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Pantocin A, a peptide-derived antibiotic involved in biological control by plant-associated Pantoea species.

Smits THM, Duffy B, Blom J, Ishimaru CA, Stockwell VO.

Arch Microbiol. 2019 Mar 13. doi: 10.1007/s00203-019-01647-7. [Epub ahead of print] Review.


Comparative genomics and pathogenicity potential of members of the Pseudomonas syringae species complex on Prunus spp.

Ruinelli M, Blom J, Smits THM, Pothier JF.

BMC Genomics. 2019 Mar 5;20(1):172. doi: 10.1186/s12864-019-5555-y.


High-Quality Draft Genome Sequence of Pseudomonas reidholzensis Strain CCOS 865T.

Rutz D, Frasson D, Sievers M, Blom J, Rezzonico F, Pothier JF, Smits THM.

Microbiol Resour Announc. 2019 Jan 17;8(3). pii: e01502-18. doi: 10.1128/MRA.01502-18. eCollection 2019 Jan.


High-Quality Draft Genome Sequence of Pseudomonas wadenswilerensis CCOS 864T.

Rutz D, Frasson D, Sievers M, Blom J, Rezzonico F, Pothier JF, Smits THM.

Microbiol Resour Announc. 2018 Oct 25;7(16). pii: e01059-18. doi: 10.1128/MRA.01059-18. eCollection 2018 Oct.


Molecular investigation of isolates from a multistate polymicrobial outbreak associated with contaminated total parenteral nutrition in Brazil.

Pillonetto M, Arend L, Gomes SMT, Oliveira MAA, Timm LN, Martins AF, Barth AL, Mazzetti A, Hersemann L, Smits THM, Mira MT, Rezzonico F.

BMC Infect Dis. 2018 Aug 13;18(1):397. doi: 10.1186/s12879-018-3287-2.


Genome-based population structure analysis of the strawberry plant pathogen Xanthomonas fragariae reveals two distinct groups that evolved independently before its species description.

Gétaz M, Krijger M, Rezzonico F, Smits THM, van der Wolf JM, Pothier JF.

Microb Genom. 2018 Jul;4(7). doi: 10.1099/mgen.0.000189. Epub 2018 Jun 6.


Conservation tillage and organic farming induce minor variations in Pseudomonas abundance, their antimicrobial function and soil disease resistance.

Dennert F, Imperiali N, Staub C, Schneider J, Laessle T, Zhang T, Wittwer R, van der Heijden MGA, Smits THM, Schlaeppi K, Keel C, Maurhofer M.

FEMS Microbiol Ecol. 2018 Aug 1;94(8). doi: 10.1093/femsec/fiy075.


Emended description of the genus Phytobacter, its type species Phytobacter diazotrophicus (Zhang 2008) and description of Phytobacter ursingii sp. nov.

Pillonetto M, Arend LN, Faoro H, D'Espindula HRS, Blom J, Smits THM, Mira MT, Rezzonico F.

Int J Syst Evol Microbiol. 2018 Jan;68(1):176-184. doi: 10.1099/ijsem.0.002477. Epub 2017 Nov 10.


Phylogenomic, Pan-genomic, Pathogenomic and Evolutionary Genomic Insights into the Agronomically Relevant Enterobacteria Pantoea ananatis and Pantoea stewartii.

De Maayer P, Aliyu H, Vikram S, Blom J, Duffy B, Cowan DA, Smits THM, Venter SN, Coutinho TA.

Front Microbiol. 2017 Sep 14;8:1755. doi: 10.3389/fmicb.2017.01755. eCollection 2017.


Pseudomonas wadenswilerensis sp. nov. and Pseudomonas reidholzensis sp. nov., two novel species within the Pseudomonas putida group isolated from forest soil.

Frasson D, Opoku M, Picozzi T, Torossi T, Balada S, Smits THM, Hilber U.

Int J Syst Evol Microbiol. 2017 Aug;67(8):2853-2861. doi: 10.1099/ijsem.0.002035. Epub 2017 Aug 18.


Role of the type VI secretion systems during disease interactions of Erwinia amylovora with its plant host.

Kamber T, Pothier JF, Pelludat C, Rezzonico F, Duffy B, Smits THM.

BMC Genomics. 2017 Aug 17;18(1):628. doi: 10.1186/s12864-017-4010-1.


Phylogenomic resolution of the bacterial genus Pantoea and its relationship with Erwinia and Tatumella.

Palmer M, Steenkamp ET, Coetzee MPA, Chan WY, van Zyl E, De Maayer P, Coutinho TA, Blom J, Smits THM, Duffy B, Venter SN.

