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ResearcherID: E-5959-2011

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Employment (2)

Universität zu Köln: Köln, Nordrhein-Westfalen, DE

2020-08-01 to present | Alexander von Humboldt professor (Evolutionary Microbiology)
Employment
Source: Self-asserted source
Bart Thomma

Wageningen University: Wageningen, NL

2020-08-01 | Professor/head of department (Laboratory of Phytopathology)
Employment
Source: Self-asserted source
Bart Thomma

Education and qualifications (2)

KU Leuven: Leuven, BE

1996 to 2000 | PhD (CMPG)
Education
Source: Self-asserted source
Bart Thomma

Wageningen University: Wageningen, NL

1990 to 1996 | MSc
Education
Source: Self-asserted source
Bart Thomma

Works (50 of 56)

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Chitin‐signaling‐dependent responses to insect oral secretions in rice cells propose the involvement of chitooligosaccharides in plant defense against herbivores

The Plant Journal
2025-01 | Journal article
DOI: 10.1111/tpj.17157
Contributors: Yasukazu Kanda; Tomonori Shinya; David Wari; Yuko Hojo; Yuka Fujiwara; Wataru Tsuchiya; Zui Fujimoto; Bart P. H. J. Thomma; Yoko Nishizawa; Takashi Kamakura et al.
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Starshipgiant transposons dominate plastic genomic regions in a fungal plant pathogen and drive virulence evolution

2025-01-09 | Preprint
DOI: 10.1101/2025.01.08.631984
Contributors: Yukiyo Sato; Roos Bex; Grardy C. M. van den Berg; Monica Höfte; Michael F. Seidl; Bart P.H.J. Thomma
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Meddling with the microbiota: Fungal tricks to infect plant hosts

Current Opinion in Plant Biology
2024-12 | Journal article
DOI: 10.1016/j.pbi.2024.102622
Contributors: Fantin Mesny; Martha Bauer; Jinyi Zhu; Bart P.H.J. Thomma
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Implications of the three-dimensional chromatin organization for genome evolution in a fungal plant pathogen

Nature Communications
2024-02-24 | Journal article
DOI: 10.1038/s41467-024-45884-x
Contributors: David E. Torres; H. Martin Kramer; Vittorio Tracanna; Gabriel L. Fiorin; David E. Cook; Michael F. Seidl; Bart P. H. J. Thomma
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AMAPEC: accurate antimicrobial activity prediction for fungal effector proteins

2024-01-04 | Preprint
DOI: 10.1101/2024.01.04.574150
Contributors: Fantin Mesny; Bart PHJ Thomma
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Battle of the bugs: how an oomycete pathogen shapes the microbiota of its host

New Phytologist
2023-09 | Journal article
DOI: 10.1111/nph.19133
Contributors: Hanna Rovenich; Bart P. H. J. Thomma
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Co‐evolution within the plant holobiont drives host performance

EMBO reports
2023-09-06 | Journal article
DOI: 10.15252/embr.202357455
Contributors: Fantin Mesny; Stéphane Hacquard; Bart PHJ Thomma
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Epigenetic regulation of nuclear processes in fungal plant pathogens

PLOS Pathogens
2023-08-03 | Journal article
DOI: 10.1371/journal.ppat.1011525
Contributors: H. Martin Kramer; Elizabeth Ballou; David E. Cook; Michael F. Seidl; Bart P.H.J. Thomma
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Structural and functional analysis of the cerato‐platanin‐like protein Cpl1 suggests diverging functions in smut fungi

Molecular Plant Pathology
2023-07 | Journal article
DOI: 10.1111/mpp.13349
Contributors: Paul Weiland; Felix Dempwolff; Wieland Steinchen; Sven‐Andreas Freibert; Hui Tian; Timo Glatter; Roman Martin; Bart P. H. J. Thomma; Gert Bange; Florian Altegoer
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High quality genome assembly and annotation (v1) of the eukaryotic terrestrial microalgaCoccomyxa viridisSAG 216-4

