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Rapid evolution in plant-microbe interactions - a molecular genomics perspective.

Frantzeskakis L, Di Pietro A, Rep M, Schirawski J, Wu CH, Panstruga R.

New Phytol. 2019 May 27. doi: 10.1111/nph.15966. [Epub ahead of print] Review.


Xylem Sap Proteomics Reveals Distinct Differences Between R Gene- and Endophyte-Mediated Resistance Against Fusarium Wilt Disease in Tomato.

de Lamo FJ, Constantin ME, Fresno DH, Boeren S, Rep M, Takken FLW.

Front Microbiol. 2018 Dec 4;9:2977. doi: 10.3389/fmicb.2018.02977. eCollection 2018.


A SIX1 homolog in Fusarium oxysporum f.sp. cubense tropical race 4 contributes to virulence towards Cavendish banana.

Widinugraheni S, Niño-Sánchez J, van der Does HC, van Dam P, García-Bastidas FA, Subandiyah S, Meijer HJG, Kistler HC, Kema GHJ, Rep M.

PLoS One. 2018 Oct 22;13(10):e0205896. doi: 10.1371/journal.pone.0205896. eCollection 2018.


Use of Comparative Genomics-Based Markers for Discrimination of Host Specificity in Fusarium oxysporum.

van Dam P, de Sain M, Ter Horst A, van der Gragt M, Rep M.

Appl Environ Microbiol. 2017 Dec 15;84(1). pii: e01868-17. doi: 10.1128/AEM.01868-17. Print 2018 Jan 1.


Mitochondrial genomes reveal recombination in the presumed asexual Fusarium oxysporum species complex.

Brankovics B, van Dam P, Rep M, de Hoog GS, J van der Lee TA, Waalwijk C, van Diepeningen AD.

BMC Genomics. 2017 Sep 18;18(1):735. doi: 10.1186/s12864-017-4116-5.


A mobile pathogenicity chromosome in Fusarium oxysporum for infection of multiple cucurbit species.

van Dam P, Fokkens L, Ayukawa Y, van der Gragt M, Ter Horst A, Brankovics B, Houterman PM, Arie T, Rep M.

Sci Rep. 2017 Aug 22;7(1):9042. doi: 10.1038/s41598-017-07995-y.


The Distribution of Miniature Impala Elements and SIX Genes in the Fusarium Genus is Suggestive of Horizontal Gene Transfer.

van Dam P, Rep M.

J Mol Evol. 2017 Aug;85(1-2):14-25. doi: 10.1007/s00239-017-9801-0. Epub 2017 Jul 25.


Adaptation to the Host Environment by Plant-Pathogenic Fungi.

van der Does HC, Rep M.

Annu Rev Phytopathol. 2017 Aug 4;55:427-450. doi: 10.1146/annurev-phyto-080516-035551. Epub 2017 Jun 23. Review.


The Arabidopsis leucine-rich repeat receptor kinase MIK2/LRR-KISS connects cell wall integrity sensing, root growth and response to abiotic and biotic stresses.

Van der Does D, Boutrot F, Engelsdorf T, Rhodes J, McKenna JF, Vernhettes S, Koevoets I, Tintor N, Veerabagu M, Miedes E, Segonzac C, Roux M, Breda AS, Hardtke CS, Molina A, Rep M, Testerink C, Mouille G, Höfte H, Hamann T, Zipfel C.

PLoS Genet. 2017 Jun 12;13(6):e1006832. doi: 10.1371/journal.pgen.1006832. eCollection 2017 Jun.


The tomato I gene for Fusarium wilt resistance encodes an atypical leucine-rich repeat receptor-like protein whose function is nevertheless dependent on SOBIR1 and SERK3/BAK1.

Catanzariti AM, Do HT, Bru P, de Sain M, Thatcher LF, Rep M, Jones DA.

Plant J. 2017 Mar;89(6):1195-1209. doi: 10.1111/tpj.13458. Epub 2017 Feb 11.


Non-canonical Helitrons in Fusarium oxysporum.

Chellapan BV, van Dam P, Rep M, Cornelissen BJ, Fokkens L.

Mob DNA. 2016 Dec 9;7:27. eCollection 2016.


Multiple Evolutionary Trajectories Have Led to the Emergence of Races in Fusarium oxysporum f. sp. lycopersici.

Biju VC, Fokkens L, Houterman PM, Rep M, Cornelissen BJC.

Appl Environ Microbiol. 2017 Feb 1;83(4). pii: e02548-16. doi: 10.1128/AEM.02548-16. Print 2017 Feb 15.


Transcription Factors Encoded on Core and Accessory Chromosomes of Fusarium oxysporum Induce Expression of Effector Genes.

van der Does HC, Fokkens L, Yang A, Schmidt SM, Langereis L, Lukasiewicz JM, Hughes TR, Rep M.

