Oligonucleotide microarray with a minimal number of probes for the detection and identification of thirteen genera of plant viruses.
ABSTRACT A major challenge facing agriculture at present is the development of techniques that can screen field samples and other plant materials simultaneously for the presence of many viruses. Microarray techniques show promise in this regard, as their high throughput nature can potentially detect a range of viruses using a single test. In this paper we present an array that can detect a wide spectrum of 169 plant virus species from 13 different genera. The array was constructed using an automated probe design protocol which generated a minimal number of probes to detect viruses at the genus level. The designed arrays showed a high specificity and sensitivity when tested with a set of standard virus samples. Field samples collected from a severe disease outbreak of Panax notoginseng farms in Yunnan, China, in 2001 were screened, where a potyvirus infection was identified associated with the disease.
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ABSTRACT: The ability to correctly identify species in a rapid and reliable manner is critical in many situations. Especially for insects the primary tools for such identifications rely on adult stage morphological characters. For a number of reasons, however, there is a clear need for alternatives. Here we report on the development of a new method employing DNA-biochip technology for the identification of pest species within the family Tephritidae. The DNA-biochip developed and tested here quickly and efficiently identifies and discriminates between several Tephritid species, except for some that are members of a complex of closely related taxa and which may in fact not represent distinct biological species. The use of these chips offers a number of potential advantages over current methods. Results can be obtained in less than 5 hours using material from any stage of the life cycle and with greater sensitivity than other methods currently available. This technology provides a novel tool for the rapid and reliably identification of several major pest species that may be intercepted in imported fruits or other commodities. The existing chips can also easily be expanded to incorporate additional markers and species as needed.Pest Management Science 11/2013; 70(8). · 2.74 Impact Factor
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ABSTRACT: A disease, supposedly caused by a virus, was observed from Insam (Panax ginseng) fields of Punggi in year 2006. It has long believed to be a physiological disorder. However, the incidence of the disease has increased every year. When several samples were observed under electron microscope, filamentous virus-like particles were observed. The nucleotide sequences of the virus were analyzed by RT-PCR with specific primer sets derived from the results of DNA chip. The results indicated that the disease was caused by Watermelon mosaic virus (WMV). It revealed that the result of the biological assay by the virus was different from that of WMV previously found in other crops. Therefore, this is the first report that WMV causes the disease in P. ginseng and the virus is named to be WMV-Insam.Research in Plant Disease. 12/2013; 19(4).
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ABSTRACT: Crop-specific diagnostics to simultaneously detect a large number of pathogens provides an invaluable platform for the screening of vegetative material prior to its cultivation. Here we report the use of what is to-date the largest published example of a crop-specific macroarray for the detection of thirty-eight of the most prevalent or emergent viruses to infect grapevine. The re-usable array consists of 1578 virus-specific 60-70mer oligonucleotide probes and 19 plant and internal control probes spotted onto an 18 x 7 cm nylon membrane. In a survey of 99 grapevines from the US and Europe, virus infections were detected in 46 selections of Vitis vinifera, V. labrusca, and interspecific hybrids. The majority of infected vines (30) was singly-infected, while 16 were mixed-infected with viruses from two or more families. Representatives of the four main virus families Betaflexiviridae, Closteroviridae, Secoviridae and Tymoviridae present in grapevines were found alone and in combination, with a notable bias in representation by members of the family Tymoviridae. This work demonstrates the utility of the macroarray platform for the multiplex detection of viruses in a single crop, its potential for characterizing grapevine virus associations, and usefulness for rapid diagnostics of introduced material in quarantine centers or in certification programs.Phytopathology 10/2013; · 2.75 Impact Factor