2023-07-12 | Preprint
DOI: 10.1101/2023.07.11.548521
Contributors: Anton Kraege; Edgar A. Chavarro-Carrero; Nadège Guiglielmoni; Eva Schnell; Joseph Kirangwa; Stefanie Heilmann-Heimbach; Kerstin Becker; Karl Köhrer; Philipp Schiffer; Bart P. H. J. Thomma et al.
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Implications of the three-dimensional chromatin organization for genome evolution in a fungal plant pathogen

2023-04-04 | Preprint
DOI: 10.1101/2023.04.04.535574
Contributors: David E. Torres; H. Martin Kramer; Vittorio Tracanna; Gabriel L. Fiorin; David E. Cook; Michael F. Seidl; Bart P.H.J. Thomma
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A singleVerticillium dahliaeeffector determines pathogenicity on tomato by targeting auxin response factors

2022-11-24 | Preprint
DOI: 10.1101/2022.11.22.517554
Contributors: Jinling Li; Luigi Faino; Gabriel L. Fiorin; Sagar Bashyal; Arno Schaveling; Grardy C.M. van den Berg; Michael F. Seidl; Bart P.H.J. Thomma
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Scarcity of major resistance genes against Verticillium wilt caused by Verticillium dahliae

Plant Breeding
2022-10 | Journal article
DOI: 10.1111/pbr.13046
Contributors: Jasper P. Vermeulen; Katharina Hanika; Bart P. H. J. Thomma; Yuling Bai; Henk J. Schouten
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Fungal dual-domain LysM effectors undergo chitin-induced intermolecular, and not intramolecular, dimerization

Plant Physiology
2022-10-27 | Journal article
DOI: 10.1093/plphys/kiac391
Contributors: Hui Tian; Gabriel L Fiorin; Anja Kombrink; Jeroen R Mesters; Bart P H J Thomma
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Microbiota manipulation through the secretion of effector proteins is fundamental to the wealth of lifestyles in the fungal kingdom

FEMS Microbiology Reviews
2022-09-02 | Journal article
DOI: 10.1093/femsre/fuac022
Contributors: Nick C Snelders; Hanna Rovenich; Bart P H J Thomma
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Local Rather than Global H3K27me3 Dynamics Are Associated with Differential Gene Expression in Verticillium dahliae

mBio
2022-02-22 | Journal article
DOI: 10.1128/mbio.03566-21
Contributors: H. Martin Kramer; Michael F. Seidl; Bart P. H. J. Thomma; David E. Cook; Isabelle Fudal; Antonio Di Pietro
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An ancient antimicrobial protein co-opted by a fungal plant pathogen for in planta mycobiome manipulation

Proceedings of the National Academy of Sciences
2021-12-07 | Journal article
DOI: 10.1073/pnas.2110968118
Contributors: Nick C. Snelders; Gabriella C. Petti; Grardy C. M. van den Berg; Michael F. Seidl; Bart P. H. J. Thomma
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The Interspecific Fungal Hybrid Verticillium longisporum Displays Subgenome-Specific Gene Expression

mBio
2021-08-31 | Journal article
DOI: 10.1128/mbio.01496-21
Contributors: Jasper R. L. Depotter; Fabian van Beveren; Luis Rodriguez-Moreno; H. Martin Kramer; Edgar A. Chavarro Carrero; Gabriel L. Fiorin; Grardy C. M. van den Berg; Thomas A. Wood; Bart P. H. J. Thomma; Michael F. Seidl et al.
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Three LysM effectors of Zymoseptoria tritici collectively disarm chitin‐triggered plant immunity

Molecular Plant Pathology
2021-06 | Journal article
DOI: 10.1111/mpp.13055
Contributors: Hui Tian; Craig I. MacKenzie; Luis Rodriguez‐Moreno; Grardy C. M. van den Berg; Hongxin Chen; Jason J. Rudd; Jeroen R. Mesters; Bart P. H. J. Thomma
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An ancient antimicrobial protein co-opted by a fungal plant pathogen for in planta mycobiome manipulation

