Evaluation of mitochondrial DNA isolation methods for oil palm (Elaeis guineensis) leaf

Ooi Siew Eng, . and Nuraziyan Azimi, . and Ong-Abdullah Meilina, . Evaluation of mitochondrial DNA isolation methods for oil palm (Elaeis guineensis) leaf. pp. 607-616. ISSN 2811-4701

An efficient preparation of pure and intact mitochondrial deoxyribonucleic acid (mtDNA) that is free from nuclear DNA contamination is a prerequisite to study the molecular complexities of the organellar genome and gene structure in oil palm. Different extraction methods have been reported for mtDNA isolation from different plants. Using oil palm leaf tissues that are present in abundance three methods were tested and modified to isolate mtDNA. The methods used vary primarily at the purification steps either by using phenol/chloroform or density gradient centrifugation. High ionic alkaline buffer coupled with differential centrifugation were employed in Method I. While Methods II and III utilised the discontinuous sucrose and Percoll gradient centrifugation for mitochondria isolation respectively. Method III provided good quality mtDNA from green leaves yielding 6.3 g g“1 tissue. Restriction digest and polymerase chain reaction (PCR) for regions specific to mitochondrial nuclear and chloroplast DNA further verified the quality of the mtDNA from Method III which had the least plastid DNA contamination. Method III that incorporated Percoll density gradient centrifugation was the most efficient and provided good quality mtDNA without nuclear DNA contamination for sequencing applications and studies requiring pure mtDNA.

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Abstract

An efficient preparation of pure and intact mitochondrial deoxyribonucleic acid (mtDNA) that is free from nuclear DNA contamination is a prerequisite to study the molecular complexities of the organellar genome and gene structure in oil palm. Different extraction methods have been reported for mtDNA isolation from different plants. Using oil palm leaf tissues that are present in abundance three methods were tested and modified to isolate mtDNA. The methods used vary primarily at the purification steps either by using phenol/chloroform or density gradient centrifugation. High ionic alkaline buffer coupled with differential centrifugation were employed in Method I. While Methods II and III utilised the discontinuous sucrose and Percoll gradient centrifugation for mitochondria isolation respectively. Method III provided good quality mtDNA from green leaves yielding 6.3 g g“1 tissue. Restriction digest and polymerase chain reaction (PCR) for regions specific to mitochondrial nuclear and chloroplast DNA further verified the quality of the mtDNA from Method III which had the least plastid DNA contamination. Method III that incorporated Percoll density gradient centrifugation was the most efficient and provided good quality mtDNA without nuclear DNA contamination for sequencing applications and studies requiring pure mtDNA.

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Item Type:	Article
AGROVOC Term:	Oil palm
AGROVOC Term:	Elaeis guineensis
AGROVOC Term:	Mitochondrial genetics
AGROVOC Term:	Molecular biology
AGROVOC Term:	Sampling
AGROVOC Term:	Laboratory experimentation
AGROVOC Term:	analysis
AGROVOC Term:	plant genetics
AGROVOC Term:	genomics
Depositing User:	Mr. AFANDI ABDUL MALEK
Last Modified:	24 Apr 2025 00:55
URI:	http://webagris.upm.edu.my/id/eprint/10268

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