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Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms

Basal stem rot (BSR) disease is a major threat to oil palm industry in Malaysia, caused by pathogenic fungus, Ganoderma boninense. Quantitative real-time polymerase chain reaction (qPCR) has become a favourable method in quantification the levels of gene expression involved in disease development. I...

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Main Authors: Mohd Zuhar, Liyana, Ahmad Zairun, Madihah, Ahmad, Siti Aqlima, Zainal, Zamri, Idris, Abu Seman, Shaharuddin, Noor Azmi
Format: Article
Language:English
Published: Lembaga Minyak Sawit Malaysia 2019
Online Access:http://psasir.upm.edu.my/id/eprint/81125/1/GANO.pdf
http://psasir.upm.edu.my/id/eprint/81125/
http://jopr.mpob.gov.my/
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spelling my.upm.eprints.811252020-10-14T21:03:30Z http://psasir.upm.edu.my/id/eprint/81125/ Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms Mohd Zuhar, Liyana Ahmad Zairun, Madihah Ahmad, Siti Aqlima Zainal, Zamri Idris, Abu Seman Shaharuddin, Noor Azmi Basal stem rot (BSR) disease is a major threat to oil palm industry in Malaysia, caused by pathogenic fungus, Ganoderma boninense. Quantitative real-time polymerase chain reaction (qPCR) has become a favourable method in quantification the levels of gene expression involved in disease development. In this study, 14 oil palm reference genes were tested for their suitability as reference genes for qPCR analyses using oil palm root taken from six-month old seedlings (nursery sample) and 15-year old mature palms (field sample). Only six reference genes were subjected to stability test via RefFinder. The GRAS and ACTIN genes were ranked as the best reference genes for nursery sample, whereas, GAPDH and GvHK genes for field samples. These reference genes were used in the qPCR analysis for accurate normalisation. Thus, results obtained in this study emphasise the importance of validating the stability of the reference gene and proving the credibility and reliability of RefFinder in determining the most stable reference genes in each specific experiment or biological setting used. Lembaga Minyak Sawit Malaysia 2019 Article PeerReviewed text en http://psasir.upm.edu.my/id/eprint/81125/1/GANO.pdf Mohd Zuhar, Liyana and Ahmad Zairun, Madihah and Ahmad, Siti Aqlima and Zainal, Zamri and Idris, Abu Seman and Shaharuddin, Noor Azmi (2019) Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms. Journal of Oil Palm Research, 31 (4). pp. 550-560. ISSN 1511-2780 http://jopr.mpob.gov.my/ 10.21894/jopr.2019.0051
institution Universiti Putra Malaysia
building UPM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Putra Malaysia
content_source UPM Institutional Repository
url_provider http://psasir.upm.edu.my/
language English
description Basal stem rot (BSR) disease is a major threat to oil palm industry in Malaysia, caused by pathogenic fungus, Ganoderma boninense. Quantitative real-time polymerase chain reaction (qPCR) has become a favourable method in quantification the levels of gene expression involved in disease development. In this study, 14 oil palm reference genes were tested for their suitability as reference genes for qPCR analyses using oil palm root taken from six-month old seedlings (nursery sample) and 15-year old mature palms (field sample). Only six reference genes were subjected to stability test via RefFinder. The GRAS and ACTIN genes were ranked as the best reference genes for nursery sample, whereas, GAPDH and GvHK genes for field samples. These reference genes were used in the qPCR analysis for accurate normalisation. Thus, results obtained in this study emphasise the importance of validating the stability of the reference gene and proving the credibility and reliability of RefFinder in determining the most stable reference genes in each specific experiment or biological setting used.
format Article
author Mohd Zuhar, Liyana
Ahmad Zairun, Madihah
Ahmad, Siti Aqlima
Zainal, Zamri
Idris, Abu Seman
Shaharuddin, Noor Azmi
spellingShingle Mohd Zuhar, Liyana
Ahmad Zairun, Madihah
Ahmad, Siti Aqlima
Zainal, Zamri
Idris, Abu Seman
Shaharuddin, Noor Azmi
Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms
author_facet Mohd Zuhar, Liyana
Ahmad Zairun, Madihah
Ahmad, Siti Aqlima
Zainal, Zamri
Idris, Abu Seman
Shaharuddin, Noor Azmi
author_sort Mohd Zuhar, Liyana
title Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms
title_short Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms
title_full Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms
title_fullStr Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms
title_full_unstemmed Determination of reference genes for normalisation of gene expression study of Ganoderma-infected oil palms
title_sort determination of reference genes for normalisation of gene expression study of ganoderma-infected oil palms
publisher Lembaga Minyak Sawit Malaysia
publishDate 2019
url http://psasir.upm.edu.my/id/eprint/81125/1/GANO.pdf
http://psasir.upm.edu.my/id/eprint/81125/
http://jopr.mpob.gov.my/
_version_ 1681490847175016448
score 13.211869

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