits, T., Bagheri, H.. (2012). Genome sequence of Fibrella aestuarina BUZ 2T, a filamentous marine bacterium. American Society for Microbiology 1752 N St., NW, Washington, DC.

Zschüttig, A., Zimmermann, K., Blom, J., Goesmann, A., Pöhlmann, C., Gunzer, F.. (2012). Identification and characterization of microcin S, a new antibacterial peptide produced by probiotic Escherichia coli G3/10. Public Library of Science.Volume 7(3), e33351.

Heinl, S., Wibberg, D., Eikmeyer, F., Szczepanowski, R., Blom, J., Linke, B., Goesmann, A., Grabherr, R., Schwab, H., Pühler, A., others. (2012). Insights into the completely annotated genome of Lactobacillus buchneri CD034, a strain isolated from stable grass silage. Elsevier.Volume 161(2), 153--166.

De Maayer, P., Chan, W., Rezzonico, F., Bühlmann, A., Venter, S., Blom, J., Goesmann, A., Frey, J., Smits, T., Duffy, B., others. (2012). Complete genome sequence of clinical isolate Pantoea ananatis LMG 5342. American Society for Microbiology 1752 N St., NW, Washington, DC.

Parreira, V., Costa, M., Eikmeyer, F., Blom, J., Prescott, J.. (2012). Sequence of two plasmids from Clostridium perfringens chicken necrotic enteritis isolates and comparison with C. perfringens conjugative plasmids. Public Library of Science.Volume 7(11), e49753.

De Maayer, P., Chan, W., Blom, J., Venter, S., Duffy, B., Smits, T., Coutinho, T.. (2012). The large universal Pantoea plasmid LPP-1 plays a major role in biological and ecological diversification. BioMed Central.Volume 13(1), 1--12.

2011

Zschuettig, A., Eichhorn, C., Meltke, S., Zimmermann, K., Wassenaar, T., Blom, J., Goesmann, A., Jarek, M., Scharfe, M., Gunzer, F.. (2011). Genome analysis of probiotic Symbioflor 2 Escherichia coli DSM17252. Volume 301, 103--103.

Brankatschk, K., Blom, J., Goesmann, A., Smits, T., Duffy, B.. (2011). Genome of a European fresh-vegetable food safety outbreak strain of Salmonella enterica subsp. enterica serovar Weltevreden. American Society for Microbiology 1752 N St., NW, Washington, DC.

Smits, T., Rezzonico, F., Kamber, T., Blom, J., Goesmann, A., Ishimaru, C., Frey, J., Stockwell, V., Duffy, B.. (2011). Metabolic versatility and antibacterial metabolite biosynthesis are distinguishing genomic features of the fire blight antagonist Pantoea vagans C9-1. Public Library of Science.Volume 6(7), e22247.

Schoen, C., Weber-Lehmann, J., Blom, J., Joseph, B., Goesmann, A., Strittmatter, A., Frosch, M.. (2011). Whole-genome sequence of the transformable Neisseria meningitidis serogroup A strain WUE2594. American Society for Microbiology 1752 N St., NW, Washington, DC.

Borriss, R., Chen, X., Rueckert, C., Blom, J., Becker, A., Baumgarth, B., Fan, B., Pukall, R., Schumann, P., Spröer, C., others. (2011). 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. Microbiology Society.Volume 61(8), 1786--1801.

Hackl, M., Jakobi, T., Blom, J., Doppmeier, D., Brinkrolf, K., Szczepanowski, R., Bernhart, S., Zu Siederdissen, C., Bort, J., Wieser, M., others. (2011). Next-generation sequencing of the Chinese hamster ovary microRNA transcriptome: Identification, annotation and profiling of microRNAs as targets for cellular engineering. Elsevier.Volume 153(1-2), 62--75.

Borriss, R., Rueckert, C., Blom, J., Bezuidt, O., Reva, O., Klenk, H.. (2011). Whole genome sequence comparisons in taxonomy. Academic Press.Volume 38, 409--436.

Pothier, J., Vorhölter, F., Blom, J., Goesmann, A., Pühler, A., Smits, T., Duffy, B.. (2011). The ubiquitous plasmid pXap41 in the invasive phytopathogen Xanthomonas arboricola pv. pruni: complete sequence and comparative genomic analysis. Blackwell Publishing Ltd Oxford, UK.Volume 323(1), 52--60.

