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Researcher
Tom Ruttink
Profile
Projects
Publications
Activities
Awards & Distinctions
112
Results
2025
A molecular survey of the occurrence of coffee berry disease resistant coffee cultivars near the wild gene pool of Arabica coffee in its region of origin in Southwest Ethiopia
Yves Bawin
Beyene Zewdie
Biruk Ayalew
Isabel Roldán-Ruiz
Steven B. Janssens
Ayco J. M. Tack
Sileshi Nemomissa
Kassahun Tesfaye
Kristoffer Hylander
Olivier Honnay
et al.
A1
Journal Article
in
MOLECULAR ECOLOGY RESOURCES
2025
Division zone activity determines the potential of drought‐stressed maize leaves to resume growth after rehydration
Tom Van Hautegem
Hironori Takasaki
Christian Lorenzo
Kirin Demuynck
Hannes Claeys
Timothy Villers
Heike Sprenger
Kevin Debray
Dries Schaumont
Lennart Verbraeken
et al.
A1
Journal Article
in
PLANT CELL AND ENVIRONMENT
2025
Multiple source locations and long-distance dispersal explain the rapid spread of a recent amphibian invasion
Teun Everts
Io Deflem
Charlotte Van Driessche
Sabrina Neyrinck
Tom Ruttink
Hans Jacquemyn
Rein Brys
U
Journal Article
in
Heredity
2025
Single nucleotide polymorphisms reveal novel insights in biological and management units of common sole (Solea solea) in the Celtic Seas
Sarah M. Maes
Lies Vansteenbrugge
Margo Van Canneyt
Tom Ruttink
Els Torreele
Sofie Derycke
A1
Journal Article
in
ICES JOURNAL OF MARINE SCIENCE
2025
2024
Characterization of fine geographic scale population genetics in sugar kelp (Saccharina latissima) using genome-wide markers
Signe Bråtelund
Tom Ruttink
Franz Goecke
Ole Jacob Broch
Gunnar Klemetsdal
Jørgen Ødegård
Åshild Ergon
A1
Journal Article
in
BMC GENOMICS
2024
Crop-to-wild gene flow in wild coffee species : the case of Coffea canephora in the Democratic Republic of the Congo
Lauren Verleysen
Jonas Depecker
Robrecht Bollen
Justin Asimonyio
Yves Hatangi
Jean-Léon Kambale
Ithe Mwanga Mwanga
Thsimi Ebele
Benoit Dhed'a
Piet Stoffelen
et al.
A1
Journal Article
in
ANNALS OF BOTANY
2024
Detection and quantification of two commercial flatfishes (Solea solea and Pleuronectes platessa) in the North Sea using environmental DNA
Sarah M. Maes
Sam Desmet
Rein Brys
Klaas Sys
Tom Ruttink
Sara Maes
Kris Hostens
Lies Vansteenbrugge
Sofie Derycke
A2
Journal Article
in
ENVIRONMENTAL DNA
2024
GWAS for drought resilience traits in red clover (Trifolium pratense L.)
Tim Vleugels
Tom Ruttink
Daniel Ariza-Suarez
Reena Dubey
Aamir Saleem
Isabel Roldán-Ruiz
Hilde Muylle
A1
Journal Article
in
GENES
2024
Haitian coffee agroforestry systems harbor complex arabica variety mixtures and under-recognized genetic diversity
Claude Patrick Millet
Clémentine Allinne
Tram Vi
Pierre Marraccini
Lauren Verleysen
Marie Couderc
Tom Ruttink
Dapeng Zhang
William Solano Sanchéz
Christine Tranchant-Dubreuil
et al.
A1
Journal Article
in
PLOS ONE
2024
Including marker x environment interactions improves genomic prediction in red clover (Trifolium pratense L.)
Leif Skøt
Michelle M. Nay
Christoph Grieder
Lea A. Frey
Marie Pégard
Linda Öhlund
Helga Amdahl
Jasmina Radovic
Libor Jaluvka
Anna Palmé
et al.
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2024
Metabolite profiles of green leaves and coffee beans as predictors of coffee sensory quality in Robusta (Coffea canephora) germplasm from the Democratic Republic of the Congo
Robrecht Bollen
Olga Rojo-Poveda
Lauren Verleysen
Rachel Ndezu
Ebele Aaron Tshimi
Hélène Mavar
Tom Ruttink
Olivier Honnay
Piet Stoffelen
Caroline Stévigny
et al.
