Research Explorer

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Researcher

Thomas Eekhout

Publications & Research Data

Awards & Distinctions

34 Results

2026

Decoding stage-specific symbiotic programs in the Rhizophagus irregularis-tomato interaction using single-nucleus transcriptomics

Naomi StuerToon LeroyThomas EekhoutAnnick De KeyserJasper StautBert De RybelKlaas VandepoelePetra Van DammeJudith Van DingenenSofie Goormachtig

A1 Journal Article in CURRENT BIOLOGY

2025

A single-cell and spatial wheat root atlas with cross-species annotations delineates conserved tissue-specific marker genes and regulators

Yuji KeVincent PujolJasper StautLotte PollarisRuth SeurinckThomas EekhoutCarolin SeyfferthMaite Saura SanchezMichiel Van BelMarnik Vuylsteke et al.

A1 Journal Article in CELL REPORTS

Dual and spatially resolved drought responses in the Arabidopsis leaf mesophyll revealed by single‐cell transcriptomics

Rubén Tenorio BerrioEline VerhelstThomas EekhoutCarolin SeyfferthLieven De VeylderBert De RybelMarieke Dubois

A1 Journal Article in NEW PHYTOLOGIST

KIL transcription factors facilitate embryo growth in maize by promoting endosperm elimination via lytic cell death

Nicolas DollYannick FierlejThomas EekhoutLisa EliasClément BellotGeng SunCarolin SeyfferthStijn AesaertGriet CoussensRiet De Rycke et al.

A1 Journal Article in PLANT CELL

The dynamic and diverse nature of parenchyma cells in the Arabidopsis root during secondary growth

Munan LyuHiroyuki IidaThomas EekhoutMeeri MäkeläSampo MuranenLingling YeAnne VaténBrecht WybouwXin WangBert De Rybel et al.

A1 Journal Article in NATURE PLANTS

2024

Best practices for the execution, analysis, and data storage of plant single-cell/nucleus transcriptomics

Carolin SeyfferthThomas EekhoutDongbo ShiManuel NeumannLea S. BergYuji KeRachel ShahanKevin L. Cox JrFabio Gomez-CanoHilde Nelissen et al.

Editorial material

Neoantigen-targeted dendritic cell vaccination in lung cancer patients induces long-lived T cells exhibiting the full differentiation spectrum

Joline IngelsLaurenz De CockDieter StevensRupert MayerFabien Henri TheryGuillem Sanchez SanchezDavid VermijlenKarin WeeningSaskia De SmetNele Lootens et al.

A1 Journal Article in CELL REPORTS MEDICINE

Scywalker : scalable end-to-end data analysis workflow for long-read single-cell transcriptome sequencing

Peter De RijkTijs WatzeelsFahri KüçükaliJasper Van DongenJúlia FauraPatrick WillemsLara De DeynLena DuchateauCarolin SeyfferthThomas Eekhout et al.

A1 Journal Article in BIOINFORMATICS

The stem cell niche transcription factor ETHYLENE RESPONSE FACTOR 115 participates in aluminum‐induced terminal differentiation in Arabidopsis roots

Paul B. LarsenShiyang HeTaylor J. MeyerMiriam Szurman‐ZubrzyckaCarolin AlfsJolanta KwasniewskaAlexandra PervisMonika GajeckaAishwarya VeerabahuTaylor R. Beaulieu et al.

A1 Journal Article in PLANT CELL AND ENVIRONMENT

2023

Cell type-specific attenuation of brassinosteroid signaling precedes stomatal asymmetric cell division

Kim EunjiCheng ZhangBoyu GuoThomas EekhoutAnaxi HoubaertJos WendrichNiels VandammeManish TiwariClaire Simon--VezoIsabelle Vanhoutte et al.

A1 Journal Article in PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Distinctive and complementary roles of E2F transcription factors during plant replication stress responses

Maherun NisaThomas EekhoutClara BergisJosé Antonio Pedroza-GarciaXiaoning HeChristelle MazubertIlse VercauterenToon CoolsRim Brik-ChaoucheJeannine Drouin-Wahbi et al.

A1 Journal Article in MOLECULAR PLANT

PAT1-type GRAS-domain proteins control regeneration by activating DOF3.4 to drive cell proliferation in Arabidopsis roots

Anchal BishtThomas EekhoutBalkan CanherRan LuIlse VercauterenGeert De JaegerJefri HeymanLieven De Veylder

A1 Journal Article in PLANT CELL

Plant lineage-specific PIKMIN1 drives APC/CCCS52A2 E3-ligase activity-dependent cell division

Alex WillemsYuanke LiangJefri HeymanThomas DepuydtThomas EekhoutBalkan CanherHilde Van Den DaeleIlse VercauterenKlaas VandepoeleLieven De Veylder

A1 Journal Article in PLANT PHYSIOLOGY

Single cell RNA-sequencing in Arabidopsis root tissues

Yuji KeMax MinneThomas EekhoutBert De Rybel

Bookchapter in Plant gene regulatory networks : methods and protocols

2022

Cell type-specific attenuation of brassinosteroid signalling drives stomatal asymmetric cell division

Kim EunjiCheng ZhangBoyu GuoThomas EekhoutAnaxi HoubaertJos WendrichNiels VandammeManish TiwariClaire Simon--VezoIsabelle Vanhoutte et al.

