Publications

Publications Jürg Ernst Frey

Koutsovoulos G.D., Poullet M., Elashry A., Kozlowski D.K.L., Sallet E., Da Rocha M., Perfus-Barbeoch L., Martin-Jimenez C., Frey J. E., Ahrens C., Kiewnick S., Danchin E.G.J.
Genome assembly and annotation of Meloidogyne enterolobii, an emerging parthenogenetic root-knot nematode.
Scientific Data, 7, (1), 2020, 324-337.

Somerville V., Lutz S., Schmid M., Frei D., Moser A., Irmler S., Frey J. E., Ahrens C.
Long-read based de novo assembly of low-complexity metagenome samples results in finished genomes and reveals insights into strain diversity and an active phage system.
BMC Microbiology, 19, (1), 2019, 1-18.

Urresterazu, J, Kägi, C, Bühlmann A., Gassmann J., Santesteban, L.G., Frey J. E., Kellerhals M., Miranda, C
Integration of expert knowledge in the definition of Swiss pear core collection.
Scientific Reports, 9, (8934), 2019, 1-10.

Gueuning M., Ganser D., Blaser S., Albrecht M., Knop E., Praz C., Frey J. E.
Evaluating NGS methods for routine monitoring of wild bees: metabarcoding, mitogenomics or NGS bar-coding.
Molecular Ecology Resources, (2 März), 2019.

Ahrens C., Frey J. E., Irmler S., Kölliker R., Pelludat C., Weisskopf L., Widmer F.
Schlussbericht Agroscope Forschungsprogramm Mikrobielle BioDiversität.
Publ. Agroscope, Bern. Januar, 2018, 50 pp.

Schmid M., Frei D., Patrignani A., Schlapbach R., Frey J. E., Remus-Emsermann M.N.P., Ahrens C.
Pushing the limits of de novo genome assembly for complex prokaryotic genomes harboring very long, near identical repeats.
Nucleic Acids Research, 46, (17), 2018, 8953-8965.

Bösch Y., Britt E., Perren S., Naef A., Frey J. E., Bühlmann A.
The apple fruit microbiome: influence of orchard management, variety and storage time.
In: Plant Biology Europe. 20 June 2018, Copenhagen. 2018, 1-1.

Ahrens C., Frey J. E., Irmler S., Kölliker R., Pelludat C., Weisskopf L., Widmer F.
Agroscope Research Program Microbial BioDiversity : Final Meeting.
Agroscope Science, 65, 2018, 1-20.

Blaser S., Diem H., von Felten A., Gueuning M., Andreou M., Boonham N., Tomlinson J., Müller P., Utzinger J., Frey J. E., Bühlmann A.
From laboratory to point of entry: development and implementation of a loop-mediated isothermal amplification (LAMP)-based genetic identification system to prevent introduction of quarantine insect species.
Pest Management Science, 74, (6), 2018, 1504-1512.

Schneeberger P.H.H., Coulibaly J.T., Panic G., Daubenberger C., Gueuning M., Frey J. E., Keiser J.
Investigations on the interplays between Schistosoma mansoni, praziquantel and the gut microbiome.
Parasites & Vectors, 11, 2018, 168.

Christen V., Schirrmann M., Frey J. E., Fent K.
Global transcriptomic effects of environmentally relevant concentrations of the neonicotinoids clothianidin, imidacloprid and thiamethoxam in honey bees (Apis mellifera).
Environmental Science & Technology, 2018.

Huntscha S., Stravs M.A., Bühlmann A., Ahrens C., Frey J. E., Pomati F., Hollender J., Bürge I., Balmer M., Poiger T.
Seasonal dynamics of glyphosate and AMPA in lake Greifensee: Rapid microbial degradation in the epilimnion during summer.
Environmental Science & Technology, 52, (8), 2018, 4641-4649.

Schmid M., Muri J., Melidis D., Ravikumar Varadarajan A., Somerville V., Wicki A., Moser A., Bourqui M., Wenzel C., Eugster-Meier E., Frey J. E., Irmler S., Ahrens C. H.
Comparative genomics of completely sequenced lactobacillus helveticus genomes provides insights into unique genes and resolves metagenomics data down to the strain level.
Frontiers in Microbiology, 9, 2018, 1-20.

Omasits U., Varadarajan A., Schmid M., Goetze S., Melidis D., Bourqui M., Nikolayeva O., Québatte M., Patrignani A., Dehio C., Frey J. E., Robinson M. D., Wollscheid B., Ahrens C. H.
An integrative strategy to identify the entire protein coding potential of prokaryotic genomes by proteogenomics.
Genome Research, 27, (12), 2017, 2083-2095.

Schneeberger P., Pothier J.F., Bühlmann A., Duffy B., Beuret C., Utzinger J., Frey J. E.
Development and evaluation of a bioinformatics approach for designing molecular assays for viral detection.
PLoS ONE, 12, (5), 2017, e0178195.

Schneeberger PH., Becker S., Pothier J., Duffy B., N'Goran E., Beuret C., Frey J. E., Utzinger J.
Metagenomic diagnostics for the simultaneous detection of multiple pathogens in human stool specimens from Côte d'Ivoire: a proof-of-concept study.
Infection, Genetics and Evolution, 40, 2016, 389-397.

Rezzonico F. , Smits T.H., Born Y., Blom J. , Frey J. E., Goesmann A. , Cleenwerck I. , De Vos P. , Bonaterra A. , Duffy B. , Montesinos F.
Erwinia gerundensis sp. nov., a cosmopolitan epiphyte originally isolated from pome fruit trees.
International Journal of Systematic and Evolutionary Microbiology, 66, (3), 2016, 1583-1592.

Bühlmann A., Gassmann J., Ingenfeld A., Hunziker K., Kellerhals M., Frey J. E.
Molecular characterisation of the Swiss Fruit Genetic Resources.
Erwerbsobstbau, 57, (1), 2015, 29-34.

Bertschinger L., Baur R., Carlen C., Frey J. E., Jeangros B., Kessler W., Viret O., Mayor J.-P.
Forschungsbeiträge zur ökologischen Intensivierung für einen nachhaltigen Schweizer Nutzpflanzenanbau.
Agrarforschung Schweiz, 6, (9), 2015, 408-415.
other Languages: french

Reynard J.-S., Schneeberger P., Frey J. E., Schaerer S.
Biological, serological, and molecular characterization of a highly divergent strain of grapevine leafroll-associated virus 4 causing grapevine leafroll disease.
Annual Review of Phytopathology, 105, 2015, 1262-1269.

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Last modification 11.08.2016

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