A2
Journal Article
in
APPLIED FOOD RESEARCH
2024
Nematodes alter the taxonomic and functional profiles of benthic bacterial communities : a metatranscriptomic approach
Rodgee Mae Guden
Annelies Haegeman
Tom Ruttink
Tom Moens
Sofie Derycke
A1
Journal Article
in
MOLECULAR ECOLOGY
2024
Optimized tetraploidization strategies in tissue culture for Lolium, Festuca, and Festulolium
Marlies Peeters
Isabelle Maryns
An Ghesquière
Katrijn Van Laere
Yves Van de Peer
Tom Ruttink
Leen Leus
A1
Journal Article
in
BIOLOGIA PLANTARUM
2024
Phenological mismatches mitigate the ecological impact of a biological invader on amphibian communities
Teun Everts
Charlotte Van Driessche
Sabrina Neyrinck
Annelies Haegeman
Tom Ruttink
Hans Jacquemyn
Rein Brys
A1
Journal Article
in
ECOLOGICAL APPLICATIONS
2024
QTL discovery for agronomic and quality traits in diploid potato clones using PotatoMASH amplicon sequencing
Lea Vexler
Maria de la O Leyva-Perez
Agnieszka Konkolewska
Corentin R Clot
Stephen Byrne
Denis Griffin
Tom Ruttink
Ronald C B Hutten
Christel Engelen
Richard G F Visser
et al.
A1
Journal Article
in
G3-GENES GENOMES GENETICS
2024
Sensory profiles of Robusta coffee (Coffea canephora) genetic resources from the Democratic Republic of the Congo
Robrecht Bollen
Lauren Verleysen
Benjamin Ntumba Katshela
Jean-Léon Kambale
Tshimi Ebele
Tom Ruttink
Filip Vandelook
Olivier Honnay
Piet Stoffelen
A1
Journal Article
in
FRONTIERS IN SUSTAINABLE FOOD SYSTEMS
2024
The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars
Jarkko Salojärvi
Aditi Rambani
Zhe Yu
Romain Guyot
Susan Strickler
Maud Lepelley
Cui Wang
Sitaram Rajaraman
Pasi Rastas
Chunfang Zheng
et al.
A1
Journal Article
in
NATURE GENETICS
2024
2023
A genome-wide association study of freezing tolerance in red clover (Trifolium pratense L.) germplasm of European origin
Stefano Zanotto
Tom Ruttink
Marie Pégard
Leif Skøt
Christoph Grieder
Roland Kölliker
Åshild Ergon
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2023
BREEDIT : a multiplex genome editing strategy to improve complex quantitative traits in maize
Christian Lorenzo
Kevin Debray
Denia Herwegh
Ward Develtere
Lennert Impens
Dries Schaumont
Wout Vandeputte
Stijn Aesaert
Griet Coussens
Yara De Boe
et al.
A1
Journal Article
in
PLANT CELL
2023
CRISPR/Cas mutation screening : from mutant allele detection to prediction of protein coding potential
Elke Vereecke
Katrijn Van Laere
Tom Ruttink
Bookchapter
in
A roadmap for plant genome editing
2023
Characterization of the genetic composition and establishment of a core collection for the INERA Robusta coffee (Coffea canephora) field genebank from the Democratic Republic of Congo
Lauren Verleysen
Robrecht Bollen
Jean-Léon Kambale
Tshimi Ebele
Benjamin Ntumba Katshela
Jonas Depecker
Valérie Poncet
Dieu-Merci Assumani
Filip Vandelook
Piet Stoffelen
et al.
A1
Journal Article
in
FRONTIERS IN SUSTAINABLE FOOD SYSTEMS
2023
Combining multiplex gene editing and doubled haploid technology in maize
Lennert Impens
Christian Lorenzo
Wout Vandeputte
Pieter Wytynck
Kevin Debray
Jari Haeghebaert
Denia Herwegh
Thomas B. Jacobs
Tom Ruttink
Hilde Nelissen
et al.
A1
Journal Article
in
NEW PHYTOLOGIST
2023
Exploring genetic diversity in an Ilex crenata breeding germplasm
Esther Geukens
Annelies Haegeman
Jef Van Meulder
Katrijn Van Laere
Erik Smolders
Tom Ruttink
Leen Leus
A1
Journal Article
in
HORTICULTURAE
2023
Genetic diversity and structure in wild Robusta coffee (Coffea canephora A. Froehner) populations in Yangambi (DR Congo) and their relation to forest disturbance
Jonas Depecker
Lauren Verleysen
Justin A. Asimonyio
Yves Hatangi
Jean-Léon Kambale
Ithe Mwanga Mwanga
Tshimi Ebele
Benoit Dhed’a
Yves Bawin
Ariane Staelens
et al.
A1
Journal Article
in
HEREDITY
2023
Genome dominance in interspecific and intergeneric hybrids of Lolium, Festuca and Festulolium
Tom Ruttink
Marlies Peeters
Isabelle Maryns
Leen Leus
Joost Baert
An Ghesquiere
Mathias Cougnon
Aurélie Tredé
Sabine van Glabeke
Tom Eeckhaut
et al.