PLoS Genet. 2016 Nov 17;12(11):e1006401. doi: 10.1371/journal.pgen.1006401. eCollection 2016 Nov. Erratum in: PLoS Genet. 2016 Dec 29;12 (12 ):e1006527.


Suppressor of fusion, a Fusarium oxysporum homolog of Ndt80, is required for nutrient-dependent regulation of anastomosis.

Shahi S, Fokkens L, Houterman PM, Rep M.

Fungal Genet Biol. 2016 Oct;95:49-57. doi: 10.1016/j.fgb.2016.08.005. Epub 2016 Aug 13.


Effector profiles distinguish formae speciales of Fusarium oxysporum.

van Dam P, Fokkens L, Schmidt SM, Linmans JH, Kistler HC, Ma LJ, Rep M.

Environ Microbiol. 2016 Nov;18(11):4087-4102. doi: 10.1111/1462-2920.13445. Epub 2016 Jul 29.


Dispensable chromosomes in Fusarium oxysporum f. sp. lycopersici.

Vlaardingerbroek I, Beerens B, Schmidt SM, Cornelissen BJ, Rep M.

Mol Plant Pathol. 2016 Dec;17(9):1455-1466. doi: 10.1111/mpp.12440. Epub 2016 Aug 21.


Nuclear dynamics and genetic rearrangement in heterokaryotic colonies of Fusarium oxysporum.

Shahi S, Beerens B, Bosch M, Linmans J, Rep M.

Fungal Genet Biol. 2016 Jun;91:20-31. doi: 10.1016/j.fgb.2016.03.003. Epub 2016 Mar 21.


Insights into Adaptations to a Near-Obligate Nematode Endoparasitic Lifestyle from the Finished Genome of Drechmeria coniospora.

Zhang L, Zhou Z, Guo Q, Fokkens L, Miskei M, Pócsi I, Zhang W, Chen M, Wang L, Sun Y, Donzelli BG, Gibson DM, Nelson DR, Luo JG, Rep M, Liu H, Yang S, Wang J, Krasnoff SB, Xu Y, Molnár I, Lin M.

Sci Rep. 2016 Mar 15;6:23122. doi: 10.1038/srep23122.


Exchange of core chromosomes and horizontal transfer of lineage-specific chromosomes in Fusarium oxysporum.

Vlaardingerbroek I, Beerens B, Rose L, Fokkens L, Cornelissen BJ, Rep M.

Environ Microbiol. 2016 Nov;18(11):3702-3713. doi: 10.1111/1462-2920.13281. Epub 2016 Apr 21.


The effector repertoire of Fusarium oxysporum determines the tomato xylem proteome composition following infection.

Gawehns F, Ma L, Bruning O, Houterman PM, Boeren S, Cornelissen BJ, Rep M, Takken FL.

Front Plant Sci. 2015 Nov 4;6:967. doi: 10.3389/fpls.2015.00967. eCollection 2015.


The Role of Pathogen-Secreted Proteins in Fungal Vascular Wilt Diseases.

de Sain M, Rep M.

Int J Mol Sci. 2015 Oct 9;16(10):23970-93. doi: 10.3390/ijms161023970. Review.


Comparative genomics of Fusarium oxysporum f. sp. melonis reveals the secreted protein recognized by the Fom-2 resistance gene in melon.

Schmidt SM, Lukasiewicz J, Farrer R, van Dam P, Bertoldo C, Rep M.

New Phytol. 2016 Jan;209(1):307-18. doi: 10.1111/nph.13584. Epub 2015 Aug 25.


The AVR2-SIX5 gene pair is required to activate I-2-mediated immunity in tomato.

Ma L, Houterman PM, Gawehns F, Cao L, Sillo F, Richter H, Clavijo-Ortiz MJ, Schmidt SM, Boeren S, Vervoort J, Cornelissen BJ, Rep M, Takken FL.

New Phytol. 2015 Oct;208(2):507-18. doi: 10.1111/nph.13455. Epub 2015 May 13.


Fluorescence Assisted Selection of Transformants (FAST): Using flow cytometry to select fungal transformants.

Vlaardingerbroek I, Beerens B, Shahi S, Rep M.

Fungal Genet Biol. 2015 Mar;76:104-9. doi: 10.1016/j.fgb.2015.02.003. Epub 2015 Feb 14.


Dynamics of the establishment of multinucleate compartments in Fusarium oxysporum.

Shahi S, Beerens B, Manders EM, Rep M.

Eukaryot Cell. 2015 Jan;14(1):78-85. doi: 10.1128/EC.00200-14. Epub 2014 Nov 14.


The Fusarium oxysporum effector Six6 contributes to virulence and suppresses I-2-mediated cell death.