2021-06-10 | Other
DOI: 10.1101/2021.06.10.447847
Contributors: Nick C. Snelders; Gabriella C. Petti; Grardy C. M. van den Berg; Michael F. Seidl; Bart P.H.J. Thomma
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Local rather than global H3K27me3 dynamics associates with differential gene expression inVerticillium dahliae

2021-05-05 | Preprint
DOI: 10.1101/2021.05.04.442700
Contributors: H. Martin Kramer; Michael F. Seidl; Bart P.H.J. Thomma; David E. Cook
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Three putative DNA methyltransferases of Verticillium dahliae differentially contribute to DNA methylation that is dispensable for growth, development and virulence

Epigenetics & Chromatin
2021-05-03 | Journal article
DOI: 10.1186/s13072-021-00396-6
Contributors: H. Martin Kramer; David E. Cook; Grardy C. M. van den Berg; Michael F. Seidl; Bart P. H. J. Thomma
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Comparative genomics reveals the in planta‐secreted Verticillium dahliae Av2 effector protein recognized in tomato plants that carry the V2 resistance locus

Environmental Microbiology
2021-04 | Journal article
DOI: 10.1111/1462-2920.15288
Contributors: Edgar A. Chavarro‐Carrero; Jasper P. Vermeulen; David E. Torres; Toshiyuki Usami; Henk J. Schouten; Yuling Bai; Michael F. Seidl; Bart P. H. J. Thomma
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Identification and characterization of Cercospora beticola necrosis‐inducing effector CbNip1

Molecular Plant Pathology
2021-03 | Journal article
DOI: 10.1111/mpp.13026
Contributors: Malaika K. Ebert; Lorena I. Rangel; Rebecca E. Spanner; Demetris Taliadoros; Xiaoyun Wang; Timothy L. Friesen; Ronnie de Jonge; Jonathan D. Neubauer; Gary A. Secor; Bart P. H. J. Thomma et al.
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A unique chromatin profile defines adaptive genomic regions in a fungal plant pathogen

eLife
2020-12-18 | Journal article
DOI: 10.7554/eLife.62208
Contributors: David E Cook; H Martin Kramer; David E Torres; Michael F Seidl; Bart P H J Thomma
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Microbiome manipulation by a soil-borne fungal plant pathogen using effector proteins

Nature Plants
2020-11-02 | Journal article
DOI: 10.1038/s41477-020-00799-5
Contributors: Nick C. Snelders; Hanna Rovenich; Gabriella C. Petti; Mercedes Rocafort; Grardy C. M. van den Berg; Julia A. Vorholt; Jeroen R. Mesters; Michael F. Seidl; Reindert Nijland; Bart P. H. J. Thomma
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DNA methylation in Verticillium dahliae requires only one of three putative DNA methyltransferases, yet is dispensable for growth, development and virulence

2020-09-18 | Other
DOI: 10.21203/rs.3.rs-68460/v1
Contributors: Martin Kramer; David Cook; Grardy van den Berg; Michael Seidl; Bart Thomma
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DNA methylation inVerticillium dahliaerequires only one of three putative DNA methyltransferases, yet is dispensable for growth, development and virulence

2020-08-26 | Preprint
DOI: 10.1101/2020.08.26.268789
Contributors: H. Martin Kramer; David E. Cook; Grardy C.M. van den Berg; Michael F. Seidl; Bart P.H.J. Thomma
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Centromere evolution in the fungal genusVerticillium

2020-06-30 | Preprint
DOI: 10.1101/2020.06.29.179234
Contributors: Michael F Seidl; H Martin Kramer; David E Cook; Gabriel Lorencini Fiorin; Grardy CM van den Berg; Luigi Faino; Bart PHJ Thomma
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Crossref

Three LysM effectors ofZymoseptoria triticicollectively disarm chitin-triggered plant immunity

2020-06-26 | Preprint
DOI: 10.1101/2020.06.24.169789
Contributors: Hui Tian; Craig I. MacKenzie; Luis Rodriguez-Moreno; Grardy C.M. van den Berg; Hongxin Chen; Jason J. Rudd; Jeroen R. Mesters; Bart P.H.J. Thomma
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Crossref