Llop, P., Cabrefiga, J., Smits, T., Dreo, T., Barbe, S., Pulawska, J., Bultreys, A., Blom, J., Duffy, B., Montesinos, E., others. (2011). Erwinia amylovora novel plasmid pEI70: complete sequence, biogeography, and role in aggressiveness in the fire blight phytopathogen. Public Library of Science.Volume 6(12), e28651.

Szczepanowski, R., Eikmeyer, F., Harfmann, J., Blom, J., Rogers, L., Top, E., Schlüter, A.. (2011). Sequencing and comparative analysis of IncP-1$\alpha$ antibiotic resistance plasmids reveal a highly conserved backbone and differences within accessory regions. Elsevier.Volume 155(1), 95--103.

Imperi, F., Antunes, L., Blom, J., Villa, L., Iacono, M., Visca, P., Carattoli, A.. (2011). The genomics of Acinetobacter baumannii: insights into genome plasticity, antimicrobial resistance and pathogenicity. Wiley Subscription Services, Inc., a Wiley company New York.Volume 63(12), 1068--1074.

Schneider, J., Blom, J., Jaenicke, S., Linke, B., Brinkrolf, K., Neuweger, H., Tauch, A., Goesmann, A.. (2011). RAPYD—rapid annotation platform for yeast data. Elsevier.Volume 155(1), 118--126.

Wibberg, D., Blom, J., Jaenicke, S., Kollin, F., Rupp, O., Scharf, B., Schneiker-Bekel, S., Sczcepanowski, R., Goesmann, A., Setubal, J., others. (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. Elsevier.Volume 155(1), 50--62.

Pothier, J., Smits, T., Blom, J., Vorhoelter, F., Goesmann, A., Pühler, A., Duffy, B.. (2011). Complete genome sequence of the stone fruit pathogen Xanthomonas arboricola pv. pruni. Volume 101(6), S144--S145.

Joseph, B., Schwarz, R., Linke, B., Blom, J., Becker, A., Claus, H., Goesmann, A., Frosch, M., Müller, T., Vogel, U., others. (2011). Virulence evolution of the human pathogen Neisseria meningitidis by recombination in the core and accessory genome. Public Library of Science.Volume 6(4), e18441.

Kant, R., Blom, J., Palva, A., Siezen, R., de Vos, W.. (2011). Comparative genomics of Lactobacillus. Blackwell Publishing Ltd Oxford, UK.Volume 4(3), 323--332.

Luetticken, R., Bruellhoff, K., van der Linden, M., Peltroche-Llacsahunga, H., Blom, J., Weber-Lehmann, J., Ferretti, J., McShan, W.. (2011). Complete genome sequence of a streptococcus dysgalactiae subsp. equisimilis possessing Lancefield's Group A antigen and its comparative genomics. Volume 301, 67--67.

Niu, B., Rueckert, C., Blom, J., Wang, Q., Borriss, R.. (2011). The genome of the plant growth-promoting rhizobacterium Paenibacillus polymyxa M-1 contains nine sites dedicated to nonribosomal synthesis of lipopeptides and polyketides. American Society for Microbiology 1752 N St., NW, Washington, DC.

Krol, E., Blom, J., Winnebald, J., Berhörster, A., Barnett, M., Goesmann, A., Baumbach, J., Becker, A.. (2011). RhizoRegNet—a database of rhizobial transcription factors and regulatory networks. Elsevier.Volume 155(1), 127--134.

Powney, R., Smits, T., Sawbridge, T., Frey, B., Blom, J., Frey, J., Plummer, K., Beer, S., Luck, J., Duffy, B., others. (2011). Genome sequence of an Erwinia amylovora strain with pathogenicity restricted to Rubus plants. American Society for Microbiology 1752 N St., NW, Washington, DC.Volume 193(3), 785--786.

Blom, J., Jakobi, T., Doppmeier, D., Jaenicke, S., Kalinowski, J., Stoye, J., Goesmann, A.. (2011). Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming. Oxford University Press.Volume 27(10), 1351--1358.

Hinse, D., Vollmer, T., Rückert, C., Blom, J., Kalinowski, J., Knabbe, C., Dreier, J.. (2011). Complete genome and comparative analysis of Streptococcus gallolyticus subsp. gallolyticus, an emerging pathogen of infective endocarditis. BioMed Central.Volume 12(1), 1--13.

