Comparative Transcriptome Analysis and Genome Assembly of Fusarium oxysporum f. sp. cubense

M.A. Dita Rodriguez, R. Herai, C. Waalwijk, M. Yamagishi, P. Giachetto, G. Ferreira, M.T. Souza Jr., G.H.J. Kema

Research output: Chapter in Book/Report/Conference proceedingAbstract

Abstract

Fusarium oxysporum f. sp. cubense (Foc), the causal agent of Fusarium wilt of banana, is a highly destructive and genetically diverse pathogen. Despite its economic importance, genomic information of Foc is poor and no transcriptomic analyses have been reported so far. By using 454 sequencing technology, we generated >2.5 million expressed sequenced tags (ESTs) from four Foc strains representing four vegetative compatibility groups (VCGs) and races that infect banana: race 1 (R1, VCG unknown but different from the others here described), race 2 (R2, VCG 0124), subtropical race 4 (SR4, VCG 0120) and tropical race (TR4, VCG 01213). The ESTs were obtained from libraries prepared from mRNA extracted from three physiological states (mycelia, conidia and germinated conidia), which were pooled at a 2:2:1 ratio. Most genes are represented in all libraries, but in silico comparative analyses identified a set of unique ESTs for each race (689 for R1, 974 for R2, 296 for SR4 and 555 for TR4), which constitute excellent candidates for diagnostics development, future plant-pathogen interaction studies and functional analyses. In subsequent analyses, a 40x sequencing-coverage (Illumina single reads) of TR4 genomic DNA was assembled in a de novo based methodology, resulting in a 29-kb N50 (463 contigs). Preliminary analyses show a high colinearity of EST and genomic data that significantly contributes to the quality of the assembly. Applications of these data will be further discussed
Original languageEnglish
Title of host publicationProgram and abstracts of the ISHS/ProMusa symposium. Bananas and plantains:Toward sustainable global production and improved uses, Salvador, Bahia, Brazil, 10-14 October 2011
Place of PublicationBrazil
PublisherISHS, ProMusa, Embrapa, Biodiversity International
Pages53
Publication statusPublished - 2011
EventISHS/ProMusa symposium. Bananas and plantains:Toward sustainable global production and improved uses, Salvador, Bahia, Brazil -
Duration: 10 Oct 201114 Oct 2011

Conference

ConferenceISHS/ProMusa symposium. Bananas and plantains:Toward sustainable global production and improved uses, Salvador, Bahia, Brazil
Period10/10/1114/10/11

Fingerprint Dive into the research topics of 'Comparative Transcriptome Analysis and Genome Assembly of Fusarium oxysporum f. sp. cubense'. Together they form a unique fingerprint.

  • Cite this

    Dita Rodriguez, M. A., Herai, R., Waalwijk, C., Yamagishi, M., Giachetto, P., Ferreira, G., Souza Jr., M. T., & Kema, G. H. J. (2011). Comparative Transcriptome Analysis and Genome Assembly of Fusarium oxysporum f. sp. cubense. In Program and abstracts of the ISHS/ProMusa symposium. Bananas and plantains:Toward sustainable global production and improved uses, Salvador, Bahia, Brazil, 10-14 October 2011 (pp. 53). ISHS, ProMusa, Embrapa, Biodiversity International.