Daniel Croll

Loop profile ResearcherID Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 68

Top Venues

Nature communications

PLoS pathogens

BMC biology

Molecular ecology

Université de Neuchâtel

Université de Lausanne (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Université de Neuchâtel Jan 01 2017

Switzerland

Assistant Professor :: Institut de biologie

Eidgenössische Technische Hochschule Zürich - Dec 31 2016

Switzerland

Group leader (Oberassistent) :: D-USYS

Eidgenössische Technische Hochschule Zürich

Switzerland

Postdoctoral Fellow :: D-USYS

University of British Columbia

Canada

SNSF Postdoctoral Fellow :: Michael Smith Laboratories

Eidgenössische Technische Hochschule Zürich

Switzerland

Postdoctoral Fellow :: D-USYS

Universite de Lausanne

Switzerland

PhD student :: Ecology & Evolution

Education History

Université de Lausanne

Switzerland

PHD :: Ecology & Evolution

Publications

Leen Nanchira Abraham, Ursula Oggenfuss, Daniel Croll
Population-level transposable element expression dynamics influence trait evolution in a fungal crop pathogen. mBio (2024)
Reda Amezrou, Aurélie Ducasse, Jérôme Compain, Nicolas Lapalu, Anais Pitarch, Laetitia Dupont, Johann Confais, Henriette Goyeau, Gerrit H J Kema, Daniel Croll, Joëlle Amselem, Andrea Sanchez-Vallet, Thierry C Marcel
Quantitative pathogenicity and host adaptation in a fungal plant pathogen revealed by whole-genome sequencing. Nature communications 15 (1) (2024)
Caio Ambrosio Leal-Dutra, Joel Vizueta, Tobias Baril, Pepijn W Kooij, Asta Rødsgaard-Jørgensen, Benjamin H Conlon, Daniel Croll, Jonathan Z Shik
Genomic Signatures of Domestication in a Fungus Obligately Farmed by Leafcutter Ants. Molecular biology and evolution (2024)
Leen Nanchira Abraham, Ursula Oggenfuss, Daniel Croll
Population-level transposable element expression dynamics influence trait evolution in a fungal crop pathogen. mBio 15 (3) (2024)
Thomas Badet, Sabina Moser Tralamazza, Alice Feurtey, Daniel Croll
Recent reactivation of a pathogenicity-associated transposable element is associated with major chromosomal rearrangements in a fungal wheat pathogen. Nucleic acids research 52 (3) (2024)
Thomas Badet, Sabina Moser Tralamazza, Alice Feurtey, Daniel Croll
Recent reactivation of a pathogenicity-associated transposable element is associated with major chromosomal rearrangements in a fungal wheat pathogen. Nucleic acids research 52 (3) (2024)
Daniel Croll
Dimensions of genome dynamics in fungal pathogens: from fundamentals to applications. BMC biology 22 (1) (2024)
Leen Nanchira Abraham, Ursula Oggenfuss, Daniel Croll
Population-level transposable element expression dynamics influence trait evolution in a fungal crop pathogen. mBio 15 (3) (2024)
Reda Amezrou, Aurélie Ducasse, Jérôme Compain, Nicolas Lapalu, Anais Pitarch, Laetitia Dupont, Johann Confais, Henriette Goyeau, Gerrit H J Kema, Daniel Croll, Joëlle Amselem, Andrea Sanchez-Vallet, Thierry C Marcel
Quantitative pathogenicity and host adaptation in a fungal plant pathogen revealed by whole-genome sequencing. Nature communications 15 (1) (2024)
Sabina Moser Tralamazza, Emile Gluck-Thaler, Alice Feurtey, Daniel Croll
Copy number variation introduced by a massive mobile element facilitates global thermal adaptation in a fungal wheat pathogen. Nature communications 15 (1) (2024)
Leen Nanchira Abraham, Ursula Oggenfuss, Daniel Croll
Population-level transposable element expression dynamics influence trait evolution in a fungal crop pathogen. mBio 15 (3) (2024)
Sabina Moser Tralamazza, Emile Gluck-Thaler, Alice Feurtey, Daniel Croll
