Proteomic analysis of stored core oil palm trunk (COPT) sap identifying proteins related to stress, disease resistance and differential gene/Protein expression

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Abstract

Oil palm is the major crop grown and cultivated in various Asian countries such as Malaysia, Indonesia and Thailand. The core of oil palm trunk (COPT) consists of high sugar content, hence suitable for synthesis of fine chemicals and biofuels. Increase of sugar content was reported previously during prolonged COPT storage. However, until now, there has been no report on protein profiles during storage. Therefore, in this study, protein expression of the COPT during the storage period of one to six weeks was investigated using sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) coupled with optical density quantification and multivariate analyses for measuring differentially expressed proteins. Accordingly, protein bands were subjected to tryptic digestion followed by tandem mass spectrometry (nanoLC-MS/MS) protein identification. The results from SDS-PAGE showed consistent protein bands appearing across the biological replicates ranging from 10.455 to 202.92 kDa molecular weight (MW) regions. The findings from the principal component analysis (PCA) plot illustrated the separation pattern of the proteins at weeks 4 and 5 of storage, which was influenced mainly by the molecular weights of 14.283, 25.543, 29.757, 30.549, 31.511, 34.585 and 84.395 kDa, respectively. The majority of these proteins are identified as those involved in stress- and defense-related, disease resistance, as well as gene/protein expression processes. Indeed, these proteins were mostly upregulated during the later storage period suggesting that long-term storage may influence the molecular regulation of COPT sap.

Original languageEnglish
Pages (from-to)1259-1268
Number of pages10
JournalSains Malaysiana
Volume47
Issue number6
DOIs
Publication statusPublished - 1 Jun 2018

Fingerprint

Elaeis guineensis
sap
proteomics
tree trunk
disease resistance
protein synthesis
genes
proteins
sugar content
polyacrylamide gel electrophoresis
storage time
molecular weight
biofuels
Malaysia
absorbance
Thailand
Indonesia
principal component analysis
digestion
synthesis

Keywords

  • Densitometry analysis
  • Elaeis guineensis
  • LC-MS
  • Principal component analysis
  • SDS-PAGE

ASJC Scopus subject areas

  • General

Cite this

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title = "Proteomic analysis of stored core oil palm trunk (COPT) sap identifying proteins related to stress, disease resistance and differential gene/Protein expression",
abstract = "Oil palm is the major crop grown and cultivated in various Asian countries such as Malaysia, Indonesia and Thailand. The core of oil palm trunk (COPT) consists of high sugar content, hence suitable for synthesis of fine chemicals and biofuels. Increase of sugar content was reported previously during prolonged COPT storage. However, until now, there has been no report on protein profiles during storage. Therefore, in this study, protein expression of the COPT during the storage period of one to six weeks was investigated using sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) coupled with optical density quantification and multivariate analyses for measuring differentially expressed proteins. Accordingly, protein bands were subjected to tryptic digestion followed by tandem mass spectrometry (nanoLC-MS/MS) protein identification. The results from SDS-PAGE showed consistent protein bands appearing across the biological replicates ranging from 10.455 to 202.92 kDa molecular weight (MW) regions. The findings from the principal component analysis (PCA) plot illustrated the separation pattern of the proteins at weeks 4 and 5 of storage, which was influenced mainly by the molecular weights of 14.283, 25.543, 29.757, 30.549, 31.511, 34.585 and 84.395 kDa, respectively. The majority of these proteins are identified as those involved in stress- and defense-related, disease resistance, as well as gene/protein expression processes. Indeed, these proteins were mostly upregulated during the later storage period suggesting that long-term storage may influence the molecular regulation of COPT sap.",
keywords = "Densitometry analysis, Elaeis guineensis, LC-MS, Principal component analysis, SDS-PAGE",
author = "Marhaini Mostapha and Jahar, {Noorhasmiera Abu} and Azizan, {Kamalrul Azlan} and Sarani Zakaria and {Wan Kamaruddin}, {Wan Mohd Aizat} and {Syed Jaafar}, {Sharifah Nabihah}",
year = "2018",
month = "6",
day = "1",
doi = "10.17576/jsm-2018-4706-22",
language = "English",
volume = "47",
pages = "1259--1268",
journal = "Sains Malaysiana",
issn = "0126-6039",
publisher = "Penerbit Universiti Kebangsaan Malaysia",
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T1 - Proteomic analysis of stored core oil palm trunk (COPT) sap identifying proteins related to stress, disease resistance and differential gene/Protein expression

AU - Mostapha, Marhaini

AU - Jahar, Noorhasmiera Abu

AU - Azizan, Kamalrul Azlan

AU - Zakaria, Sarani

AU - Wan Kamaruddin, Wan Mohd Aizat

AU - Syed Jaafar, Sharifah Nabihah

PY - 2018/6/1

Y1 - 2018/6/1

N2 - Oil palm is the major crop grown and cultivated in various Asian countries such as Malaysia, Indonesia and Thailand. The core of oil palm trunk (COPT) consists of high sugar content, hence suitable for synthesis of fine chemicals and biofuels. Increase of sugar content was reported previously during prolonged COPT storage. However, until now, there has been no report on protein profiles during storage. Therefore, in this study, protein expression of the COPT during the storage period of one to six weeks was investigated using sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) coupled with optical density quantification and multivariate analyses for measuring differentially expressed proteins. Accordingly, protein bands were subjected to tryptic digestion followed by tandem mass spectrometry (nanoLC-MS/MS) protein identification. The results from SDS-PAGE showed consistent protein bands appearing across the biological replicates ranging from 10.455 to 202.92 kDa molecular weight (MW) regions. The findings from the principal component analysis (PCA) plot illustrated the separation pattern of the proteins at weeks 4 and 5 of storage, which was influenced mainly by the molecular weights of 14.283, 25.543, 29.757, 30.549, 31.511, 34.585 and 84.395 kDa, respectively. The majority of these proteins are identified as those involved in stress- and defense-related, disease resistance, as well as gene/protein expression processes. Indeed, these proteins were mostly upregulated during the later storage period suggesting that long-term storage may influence the molecular regulation of COPT sap.

AB - Oil palm is the major crop grown and cultivated in various Asian countries such as Malaysia, Indonesia and Thailand. The core of oil palm trunk (COPT) consists of high sugar content, hence suitable for synthesis of fine chemicals and biofuels. Increase of sugar content was reported previously during prolonged COPT storage. However, until now, there has been no report on protein profiles during storage. Therefore, in this study, protein expression of the COPT during the storage period of one to six weeks was investigated using sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) coupled with optical density quantification and multivariate analyses for measuring differentially expressed proteins. Accordingly, protein bands were subjected to tryptic digestion followed by tandem mass spectrometry (nanoLC-MS/MS) protein identification. The results from SDS-PAGE showed consistent protein bands appearing across the biological replicates ranging from 10.455 to 202.92 kDa molecular weight (MW) regions. The findings from the principal component analysis (PCA) plot illustrated the separation pattern of the proteins at weeks 4 and 5 of storage, which was influenced mainly by the molecular weights of 14.283, 25.543, 29.757, 30.549, 31.511, 34.585 and 84.395 kDa, respectively. The majority of these proteins are identified as those involved in stress- and defense-related, disease resistance, as well as gene/protein expression processes. Indeed, these proteins were mostly upregulated during the later storage period suggesting that long-term storage may influence the molecular regulation of COPT sap.

KW - Densitometry analysis

KW - Elaeis guineensis

KW - LC-MS

KW - Principal component analysis

KW - SDS-PAGE

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