C3
Conference
2023
Genome-wide genotyping data renew knowledge on genetic diversity of a worldwide alfalfa collection and give insights on genetic control of phenology traits
Marie Pégard
Philippe Barre
Sabrina Delaunay
Fabien Surault
Djura Karagić
Dragan Milić
Miroslav Zorić
Tom Ruttink
Bernadette Julier
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2023
Home sweet home : the genetic and phenotypic adaptation of red clover to European growing environments
Michelle M. Nay
Christoph Grieder
Lea A. Frey
Helga Amdahl
Jasmina Radovic
Libor Jaluvka
Anna Palmé
Leif Skøt
Tom Ruttink
Roland Kölliker
C3
Conference
2023
Identification and characterization of CYP71 subclade cytochrome P450 enzymes involved in the biosynthesis of bitterness compounds in Cichorium intybus
Charlotte De Bruyn
Tom Ruttink
Elia Lacchini
Stephane Rombauts
Annelies Haegeman
ellen de keyser
Christof Van Poucke
Sandrien Desmet
Thomas B. Jacobs
Tom Eeckhaut
et al.
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2023
Industrial chicory genome gives insights into the molecular timetable of anther development and male sterility
Evelien Waegneer
Stephane Rombauts
Joost Baert
Nicolas Dauchot
Annick De Keyser
Tom Eeckhaut
Annelies Haegeman
Chang Liu
Olivier Maudoux
Christine Notté
et al.
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2023
Multi-location trials and population-based genotyping reveal high diversity and adaptation to breeding environments in a large collection of red clover
Michelle M. Nay
Christoph Grieder
Lea A. Frey
Helga Amdahl
Jasmina Radovic
Libor Jaluvka
Anna Palmé
Leif Skøt
Tom Ruttink
Roland Kölliker
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2023
Multiplex CRISPR/Cas9 editing of susceptibility genes for durable resistance to late blight disease in potato
Ania Lukasiewicz
Thomas B. Jacobs
Tom Ruttink
Tom Eeckhaut
Frank Van Breusegem
Dissertation
2023
Optimized tetraploidization strategies in tissue culture for Lolium and Festuca
Marlies Peeters
Isabelle Maryns
Leen Leus
Joost Baert
An Ghesquiere
Mathias Cougnon
Aurélie Tredé
Sabine van Glabeke
Tom Eeckhout
Katrijn Van Laere
et al.
U
Conference
2023
SMAP design : a multiplex PCR amplicon and gRNA design tool to screen for natural and CRISPR-induced genetic variation
Ward Develtere
Evelien Waegneer
Kevin Debray
Jonas De Saeger
Sabine Van Glabeke
Steven Maere
Tom Ruttink
Thomas B. Jacobs
A1
Journal Article
in
NUCLEIC ACIDS RESEARCH
2023
The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars
Jarkko Salojärvi
Aditi Rambani
Zhe Yu
Romain Guyot
Susan Strickler
Maud Lepelley
Cui Wang
Sitaram Rajaraman
Pasi Rastas
Chunfang Zheng
et al.
Preprint
2023
Using environmental DNA metabarcoding to monitor fish communities in small rivers and large brooks : Insights on the spatial scale of information
Charlotte Van Driessche
Teun Everts
Sabrina Neyrinck
David Halfmaerten
Annelies Haegeman
Tom Ruttink
Dries Bonte
Rein Brys
A1
Journal Article
in
ENVIRONMENTAL RESEARCH
2023
2022
Chromosome-scale assembly and annotation of the perennial ryegrass genome
Istvan Nagy
Elisabeth Veeckman
Chang Liu
Michiel Van Bel
Klaas Vandepoele
Christian Sig Jensen
Tom Ruttink
Torben Asp
A1
Journal Article
in
BMC GENOMICS
2022
Covering the combinatorial design space of multiplex CRISPR/Cas experiments in plants
Kirsten Van Huffel
Michiel Stock
Tom Ruttink
Bernard De Baets
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2022
Genetic composition and diversity of Arabica coffee in the crop’s centre of origin and its impact on four major fungal diseases
Beyene Zewdie
Yves Bawin
Ayco J. M. Tack
Sileshi Nemomissa
Kassahun Tesfaye
Steven B. Janssens
Sabine Van Glabeke
Isabel Roldán-Ruiz
Tom Ruttink
Olivier Honnay
et al.
