Construction of Specific Primers for Rapid Detection of South African Exportable Vegetable Macergens

Bukola Rhoda Aremu and Olubukola Oluranti Babalola
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Bukola Rhoda Aremu: Department of Biological Sciences, Faculty of Agriculture, Science and Technology, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
Olubukola Oluranti Babalola: Department of Biological Sciences, Faculty of Agriculture, Science and Technology, North-West University, Private Bag X2046, Mmabatho 2735, South Africa

IJERPH, 2015, vol. 12, issue 10, 1-15

Abstract: Macergens are bacteria causing great damages to the parenchymatous tissues of vegetable both on the field and in transit. To effectively and rapidly investigate the diversity and distribution of these macergens, four specific primers were designed by retrieving 16S rDNA sequences of pectolytic bacteria from GenBank through the National Center for Biotechnology Information (NCBI). These were aligned using ClusterW via BioEdit and primers were designed using Primer3Plus platform. The size and primer location of each species and PCR product size were accurately defined. For specificity enhancement, DNA template of known macergens ( Pectobacterium chrysanthermi ) and fresh healthy vegetable were used. These primers yielded expected size of approximately 1100 bp product only when tested with known macergens and no amplicon with fresh healthy vegetable was detected. Rapid detection of macergens in rotten vegetable samples was then carried out using these primers. Nucleotide sequences of macergens identified were deposited into the GenBank and were assigned accession numbers. Hence, with these specific primers, macergens can be identified with minimal quantities of the vegetable tissues using molecular techniques, for future use of the quarantine section of the Agricultural Department of the country for quick and rapid detection of macergens before exportation.

Keywords: ClusterW; macergens; pectolytic; rapid detection; specific primer; vegetable (search for similar items in EconPapers)
JEL-codes: I I1 I3 Q Q5 (search for similar items in EconPapers)
Date: 2015
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