Development of qPCR primer for Ganoderma boninense detection in soil

Tung, Hun Jiat and Goh, Yit Kheng and Wong, Wei Chee (2025) Development of qPCR primer for Ganoderma boninense detection in soil. Journal of Oil Palm Research (Malaysia), 37 (1). pp. 181-186. ISSN 2811-4701

Quantitation of pathogenic Ganoderma species presence in oil palm plantation soil is crucial for basal stem rot (BSR) disease management where implemented disease control practices could be validated. Quantitative polymerase chain reaction (qPCR) has been widely applied in quantification of various pathogens in soil and plant tissues due to its high sensitivity. In this study, primers designed based on internal transcribed spacer (ITS) sequences were utilised for detection of pathogenic Ganoderma species. Its specificity and detection efficiency were tested using Ganoderma inoculated and non-inoculated soil samples. As for qPCR applications, primer IGbF-R was proven to be specific to Ganoderma boninense, and capable of amplifying its synonyms (G. orbiforme and G. miniatocinctum) in Ganoderma inoculated soil.

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Abstract

Quantitation of pathogenic Ganoderma species presence in oil palm plantation soil is crucial for basal stem rot (BSR) disease management where implemented disease control practices could be validated. Quantitative polymerase chain reaction (qPCR) has been widely applied in quantification of various pathogens in soil and plant tissues due to its high sensitivity. In this study, primers designed based on internal transcribed spacer (ITS) sequences were utilised for detection of pathogenic Ganoderma species. Its specificity and detection efficiency were tested using Ganoderma inoculated and non-inoculated soil samples. As for qPCR applications, primer IGbF-R was proven to be specific to Ganoderma boninense, and capable of amplifying its synonyms (G. orbiforme and G. miniatocinctum) in Ganoderma inoculated soil.

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Item Type:	Article
AGROVOC Term:	soil
AGROVOC Term:	oil palms
AGROVOC Term:	detection
AGROVOC Term:	primers
AGROVOC Term:	pathogens
AGROVOC Term:	DNA
Geographical Term:	Malaysia
Depositing User:	Nor Hasnita Abdul Samat
Date Deposited:	02 Apr 2026 08:29
Last Modified:	02 Apr 2026 08:29
URI:	http://webagris.upm.edu.my/id/eprint/25240

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