Hanke hyödyntää mikrobien genomitutkimuksessa, DNA-sekvensointiteknologiassa sekä mikrosiruteknologiassa meneillään olevaa erittäin nopeaa kehitystä. Perunan bakteeritaudinaiheuttajien genomien koko sekvenssin ja geenisisällön vertailu antaa erinomaiset mahdollisuudet paikantaa lajien väliset erot ja hyödyntää niitä kokonaisvaltaisesti diagnostiikassa, mihin teknologisesti mikrosirutekniikka antaa mahdollisuuden. Mikrosirutekniikan avulla voidaan vertailla bakteerikantojen välisiä eroja ja sen perusteella tarkentaa diagnostiikkaa erottelemaan tautia aiheuttavat kannat haitattomista. Early and accurate detection of plant pathogens are prerequisite for effective disease management. The technologies available to date allow only a limited level of accuracy and often are labor intensive and costly. Plants are often attacked by a large number of pathogens which may occur in complex of several strains and differing in degree of virulence. Therefore, there is a need for a technology that allows high multiplexing capability or detection of many targets in a single reaction. Methodological limitations, however, have been in many cases the reason for developing simplex assays or assays designed for only few targets. The DNA Microarray technology, originally designed to study gene expressions and generate single nucleotide polymorphism (SNP) profiles, is currently one of the emerging pathogen diagnostic technologies, which in theory, offers a platform for unlimited multiplexing capability. The fast growing databases generated by genomics, sequencing technology and biosystematics provide a unique opportunity for the design of more versatile, high-throughput, sensitive and specific array in order to develop the microarray technology for practical use in diagnostic laboratories. Unlike previous studies which mostly employed the use of pure culture of the target pathogens, this project utilizes targets from real environmental samples, such as soil and potato plant, where a wide range of background genes besides genes from target pathogens are included. We obtained very promising results with the specificity of detection and detection threshold. The utilization of the full genome sequence of the target pathogens and the stringent procedures followed in the probe design contributed to the success. However, some challenges, especially those related to sensitivity, diagnostic accuracy and quantification potential need to be addressed. Therefore, the work in this proposed continuation or ongoing project will focus on the validation and determination of the diagnostic accuracy of the technology for routine large scale application or analysis of potato seed lot. The research will be conducted in cooperation with the University of Helsinki, Department of Agricultural Sciences. Facilities at MTT Ruukki (Oulu), Helsinki and Oulu Universities or Biocenter Oulu core facility will be used as needed.
Vastaava tutkija
Degefu Yeshitila Hankkeen kesto 2011 - 2013
Asiasanat
Mikrosirutekniikka (microarray diagnostics), Patogeenit ( Pathogens), Siemenperuna (Seed potato)
Hankkeen vaihe: Päättynyt
HUOM! Tämä tutkimushankekuvaus on tuotettu Hankehaaviin Maa- ja elintarviketalouden tutkimuskeskuksen tutkimustietojärjestelmästä, jota ei enää ylläpidetä. Tarkista ajantaiset tutkimushanketiedot Luonnonvarakeskus Luken järjestelmästä.
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