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Bradyrhizobium ivorense sp. nov. as a potential local bioinoculant for Cajanus cajan cultures in Côte d'Ivoire.

Fossou RK, Pothier JF, Zézé A, Perret X.

Int J Syst Evol Microbiol. 2020 Feb;70(2):1421-1430. doi: 10.1099/ijsem.0.003931.


Qualitative microbiome profiling along a wastewater system in Kampala, Uganda.

Schneeberger PHH, Fuhrimann S, Becker SL, Pothier JF, Duffy B, Beuret C, Frey JE, Utzinger J.

Sci Rep. 2019 Nov 22;9(1):17334. doi: 10.1038/s41598-019-53569-5.


Updated Genome Sequence and Annotation for the Full Genome of Pseudomonas protegens CHA0.

Smits THM, Rezzonico F, Frasson D, Vesga P, Vacheron J, Blom J, Pothier JF, Keel C, Maurhofer M, Sievers M.

Microbiol Resour Announc. 2019 Sep 26;8(39). pii: e01002-19. doi: 10.1128/MRA.01002-19.


Antibiotic Resistance Gene Diversity and Virulence Gene Diversity Are Correlated in Human Gut and Environmental Microbiomes.

Escudeiro P, Pothier J, Dionisio F, Nogueira T.

mSphere. 2019 May 1;4(3). pii: e00135-19. doi: 10.1128/mSphere.00135-19.


Subspecies Typing of Streptococcus agalactiae Based on Ribosomal Subunit Protein Mass Variation by MALDI-TOF MS.

Rothen J, Pothier JF, Foucault F, Blom J, Nanayakkara D, Li C, Ip M, Tanner M, Vogel G, Pflüger V, Daubenberger CA.

Front Microbiol. 2019 Mar 11;10:471. doi: 10.3389/fmicb.2019.00471. eCollection 2019.


Mixotrophic Growth Under Micro-Oxic Conditions in the Purple Sulfur Bacterium "Thiodictyon syntrophicum".

Luedin SM, Storelli N, Danza F, Roman S, Wittwer M, Pothier JF, Tonolla M.

Front Microbiol. 2019 Mar 5;10:384. doi: 10.3389/fmicb.2019.00384. eCollection 2019.


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.


Draft Genome Sequence of Chromatium okenii Isolated from the Stratified Alpine Lake Cadagno.

Luedin SM, Liechti N, Cox RP, Danza F, Frigaard NU, Posth NR, Pothier JF, Roman S, Storelli N, Wittwer M, Tonolla M.

Sci Rep. 2019 Feb 13;9(1):1936. doi: 10.1038/s41598-018-38202-1.


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.


Complete Genome Sequences of Erwinia amylovora Phages vB_EamP-S2 and vB_EamM-Bue1.

Knecht LE, Born Y, Pothier JF, Loessner MJ, Fieseler L.

Microbiol Resour Announc. 2018 Jul 26;7(3). pii: e00891-18. doi: 10.1128/MRA.00891-18. eCollection 2018 Jul.


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.

Fernandes C, Blom J, Pothier JF, Tavares F.

Microbiol Resour Announc. 2018 Oct 25;7(16). pii: e00887-18. doi: 10.1128/MRA.00887-18. eCollection 2018 Oct.


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.


High-Quality Draft Genome Sequence of Xanthomonas sp. Strain CPBF 424, a Walnut-Pathogenic Strain with Atypical Features.

Fernandes C, Blom J, Pothier JF, Tavares F.

Microbiol Resour Announc. 2018 Oct 18;7(15). pii: e00921-18. doi: 10.1128/MRA.00921-18. eCollection 2018 Oct.


Antibiotics as both friends and foes of the human gut microbiome: The microbial community approach.

Nogueira T, David PHC, Pothier J.

Drug Dev Res. 2019 Feb;80(1):86-97. doi: 10.1002/ddr.21466. Epub 2018 Oct 28. Review.


Frankia canadensis sp. nov., isolated from root nodules of Alnus incana subspecies rugosa.

Normand P, Nouioui I, Pujic P, Fournier P, Dubost A, Schwob G, Klenk HP, Nguyen A, Abrouk D, Herrera-Belaroussi A, Pothier JF, Pflüger V, Fernandez MP.

Int J Syst Evol Microbiol. 2018 Sep;68(9):3001-3011. doi: 10.1099/ijsem.0.002939. Epub 2018 Jul 30.


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.


Complete genome sequence of "Thiodictyon syntrophicum" sp. nov. strain Cad16T, a photolithoautotrophic purple sulfur bacterium isolated from the alpine meromictic Lake Cadagno.

Luedin SM, Pothier JF, Danza F, Storelli N, Frigaard NU, Wittwer M, Tonolla M.

