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Discovery of Simple Sequence Repeat Markers in the Endemic Durian Kura-Kura (Durio testudinarius Becc.)

HAYATI Journal of Biosciences · Vol. 32 No. 1 (2024) · hlm. 132–139

DOI
10.4308/hjb.32.1.132-139
ISSN
2086-4094, 1978-3019
Terbit
2024-11-13
Penerbit
Bogor Agricultural University, Indonesia
Bahasa
eng

Abstrak

Durio testudinarius, known as Durian Kura-Kura, is a native Bornean durian species in the Malvaceae family with fruit at the base of the main stem. Recent advances in genomic-based next-generation sequencing are being used to conserve germplasm and enhance plant breeding. This method rapidly and cost-effectively sequences plant genomes, allowing for simple sequence repeat markers to be constructed in silico. This study aimed to design and evaluate novel, simple sequence repeat markers utilizing next-generation sequencing microsatellite data of D. testudinarius. A total of 20 sequences containing di-, tri-, tetra-, and penta-nucleotide motif repeats were selected and designed to generate primers using Primer3 online software. The PCR results of the twenty primers tested on D. testudinarius and 19 genomic DNA samples of species from the Malvales order showed successful amplification. These newly developed simple sequence repeat markers are crucial for genetic population analyses, determining population structure, and enhancing plant breeding programs and conservation strategies for D. testudinarius and its relative's germplasm resources.

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  • IPB University
  • Institut Teknologi Sepuluh Nopember
  • National Research and Innovation Agency
  • Padjadjaran University
  • Universitas Gadjah Mada
  • University of Tsukuba
  • Indonesian Center for Agricultural Biotechnology and Genetic Resource Research and Development
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Rekan penulisOrganisasiArtikel bersama
Syariful MubarokPadjadjaran University1
Cory RafsyanyaniInstitut Teknologi Sepuluh Nopember1
Titah Rigel AnjalaniInstitut Teknologi Sepuluh Nopember1
Anisa Esti RahayuInstitut Teknologi Sepuluh Nopember1
Ani WidiastutiUniversitas Gadjah Mada1
Hiroshi EzuraUniversity of Tsukuba1
Nurul JadidInstitut Teknologi Sepuluh Nopember1
KusmanaNational Research and Innovation Agency1
Ika RoostikaNational Research and Innovation Agency1
Dwinita Wikan UtamiIndonesian Center for Agricultural Biotechnology and Genetic Resource Research and Development1
Nina Agusti WidaningsihIPB University1
Awang MaharijayaIPB University1
Usep JenudinMinistry of Agriculture1
Iskandar Zulkarnaen SiregarIPB University1
Ulfah Juniarti SiregarIPB University1
Aditya NugrohoIPB University1
Vilda Puji Dini AnitaIPB University1
Daawia DaawiaCenderawasih University1
Bambang SuhartawanUniversitas Sains dan Teknologi Jayapura1
Ni Putu Sri AsihNational Research and Innovation Agency1
Juang Gema KartikaIPB University1
Krisantini KrisantiniIPB University1
Megayani Sri RahayuIPB University1
Sintho Wahyuning ArdieIPB University1
Fatimah FatimahInstitut Agama Islam Negeri Bone1
Vika Ayu SafitriIPB University1
Mahrup MahrupNational Research and Innovation Agency1
Oce AstutiAfiliasi tidak diketahui1
Wellem MuskitaAfiliasi tidak diketahui1

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Sumber metadata: OAI-PMH (metadata jurnal) http://journal.ipb.ac.id/index.php/hayati/oai, pertama di-harvest 8 Nov 2026, terakhir terlihat 8 Nov 2026.
Metadata asli (oai_dc) 
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	<dc:title xml:lang="en">Discovery of Simple Sequence Repeat Markers in the Endemic Durian Kura-Kura (Durio testudinarius Becc.)</dc:title>
	<dc:creator xml:lang="en">Magandhi, Mahat</dc:creator>
	<dc:creator xml:lang="en">Sobir</dc:creator>
	<dc:creator xml:lang="en">Matra, Deden Derajat</dc:creator>
	<dc:creator xml:lang="en">Wahyu, Yudiwanti</dc:creator>
	<dc:creator xml:lang="en">Sudarmono</dc:creator>
	<dc:description xml:lang="en">Durio testudinarius, known as Durian Kura-Kura, is a native Bornean durian species in the Malvaceae family with fruit at the base of the main stem. Recent advances in genomic-based next-generation sequencing are being used to conserve germplasm and enhance plant breeding. This method rapidly and cost-effectively sequences plant genomes, allowing for simple sequence repeat markers to be constructed in silico. This study aimed to design and evaluate novel, simple sequence repeat markers utilizing next-generation sequencing microsatellite data of D. testudinarius. A total of 20 sequences containing di-, tri-, tetra-, and penta-nucleotide motif repeats were selected and designed to generate primers using Primer3 online software. The PCR results of the twenty primers tested on D. testudinarius and 19 genomic DNA samples of species from the Malvales order showed successful amplification. These newly developed simple sequence repeat markers are crucial for genetic population analyses, determining population structure, and enhancing plant breeding programs and conservation strategies for D. testudinarius and its relative's germplasm resources.</dc:description>
	<dc:publisher xml:lang="en">Bogor Agricultural University, Indonesia</dc:publisher>
	<dc:date>2024-11-13</dc:date>
	<dc:type>info:eu-repo/semantics/article</dc:type>
	<dc:type>info:eu-repo/semantics/publishedVersion</dc:type>
	<dc:type xml:lang="en">Peer-reviewed Article</dc:type>
	<dc:format>application/pdf</dc:format>
	<dc:identifier>http://journal.ipb.ac.id/hayati/article/view/55154</dc:identifier>
	<dc:identifier>10.4308/hjb.32.1.132-139</dc:identifier>
	<dc:source xml:lang="en">HAYATI Journal of Biosciences; Vol. 32 No. 1 (2025): January 2025; 132-139</dc:source>
	<dc:source>2086-4094</dc:source>
	<dc:source>1978-3019</dc:source>
	<dc:language>eng</dc:language>
	<dc:relation>http://journal.ipb.ac.id/hayati/article/view/55154/29393</dc:relation>
	<dc:rights xml:lang="en">Copyright (c) 2025 Mahat Magandhi, Sobir, Deden Derajat Matra, Yudiwanti Wahyu, Sudarmono</dc:rights>
</oai_dc:dc>