A1
Journal Article
in
MOLECULAR ECOLOGY
2022
Genetic variation in wild and cultivated Arabica coffee Coffea arabica L. : evolutionary origin, global distribution, and its effect on fungal disease incidence in Southwest Ethiopia
Yves Bawin
Olivier Honnay
Isabel Roldán-Ruiz
Steven Janssens
Tom Ruttink
Dissertation
2022
Identification of loci controlling timing of stem elongation in red clover using genotyping by sequencing of pooled phenotypic extremes
Åshild Ergon
Øystein W. Milvang
Leif Skøt
Tom Ruttink
A1
Journal Article
in
MOLECULAR GENETICS AND GENOMICS
2022
Phenotypic variation and quantitative trait loci for resistance to southern anthracnose and clover rot in red clover
Lea A. Frey
Tim Vleugels
Tom Ruttink
Franz X. Schubiger
Marie Pégard
Leif Skøt
Christoph Grieder
Bruno Studer
Isabel Roldán-Ruiz
Roland Kölliker
A1
Journal Article
in
THEORETICAL AND APPLIED GENETICS
2022
PotatoMASH : a low cost, genome-scanning marker system for use in potato genomics and genetics applications
Maria de la O. Leyva-Pérez
Lea Vexler
Stephen Byrne
Corentin R. Clot
Fergus Meade
Denis Griffin
Tom Ruttink
Jie Kang
Dan Milbourne
A1
Journal Article
in
AGRONOMY-BASEL
2022
SMAP design : a multiplex PCR amplicon and gRNA design tool to screen for natural and CRISPR-induced genetic variation
Ward Develtere
Evelien Waegneer
Kevin Debray
Sabine Van Glabeke
Steven Maere
Tom Ruttink
Thomas B. Jacobs
Preprint
2022
Seasonal differences in structural and genetic control of digestibility in perennial ryegrass
Vincent Colas
Philippe Barre
Frederik van Parijs
Lukas Wolters
Yannick Quitté
Tom Ruttink
Isabel Roldán-Ruiz
Abraham J. Escobar Gutiérrez
Hilde Muylle
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2022
Stack Mapping Anchor Points (SMAP) : a versatile suite of tools for read-backed haplotyping
Dries Schaumont
Elisabeth Veeckman
Felix Van der Jeugt
Annelies Haegeman
Sabine Van Glabeke
Yves Bawin
Joanna Lukasiewicz
Sebastien Blugeon
Philippe Barre
Maria de la O Leyva-Pérez
et al.
Preprint
2022
2021
A genome-wide genetic diversity scan reveals multiple signatures of selection in a European soybean collection compared to Chinese collections of wild and cultivated soybean accessions
Aamir Saleem
Hilde Muylle
Jonas Aper
Tom Ruttink
Jiao Wang
Deyue Yu
Isabel Roldán-Ruiz
A1
Journal Article
in
FRONTIERS IN PLANT SCIENCE
2021
Canonical correlations reveal adaptive loci and phenotypic responses to climate in perennial ryegrass
José Luis Blanco‐Pastor
Philippe Barre
Thomas Keep
Thomas Ledauphin
Abraham Escobar‐Gutiérrez
Anna Maria Roschanski
Evelyn Willner
Klaus J. Dehmer
Matthew Hegarty
Hilde Muylle
et al.
A1
Journal Article
in
MOLECULAR ECOLOGY RESOURCES
2021
Elucidating the genetic control of southern anthracnose resistance in red clover
Lea A. Frey
Franz X. Schubiger
Tom Ruttink
Leif Skøt
Bruno Studer
Roland Kölliker
C1
Conference
2021
Genomic and phenotypic diversity for adaption to future climate in natural populations of perennial ryegrass
José Luis Blanco-Pastor
Thomas Keep
Philippe Barre
Abraham Escobar-Gutiérrez
Evelin Willner
Klaus J. Dehmer
Matthew Hegarty
Hilde Muylle
Tom Ruttink
Isabel Roldán-Ruiz
et al.
C1
Conference
2021
Inter-annual and spatial climatic variability have led to a balance between local fluctuating selection and wide-range directional selection in a perennial grass species
T Keep
S Rouet
J L Blanco-Pastor
P Barre
Tom Ruttink
K J Dehmer
M Hegarty
T Ledauphin
I Litrico
H Muylle
et al.
A1
Journal Article
in
ANNALS OF BOTANY
2021
Monitoring of spatiotemporal occupancy patterns of fish and amphibian species in a lentic aquatic system using environmental DNA
Rein Brys
Annelies Haegeman
David Halfmaerten
Sabrina Neyrinck
Ariane Staelens
Johan Auwerx
Tom Ruttink
A1
Journal Article
in
MOLECULAR ECOLOGY
2021
Optimisation of GBS protocols for efficient genotyping of forage species
Bernadette Julier
Sébastien Blugeon
Sabrina Delaunay
Gaëtan Mappa
Tom Ruttink
Marie Pégard
Philippe Barre
C1
Conference
2021
Phylogenomic analysis clarifies the evolutionary origin of Coffea arabica
Yves Bawin
Tom Ruttink
Ariane Staelens
Annelies Haegeman
Piet Stoffelen
Jean‐Claude ItheMwanga Mwanga
Isabel Roldán-Ruiz
Olivier Honnay
Steven B. Janssens
A1
Journal Article
in
JOURNAL OF SYSTEMATICS AND EVOLUTION
2021
Reciprocal allopolyploid grasses (Festuca × Lolium) display stable patterns of genome dominance
Marek Glombik
Dario Copetti
Jan Bartos
Stepan Stoces
Zbigniew Zwierzykowski
Tom Ruttink
Jonathan F. Wendel
Martin Duchoslav
Jaroslav Dolezel
Bruno Studer
et al.
A1
Journal Article
in
PLANT JOURNAL
2021
To grow or survive : which are the strategies of a perennial grass to face severe seasonal stress?