Copy number variation introduced by a massive mobile element facilitates global thermal adaptation in a fungal wheat pathogen. Nature communications 15 (1) (2024)
Daniel Croll
Dimensions of genome dynamics in fungal pathogens: from fundamentals to applications. BMC biology 22 (1) (2024)
Reda Amezrou, Aurélie Ducasse, Jérôme Compain, Nicolas Lapalu, Anais Pitarch, Laetitia Dupont, Johann Confais, Henriette Goyeau, Gerrit H J Kema, Daniel Croll, Joëlle Amselem, Andrea Sanchez-Vallet, Thierry C Marcel
Quantitative pathogenicity and host adaptation in a fungal plant pathogen revealed by whole-genome sequencing. Nature communications 15 (1) (2024)
Emile Gluck-Thaler, Adrian Forsythe, Charles T S Puerner, Jason E Stajich, Daniel Croll, Robert A Cramer, Aaron A Vogan
Giant transposons promote strain heterogeneity in a major fungal pathogen. bioRxiv : the preprint server for biology (2024)
Daniel Croll
Dimensions of genome dynamics in fungal pathogens: from fundamentals to applications. BMC biology 22 (1) (2024)
Sabina Moser Tralamazza, Emile Gluck-Thaler, Alice Feurtey, Daniel Croll
Copy number variation introduced by a massive mobile element facilitates global thermal adaptation in a fungal wheat pathogen. Nature communications 15 (1) (2024)
Thomas Badet, Sabina Moser Tralamazza, Alice Feurtey, Daniel Croll
Recent reactivation of a pathogenicity-associated transposable element is associated with major chromosomal rearrangements in a fungal wheat pathogen. Nucleic acids research 52 (3) (2024)
Tobias Baril, Daniel Croll
A pangenome-guided manually curated library of transposable elements for Zymoseptoria tritici. BMC research notes 16 (1) (2023)
Ursula Oggenfuss, Daniel Croll
Recent transposable element bursts are associated with the proximity to genes in a fungal plant pathogen. PLoS pathogens 19 (2) (2023)
Artemis D Treindl, Jessica Stapley, Daniel Croll, Adrian Leuchtmann
Two-speed genomes of Epichloe fungal pathogens show contrasting signatures of selection between species and across populations. Molecular ecology (2023)
Ursula Oggenfuss, Daniel Croll
Recent transposable element bursts are associated with the proximity to genes in a fungal plant pathogen. PLoS pathogens 19 (2) (2023)
Hadjer Bellah, Gwilherm Gazeau, Sandrine Gélisse, Reda Amezrou, Thierry C Marcel, Daniel Croll
A highly multiplexed assay to monitor pathogenicity, fungicide resistance and gene flow in the fungal wheat pathogen Zymoseptoria tritici. PloS one 18 (2) (2023)
Hadjer Bellah, Gwilherm Gazeau, Sandrine Gélisse, Reda Amezrou, Thierry C Marcel, Daniel Croll
A highly multiplexed assay to monitor pathogenicity, fungicide resistance and gene flow in the fungal wheat pathogen Zymoseptoria tritici. PloS one 18 (2) (2023)
Alice Feurtey, Cécile Lorrain, Megan C McDonald, Andrew W Milgate, Peter S Solomon, Rachael Warren, Guido Puccetti, Gabriel Scalliet, Stefano F F Torriani, Lilian Gout, Thierry C Marcel, Frédéric Suffert, Julien Alassimone, Anna Lipzen, Yuko Yoshinaga, Christopher Daum, Kerrie Barry, Igor V Grigoriev, Stephen B Goodwin, Anne Genissel, Michael F Seidl, Eva Holtgrewe Stukenbrock, Marc-Henri Lebrun, Gerrit H J Kema, Bruce Alan McDonald, Daniel Croll
A thousand-genome panel retraces the global spread and adaptation of a major fungal crop pathogen. Nature communications 14 (1) (2023)
Anik Dutta, Bruce A McDonald, Daniel Croll
Combined reference-free and multi-reference based GWAS uncover cryptic variation underlying rapid adaptation in a fungal plant pathogen. PLoS pathogens 19 (11) (2023)
Hadjer Bellah, Gwilherm Gazeau, Sandrine Gélisse, Reda Amezrou, Thierry C Marcel, Daniel Croll