Antonie Van Leeuwenhoek. 2017 Oct;110(10):1287-1309. doi: 10.1007/s10482-017-0852-4. Epub 2017 Mar 2.


Microbial diversity in different compartments of an aquaponics system.

Schmautz Z, Graber A, Jaenicke S, Goesmann A, Junge R, Smits TH.

Arch Microbiol. 2017 May;199(4):613-620. doi: 10.1007/s00203-016-1334-1. Epub 2017 Jan 10.


Specific surface glycan decorations enable antimicrobial peptide resistance in plant-beneficial pseudomonads with insect-pathogenic properties.

Kupferschmied P, Chai T, Flury P, Blom J, Smits TH, Maurhofer M, Keel C.

Environ Microbiol. 2016 Nov;18(11):4265-4281. doi: 10.1111/1462-2920.13571.


Insect pathogenicity in plant-beneficial pseudomonads: phylogenetic distribution and comparative genomics.

Flury P, Aellen N, Ruffner B, Péchy-Tarr M, Fataar S, Metla Z, Dominguez-Ferreras A, Bloemberg G, Frey J, Goesmann A, Raaijmakers JM, Duffy B, Höfte M, Blom J, Smits TH, Keel C, Maurhofer M.

ISME J. 2016 Oct;10(10):2527-42. doi: 10.1038/ismej.2016.5. Epub 2016 Feb 19.


Fire blight disease reactome: RNA-seq transcriptional profile of apple host plant defense responses to Erwinia amylovora pathogen infection.

Kamber T, Buchmann JP, Pothier JF, Smits TH, Wicker T, Duffy B.

Sci Rep. 2016 Feb 17;6:21600. doi: 10.1038/srep21600.


Erwinia gerundensis sp. nov., a cosmopolitan epiphyte originally isolated from pome fruit trees.

Rezzonico F, Smits THM, Born Y, Blom J, Frey JE, Goesmann A, Cleenwerck I, de Vos P, Bonaterra A, Duffy B, Montesinos E.

Int J Syst Evol Microbiol. 2016 Mar;66(3):1583-1592. doi: 10.1099/ijsem.0.000920. Epub 2016 Jan 26.


Draft Genome Sequence of the Commercial Biocontrol Strain Pantoea agglomerans P10c.

Smits TH, Rezzonico F, Blom J, Goesmann A, Abelli A, Kron Morelli R, Vanneste JL, Duffy B.

Genome Announc. 2015 Dec 10;3(6). pii: e01448-15. doi: 10.1128/genomeA.01448-15.


Integrative conjugative elements of the ICEPan family play a potential role in Pantoea ananatis ecological diversification and antibiosis.

De Maayer P, Chan WY, Martin DA, Blom J, Venter SN, Duffy B, Cowan DA, Smits TH, Coutinho TA.

Front Microbiol. 2015 Jun 8;6:576. doi: 10.3389/fmicb.2015.00576. eCollection 2015.


Complete Genome Sequence of the Cyanogenic Phosphate-Solubilizing Pseudomonas sp. Strain CCOS 191, a Close Relative of Pseudomonas mosselii.

Smits TH, Pothier JF, Ruinelli M, Blom J, Frasson D, Koechli C, Fabbri C, Brandl H, Duffy B, Sievers M.

Genome Announc. 2015 Jun 11;3(3). pii: e00616-15. doi: 10.1128/genomeA.00616-15.


A novel plasmid pEA68 of Erwinia amylovora and the description of a new family of plasmids.

Ismail E, Blom J, Bultreys A, Ivanović M, Obradović A, van Doorn J, Bergsma-Vlami M, Maes M, Willems A, Duffy B, Stockwell VO, Smits TH, Puławska J.

Arch Microbiol. 2014 Dec;196(12):891-9. doi: 10.1007/s00203-014-1028-5. Epub 2014 Sep 2.


Draft Genome Sequences of the Onion Center Rot Pathogen Pantoea ananatis PA4 and Maize Brown Stalk Rot Pathogen P. ananatis BD442.

Weller-Stuart T, Chan WY, Coutinho TA, Venter SN, Smits TH, Duffy B, Goszczynska T, Cowan DA, de Maayer P.

Genome Announc. 2014 Aug 7;2(4). pii: e00750-14. doi: 10.1128/genomeA.00750-14.


Whole-Genome Sequencing of Erwinia amylovora Strains from Mexico Detects Single Nucleotide Polymorphisms in rpsL Conferring Streptomycin Resistance and in the avrRpt2 Effector Altering Host Interactions.

Smits TH, Guerrero-Prieto VM, Hernández-Escarcega G, Blom J, Goesmann A, Rezzonico F, Duffy B, Stockwell VO.

Genome Announc. 2014 Jan 23;2(1). pii: e01229-13. doi: 10.1128/genomeA.01229-13.