Thomas Keep
Jean‐Paul Sampoux
Philippe Barre
José‐Luis Blanco‐Pastor
Klaus J. Dehmer
Jean‐Louis Durand
Matt Hegarty
Thomas Ledauphin
Hilde Muylle
Isabel Roldán-Ruiz
et al.
A1
Journal Article
in
FUNCTIONAL ECOLOGY
2021
Unravelling hybridization in Phytophthora using phylogenomics and genome size estimation
Kris Van Poucke
Annelies Haegeman
Thomas Goedefroit
Fran Focquet
Leen Leus
Marília Horta Jung
Corina Nave
Miguel Angel Redondo
Claude Husson
Kaloyan Kostov
et al.
A1
Journal Article
in
IMA FUNGUS
2021
2020
Establishment of CRISPR/Cas9 genome editing in witloof (Cichorium intybus var. foliosum)
Charlotte De Bruyn
Tom Ruttink
Tom Eeckhaut
Thomas B. Jacobs
Ellen De Keyser
Alain Goossens
Katrijn Van Laere
A2
Journal Article
in
FRONTIERS IN GENOME EDITING
2020
High-throughput genome-wide genotyping to optimize the use of natural genetic resources in the grassland species perennial ryegrass Lolium perenne L.
Thomas Keep
Jean-Paul Sampoux
José Luis Blanco-Pastor
Klaus J Dehmer
Matthew J Hegarty
Thomas Ledauphin
Isabelle Litrico
Hilde Muylle
Isabel Roldán-Ruiz
Anna M Roschanski
et al.
A1
Journal Article
in
G3-GENES GENOMES GENETICS
2020
Population genomic structure of the gelatinous zooplankton species Mnemiopsis leidyi in its nonindigenous range in the North Sea
Christophe Verwimp
Lies Vansteenbrugge
Sofie Derycke
Thomas Kerkhove
Hilde Muylle
Olivier Honnay
Tom Ruttink
Isabel Roldán-Ruiz
Kris Hostens
A1
Journal Article
in
ECOLOGY AND EVOLUTION
2020
Whole-genome deep sequencing reveals host-driven in-planta evolution of Columnea Latent Viroid (CLVd) quasi-species populations
Parichate Tangkanchanapas
Annelies Haegeman
Tom Ruttink
Monica Höfte
Kris De Jonghe
A1
Journal Article
in
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
2020
2019
Advances and perspectives in the application of genomic tools for research and breeding of forage crops
Isabel Roldán-Ruiz
Tom Ruttink
Hilde Muylle
Christophe Verwimp
Elisabeth Veeckman
Gerda Cnops
Tim Vleugels
Philippe Barre
C1
Conference
2019
Cichorium intybus L. × Cicerbita alpina Walbr. : doubled haploid chicory induction and CENH3 characterization
Jeroen Van der Veken
Tom Eeckhaut
Joost Baert
Tom Ruttink
Olivier Maudoux
Stefaan Werbrouck
Johan Van Huylenbroeck
A1
Journal Article
in
EUPHYTICA
2019
Environment-genotype-phenotype associations to detect candidate loci for climatic adaptation in perennial ryegrass
Jose Luis Blanco-Pastor
Stephanie Manel
Philippe Barre
Thomas Keep
Evelin Willner
Klaus Dehmer
Mathew Hegarty
Hilde Muylle
Tom Ruttink
Isabel Roldán-Ruiz
et al.
C3
Conference
2019
Genomic polymorphisms involved in phenotypic variation in the natural diversity of perennial ryegrass (Lolium perenne L.) across Europe
Thomas Keep
Evelin Willner
Anna Maria Roschanski
Klaus Dehmer
Mathew Hegarty
Hilde Muylle
Tom Ruttink
Isabel Roldán-Ruiz
Jean-Paul Sampoux
Philippe Barre
C3
Conference
2019
Identification and assessment of variable single-copy orthologous (SCO) nuclear loci for low-level phylogenomics : a case study in the genus Rosa (Rosaceae)
Kevin Debray
Jordan Marie-Magdelaine
Tom Ruttink
Jérémy Clotault
Fabrice Foucher
Valéry Malécot
A1
Journal Article
in
BMC EVOLUTIONARY BIOLOGY
2019
Impact of cross-contamination concentrations of doxycycline hyclate on the microbial ecosystem in an ex vivo model of the pig's cecum
Thijs De Mulder
Geertrui Rasschaert
Els Van Coillie
Tina Van den Meersche
Annelies Haegeman
Tom Ruttink
Tom Van de Wiele
Marc Heyndrickx
A1
Journal Article
in
MICROBIAL DRUG RESISTANCE
2019
In the name of the rose : a roadmap for rose research in the genome era
Marinus J. M. Smulders
Paul Arens
Peter M. Bourke
Thomas Debener
Marcus Linde
Jan De Riek
Leen Leus
Tom Ruttink
Sylvie Baudino
Laurence Hibrant Saint-Oyant
et al.