A highly multiplexed assay to monitor pathogenicity, fungicide resistance and gene flow in the fungal wheat pathogen Zymoseptoria tritici. PloS one 18 (2) (2023)
Leen Nanchira Abraham, Daniel Croll
Genome-wide expression QTL mapping reveals the highly dynamic regulatory landscape of a major wheat pathogen. BMC biology 21 (1) (2023)
Alice Feurtey, Cécile Lorrain, Megan C McDonald, Andrew W Milgate, Peter S Solomon, Rachael Warren, Guido Puccetti, Gabriel Scalliet, Stefano F F Torriani, Lilian Gout, Thierry C Marcel, Frédéric Suffert, Julien Alassimone, Anna Lipzen, Yuko Yoshinaga, Christopher Daum, Kerrie Barry, Igor V Grigoriev, Stephen B Goodwin, Anne Genissel, Michael F Seidl, Eva Holtgrewe Stukenbrock, Marc-Henri Lebrun, Gerrit H J Kema, Bruce Alan McDonald, Daniel Croll
A thousand-genome panel retraces the global spread and adaptation of a major fungal crop pathogen. Nature communications 14 (1) (2023)
Alice Feurtey, Cécile Lorrain, Megan C McDonald, Andrew W Milgate, Peter S Solomon, Rachael Warren, Guido Puccetti, Gabriel Scalliet, Stefano F F Torriani, Lilian Gout, Thierry C Marcel, Frédéric Suffert, Julien Alassimone, Anna Lipzen, Yuko Yoshinaga, Christopher Daum, Kerrie Barry, Igor V Grigoriev, Stephen B Goodwin, Anne Genissel, Michael F Seidl, Eva Holtgrewe Stukenbrock, Marc-Henri Lebrun, Gerrit H J Kema, Bruce Alan McDonald, Daniel Croll
A thousand-genome panel retraces the global spread and adaptation of a major fungal crop pathogen. Nature communications 14 (1) (2023)
Ursula Oggenfuss, Daniel Croll
Recent transposable element bursts are associated with the proximity to genes in a fungal plant pathogen. PLoS pathogens 19 (2) (2023)
Ursula Oggenfuss, Daniel Croll
Recent transposable element bursts are associated with the proximity to genes in a fungal plant pathogen. PLoS pathogens 19 (2) (2023)
Reda Amezrou, Colette Audéon, Jérôme Compain, Sandrine Gélisse, Aurélie Ducasse, Cyrille Saintenac, Nicolas Lapalu, Clémentine Louet, Simon Orford, Daniel Croll, Joelle Amselem, Sabine Fillinger, Thierry C Marcel
A secreted protease-like protein in Zymoseptoria tritici is responsible for avirulence on Stb9 resistance gene in wheat. PLoS pathogens 19 (5) (2023)
Hadjer Bellah, Nicolas F Seiler, Daniel Croll
Divergent Outcomes of Direct Conspecific Pathogen Strain Interaction and Plant Co-Infection Suggest Consequences for Disease Dynamics. Microbiology spectrum (2023)
Thomas Badet, Sabina Moser Tralamazza, Alice Feurtey, Daniel Croll
Recent reactivation of a pathogenicity-associated transposable element is associated with major chromosomal rearrangements in a fungal wheat pathogen. Nucleic acids research (2023)
Lea Stauber, Daniel Croll, Simone Prospero
Temporal changes in pathogen diversity in a perennial plant-pathogen-hyperparasite system. Molecular ecology 31 (7) (2022)
Frank E Rheindt, Luke A'Bear, Dennis M Hansen, Leyla R Davis, Nancy Bunbury, Arpat Ozgul, Daniel Croll, Christine Grossen
Chromosome-level genome assembly for the Aldabra giant tortoise enables insights into the genetic health of a threatened population. GigaScience 11 (2022)
Nikhil Kumar Singh, Sabina Moser Tralamazza, Leen Nanchira Abraham, Gaétan Glauser, Daniel Croll
Genome-wide association mapping reveals genes underlying population-level metabolome diversity in a fungal crop pathogen. BMC biology 20 (1) (2022)
Evan John, Silke Jacques, Huyen T T Phan, Lifang Liu, Danilo Dos Santos Pereira, Daniel Croll, Karam B Singh, Richard P Oliver, Kar-Chun Tan
Variability in an effector gene promoter of a necrotrophic fungal pathogen dictates epistasis and effector-triggered susceptibility in wheat. PLoS pathogens 18 (1) (2022)
