Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA

Three Malaysian ginger cultivars (Bukit Tinggi, Tanjung Sepat and Sabah) were collected and examined for genetic polymorphisms using microsatellite DNA primers. The single microsatellite oligonucleotide primers (CATA)5 (GATA)5 and (GAC)6 were used in polymerase chain reactions (PCRs). These PCR reac...

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Main Authors:	Mahdi, Harith Jameel, Budi Muljono, Julia Retno Andayani, Aziz, Ishak
Format:	Article
Language:	English
Published:	Penerbit Universiti Sains Malaysia 2013
Subjects:	Q Science (General) QK Botany S Agriculture (General)
Online Access:	http://irep.iium.edu.my/37149/ http://irep.iium.edu.my/37149/ http://irep.iium.edu.my/37149/4/TLSR24_2_5%2865-76%29.pdf

id	iium-37149
recordtype	eprints
spelling	iium-371492014-09-09T07:33:23Z http://irep.iium.edu.my/37149/ Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA Mahdi, Harith Jameel Budi Muljono, Julia Retno Andayani Aziz, Ishak Q Science (General) QK Botany S Agriculture (General) Three Malaysian ginger cultivars (Bukit Tinggi, Tanjung Sepat and Sabah) were collected and examined for genetic polymorphisms using microsatellite DNA primers. The single microsatellite oligonucleotide primers (CATA)5 (GATA)5 and (GAC)6 were used in polymerase chain reactions (PCRs). These PCR reactions produced 7 polymorphic bands with an avarage of 2.334 polymorphic bands per primer, leading to an average polymorphism rate of 17.9%. Cluster analysis revealed 87.50% similarity between Bukit Tinggi and Tanjung Sepat, 64.27% similarity between Bukit Tinggi and Sabah and 56.25% similarity between Tanjung Sepat and Sabah. DNA sequencing of the polymorphic PCR products of Tanjung Sepat ginger revealed the characteristic features of a putative new gene: a core promotor sequence, an enhancher and a transcription start site. Cluster analysis using the unweighted pair group method with arithmetic average (UPGMA) was used to construct a phylogenetic tree, which indicated that Bukit Tinggi ginger is genetically more closely related to Tanjung Sepat ginger than to Sabah ginger. Based on the results of this study, we concluded that there is genotypic variation among ginger cultivars, and the microsatellite DNA primers described here are useful for detecting polymorphic DNA in Malaysia gingr cultivars. Additionally, these microsatellite DNA primers may be used as molecular markers for discriminating among selected Malaysian gingr cultivars. Keywords: Ginger (Zingiber officinale Roscoe), Microsatellite DNA, PCR, Polymorphic DNA Penerbit Universiti Sains Malaysia 2013-12 Article PeerReviewed application/pdf en cc_gnu_lgpl http://irep.iium.edu.my/37149/4/TLSR24_2_5%2865-76%29.pdf Mahdi, Harith Jameel and Budi Muljono, Julia Retno Andayani and Aziz, Ishak (2013) Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA. Tropical Life Sciences Research, 24 (2). pp. 65-76. ISSN 1985-3718 http://www.tlsr.usm.my
repository_type	Digital Repository
institution_category	Local University
institution	International Islamic University Malaysia
building	IIUM Repository
collection	Online Access
language	English
topic	Q Science (General) QK Botany S Agriculture (General)
spellingShingle	Q Science (General) QK Botany S Agriculture (General) Mahdi, Harith Jameel Budi Muljono, Julia Retno Andayani Aziz, Ishak Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA
description	Three Malaysian ginger cultivars (Bukit Tinggi, Tanjung Sepat and Sabah) were collected and examined for genetic polymorphisms using microsatellite DNA primers. The single microsatellite oligonucleotide primers (CATA)5 (GATA)5 and (GAC)6 were used in polymerase chain reactions (PCRs). These PCR reactions produced 7 polymorphic bands with an avarage of 2.334 polymorphic bands per primer, leading to an average polymorphism rate of 17.9%. Cluster analysis revealed 87.50% similarity between Bukit Tinggi and Tanjung Sepat, 64.27% similarity between Bukit Tinggi and Sabah and 56.25% similarity between Tanjung Sepat and Sabah. DNA sequencing of the polymorphic PCR products of Tanjung Sepat ginger revealed the characteristic features of a putative new gene: a core promotor sequence, an enhancher and a transcription start site. Cluster analysis using the unweighted pair group method with arithmetic average (UPGMA) was used to construct a phylogenetic tree, which indicated that Bukit Tinggi ginger is genetically more closely related to Tanjung Sepat ginger than to Sabah ginger. Based on the results of this study, we concluded that there is genotypic variation among ginger cultivars, and the microsatellite DNA primers described here are useful for detecting polymorphic DNA in Malaysia gingr cultivars. Additionally, these microsatellite DNA primers may be used as molecular markers for discriminating among selected Malaysian gingr cultivars. Keywords: Ginger (Zingiber officinale Roscoe), Microsatellite DNA, PCR, Polymorphic DNA
format	Article
author	Mahdi, Harith Jameel Budi Muljono, Julia Retno Andayani Aziz, Ishak
author_facet	Mahdi, Harith Jameel Budi Muljono, Julia Retno Andayani Aziz, Ishak
author_sort	Mahdi, Harith Jameel
title	Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA
title_short	Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA
title_full	Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA
title_fullStr	Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA
title_full_unstemmed	Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA
title_sort	determination of phylogenetic and molecular characteristics of three malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite dna
publisher	Penerbit Universiti Sains Malaysia
publishDate	2013
url	http://irep.iium.edu.my/37149/ http://irep.iium.edu.my/37149/ http://irep.iium.edu.my/37149/4/TLSR24_2_5%2865-76%29.pdf
first_indexed	2023-09-18T20:53:17Z
last_indexed	2023-09-18T20:53:17Z
_version_	1777410137444581376

Determination of phylogenetic and molecular characteristics of three Malaysian ginger cultivars (zingiber officinale roscoe) using microsatellite DNA

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