A1
Journal Article
in
HORTICULTURE RESEARCH
2019
Overcoming challenges in variant calling : exploring sequence diversity in candidate genes for plant development in perennial ryegrass (Lolium perenne)
Elisabeth Veeckman
Sabine Van Glabeke
Annelies Haegeman
Hilde Muylle
Frederik RD van Parijs
Stephen L Byrne
Torben Asp
Bruno Studer
Antje Rohde
Isabel Roldán-Ruiz
et al.
A1
Journal Article
in
DNA RESEARCH
2019
Peat substrate amended with chitin modulates the N-cycle, siderophore and chitinase responses in the lettuce rhizobiome
Caroline De Tender
Bart Mesuere
Felix Van der Jeugt
A Haegeman
Tom Ruttink
B Vandecasteele
Peter Dawyndt
J Debode
EE Kuramae
A1
Journal Article
in
SCIENTIFIC REPORTS
2019
Pleistocene climate changes, and not agricultural spread, accounts for range expansion and admixture in the dominant grassland species Lolium perenne L.
José Luis Blanco‐Pastor
Stéphanie Manel
Philippe Barre
Anna M. Roschanski
Evelin Willner
Klaus J. Dehmer
Mathew Hegarty
Hilde Muylle
Tom Ruttink
Isabel Roldán-Ruiz
et al.
A1
Journal Article
in
JOURNAL OF BIOGEOGRAPHY
2019
Single nucleotide polymorphisms and biochemical markers as complementary tools to characterize hops (Humulus lupulus L.) in brewing practice
Ann Van Holle
Hilde Muylle
Tom Ruttink
Anita Van Landschoot
Geert Haesaert
Dirk Naudts
Denis De Keukeleire
Isabel Roldán-Ruiz
A1
Journal Article
in
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
2019
Temporal changes in the genetic diversity of perennial ryegrass swards during three years of cultivation
Christophe Verwimp
Hilde Muylle
Tom Ruttink
Olivier Honnay
Isabel Roldán-Ruiz
C3
Conference
2019
Using molecular markers to select early and late flowering plants of perennial ryegrass
Tom Ruttink
An Ghesquiere
Joost Baert
Sabine Van Glabeke
Isabel Roldán-Ruiz
Hilde Muylle
C1
Conference
2019
Utilization of tissue ploidy level variation in de novo transcriptome assembly of Pinus sylvestris
Dario I Ojeda
Tiina M Mattila
Tom Ruttink
Sonja T Kujala
Katri Kärkkäinen
Jukka-Pekka Verta
Tanja Pyhäjärvi
A1
Journal Article
in
G3-GENES GENOMES GENETICS
2019
2018
A high-quality genome sequence of Rosa chinensis to elucidate ornamental traits
L. Hibrand Saint-Oyant
Tom Ruttink
L. Hamama
I. Kirov
D. Lakhwani
N. N. Zhou
P. M. Bourke
N. Daccord
L. Leus
D. Schulz
et al.
A1
Journal Article
in
NATURE PLANTS
2018
Cow responses and evolution of the rumen bacterial and methanogen community following a complete rumen content transfer
T De Mulder
L Vandaele
N Peiren
A Haegeman
Tom Ruttink
S De Campeneere
Tom Van de Wiele
K Goossens
A1
Journal Article
in
JOURNAL OF AGRICULTURAL SCIENCE
2018
Impact of breed on the rumen microbial community composition and methane emission of Holstein Friesian and Belgian Blue heifers
Thijs De Mulder
Nico Peiren
Leen Vandaele
Tom Ruttink
Sam De Campeneere
Tom Van de Wiele
Karen Goossens
A1
Journal Article
in
LIVESTOCK SCIENCE
2018
Natural diversity in vegetative and reproductive investments of perennial ryegrass is shaped by the climate at the place of origin
P. Barre
Tom Ruttink
H. Muylle
P. Lootens
J.‐P. Sampoux
A. Rohde
D. Combes
Isabel Roldán-Ruiz
A1
Journal Article
in
GRASS AND FORAGE SCIENCE
2018
Temporal changes in genetic diversity and forage yield of perennial ryegrass in monoculture and in combination with red clover in swards
Christophe Verwimp
Tom Ruttink
Hilde Muylle
Sabine Van Glabeke
Gerda Cnops
Paul Quataert
Olivier Honnay
Isabel Roldán-Ruiz
A1
Journal Article
in
PLOS ONE
2018
2017
An integrated strategy combining DNA walking and NGS to detect GMO
Marie-Alice Fraiture
Philippe Herman
Nina Papazova
Marc De Loose
Dieter Deforce
Tom Ruttink
Nancy Roosens
A1
Journal Article
in
FOOD CHEMISTRY
2017
Exploring the methanogen and bacterial communities of rumen environments : solid adherent, fluid and epimural
Thijs De Mulder
Karen Goossens
Nico Peiren
Leen Vandaele
Annelies Haegeman
Caroline De Tender
Tom Ruttink
Tom Van de Wiele
Sam De Campeneere
A2
Journal Article
in
FEMS MICROBIOLOGY ECOLOGY
2017
Temporal dynamics of bacterial and fungal colonization on plastic debris in the North Sea
Caroline De Tender
Lisa I Devriese
Annelies Haegeman
Sara Maes
Jürgen Vangeyte
André Cattrijsse
Peter Dawyndt
Tom Ruttink
A1
Journal Article
in
ENVIRONMENTAL SCIENCE & TECHNOLOGY