Gawehns F, Houterman PM, Ichou FA, Michielse CB, Hijdra M, Cornelissen BJ, Rep M, Takken FL.

Mol Plant Microbe Interact. 2014 Apr;27(4):336-48. doi: 10.1094/MPMI-11-13-0330-R.


EBR1 genomic expansion and its role in virulence of Fusarium species.

Jonkers W, Xayamongkhon H, Haas M, Olivain C, van der Does HC, Broz K, Rep M, Alabouvette C, Steinberg C, Kistler HC.

Environ Microbiol. 2014 Jul;16(7):1982-2003. doi: 10.1111/1462-2920.12331. Epub 2013 Dec 12.


MITEs in the promoters of effector genes allow prediction of novel virulence genes in Fusarium oxysporum.

Schmidt SM, Houterman PM, Schreiver I, Ma L, Amyotte S, Chellappan B, Boeren S, Takken FL, Rep M.

BMC Genomics. 2013 Feb 22;14:119. doi: 10.1186/1471-2164-14-119.


Degradation of aromatic compounds through the β-ketoadipate pathway is required for pathogenicity of the tomato wilt pathogen Fusarium oxysporum f. sp. lycopersici.

Michielse CB, Reijnen L, Olivain C, Alabouvette C, Rep M.

Mol Plant Pathol. 2012 Dec;13(9):1089-100. doi: 10.1111/j.1364-3703.2012.00818.x. Epub 2012 Jul 24.


Genetic basis of carotenoid overproduction in Fusarium oxysporum.

Rodríguez-Ortiz R, Michielse C, Rep M, Limón MC, Avalos J.

Fungal Genet Biol. 2012 Sep;49(9):684-96. doi: 10.1016/j.fgb.2012.06.007. Epub 2012 Jun 26.


Standardized patients in education.

Rep MA.

Radiol Technol. 2012 May-Jun;83(5):503-6. No abstract available.


Horizontal transfer of supernumerary chromosomes in fungi.

van der Does HC, Rep M.

Methods Mol Biol. 2012;835:427-37. doi: 10.1007/978-1-61779-501-5_26.


Phosphatidylinositol 4-phosphate is associated to extracellular lipoproteic fractions and is detected in tomato apoplastic fluids.

Gonorazky G, Laxalt AM, Dekker HL, Rep M, Munnik T, Testerink C, de la Canal L.

Plant Biol (Stuttg). 2012 Jan;14(1):41-9. doi: 10.1111/j.1438-8677.2011.00488.x. Epub 2011 Jun 15.


The FRP1 F-box gene has different functions in sexuality, pathogenicity and metabolism in three fungal pathogens.

Jonkers W, VAN Kan JA, Tijm P, Lee YW, Tudzynski P, Rep M, Michielse CB.

Mol Plant Pathol. 2011 Aug;12(6):548-63. doi: 10.1111/j.1364-3703.2010.00689.x. Epub 2011 Jan 5.


The tomato xylem sap protein XSP10 is required for full susceptibility to Fusarium wilt disease.

Krasikov V, Dekker HL, Rep M, Takken FL.

J Exp Bot. 2011 Jan;62(3):963-73. doi: 10.1093/jxb/erq327. Epub 2010 Oct 25.


The genomic organization of plant pathogenicity in Fusarium species.

Rep M, Kistler HC.

Curr Opin Plant Biol. 2010 Aug;13(4):420-6. doi: 10.1016/j.pbi.2010.04.004. Epub 2010 May 13. Review.


The arms race between tomato and Fusarium oxysporum.

Takken F, Rep M.

Mol Plant Pathol. 2010 Mar;11(2):309-14. doi: 10.1111/j.1364-3703.2009.00605.x. Review.


Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium.

Ma LJ, van der Does HC, Borkovich KA, Coleman JJ, Daboussi MJ, Di Pietro A, Dufresne M, Freitag M, Grabherr M, Henrissat B, Houterman PM, Kang S, Shim WB, Woloshuk C, Xie X, Xu JR, Antoniw J, Baker SE, Bluhm BH, Breakspear A, Brown DW, Butchko RA, Chapman S, Coulson R, Coutinho PM, Danchin EG, Diener A, Gale LR, Gardiner DM, Goff S, Hammond-Kosack KE, Hilburn K, Hua-Van A, Jonkers W, Kazan K, Kodira CD, Koehrsen M, Kumar L, Lee YH, Li L, Manners JM, Miranda-Saavedra D, Mukherjee M, Park G, Park J, Park SY, Proctor RH, Regev A, Ruiz-Roldan MC, Sain D, Sakthikumar S, Sykes S, Schwartz DC, Turgeon BG, Wapinski I, Yoder O, Young S, Zeng Q, Zhou S, Galagan J, Cuomo CA, Kistler HC, Rep M.