2021

A mutation in DNA polymerase α rescues WEE1KO sensitivity to HU

Thomas EekhoutJosé Antonio Pedroza-GarciaPooneh KalhorzadehGeert De JaegerLieven De Veylder

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

A single-cell morpho-transcriptomic map of brassinosteroid action in the Arabidopsis root

Moritz GraeffSurbhi RanaJos WendrichJulien DorierThomas EekhoutAna Cecilia Aliaga FandinoNicolas GuexGeorge BasselBert De RybelChristian Hardtke

A1 Journal Article in MOLECULAR PLANT

Advances and opportunities in single-cell transcriptomics for plant research

Carolin SeyfferthJim RenemaJos WendrichThomas EekhoutRuth SeurinckNiels VandammeBernhard BlobYvan SaeysYrjo HelariuttaKenneth D. Birnbaum et al.

A1 Journal Article in ANNUAL REVIEW OF PLANT BIOLOGY

Arabidopsis casein kinase 2 triggers stem cell exhaustion under Al toxicity and phosphate deficiency through activating the DNA damage response pathway

Pengliang WeiManon DemulderPascale DavidThomas EekhoutKaoru Okamoto YoshiyamaLong NguyenIlse VercauterenDominique EeckhoutMargot GalleGeert De Jaeger et al.

A1 Journal Article in PLANT CELL

G2/M-checkpoint activation in fasciata1 rescues an aberrant S-phase checkpoint but causes genome instability

Thomas EekhoutMartina DvorackovaJosé Antonio Pedroza GarciaMartina Nespor DadejovaPooneh KalhorzadehHilde Van Den DaeleIlse VercauterenJiri FajkusLieven De Veylder

A1 Journal Article in PLANT PHYSIOLOGY

Maize ATR safeguards genome stability during kernel development to prevent early endosperm endocycle onset and cell death

José Antonio Pedroza-GarciaThomas EekhoutIgnacio AchónMaher-Un NisaGriet CoussensIlse VercauterenHilde Van Den DaeleLaurens PauwelsMaria Van LijsebettensCécile Raynaud et al.

A1 Journal Article in PLANT CELL

Non-cell autonomous and spatiotemporal signaling from a tissue organizer orchestrates root vascular development

Baojun YangMax MinneFederica BrunoniLenka PlačkováIvan PetříkYanbiao SunJonah NolfWouter SmetKevin VerstaenJos Wendrich et al.

A1 Journal Article in NATURE PLANTS

Rocks in the auxin stream : wound-induced auxin accumulation and ERF115 expression synergistically drive stem cell regeneration (vol 117, pg 16667, 2010)

Balkan CanherJefri HeymanMaria SavinaAjay DevendranThomas EekhoutIlse VercauterenEls PrinsenRotem MatosevichJian XuVicotia Mironova et al.

2020

Rocks in the auxin stream : wound-induced auxin accumulation and ERF115 expression synergistically drive stem cell regeneration

Balkan CanherJefri HeymanMaria SavinaAjay DevendranThomas EekhoutIlse VercauterenEls PrinsenRotem MatosevichJian XuVictoria Mironova et al.

A1 Journal Article in PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Suppressor of gamma response 1 modulates the DNA damage response and oxidative stress response in leaves of cadmium-exposed Arabidopsis thaliana

Sophie HendrixVerena IvenThomas EekhoutMichiel HuybrechtsIngeborg PecqueurNele HoremansEls KeunenLieven De VeylderJaco VangronsveldAnn Cuypers

A1 Journal Article in FRONTIERS IN PLANT SCIENCE

The cyclin CYCA3;4 is a postprophase target of the APC/CCCS52A2 E3-ligase controlling formative cell divisions in Arabidopsis

Alex WillemsJefri HeymanThomas EekhoutIgnacio AchónJosé Antonio Pedroza-GarciaTingting ZhuLei LiIlse VercauterenHilde Van Den DaeleBrigitte Van De Cotte et al.

A1 Journal Article in PLANT CELL

The plant WEE1 kinase is involved in checkpoint control activation in nematode-induced galls

Danila CabralMohamed Youssef BanoraJosé Dijair AntoninoNatalia RodiucPaulo VieiraRoberta R CoelhoChristian ChevalierThomas EekhoutGilbert EnglerLieven De Veylder et al.

A1 Journal Article in NEW PHYTOLOGIST

2019

Plant stress : hitting pause on the cell cycle

Thomas EekhoutLieven De Veylder

Editorial material

2018

A spatiotemporal DNA endoploidy map of the Arabidopsis root reveals roles for the endocycle in root development and stress adaptation

Rahul BhosaleVéronique BoudolfFabiola Cuevas BustamanteRan LuThomas EekhoutZhubing HuGert Van IsterdaelGeorgina M LambertFan XuMoritz Nowack et al.

A1 Journal Article in PLANT CELL

DNA damage checkpoint regulation in Arabidopsis and maize

Thomas EekhoutLieven De Veylder

2017

Modification of DNA checkpoints to confer aluminum tolerance

Thomas EekhoutPaul LarsenLieven De Veylder

Editorial material

Tissue-specific control of the endocycle by the anaphase promoting complex/cyclosome inhibitors UVI4 and DEL1

Jefri HeymanStefanie PolynThomas EekhoutLieven De Veylder

A1 Journal Article in PLANT PHYSIOLOGY

2015

Lack of RNase H2 activity rescues HU-sensitivity of WEE1 deficient plants

Thomas EekhoutPooneh KalhorzadehLieven De Veylder

A1 Journal Article in PLANT SIGNALING & BEHAVIOR

2014

The Arabidopsis SIAMESE-RELATED cyclin-dependent kinase inhibitors SMR5 and SMR7 regulate the DNA damage checkpoint in response to reactive oxygen species

Dalong YiClaire Lessa Alvim KameiToon CoolsSandy VanderauweraNaoki TakahashiYoko OkushimaThomas EekhoutKaoru Okamoto YoshiyamaJohn LarkinHilde Van Den Daele et al.

A1 Journal Article in PLANT CELL