2017
2016
Are we there yet? : reliably estimating the completeness of plant genome sequences
Elisabeth Veeckman
Tom Ruttink
Klaas Vandepoele
A1
Journal Article
in
PLANT CELL
2016
Association mapping of LpCCR1 with lignin content and cell wall digestibility of perennial ryegrass
F. R. D. van Parijs
Tom Ruttink
Geert Haesaert
Isabel Roldán-Ruiz
H. Muylle
C1
Conference
2016
Biological, physicochemical and plant health responses in lettuce and strawberry in soil or peat amended with biochar
Caroline De Tender
Jane Debode
Bart Vandecasteele
Tommy D’Hose
Pieter Cremelie
Annelies Haegeman
Tom Ruttink
Peter Dawyndt
Martine Maes
A1
Journal Article
in
APPLIED SOIL ECOLOGY
2016
Genomic variation in the FT gene family of perennial ryegrass (Lolium perenne)
Elisabeth Veeckman
Klaas Vandepoele
T Asp
Isabel Roldán-Ruiz
Tom Ruttink
C1
Conference
2016
High-throughput phenotyping of lateral expansion and regrowth of spaced Lolium perenne plants using on-field image analysis
Peter Lootens
Tom Ruttink
Antje Rohde
Didier Combes
Philippe Barre
Isabel Roldán-Ruiz
A1
Journal Article
in
PLANT METHODS
2016
Orthology guided transcriptome assembly of Italian ryegrass and meadow fescue for single-nucleotide polymorphism discovery
Štěpán Stočes
Tom Ruttink
Jan Bartoš
Bruno Studer
Steven Yates
Zbigniew Zwierzykowski
Michael Abrouk
Isabel Roldán-Ruiz
Tomasz Książczyk
Elodie Rey
et al.
A1
Journal Article
in
PLANT GENOME
2016
Statistical framework for detection of genetically modified organisms based on Next Generation Sequencing
Sander Willems
Marie-Alice Fraiture
Dieter Deforce
Sigrid De Keersmaecker
Philippe Herman
Marc De Loose
Tom Ruttink
Filip Van Nieuwerburgh
Nancy Roosens
A1
Journal Article
in
FOOD CHEMISTRY
2016
Workshop “Genomic selection and association mapping”
P. Barre
H. Muylle
Tom Ruttink
C1
Conference
2016
2015
Bacterial community profiling of plastic litter in the Belgian part of the North Sea
Caroline De Tender
Lisa I Devriese
Annelies Haegeman
Sara Maes
Tom Ruttink
Peter Dawyndt
A1
Journal Article
in
ENVIRONMENTAL SCIENCE & TECHNOLOGY
2015
Clade classification of monolignol biosynthesis gene family members reveals target genes to decrease lignin in Lolium perenne
Frederik van Parijs
Tom Ruttink
Wout Boerjan
Geert Haesaert
SL Byrne
T Asp
Isabel Roldán-Ruiz
H Muylle
A1
Journal Article
in
PLANT BIOLOGY
2015
Genetic diversity in candidate genes for developmental traits and cell wall characteristics in perennial ryegrass (Lolium perenne)
Tom Ruttink
A. Haegeman
F. van Parijs
S. Van Glabeke
H. Muylle
S. Byrne
T. Asp
Isabel Roldán-Ruiz
C1
Conference
2015
2014
Characterisation of genetic diversity for resistance and quality traits using molecular tools
Hilde Muylle
Susanne Barth
Tom Ruttink
C1
Conference
2014
De novo assembly of red clover transcriptome based on RNA-Seq data provides insight into drought response, gene discovery and marker identification
Steven A Yates
Martin T Swain
Matthew J Hegarty
Igor Chernukin
Matthew Lowe
Gordon G Allison
Tom Ruttink
Michael T Abberton
Glyn Jenkins
Leif Skøt
A1
Journal Article
in
BMC GENOMICS
2014
2013
Developing SNP assays for Lolium perenne: a pilot study for LpCCR1
Frederik van Parijs
Kim Feys
Vicky Vercruysse
Tom Ruttink
Erik Van Bockstaele
Geert Haesaert
Isabel Roldán-Ruiz
Hilde Muylle
C3
Conference
2013
Gene expression analysis in Festulolium hybrids using RNAseq
Stepan Stoces
Tom Ruttink
David Kopecky
Jan Bartos
Jaroslav Dolezel
C3
Conference
2013
Orthology Guided Assembly in highly heterozygous crops: creating a reference transcriptome to uncover genetic diversity in Lolium perenne
Tom Ruttink
Lieven Sterck
Antje Rohde
Christian Bendixen
Pierre Rouzé
Torben Asp
Yves Van de Peer
Isabel Roldán-Ruiz
A1
Journal Article
in
PLANT BIOTECHNOLOGY JOURNAL
2013
2012
Characterization of the cinnamoyl-coA reductase gene family of Lolium perenne
F van Parijs
Tom Ruttink
Isabel Roldán-Ruiz
Geert Haesaert
Erik Van Bockstaele
Hilde Muylle
C1
Conference
2012
Development of an SNP Identification Pipeline for Highly Heterozygous Crops
Tom Ruttink
Lieven Sterck
Elke Vermeulen
Antje Rohde
Isabel Roldán-Ruiz
C1
Conference
2012
Towards detection of unknown GMOs
A. Holst‐Jensen
K. G. Berdal
Y. Bertheau
M. Bohanec
J. Bohlin
M. Chaouachi
K. Gruden
S. Hamels
E. J. Kok
A. Krech
et al.