Stand Genomic Sci. 2018 May 9;13:14. doi: 10.1186/s40793-018-0317-z. eCollection 2018.


High-Quality Draft Genome Sequences of Five Xanthomonas arboricola pv. fragariae Isolates.

Gétaz M, Baeyen S, Blom J, Maes M, Cottyn B, Pothier JF.

Genome Announc. 2018 Feb 15;6(7). pii: e01585-17. doi: 10.1128/genomeA.01585-17.


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.


Complete Genome Sequences of Three Isolates of Xanthomonas fragariae, the Bacterium Responsible for Angular Leaf Spots on Strawberry Plants.

Gétaz M, van der Wolf JM, Blom J, Pothier JF.

Genome Announc. 2017 Aug 10;5(32). pii: e00642-17. doi: 10.1128/genomeA.00642-17.


Complete Genome Sequence of Pseudomonas viridiflava CFBP 1590, Isolated from Diseased Cherry in France.

Ruinelli M, Blom J, Pothier JF.

Genome Announc. 2017 Jul 27;5(30). pii: e00662-17. doi: 10.1128/genomeA.00662-17.


Draft Genome Sequences of Seven Streptococcus agalactiae Strains Isolated from Camelus dromedarius at the Horn of Africa.

Rothen J, Schindler T, Pothier JF, Younan M, Certa U, Daubenberger C, Pflüger V, Jores J.

Genome Announc. 2017 Jul 13;5(28). pii: e00525-17. doi: 10.1128/genomeA.00525-17.


Development and evaluation of a bioinformatics approach for designing molecular assays for viral detection.

Schneeberger PHH, Pothier JF, Bühlmann A, Duffy B, Beuret C, Utzinger J, Frey JE.

PLoS One. 2017 May 25;12(5):e0178195. doi: 10.1371/journal.pone.0178195. eCollection 2017.


Pseudomonas cerasi sp. nov. (non Griffin, 1911) isolated from diseased tissue of cherry.

Kałużna M, Willems A, Pothier JF, Ruinelli M, Sobiczewski P, Puławska J.

Syst Appl Microbiol. 2016 Sep;39(6):370-7. doi: 10.1016/j.syapm.2016.05.005. Epub 2016 May 25.


Testing for Independence between Evolutionary Processes.

Behdenna A, Pothier J, Abby SS, Lambert A, Achaz G.

Syst Biol. 2016 Sep;65(5):812-23. doi: 10.1093/sysbio/syw004. Epub 2016 May 21.


Pararhizobium polonicum sp. nov. isolated from tumors on stone fruit rootstocks.

Puławska J, Kuzmanović N, Willems A, Pothier JF.

Syst Appl Microbiol. 2016 May;39(3):164-169. doi: 10.1016/j.syapm.2016.03.002. Epub 2016 Mar 17.


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.


Metagenomic diagnostics for the simultaneous detection of multiple pathogens in human stool specimens from Côte d'Ivoire: a proof-of-concept study.

Schneeberger PHH, Becker SL, Pothier JF, Duffy B, N'Goran EK, Beuret C, Frey JE, Utzinger J.

Infect Genet Evol. 2016 Jun;40:389-397. doi: 10.1016/j.meegid.2015.08.044. Epub 2015 Sep 25.


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.


Ribosomal protein biomarkers provide root nodule bacterial identification by MALDI-TOF MS.

Ziegler D, Pothier JF, Ardley J, Fossou RK, Pflüger V, de Meyer S, Vogel G, Tonolla M, Howieson J, Reeve W, Perret X.

Appl Microbiol Biotechnol. 2015 Jul;99(13):5547-62. doi: 10.1007/s00253-015-6515-3. Epub 2015 Mar 18.


Evaluation of a real-time PCR and a loop-mediated isothermal amplification for detection of Xanthomonas arboricola pv. pruni in plant tissue samples.

Palacio-Bielsa A, López-Soriano P, Bühlmann A, van Doorn J, Pham K, Cambra MA, Berruete IM, Pothier JF, Duffy B, Olmos A, López MM.

J Microbiol Methods. 2015 May;112:36-9. doi: 10.1016/j.mimet.2015.03.005. Epub 2015 Mar 11.


Replenish and relax: explaining logarithmic annealing in ion-implanted c-Si.

Béland LK, Anahory Y, Smeets D, Guihard M, Brommer P, Joly JF, Pothier JC, Lewis LJ, Mousseau N, Schiettekatte F.

Phys Rev Lett. 2013 Sep 6;111(10):105502. Epub 2013 Sep 4.


Development of multilocus variable-number tandem repeat analysis (MLVA) for Xanthomonas arboricola pathovars.

Cesbron S, Pothier J, Gironde S, Jacques MA, Manceau C.