Comparative genomics ofVerticillium dahliaeisolates reveals thein planta-secreted effector protein recognized inV2tomato plants

2020-06-17 | Preprint
DOI: 10.1101/2020.06.16.154641
Contributors: Edgar A. Chavarro-Carrero; Jasper P. Vermeulen; David E. Torres; Toshiyuki Usami; Henk J. Schouten; Yuling Bai; Michael F. Seidl; Bart P.H.J. Thomma
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Crossref

Fungal dual-domain LysM effectors undergo chitin-induced intermolecular, and not intramolecular, dimerization

2020-06-14 | Preprint
DOI: 10.1101/2020.06.11.146639
Contributors: Hui Tian; Gabriel L. Fiorin; Anja Kombrink; Jeroen R. Mesters; Bart P.H.J. Thomma
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Crossref

A lysin motif effector subverts chitin‐triggered immunity to facilitate arbuscular mycorrhizal symbiosis

New Phytologist
2020-01 | Journal article
DOI: 10.1111/nph.16245
Contributors: Tian Zeng; Luis Rodriguez‐Moreno; Artem Mansurkhodzaev; Peng Wang; Willy van den Berg; Virginie Gasciolli; Sylvain Cottaz; Sébastien Fort; Bart P. H. J. Thomma; Jean‐Jacques Bono et al.
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A plant pathogen utilizes effector proteins for microbiome manipulation

2020-01-31 | Preprint
DOI: 10.1101/2020.01.30.926725
Contributors: Nick C. Snelders; Hanna Rovenich; Gabriella C. Petti; Mercedes Rocafort; Julia A. Vorholt; Jeroen R. Mesters; Michael F. Seidl; Reindert Nijland; Bart P.H.J. Thomma
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Chromatin features define adaptive genomic regions in a fungal plant pathogen

2020-01-28 | Preprint
DOI: 10.1101/2020.01.27.921486
Contributors: David E. Cook; Martin Kramer; Michael F. Seidl; Bart PHJ Thomma
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In silico prediction and characterisation of secondary metabolite clusters in the plant pathogenic fungus Verticillium dahliae

FEMS Microbiology Letters
2019-04-01 | Journal article
DOI: 10.1093/femsle/fnz081
Contributors: Xiaoqian Shi-Kunne; Roger de Pedro Jové; Jasper R L Depotter; Malaika K Ebert; Michael F Seidl; Bart P H J Thomma
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Gene cluster conservation identifies melanin and perylenequinone biosynthesis pathways in multiple plant pathogenic fungi

Environmental Microbiology
2019-03 | Journal article
DOI: 10.1111/1462-2920.14475
Contributors: Malaika K. Ebert; Rebecca E. Spanner; Ronnie de Jonge; David J. Smith; Jason Holthusen; Gary A. Secor; Bart P. H. J. Thomma; Melvin D. Bolton
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The Genome of the Fungal Pathogen Verticillium dahliae Reveals Extensive Bacterial to Fungal Gene Transfer

Genome Biology and Evolution
2019-03-01 | Journal article
DOI: 10.1093/gbe/evz040
Contributors: Xiaoqian Shi-Kunne; Mathijs van Kooten; Jasper R L Depotter; Bart P H J Thomma; Michael F Seidl; Yves Van De Peer
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Long-Read Annotation: Automated Eukaryotic Genome Annotation Based on Long-Read cDNA Sequencing

Plant Physiology
2019-01 | Journal article
DOI: 10.1104/pp.18.00848
Contributors: David E. Cook; Jose Espejo Valle-Inclan; Alice Pajoro; Hanna Rovenich; Bart P.H.J. Thomma; Luigi Faino
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In silico prediction and characterisation of secondary metabolite clusters in the plant pathogenic fungus Verticillium dahliae

