Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)

Basal stem rot (BSR) caused by Ganoderma boninense is the most serious disease of oil palms in Malaysia. Thus, changes in the gene expression patterns of infected palms have gained interests among researchers as a tool to understand the disease. An indication that there are differences in susceptibi...

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Main Author:	Balia Yusof, Zetty Norhana
Format:	Thesis
Language:	English English
Published:	2007
Subjects:	Oil palm - Diseases and pests. Ganoderma diseases of plants.
Online Access:	http://psasir.upm.edu.my/id/eprint/5062/1/FS_2007_50.pdf
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id	my-upm-ir.5062
record_format	uketd_dc
spelling	my-upm-ir.50622013-05-27T07:20:08Z Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis) 2007 Balia Yusof, Zetty Norhana Basal stem rot (BSR) caused by Ganoderma boninense is the most serious disease of oil palms in Malaysia. Thus, changes in the gene expression patterns of infected palms have gained interests among researchers as a tool to understand the disease. An indication that there are differences in susceptibility to BSR between germplasm materials from different genetic origins have provided hope in generating oil palm varieties with reduced levels of susceptibility by using existing genetic materials. The study of differentially expressed genes may also pave the way towards developing diagnostic tools for early disease detection in oil palms. A novel method combining elements of suppression subtractive hybridization (SSH) permits the efficient and rapid cloning of rarely transcribed differentially expressed genes. The experimental strategy virtually excludes the possibility of isolating false positive clones. This study used SSH and isolated 1,038 differentially expressed cDNAs from the G. boninense-inoculated oil palm seedlings (T1) when subtracted from its uninoculated counterpart (T2), using the basal stem and spear leaf tissues. Sequence data indicated that of the 1,038 clones obtained, 86% showed sequence similarity to proteins already registered in public databases, 10% showed similarity to putative protein sequences and 4% were unknown proteins with no records in public databases. Seven clones harboring genes encoding for defense mechanisms against fungal and insect pathogens in plants were identified. They were pathogenesis-related (PR)-genes and defense-related genes depending on their direct or indirect roles in plant defense against pathogens. Reverse northern analysis of these 7 clones demonstrated that 4 were differentially expressed in T1 but northern analysis showed that only 3 were differentially expressed. Further analysis via reverse transcription-PCR (RT-PCR) confirmed these 3 genes to be differentially expressed in G. boninense infected oil palms. They were MAG 43 that codes for serine palmitoyltransferase, MAG 59 for chitinase and MAG 225 for endochitinase. Oil palm - Diseases and pests. Ganoderma diseases of plants. 2007 Thesis http://psasir.upm.edu.my/id/eprint/5062/ http://psasir.upm.edu.my/id/eprint/5062/1/FS_2007_50.pdf application/pdf en public masters Universiti Putra Malaysia Oil palm - Diseases and pests. Ganoderma diseases of plants. Science English
institution	Universiti Putra Malaysia
collection	PSAS Institutional Repository
language	English English
topic	Oil palm - Diseases and pests. Ganoderma diseases of plants.
spellingShingle	Oil palm - Diseases and pests. Ganoderma diseases of plants. Balia Yusof, Zetty Norhana Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)
description	Basal stem rot (BSR) caused by Ganoderma boninense is the most serious disease of oil palms in Malaysia. Thus, changes in the gene expression patterns of infected palms have gained interests among researchers as a tool to understand the disease. An indication that there are differences in susceptibility to BSR between germplasm materials from different genetic origins have provided hope in generating oil palm varieties with reduced levels of susceptibility by using existing genetic materials. The study of differentially expressed genes may also pave the way towards developing diagnostic tools for early disease detection in oil palms. A novel method combining elements of suppression subtractive hybridization (SSH) permits the efficient and rapid cloning of rarely transcribed differentially expressed genes. The experimental strategy virtually excludes the possibility of isolating false positive clones. This study used SSH and isolated 1,038 differentially expressed cDNAs from the G. boninense-inoculated oil palm seedlings (T1) when subtracted from its uninoculated counterpart (T2), using the basal stem and spear leaf tissues. Sequence data indicated that of the 1,038 clones obtained, 86% showed sequence similarity to proteins already registered in public databases, 10% showed similarity to putative protein sequences and 4% were unknown proteins with no records in public databases. Seven clones harboring genes encoding for defense mechanisms against fungal and insect pathogens in plants were identified. They were pathogenesis-related (PR)-genes and defense-related genes depending on their direct or indirect roles in plant defense against pathogens. Reverse northern analysis of these 7 clones demonstrated that 4 were differentially expressed in T1 but northern analysis showed that only 3 were differentially expressed. Further analysis via reverse transcription-PCR (RT-PCR) confirmed these 3 genes to be differentially expressed in G. boninense infected oil palms. They were MAG 43 that codes for serine palmitoyltransferase, MAG 59 for chitinase and MAG 225 for endochitinase.
format	Thesis
qualification_level	Master's degree
author	Balia Yusof, Zetty Norhana
author_facet	Balia Yusof, Zetty Norhana
author_sort	Balia Yusof, Zetty Norhana
title	Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)
title_short	Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)
title_full	Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)
title_fullStr	Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)
title_full_unstemmed	Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)
title_sort	identification and characterization of differentially expressed genes in ganoderma boninense-infected oil palms (elaeis guineensis)
granting_institution	Universiti Putra Malaysia
granting_department	Science
publishDate	2007
url	http://psasir.upm.edu.my/id/eprint/5062/1/FS_2007_50.pdf
_version_	1747810342728105984

Identification and Characterization of Differentially Expressed Genes in Ganoderma Boninense-Infected Oil Palms (Elaeis Guineensis)

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