Luzia Stalder, Ursula Oggenfuss, Norfarhan Mohd-Assaad, Daniel Croll
The population genetics of adaptation through copy number variation in a fungal plant pathogen. Molecular ecology (2022)
Matthias Kretschmer, Djihane Damoo, Sherry Sun, Christopher W J Lee, Daniel Croll, Harry Brumer, James W Kronstad
Organic acids and glucose prime late-stage fungal biotrophy in maize. Science (New York, N.Y.) 376 (6598) (2022)
Vinciane Monod, Valérie Hofstetter, Vivian Zufferey, Olivier Viret, Katia Gindro, Daniel Croll
Quantifying Trade-Offs in the Choice of Ribosomal Barcoding Markers for Fungal Amplicon Sequencing: a Case Study on the Grapevine Trunk Mycobiome. Microbiology spectrum (2022)
Sandra González-Sayer, Ursula Oggenfuss, Ibonne García, Fabio Aristizabal, Daniel Croll, Diego Mauricio Riaño-Pachón
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees. Genetics and molecular biology 45 (1) (2022)
Yong-Joon Cho, Taeyune Kim, Daniel Croll, Minji Park, Donghyeun Kim, Hye Lim Keum, Woo Jun Sul, Won Hee Jung
Genome of Malassezia arunalokei and Its Distribution on Facial Skin. Microbiology spectrum 10 (3) (2022)
Thomas Badet, Simone Fouché, Fanny E Hartmann, Marcello Zala, Daniel Croll
Machine-learning predicts genomic determinants of meiosis-driven structural variation in a eukaryotic pathogen. Nature communications 12 (1) (2021)
Camille Kessler, Alice Brambilla, Dominique Waldvogel, Glauco Camenisch, Iris Biebach, Deborah M Leigh, Christine Grossen, Daniel Croll
A robust sequencing assay of a thousand amplicons for the high-throughput population monitoring of Alpine ibex immunogenetics. Molecular ecology resources (2021)
Benjamin Dauphin, Maíra de Freitas Pereira, Annegret Kohler, Igor V Grigoriev, Kerrie W Barry, Hyunsoo Na, Mojgan Amirebrahimi, Anna Lipzen, Francis M Martin, Martina Peter, Daniel Croll
Cryptic genetic structure and copy-number variation in the ubiquitous forest symbiotic fungus Cenococcum geophilum. Environmental microbiology 23 (11) (2021)
Selma Cadot, Valentin Gfeller, Lingfei Hu, Nikhil Singh, Andrea Sanchez-Vallet, Gaétan Glauser, Daniel Croll, Matthias Erb, Marcel G A van der Heijden, Klaus Schlaeppi
Soil composition and plant genotype determine benzoxazinoid-mediated plant-soil feedbacks in cereals. Plant, cell & environment 44 (12) (2021)
Vinciane Mossion, Benjamin Dauphin, Jason Grant, Michael Kessler, Niklaus Zemp, Daniel Croll
Transcriptome-wide SNPs for Botrychium lunaria ferns enable fine-grained analysis of ploidy and population structure. Molecular ecology resources (2021)
Anik Dutta, Fanny E Hartmann, Carolina Sardinha Francisco, Bruce A McDonald, Daniel Croll
Mapping the adaptive landscape of a major agricultural pathogen reveals evolutionary constraints across heterogeneous environments. The ISME journal 15 (5) (2021)
Ursula Oggenfuss, Thomas Badet, Thomas Wicker, Fanny E Hartmann, Nikhil Kumar Singh, Leen Abraham, Petteri Karisto, Tiziana Vonlanthen, Christopher C Mundt, Bruce Alan McDonald, Daniel Croll
A population-level invasion by transposable elements triggers genome expansion in a fungal pathogen. eLife 10 (2021)
Lea Stauber, Thomas Badet, Alice Feurtey, Simone Prospero, Daniel Croll
Emergence and diversification of a highly invasive chestnut pathogen lineage across southeastern Europe. eLife 10 (2021)
Lea Stauber, Simone Prospero, Daniel Croll
Comparative Genomics Analyses of Lifestyle Transitions at the Origin of an Invasive Fungal Pathogen in the Genus Cryphonectria. mSphere 5 (5) (2020)