Borriss, R., Chen, X., Rueckert, C., Blom, J., Becker, A., Baumgarth, B., Fan, B., Pukall, R., Schumann, P., Sproer, C., others. (2011). New taxa-firmicutes and related organisms. Volume 61, 000--000.

Schneiker-Bekel, S., Wibberg, D., Bekel, T., Blom, J., Linke, B., Neuweger, H., Stiens, M., Vorhölter, F., Weidner, S., Goesmann, A., others. (2011). The complete genome sequence of the dominant Sinorhizobium meliloti field isolate SM11 extends the S. meliloti pan-genome. Elsevier.Volume 155(1), 20--33.

Margaret, I., Becker, A., Blom, J., Bonilla, I., Goesmann, A., Göttfert, M., Lloret, J., Mittard-Runte, V., Rückert, C., Ruiz-Sainz, J., others. (2011). Symbiotic properties and first analyses of the genomic sequence of the fast growing model strain Sinorhizobium fredii HH103 nodulating soybean. Elsevier.Volume 155(1), 11--19.

Rückert, C., Blom, J., Chen, X., Reva, O., Borriss, R.. (2011). Genome sequence of B. amyloliquefaciens type strain DSM7T reveals differences to plant-associated B. amyloliquefaciens FZB42. Elsevier.Volume 155(1), 78--85.

2010

Schneider, J., Vorhölter, F., Trost, E., Blom, J., Musa, Y., Neuweger, H., Niehaus, K., Schatschneider, S., Tauch, A., Goesmann, A., others. (2010). CARMEN-Comparative analysis and in silico reconstruction of organism-specific metabolic networks. Volume 9(3), 1660--1672.

Mittard-Runte, V., Bekel, T., Blom, J., Dondrup, M., Henckel, K., Jaenicke, S., Krause, L., Linke, B., Neuweger, H., Schneiker-Bekel, S., others. (2010). Practical Guide: Genomic Techniques and How to Apply Them to Marine Questions. Springer.

Trost, E., Götker, S., Schneider, J., Schneiker-Bekel, S., Szczepanowski, R., Tilker, A., Viehoever, P., Arnold, W., Bekel, T., Blom, J., others. (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. BioMed Central.Volume 11(1), 1--16.

Smits, T., Rezzonico, F., Kamber, T., Blom, J., Goesmann, A., Frey, J., Duffy, B.. (2010). Complete genome sequence of the fire blight pathogen Erwinia amylovora CFBP 1430 and comparison to other Erwinia spp.. The American Phytopathological Society.Volume 23(4), 384--393.

Joseph, B., Schneiker-Bekel, S., Schramm-Glück, A., Blom, J., Claus, H., Linke, B., Schwarz, R., Becker, A., Goesmann, A., Frosch, M., others. (2010). Comparative genome biology of a serogroup B carriage and disease strain supports a polygenic nature of meningococcal virulence. American Society for Microbiology.Volume 192(20), 5363--5377.

2009

Blom, J., Albaum, S., Doppmeier, D., Pühler, A., Vorhölter, F., Zakrzewski, M., Goesmann, A.. (2009). EDGAR: a software framework for the comparative analysis of prokaryotic genomes. BioMed Central.Volume 10(1), 1--14.

2008

Schoen, C., Blom, J., Claus, H., Schramm-Glück, A., Brandt, P., Müller, T., Goesmann, A., Joseph, B., Konietzny, S., Kurzai, O., others. (2008). Whole-genome comparison of disease and carriage strains provides insights into virulence evolution in Neisseria meningitidis. National Acad Sciences.Volume 105(9), 3473--3478.

Tauch, A., Schneider, J., Szczepanowski, R., Tilker, A., Viehoever, P., Gartemann, K., Arnold, W., Blom, J., Brinkrolf, K., Brune, I., others. (2008). Ultrafast pyrosequencing of Corynebacterium kroppenstedtii DSM44385 revealed insights into the physiology of a lipophilic corynebacterium that lacks mycolic acids. Elsevier.Volume 136(1-2), 22--30.

Schoen, C., Blom, J., Schramm-Glueck, A., Linke, B., Schneiker-Bekel, S., Joseph, B., Goesmann, A., Schwarz, R., Claus, H., Vogel, U., others. (2008). In search for the genetic basis of virulence in Neisseria meningitidis. Volume 298.