Publications of the Environmental Genomics and Systems Biology Research Group

Gygax, Gregory; Ratnaweera, Nils; Tischhauser, Werner; Smits, Theo H. M.; Laube, Patrick; Ott, Thomas,

2023.

An oracle for the optimization of underconstrained compositions of neural networks : the tick hazard use case[paper].

In:

Schneider, Johannes Josef; Weyland, Mathias Sebastian; Flumini, Dandolo; Füchslin, Rudolf Marcel, eds.,

Artificial Life and Evolutionary Computation.

XV International Workshop on Artificial Life and Evolutionary Computation (WIVACE), Winterthur, Switzerland, 15-17 September 2021.

Cham:

Springer.

pp. 24-31.

Communications in Computer and Information Science ; 1722.

Gartmann, Florentina; Hügly, Julian; Krähenbühl, Nikita; Brinkmann, Nadine; Schmautz, Zala; Smits, Theo H. M.; Junge, Ranka,

2023.

Bioponics – an organic closed-loop soilless cultivation system : yields and characteristics compared to hydroponics and soil cultivation.

Agronomy.

13(6), pp. 1436.

Available from: https://doi.org/10.21256/zhaw-27913

Maltseva, Elina R.; Zharmukhamedova, Galiya A.; Jumanova, Zhulduzay K.; Naizabayeva, Dinara A.; Berdygulova, Zhanna A.; Dmitriyeva, Karina A.; Tezekbayeva, Botakoz; Khassein, Altyn; Skiba, Yuriy A.; Malakhova, Natalya P.; Ismagulova, Gulnara A.; Rezzonico, Fabio; Smits, Theo H. M.,

2023.

Fire blight cases in Almaty Region of Kazakhstan in the proximity of wild apple distribution area.

Journal of Plant Pathology.

106(3), pp. 971-978.

Available from: https://doi.org/10.21256/zhaw-28075

Crosby, Katherine C.; Rojas, Mariah; Sharma, Parul; Johnson, Marcela A.; Mazloom, Reza; Kvitko, Brian H.; Smits, Theo H. M.; Venter, Stephanus N.; Coutinho, Teresa A.; Heath, Lenwood S.; Palmer, Marike; Vinatzer, Boris A.,

2023.

Genomic delineation and description of species and within-species lineages in the genus Pantoea.

Frontiers in Microbiology.

14(1254999).

Available from: https://doi.org/10.21256/zhaw-29150

Costa, Joana; Pothier, Joël F.; Boch, Jens; Stefani, Emilio; Koebnik, Ralf,

2022.

Integrating science on Xanthomonas and Xylella for integrated plant disease management.

Microorganisms.

11(1), pp. 6.

Available from: https://doi.org/10.21256/zhaw-26603

Sulja, Arburon; Pothier, Joël F.; Blom, Jochen; Moretti, Chiaraluce; Buonaurio, Roberto; Rezzonico, Fabio; Smits, Theo H. M.,

2022.

Comparative genomics to examine the endophytic potential of Pantoea agglomerans DAPP-PG 734.

BMC Genomics.

23(742).

Available from: https://doi.org/10.21256/zhaw-26038

Schmautz, Zala; Walser, Jean-Claude; Espinal, Carlos A.; Gartmann, Florentina; Scott, Benjamin; Pothier, Joël F.; Frossard, Emmanuel; Junge, Ranka; Smits, Theo H. M.,

2022.

Microbial diversity across compartments in an aquaponic system and its connection to the nitrogen cycle.

Science of the Total Environment.

852(158426).

Available from: https://doi.org/10.21256/zhaw-25917

Dia, Nay C.; Cottyn, Bart; Blom, Jochen; Smits, Theo H. M.; Pothier, Joël F.,

2022.

Differentiation of the Xanthomonas hortorum – Xanthomonas hydrangeae species complex using sensitive and selective LAMP assays.

Frontiers in Agronomy.

4(898778).

Available from: https://doi.org/10.21256/zhaw-25178

Silva, Kayla Gisela; Martins, Leonor; Teixeira, Miguel; Pothier, Joël F.; Tavares, Fernando,

2022.

DNA markers for detection and genotyping of Xanthomonas euroxanthea.

Microorganisms.

10(6), pp. 1078.

Available from: https://doi.org/10.21256/zhaw-25167

Kałużna, Monika; Pothier, Joël F.,

2022.

Complete genome sequence data of two Xanthomonas arboricola strains isolated from blueberry plants displaying bacterial leaf blight in Poland.

Phytopathology.

112(8), pp. 1814-1818.

Available from: https://doi.org/10.21256/zhaw-24951

Ruinelli, Michela; Blom, Jochen; Smits, Theo H. M.; Pothier, Joël F.,

2022.

Comparative genomics of Prunus-associated members of the Pseudomonas syringae species complex reveals traits supporting co-evolution and host adaptation.