Transcriptional profile of Salmonella enterica subsp. enterica serovar Weltevreden during alfalfa sprout colonization.

Brankatschk K, Kamber T, Pothier JF, Duffy B, Smits TH.

Microb Biotechnol. 2014 Nov;7(6):528-44. doi: 10.1111/1751-7915.12104. Epub 2013 Dec 6.


Phylogeography and population structure of the biologically invasive phytopathogen Erwinia amylovora inferred using minisatellites.

Bühlmann A, Dreo T, Rezzonico F, Pothier JF, Smits TH, Ravnikar M, Frey JE, Duffy B.

Environ Microbiol. 2014 Jul;16(7):2112-25. doi: 10.1111/1462-2920.12289. Epub 2013 Oct 17.


Phylogenetic position and virulence apparatus of the pear flower necrosis pathogen Erwinia piriflorinigrans CFBP 5888T as assessed by comparative genomics.

Smits TH, Rezzonico F, López MM, Blom J, Goesmann A, Frey JE, Duffy B.

Syst Appl Microbiol. 2013 Oct;36(7):449-56. doi: 10.1016/j.syapm.2013.04.003. Epub 2013 May 29.


Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.

Mann RA, Smits TH, Bühlmann A, Blom J, Goesmann A, Frey JE, Plummer KM, Beer SV, Luck J, Duffy B, Rodoni B.

PLoS One. 2013;8(2):e55644. doi: 10.1371/journal.pone.0055644. Epub 2013 Feb 7.


Erwinia amylovora loop-mediated isothermal amplification (LAMP) assay for rapid pathogen detection and on-site diagnosis of fire blight.

Bühlmann A, Pothier JF, Rezzonico F, Smits TH, Andreou M, Boonham N, Duffy B, Frey JE.

J Microbiol Methods. 2013 Mar;92(3):332-9. doi: 10.1016/j.mimet.2012.12.017. Epub 2012 Dec 28.


The large universal Pantoea plasmid LPP-1 plays a major role in biological and ecological diversification.

De Maayer P, Chan WY, Blom J, Venter SN, Duffy B, Smits TH, Coutinho TA.

BMC Genomics. 2012 Nov 15;13:625. doi: 10.1186/1471-2164-13-625.


Genome sequence of the filamentous bacterium Fibrisoma limi BUZ 3T.

Filippini M, Qi W, Jaenicke S, Goesmann A, Smits TH, Bagheri HC.

J Bacteriol. 2012 Aug;194(16):4445. doi: 10.1128/JB.00869-12.


Detection of AI-2 receptors in genomes of Enterobacteriaceae suggests a role of type-2 quorum sensing in closed ecosystems.

Rezzonico F, Smits TH, Duffy B.

Sensors (Basel). 2012;12(5):6645-65. doi: 10.3390/s120506645. Epub 2012 May 21. Review.


Development of species-, strain- and antibiotic biosynthesis-specific quantitative PCR assays for Pantoea agglomerans as tools for biocontrol monitoring.

Braun-Kiewnick A, Lehmann A, Rezzonico F, Wend C, Smits TH, Duffy B.

J Microbiol Methods. 2012 Sep;90(3):315-20. doi: 10.1016/j.mimet.2012.06.004. Epub 2012 Jun 13.


Fire blight: applied genomic insights of the pathogen and host.

Malnoy M, Martens S, Norelli JL, Barny MA, Sundin GW, Smits TH, Duffy B.

Annu Rev Phytopathol. 2012;50:475-94. doi: 10.1146/annurev-phyto-081211-172931. Epub 2012 Jun 11. Review.


Genome sequence of Fibrella aestuarina BUZ 2(T), a filamentous marine bacterium.

Filippini M, Qi W, Blom J, Goesmann A, Smits TH, Bagheri HC.

J Bacteriol. 2012 Jul;194(13):3555. doi: 10.1128/JB.00550-12.


Lipopolysaccharide biosynthesis genes discriminate between Rubus- and Spiraeoideae-infective genotypes of Erwinia amylovora.

Rezzonico F, Braun-Kiewnick A, Mann RA, Rodoni B, Goesmann A, Duffy B, Smits TH.

Mol Plant Pathol. 2012 Oct;13(8):975-84. doi: 10.1111/j.1364-3703.2012.00807.x. Epub 2012 May 15.


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.

Mann RA, Blom J, Bühlmann A, Plummer KM, Beer SV, Luck JE, Goesmann A, Frey JE, Rodoni BC, Duffy B, Smits TH.

Gene. 2012 Aug 1;504(1):6-12. doi: 10.1016/j.gene.2012.05.002. Epub 2012 May 11.