Nature. 2010 Mar 18;464(7287):367-73. doi: 10.1038/nature08850.


Methyl salicylate production in tomato affects biotic interactions.

Ament K, Krasikov V, Allmann S, Rep M, Takken FL, Schuurink RC.

Plant J. 2010 Apr 1;62(1):124-34. doi: 10.1111/j.1365-313X.2010.04132.x. Epub 2010 Jan 6.


Mutation of CRE1 in Fusarium oxysporum reverts the pathogenicity defects of the FRP1 deletion mutant.

Jonkers W, Rep M.

Mol Microbiol. 2009 Dec;74(5):1100-13. doi: 10.1111/j.1365-2958.2009.06922.x. Epub 2009 Nov 13.


The nuclear protein Sge1 of Fusarium oxysporum is required for parasitic growth.

Michielse CB, van Wijk R, Reijnen L, Manders EM, Boas S, Olivain C, Alabouvette C, Rep M.

PLoS Pathog. 2009 Oct;5(10):e1000637. doi: 10.1371/journal.ppat.1000637. Epub 2009 Oct 23.


Effector gene screening allows unambiguous identification of Fusarium oxysporum f. sp. lycopersici races and discrimination from other formae speciales.

Lievens B, Houterman PM, Rep M.

FEMS Microbiol Lett. 2009 Nov;300(2):201-15. doi: 10.1111/j.1574-6968.2009.01783.x. Epub 2009 Oct 4.


The genome of Nectria haematococca: contribution of supernumerary chromosomes to gene expansion.

Coleman JJ, Rounsley SD, Rodriguez-Carres M, Kuo A, Wasmann CC, Grimwood J, Schmutz J, Taga M, White GJ, Zhou S, Schwartz DC, Freitag M, Ma LJ, Danchin EG, Henrissat B, Coutinho PM, Nelson DR, Straney D, Napoli CA, Barker BM, Gribskov M, Rep M, Kroken S, Molnár I, Rensing C, Kennell JC, Zamora J, Farman ML, Selker EU, Salamov A, Shapiro H, Pangilinan J, Lindquist E, Lamers C, Grigoriev IV, Geiser DM, Covert SF, Temporini E, Vanetten HD.

PLoS Genet. 2009 Aug;5(8):e1000618. doi: 10.1371/journal.pgen.1000618. Epub 2009 Aug 28.


Evolutionary relationships between Fusarium oxysporum f. sp. lycopersici and F. oxysporum f. sp. radicis-lycopersici isolates inferred from mating type, elongation factor-1alpha and exopolygalacturonase sequences.

Lievens B, van Baarlen P, Verreth C, van Kerckhove S, Rep M, Thomma BP.

Mycol Res. 2009 Oct;113(Pt 10):1181-91. doi: 10.1016/j.mycres.2009.07.019. Epub 2009 Aug 11.


Pathogen profile update: Fusarium oxysporum.

Michielse CB, Rep M.

Mol Plant Pathol. 2009 May;10(3):311-24. doi: 10.1111/j.1364-3703.2009.00538.x. Review.


Impaired colonization and infection of tomato roots by the Deltafrp1 mutant of Fusarium oxysporum correlates with reduced CWDE gene expression.

Jonkers W, Rodrigues CD, Rep M.

Mol Plant Microbe Interact. 2009 May;22(5):507-18. doi: 10.1094/MPMI-22-5-0507.


Lessons from fungal F-box proteins.

Jonkers W, Rep M.

Eukaryot Cell. 2009 May;8(5):677-95. doi: 10.1128/EC.00386-08. Epub 2009 Mar 13. Review. No abstract available.


The effector protein Avr2 of the xylem-colonizing fungus Fusarium oxysporum activates the tomato resistance protein I-2 intracellularly.

Houterman PM, Ma L, van Ooijen G, de Vroomen MJ, Cornelissen BJ, Takken FL, Rep M.

Plant J. 2009 Jun;58(6):970-8. doi: 10.1111/j.1365-313X.2009.03838.x. Epub 2009 Feb 18.


Insight into the molecular requirements for pathogenicity of Fusarium oxysporum f. sp. lycopersici through large-scale insertional mutagenesis.

Michielse CB, van Wijk R, Reijnen L, Cornelissen BJ, Rep M.

Genome Biol. 2009;10(1):R4. doi: 10.1186/gb-2009-10-1-r4. Epub 2009 Jan 9.


Expression of effector gene SIX1 of Fusarium oxysporum requires living plant cells.

van der Does HC, Duyvesteijn RG, Goltstein PM, van Schie CC, Manders EM, Cornelissen BJ, Rep M.

Fungal Genet Biol. 2008 Sep;45(9):1257-64. doi: 10.1016/j.fgb.2008.06.002. Epub 2008 Jun 18.


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