2018-11-29 | Other
DOI: 10.1101/481648
Contributors: Xiaoqian Shi-Kunne; Roger de Pedro Jové; Jasper R.L. Depotter; Malaika Ebert; Michael F. Seidl; Bart P.H.J. Thomma
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Crossref

Gene cluster conservation identifies melanin and perylenequinone biosynthesis pathways in multiple plant pathogenic fungi

2018-07-29 | Other
DOI: 10.1101/379305
Contributors: Malaika K. Ebert; Rebecca E. Spanner; Ronnie de Jonge; David J. Smith; Jason Holthusen; Gary A. Secor; Bart P.H.J. Thomma; Melvin D. Bolton
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Crossref

The interspecific fungal hybrid Verticillium longisporum displays sub-genome-specific gene expression

2018-06-07 | Other
DOI: 10.1101/341636
Contributors: Jasper R.L. Depotter; Fabian van Beveren; Luis Rodriguez-Moreno; H. Martin Kramer; Edgar A. Chavarro Carrero; Gabriel L. Fiorin; Grardy C.M. van den Berg; Thomas A. Wood; Bart P.H.J. Thomma; Michael F. Seidl
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Crossref

Evolution within the fungal genus Verticillium is characterized by chromosomal rearrangement and gene loss

Environmental Microbiology
2018-04 | Journal article
DOI: 10.1111/1462-2920.14037
Contributors: Xiaoqian Shi‐Kunne; Luigi Faino; Grardy C. M. van den Berg; Bart P. H. J. Thomma; Michael F. Seidl
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Tools of the crook‐ infection strategies of fungal plant pathogens

The Plant Journal
2018-02 | Journal article
DOI: 10.1111/tpj.13810
Contributors: Luis Rodriguez‐Moreno; Malaika K. Ebert; Melvin D. Bolton; Bart P.H.J. Thomma
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Nuclear and mitochondrial genomes of the hybrid fungal plant pathogen Verticillium longisporum display a mosaic structure

2018-01-17 | Other
DOI: 10.1101/249565
Contributors: Jasper R.L. Depotter; Fabian van Beveren; Grardy C.M. van den Berg; Thomas A. Wood; Bart P.H.J. Thomma; Michael F. Seidl
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Genome Sequence of a Lethal Strain of Xylem-Invading Verticillium nonalfalfae

Genome Announcements
2018-01-11 | Journal article
DOI: 10.1128/genomeA.01458-17
Contributors: Jernej Jakše; Vid Jelen; Sebastjan Radišek; Ronnie de Jonge; Stanislav Mandelc; Aljaž Majer; Tomaž Curk; Blaž Zupan; Bart P. H. J. Thomma; Branka Javornik
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Transposable Elements Direct The Coevolution between Plants and Microbes

Trends in Genetics
2017-11 | Journal article
DOI: 10.1016/j.tig.2017.07.003
Contributors: Michael F. Seidl; Bart P.H.J. Thomma
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Evolution within the fungal genusVerticilliumis characterized by chromosomal rearrangement and gene loss

2017-07-17 | Preprint
DOI: 10.1101/164665
Contributors: Xiaoqian Shi-Kunne; Luigi Faino; Grardy C.M. van den Berg; Bart P.H.J. Thomma; Michael F. Seidl
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A previously established divergent lineage of the hybrid fungal pathogenVerticillium longisporumemerges as stem striping pathogen in British oilseed rape

2017-01-23 | Preprint
DOI: 10.1101/102541
Contributors: Jasper R. L. Depotter; Michael F. Seidl; Grardy C. M. van den Berg; Bart P.H.J. Thomma; Thomas A. Wood
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Conservation of a gene cluster reveals novel cercosporin biosynthetic mechanisms and extends production to the genus Colletotrichum

2017-01-15 | Other
DOI: 10.1101/100545
Contributors: Ronnie de Jonge; Malaika K Ebert; Callie R Huitt-Roehl; Paramita Pal; Jeffrey C Suttle; Rebecca E Spanner; Jonathan D Neubauer; Wayne M Jurick; Karina A Stott; Gary A Secor et al.
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