Frontiers in Microbiology.

13(804681).

Available from: https://doi.org/10.21256/zhaw-24957

Smits, Theo H. M.; Arend, Lavinia N. V. S.; Cardew, Sofia; Tång-Hallbäck, Erika; Mira, Marcelo T.; Moore, Edward R. B.; Sampaio, Jorge L. M.; Rezzonico, Fabio; Pillonetto, Marcelo,

2022.

Resolving taxonomic confusion : establishing the genus Phytobacter on the list of clinically relevant Enterobacteriaceae.

European Journal of Clinical Microbiology & Infectious Diseases.

41(4), pp. 547-558.

Available from: https://doi.org/10.21256/zhaw-24450

Dia, Nay C.; Morinière, Lucas; Cottyn, Bart; Bernal, Eduardo; Jacobs, Jonathan M.; Koebnik, Ralf; Osdaghi, Ebrahim; Potnis, Neha; Pothier, Joël F.,

2022.

Xanthomonas hortorum – beyond gardens : current taxonomy, genomics, and virulence repertoires.

Molecular Plant Pathology.

23(5), pp. 597-621.

Available from: https://doi.org/10.21256/zhaw-24016

Niu, Qiuhong; Liu, Suyao; Yin, Mingshen; Lei, Shengwei; Rezzonico, Fabio; Zhang, Lin,

2022.

Phytobacter diazotrophicus from intestine of Caenorhabditis elegans confers colonization-resistance against Bacillus nematocida using flagellin (FliC) as an inhibition factor.

Pathogens.

11(1), pp. 82.

Available from: https://doi.org/10.21256/zhaw-23927

Hakalová, Eliška; Čechová, Jana; Tekielska, Dorota A.; Eichmeier, Ales; Pothier, Joël F.,

2022.

Combined effect of thyme and clove phenolic compounds on Xanthomonas campestris pv. campestris and biocontrol of black rot disease on cabbage seeds.

Frontiers in Microbiology.

13.

Available from: https://doi.org/10.21256/zhaw-26030

Maltseva, Elina R.; Zharmukhamedova, Galiya A.; Jumanova, Zhulduzay K.; Naizabayeva, Dinara A.; Berdygulova, Zhanna A.; Dmitriyeva, Karina A.; Soltanbekov, Sagi S.; Argynbayeva, Assel M.; Skiba, Yuriy A.; Malakhova, Natalya P.; Rezzonico, Fabio; Smits, Theo H.M.,

2022.

Assessment of fire blight introduction in the wild apple forests of Kazakhstan.

Biodiversity.

23(3-4), pp. 123-128.

Available from: https://doi.org/10.21256/zhaw-26850

Dia, Nay C.; Van Vaerenbergh, Johan; Van Malderghem, Cinzia; Blom, Jochen; Smits, Theo H. M.; Cottyn, Bart; Pothier, Joël F.,

2021.

Xanthomonas hydrangeae sp. nov., a novel plant pathogen isolated from Hydrangea arborescens.

International Journal of Systematic and Evolutionary Microbiology.

71(12).

Available from: https://doi.org/10.21256/zhaw-23864

Costa, Joana; Pothier, Joël F.; Boch, Jens; Stefani, Emilio; Jacques, Marie-Agnès; Catara, Vittoria; Koebnik, Ralf,

2021.

Integrating science on Xanthomonadaceae for sustainable plant disease management in Europe.

Molecular Plant Pathology.

22(12), pp. 1461-1463.

Available from: https://doi.org/10.21256/zhaw-23485

Kurz, Mirjam; Carnal, Simon; Dafny-Yelin, Mery; Mairesse, Orly; Gottsberger, Richard A.; Ivanović, Milan; Grahovac, Mila; Lagonenko, Alexander L.; Drenova, Nataliya; Zharmukhamedova, Galiya; Doolotkeldieva, Tinatin; Smits, Theo H.M.; Rezzonico, Fabio,

2021.

Tracking the dissemination of Erwinia amylovora in the Eurasian continent using a PCR targeted on the duplication of a single CRISPR spacer.

Phytopathology Research.

3(18).

Available from: https://doi.org/10.21256/zhaw-23220

Moretti, Chiaraluce; Rezzonico, Fabio; Orfei, Benedetta; Cortese, Chiara; Moreno‐Pérez, Alba; van den Burg, Harrold A.; Onofri, Andrea; Firrao, Giuseppe; Ramos, Cayo; Smits, Theo H.M.; Buonaurio, Roberto,

2021.

Synergistic interaction between the type III secretion system of the endophytic bacterium Pantoea agglomerans DAPP‐PG 734 and the virulence of the causal agent of olive knot Pseudomonas savastanoi pv. savastanoi DAPP‐PG 722.

Molecular Plant Pathology.

22(10), pp. 1209-1225.

Available from: https://doi.org/10.21256/zhaw-22926