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Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR

Basal stem rot (BSR) disease caused by pathogenic fungus Ganoderma boninense is a significant concern in the oil palm industry. G. boninense infection in oil palm induces defense-related genes. To understand oil palm defense mechanisms in response to fungal invasion, we analyzed differentially expre...

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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: Multidisciplinary Digital Publishing Institute 2021
Online Access:http://psasir.upm.edu.my/id/eprint/97603/1/ABSTRACT.pdf
http://psasir.upm.edu.my/id/eprint/97603/
https://www.mdpi.com/2223-7747/10/10/2026
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spelling my.upm.eprints.976032022-07-25T03:09:44Z http://psasir.upm.edu.my/id/eprint/97603/ Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR Mohd Zuhar, Liyana Ahmad Zairun, Madihah Ahmad, Siti Aqlima Zainal, Zamri Idris, Abu Seman Shaharuddin, Noor Azmi Basal stem rot (BSR) disease caused by pathogenic fungus Ganoderma boninense is a significant concern in the oil palm industry. G. boninense infection in oil palm induces defense-related genes. To understand oil palm defense mechanisms in response to fungal invasion, we analyzed differentially expressed genes (DEGs) derived from RNA-sequencing (RNA-seq) transcriptomic libraries of oil palm roots infected with G. boninense. A total of 126 DEGs were detected from the transcriptomic libraries of G. boninense-infected root tissues at different infection stages. Functional annotation via pathway enrichment analyses revealed that the DEGs were involved in the defense response against the pathogen. The expression of the selected DEGs was further confirmed using real-time quantitative PCR (qPCR) on independent oil palm seedlings and mature palm samples. Seven putative defense-related DEGs consistently showed upregulation in seedlings and mature plants during G. boninense infection. These seven genes might potentially be developed as biomarkers for the early detection of BSR in oil palm. Multidisciplinary Digital Publishing Institute 2021 Article PeerReviewed text en http://psasir.upm.edu.my/id/eprint/97603/1/ABSTRACT.pdf Mohd Zuhar, Liyana and Ahmad Zairun, Madihah and Ahmad, Siti Aqlima and Zainal, Zamri and Idris, Abu Seman and Shaharuddin, Noor Azmi (2021) Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR. Plants-Basel, 10 (10). pp. 1-17. ISSN 2223-7747 https://www.mdpi.com/2223-7747/10/10/2026 10.3390/plants10102026
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 caused by pathogenic fungus Ganoderma boninense is a significant concern in the oil palm industry. G. boninense infection in oil palm induces defense-related genes. To understand oil palm defense mechanisms in response to fungal invasion, we analyzed differentially expressed genes (DEGs) derived from RNA-sequencing (RNA-seq) transcriptomic libraries of oil palm roots infected with G. boninense. A total of 126 DEGs were detected from the transcriptomic libraries of G. boninense-infected root tissues at different infection stages. Functional annotation via pathway enrichment analyses revealed that the DEGs were involved in the defense response against the pathogen. The expression of the selected DEGs was further confirmed using real-time quantitative PCR (qPCR) on independent oil palm seedlings and mature palm samples. Seven putative defense-related DEGs consistently showed upregulation in seedlings and mature plants during G. boninense infection. These seven genes might potentially be developed as biomarkers for the early detection of BSR in oil palm.
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
Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR
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 Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR
title_short Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR
title_full Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR
title_fullStr Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR
title_full_unstemmed Identification of oil palm’s consistently upregulated genes during early infections of Ganoderma boninense via RNA-Seq technology and real-time quantitative PCR
title_sort identification of oil palm’s consistently upregulated genes during early infections of ganoderma boninense via rna-seq technology and real-time quantitative pcr
publisher Multidisciplinary Digital Publishing Institute
publishDate 2021
url http://psasir.upm.edu.my/id/eprint/97603/1/ABSTRACT.pdf
http://psasir.upm.edu.my/id/eprint/97603/
https://www.mdpi.com/2223-7747/10/10/2026
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score 13.211869

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