Anik Dutta, Daniel Croll, Bruce A McDonald, Luke G Barrett
Maintenance of variation in virulence and reproduction in populations of an agricultural plant pathogen. Evolutionary applications 14 (2) (2020)
Christine Grossen, Frédéric Guillaume, Lukas F Keller, Daniel Croll
Purging of highly deleterious mutations through severe bottlenecks in Alpine ibex. Nature communications 11 (1) (2020)
Pilar Vesga, Pascale Flury, Jordan Vacheron, Christoph Keel, Daniel Croll, Monika Maurhofer
Transcriptome plasticity underlying plant root colonization and insect invasion by Pseudomonas protegens. The ISME journal 14 (11) (2020)
Like Fokkens, Li Guo, Susanne Dora, Bo Wang, Kai Ye, Clara Sánchez-Rodríguez, Daniel Croll
A Chromosome-Scale Genome Assembly for the Fusarium oxysporum Strain Fo5176 To Establish a Model Arabidopsis-Fungal Pathosystem. G3 (Bethesda, Md.) 10 (10) (2020)
Fanny E Hartmann, Tiziana Vonlanthen, Nikhil Kumar Singh, Megan C McDonald, Andrew Milgate, Daniel Croll
The complex genomic basis of rapid convergent adaptation to pesticides across continents in a fungal plant pathogen. Molecular ecology 30 (21) (2020)
Renate Heinzelmann, Daniel Rigling, György Sipos, Martin Münsterkötter, Daniel Croll
Chromosomal assembly and analyses of genome-wide recombination rates in the forest pathogenic fungus Armillaria ostoyae. Heredity 124 (6) (2020)
Thomas Badet, Ursula Oggenfuss, Leen Abraham, Bruce A McDonald, Daniel Croll
A 19-isolate reference-quality global pangenome for the fungal wheat pathogen Zymoseptoria tritici. BMC biology 18 (1) (2020)
Andrea Sanchez-Vallet, Hui Tian, Luis Rodriguez-Moreno, Dirk-Jan Valkenburg, Raspudin Saleem-Batcha, Stephan Wawra, Anja Kombrink, Leonie Verhage, Ronnie de Jonge, H Peter van Esse, Alga Zuccaro, Daniel Croll, Jeroen R Mesters, Bart P H J Thomma
A secreted LysM effector protects fungal hyphae through chitin-dependent homodimer polymerization. PLoS pathogens 16 (6) (2020)
Norfarhan Mohd-Assaad, Bruce A McDonald, Daniel Croll
The emergence of the multi-species NIP1 effector in Rhynchosporium was accompanied by high rates of gene duplications and losses. Environmental microbiology 21 (8) (2019)
Fanny E Hartmann, Bruce Alan McDonald, Daniel Croll
Genome-wide evidence for divergent selection between populations of a major agricultural pathogen. Molecular ecology 27 (12) (2018)
Paulo Cezar Ceresini, Vanina Lilián Castroagudín, Fabrício Ávila Rodrigues, Jonas Alberto Rios, Carlos Eduardo Aucique-Pérez, Silvino Intra Moreira, Daniel Croll, Eduardo Alves, Giselle de Carvalho, João Leodato Nunes Maciel, Bruce Alan McDonald
Wheat blast: from its origins in South America to its emergence as a global threat. Molecular plant pathology 20 (2) (2018)
Clémence Plissonneau, Fanny E Hartmann, Daniel Croll
Pangenome analyses of the wheat pathogen Zymoseptoria tritici reveal the structural basis of a highly plastic eukaryotic genome. BMC biology 16 (1) (2018)
Andrea Sánchez-Vallet, Fanny E Hartmann, Thierry C Marcel, Daniel Croll
Nature's genetic screens: using genome-wide association studies for effector discovery. Molecular plant pathology 19 (1) (2018)
Melanie K Schirrmann, Stefan Zoller, Daniel Croll, Eva H Stukenbrock, Adrian Leuchtmann, Simone Fior
Genomewide signatures of selection in Epichloë reveal candidate genes for host specialization. Molecular ecology 27 (15) (2018)
Clémence Plissonneau, Alessandra Stürchler, Daniel Croll
The Evolution of Orphan Regions in Genomes of a Fungal Pathogen of Wheat. mBio 7 (5) (2016)

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Publication Activity (10 Years)

Top Topics

Top Venues

Daniel Croll