Misidentification slanders Pantoea agglomerans as a serial killer.

Rezzonico F, Smits TH, Duffy B.

J Hosp Infect. 2012 Jun;81(2):137-9. doi: 10.1016/j.jhin.2012.02.013. Epub 2012 May 1. No abstract available.


Characterization of the biosynthetic operon for the antibacterial peptide herbicolin in Pantoea vagans biocontrol strain C9-1 and incidence in Pantoea species.

Kamber T, Lansdell TA, Stockwell VO, Ishimaru CA, Smits TH, Duffy B.

Appl Environ Microbiol. 2012 Jun;78(12):4412-9. doi: 10.1128/AEM.07351-11. Epub 2012 Apr 13.


Complete genome sequence of clinical isolate Pantoea ananatis LMG 5342.

De Maayer P, Chan WY, Rezzonico F, Bühlmann A, Venter SN, Blom J, Goesmann A, Frey JE, Smits TH, Duffy B, Coutinho TA.

J Bacteriol. 2012 Mar;194(6):1615-6. doi: 10.1128/JB.06715-11.


Comparative genomic analysis of Salmonella enterica subsp. enterica serovar Weltevreden foodborne strains with other serovars.

Brankatschk K, Blom J, Goesmann A, Smits TH, Duffy B.

Int J Food Microbiol. 2012 Apr 16;155(3):247-56. doi: 10.1016/j.ijfoodmicro.2012.01.024. Epub 2012 Feb 3.


First Report of Asian Brown Rot Caused by Monilia polystroma on Apricot in Switzerland.

Hilber-Bodmer M, Knorst V, Smits THM, Patocchi A.

Plant Dis. 2012 Jan;96(1):146. doi: 10.1094/PDIS-06-11-0522.


Erwinia amylovora novel plasmid pEI70: complete sequence, biogeography, and role in aggressiveness in the fire blight phytopathogen.

Llop P, Cabrefiga J, Smits TH, Dreo T, Barbé S, Pulawska J, Bultreys A, Blom J, Duffy B, Montesinos E, López MM.

PLoS One. 2011;6(12):e28651. doi: 10.1371/journal.pone.0028651. Epub 2011 Dec 9.


Pantoea clinical isolates cannot be accurately assigned to species based on metabolic profiling.

Rezzonico F, Stockwell VO, Tonolla M, Duffy B, Smits TH.

Transpl Infect Dis. 2012 Apr;14(2):220-1. doi: 10.1111/j.1399-3062.2011.00684.x. Epub 2011 Sep 28. No abstract available.


Genomics of iron acquisition in the plant pathogen Erwinia amylovora: insights in the biosynthetic pathway of the siderophore desferrioxamine E.

Smits TH, Duffy B.

Arch Microbiol. 2011 Oct;193(10):693-9. doi: 10.1007/s00203-011-0739-0. Epub 2011 Aug 4. Review.


Metabolic versatility and antibacterial metabolite biosynthesis are distinguishing genomic features of the fire blight antagonist Pantoea vagans C9-1.

Smits TH, Rezzonico F, Kamber T, Blom J, Goesmann A, Ishimaru CA, Frey JE, Stockwell VO, Duffy B.

PLoS One. 2011;6(7):e22247. doi: 10.1371/journal.pone.0022247. Epub 2011 Jul 15.


The ubiquitous plasmid pXap41 in the invasive phytopathogen Xanthomonas arboricola pv. pruni: complete sequence and comparative genomic analysis.

Pothier JF, Vorhölter FJ, Blom J, Goesmann A, Pühler A, Smits TH, Duffy B.

FEMS Microbiol Lett. 2011 Oct;323(1):52-60. doi: 10.1111/j.1574-6968.2011.02352.x. Epub 2011 Jul 27.


Antibiosis activity of Pantoea agglomerans biocontrol strain E325 against Erwinia amylovora on apple flower stigmas.

Pusey PL, Stockwell VO, Reardon CL, Smits TH, Duffy B.

Phytopathology. 2011 Oct;101(10):1234-41. doi: 10.1094/PHYTO-09-10-0253.


Anaerobic degradation of vinyl chloride in aquifer microcosms.

Smits TH, Assal A, Hunkeler D, Holliger C.

J Environ Qual. 2011 May-Jun;40(3):915-22. doi: 10.2134/jeq2010.0403.


Diversity, evolution, and functionality of clustered regularly interspaced short palindromic repeat (CRISPR) regions in the fire blight pathogen Erwinia amylovora.

Rezzonico F, Smits TH, Duffy B.

Appl Environ Microbiol. 2011 Jun;77(11):3819-29. doi: 10.1128/AEM.00177-11. Epub 2011 Apr 1.

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