J Microbiol Methods. 2014 May;100:84-90. doi: 10.1016/j.mimet.2014.02.017. Epub 2014 Mar 12.


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.


Dickeya solani sp. nov., a pectinolytic plant-pathogenic bacterium isolated from potato (Solanum tuberosum).

van der Wolf JM, Nijhuis EH, Kowalewska MJ, Saddler GS, Parkinson N, Elphinstone JG, Pritchard L, Toth IK, Lojkowska E, Potrykus M, Waleron M, de Vos P, Cleenwerck I, Pirhonen M, Garlant L, Hélias V, Pothier JF, Pflüger V, Duffy B, Tsror L, Manulis S.

Int J Syst Evol Microbiol. 2014 Mar;64(Pt 3):768-74. doi: 10.1099/ijs.0.052944-0. Epub 2013 Nov 13.


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.


High performance thin layer chromatography-densitometry: a step further for quality control of cranberry extracts.

Boudesocque L, Dorat J, Pothier J, Gueiffier A, Enguehard-Gueiffier C.

Food Chem. 2013 Aug 15;139(1-4):866-71. doi: 10.1016/j.foodchem.2013.02.002. Epub 2013 Feb 11.


Comparative RNA-seq analysis of early-infected peach leaves by the invasive phytopathogen Xanthomonas arboricola pv. pruni.

Socquet-Juglard D, Kamber T, Pothier JF, Christen D, Gessler C, Duffy B, Patocchi A.

PLoS One. 2013;8(1):e54196. doi: 10.1371/journal.pone.0054196. Epub 2013 Jan 14.


Evolution of novel tricyclic CRTh2 receptor antagonists from a (E)-2-cyano-3-(1H-indol-3-yl)acrylamide scaffold.

Valdenaire A, Pothier J, Renneberg D, Riederer MA, Peter O, Leroy X, Gnerre C, Fretz H.

Bioorg Med Chem Lett. 2013 Feb 15;23(4):944-8. doi: 10.1016/j.bmcl.2012.12.050. Epub 2012 Dec 25.


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.


Conveniently pre-tagged and pre-packaged: extended molecular identification and metagenomics using complete metazoan mitochondrial genomes.

Dettai A, Gallut C, Brouillet S, Pothier J, Lecointre G, Debruyne R.

PLoS One. 2012;7(12):e51263. doi: 10.1371/journal.pone.0051263. Epub 2012 Dec 14.


Automatic classification of protein structures relying on similarities between alignments.

Santini G, Soldano H, Pothier J.

BMC Bioinformatics. 2012 Sep 14;13:233. doi: 10.1186/1471-2105-13-233.


Novel 2-(2-(benzylthio)-1H-benzo[d]imidazol-1-yl)acetic acids: discovery and hit-to-lead evolution of a selective CRTh2 receptor antagonist chemotype.

Pothier J, Riederer MA, Peter O, Leroy X, Valdenaire A, Gnerre C, Fretz H.

Bioorg Med Chem Lett. 2012 Jul 15;22(14):4660-4. doi: 10.1016/j.bmcl.2012.05.087. Epub 2012 Jun 1.


Evolutionary history of synthesis pathway genes for phloroglucinol and cyanide antimicrobials in plant-associated fluorescent pseudomonads.

Frapolli M, Pothier JF, Défago G, Moënne-Loccoz Y.

Mol Phylogenet Evol. 2012 Jun;63(3):877-90. doi: 10.1016/j.ympev.2012.02.030. Epub 2012 Mar 8.


Type three effector gene distribution and sequence analysis provide new insights into the pathogenicity of plant-pathogenic Xanthomonas arboricola.

Hajri A, Pothier JF, Fischer-Le Saux M, Bonneau S, Poussier S, Boureau T, Duffy B, Manceau C.

Appl Environ Microbiol. 2012 Jan;78(2):371-84. doi: 10.1128/AEM.06119-11. Epub 2011 Nov 18.


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.


A duplex-PCR method for species- and pathovar-level identification and detection of the quarantine plant pathogen Xanthomonas arboricola pv. pruni.

Pothier JF, Pagani MC, Pelludat C, Ritchie DF, Duffy B.

J Microbiol Methods. 2011 Jul;86(1):16-24. doi: 10.1016/j.mimet.2011.03.019. Epub 2011 Apr 6.


The role of the antimicrobial compound 2,4-diacetylphloroglucinol in the impact of biocontrol Pseudomonas fluorescens F113 on Azospirillum brasilense phytostimulators.

Couillerot O, Combes-Meynet E, Pothier JF, Bellvert F, Challita E, Poirier MA, Rohr R, Comte G, Moënne-Loccoz Y, Prigent-Combaret C.

Microbiology. 2011 Jun;157(Pt 6):1694-1705. doi: 10.1099/mic.0.043943-0. Epub 2011 Jan 27.


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