Bookchapter
in
Genetically modified and non‐genetically modified food supply chains : co‐existence and traceability
2012
2011
Bud set in poplar: genetic dissection of a complex trait in natural and hybrid populations
Antje Rohde
Veronique Storme
Véronique Jorge
Muriel Gaudet
Nicola Vitacolonna
Francesco Fabbrini
Tom Ruttink
Giusi Zaina
Nicolas Marron
Sophie Dillen
et al.
A1
Journal Article
in
NEW PHYTOLOGIST
2011
2010
Knowledge-technology-based discovery of unauthorized genetically modified organisms
Tom Ruttink
Dany Morisset
Bart Van Droogenbroeck
Nada Lavrač
Guy L. M. Van Den Eede
Jana Žel
Marc De Loose
A1
Journal Article
in
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
2010
Molecular toolbox for the identification of unknown genetically modified organisms
Tom Ruttink
Rolinde Demeyer
Elke Van Gulck
Bart Van Droogenbroeck
Maddalena Querci
Isabel Taverniers
Marc De Loose
A1
Journal Article
in
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
2010
2009
Assessment of primer/template mismatch effects on real-time PCR amplification of target taxa for GMO quantification
Rim Ghedira
Nina Papazova
Marnik Vuylsteke
Tom Ruttink
Isabel Taverniers
Marc De Loose
A1
Journal Article
in
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
2009
2007
A molecular timetable for apical bud formation and dormancy induction in poplar
Tom Ruttink
Matthias Arend
Kris Morreel
Veronique Storme
Stephane Rombauts
Jörg Fromm
Rishikesh P Bhalerao
Wout Boerjan
Antje Rohde
A1
Journal Article
in
PLANT CELL
2007
Gene expression during the induction, maintenance, and release of dormancy in apical buds of poplar
Antje Rohde
Tom Ruttink
Vanessa Hostyn
Lieven Sterck
Klara Van Driessche
Wout Boerjan
A1
Journal Article
in
JOURNAL OF EXPERIMENTAL BOTANY
2007
2006
ENOD40 affects elongation growth in tobacco Bright Yellow-2 cells by alteration of ethylene biosynthesis kinetics
Tom Ruttink
Kees Boot
Jan Kijne
Ton Bisseling
Henk Franssen
A1
Journal Article
in
JOURNAL OF EXPERIMENTAL BOTANY
2006
2003
Identification and characterization of a Zea mays line carrying a transposon-tagged ENOD40
Bert Compaan
Tom Ruttink
Cathy Albrecht
Robert Meeley
Ton Bisseling
Henk Franssen
A1
Journal Article
in
BIOCHIMICA ET BIOPHYSICA ACTA-GENE STRUCTURE AND EXPRESSION
2003
2001
Characterization of position-induced spatial and temporal regulation of transgene promoter activity in plants
Wessel van Leeuwen
Tom Ruttink
Antoinette W. M. Borst‐Vrenssen
Linus H. W. van der Plas
Alexander R. van der Krol
A1
Journal Article
in
JOURNAL OF EXPERIMENTAL BOTANY
2001
Quantitative NMR microscopy of osmotic stress responses in maize and pearl millet
Louise van der Weerd
Mireille M.A.E. Claessens
Tom Ruttink
Frank J. Vergeldt
Tjeerd J. Schaafsma
Henk Van As
A1
Journal Article
in
JOURNAL OF EXPERIMENTAL BOTANY
2001
2000
The use of the luciferase reporter system for in planta gene expression studies
Wessel Van Leeuwen
Marc J. M. Hagendoorn
Tom Ruttink
Remco Van Poecke
Linus H. W. Van Der Plas
Alexander R. Van Der Krol
A1
Journal Article
in
PLANT MOLECULAR BIOLOGY REPORTER
2000