Re-sequencing of Verticillium dahliae isolates reveals high genome plasticity

R. de Jonge, B. Thomma

Research output: Chapter in Book/Report/Conference proceedingAbstract

Abstract

PO-19 Re-sequencing of Verticillium dahliae isolates reveals high genome plasticity Ronnie de Jonge and Bart Thomma Laboratory of Phytopathology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands Verticillium spp. are soil-borne plant pathogens that are responsible for Verticillium wilt diseases on a wide range of host plants. They belong to the class of Deuteromycetes, a class of fungi for which no known sexual stage has been found. In our research we focus on V. dahliae, a plant pathogenic species within the Verticillium genus. In order to perform population genetics and comparative genomics, we have used massive parallel sequencing to determine the genome sequences of 11 V. dahliae isolates in addition to the publicly available genome of the V. dahliae isolate VdLs17. The isolates were selected based on race specificity on tomato and on aggressiveness levels on both tomato and Arabidopsis. Sequences were assembled using a combination of mapping tools (SOAPaligner, Maq) and de novo assemblers (SOAPdenovo and Velvet). In our initial genome comparisons, whole genome mapping was performed to investigate structural differences on the scaffold level, and nucleotide diversity on the gene level, between the newly sequenced isolates and VdLs17. For most isolates, the largest percentage of reads (70-80%) could be mapped with high confidence and similarity to VdLs17. Furthermore, de novo assembly of the non-mappable reads and subsequent comparisons between isolates demonstrated high sequence diversification of some regions, as well as complete loss of other regions, demonstrating a high degree of plasticity of the V. dahliae genome.
Original languageEnglish
Title of host publicationBook of Abstracts of the EPS PhD Autumn School 'Host-Microbe Interactomics', Wageningen, The Netherlands, 1-3 November 2011
Place of PublicationWageningen, the Netherlands
Pages32-33
Publication statusPublished - 2011
EventEPS PhD Autumn School 'Host-Microbe Interactomics', Wageningen, The Netherlands -
Duration: 1 Nov 20113 Nov 2011

Conference

ConferenceEPS PhD Autumn School 'Host-Microbe Interactomics', Wageningen, The Netherlands
Period1/11/113/11/11

Fingerprint Dive into the research topics of 'Re-sequencing of Verticillium dahliae isolates reveals high genome plasticity'. Together they form a unique fingerprint.

  • Cite this

    de Jonge, R., & Thomma, B. (2011). Re-sequencing of Verticillium dahliae isolates reveals high genome plasticity. In Book of Abstracts of the EPS PhD Autumn School 'Host-Microbe Interactomics', Wageningen, The Netherlands, 1-3 November 2011 (pp. 32-33).