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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Buletin Agrohorti Jurnal Hortikultura Indonesia (JHI) Zuriat Jurnal Penelitian Tanaman Industri Buletin Penelitian Tanaman Rempah dan Obat JURNAL AGROTEKNOLOGI Gontor AGROTECH Science Journal Jurnal Sains Teh dan Kina Jurnal Teknik Pertanian Lampung (Journal of Agricultural Engineering) Journal of Tropical Crop Science JURNAL AGRONIDA JURNAL BUDIDAYA PERTANIAN Jurnal Penelitian Tanaman Industri (Littri) Buletin Penelitian Tanaman Rempah dan Obat
Yudiwanti Wahyu E. Kusumo
Departemen Agronomi Dan Hortikultura, Fakultas Pertanian, Institut Pertanian Bogor (Bogor Agricultural Universtity), Jl Meranti, Kampus IPB Darmaga, Bogor 16680, Indonesia
Agriculture, Biological Sciences & Forestry Computer Science & IT Decision Sciences, Operations Research & Management Earth & Planetary Sciences Economics, Econometrics & Finance Education Engineering Environmental Science Industrial & Manufacturing Engineering Mechanical Engineering

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Journal : HAYATI Journal of Biosciences

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Discovery of Simple Sequence Repeat Markers in the Endemic Durian Kura-Kura (Durio testudinarius Becc.) Magandhi, Mahat; Sobir; Matra, Deden Derajat; Wahyu, Yudiwanti; Sudarmono
HAYATI Journal of Biosciences Vol. 32 No. 1 (2025): January 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.1.132-139

Abstract

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.
Evaluation of Agronomic Performance and Genetic Diversity in Indonesian Pigmented Rice Using SCoT (Start Codon Targeted) Markers Safitri, Vika Ayu; Fatimah, Fatimah; Wahyu, Yudiwanti; Ardie, Sintho Wahyuning; Mahrup, Mahrup
HAYATI Journal of Biosciences Vol. 33 No. 1 (2026): January 2026
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.33.1.103-113

Abstract

Indonesia is rich in biodiversity, including rice (Oryza sativa L.), one of the most important and widely cultivated crops. However, the utilization of local Indonesian rice germplasm in breeding programs remains limited due to the lack of reliable characterization data. Therefore, it’s essential to establish a reliable method to ensure variety protection by breeders. In addition, understanding the relationship between morphological traits and genetic diversity is crucial for a targeted breeding study aimed at evaluating genetic diversity among 12 local rice genotypes from Indonesia through agronomic traits and molecular analysis using start codon targeted (SCoT) markers. Statistical analyses, including cluster and diversity indices, were applied to interpret the data. Characterization was conducted based on the descriptors from The International Rice Research Institute (IRRI) and Bioversity International, while molecular analysis employed 23 selected SCoT primers. The effectiveness of the markers was assessed through polymorphism percentage, PIC values, and cluster analysis. A polymorphism level of 69% was observed, with PIC values ranging from 0.3610 to 0.4646, suggesting that the SCoT markers used provided adequate informativeness for diversity analysis. The study revealed high genetic variability, with heritable traits and informative SCoT markers, demonstrating their potential for pre-breeding and diversity analysis.  
Co-Authors , Rosita Abdul Hakim Achmad Achmad Aditya Permana Samosir Aditya Permana Samosir Ahmad Ansori Mattjik Ahmad Ansori Mattjik Ajmilatunnisa AMIN NUR Amin Nur Ani Kurniawati Arifah Rahayu Asep Setiawan Awang Maharijaya Baiq Arriyadul Badi'ah Cut Tia Mardi Daniel Happy Putra Dede Rosyana Budiman Dede Rosyana Budiman Desta Wirnas Diyah Martanti, Diyah Edison Jambormias Eka Bobby Febrianto, Eka Bobby Eka Fatmawati Tihurua Ekasari Putri, Nurwanita Eko Sulistyono Eni Sumarni Erniati Erniati Eti Rohaeti Fani Fauziah Faqih Udin fatimah Fatimah Febjislami, Shalati Firmansah, Habibi Firmansyah, Efrin Folkes Laumal H. M.H. Bintoro Djoefrie H.M.H. BINTORO DJOEFRIE Hapshoh, Siti Herdhani, Mira Herry Suhardiyanto Ika Roostika Indriani Nurul Fitri Ireng Darwati Irmanida Batubara Junaedi, Wahyu Jundi Aiman Abdullah Kurniawan, Rizal Mahdi Liana, Devi Linda Novita Mahat Magandhi Mahrup Mahrup, Mahrup Matra, Deden Derajat Mattjik, Ahmad A Maya Melati Memen Surahman Mohamad Solahudin Muhamad Syukur Muhammad Ridha Alfarabi Istiqlal Muhammad Syukur Muhammad Yusuf Pulungan Nadirman Haska Nailan Nabila NFN Sudarsono Nisa, Febianti Khoirun Nugroho, Sasmoyo Adi Nurul Afiyah Otih Rostiana Patty, Jacob R Prawestri, Apriliana Dyah Punjung Medaraji Suwarno Qadir, Abdul Rizal Mahdi Kurniawan Safitri Nuraina Safitri, Vika Ayu Sasmoyo Adi Nugroho Shadila Fira Asoka Sintho Wahyuning Ardie Siti Marwiyah Siti Nurhalimah Siti Nurhidayah Slamet Widodo Sobir Sobir Sofyan Zaman Sri Gajatri Budiarti Sri Gajatri Budiarti Sri Soenarsih DAS SRI WARDANI Sudarmono Sudarsono SUDARSONO SUDARSONO Supriyanto Supriyanto Surjono H Sutjahjo, Surjono H Surjono Hadi Sutjahjo Susi Purwiyanti Toruan-Mathius, dan Nurita Tri Handayani Trikoesoemaningtyas Trikoesoemaningtyas Undang Undang Vicente, Tobias Moniz Widodo, dan Willy Bayuardi Suwarno Witjaksono Yono, Dwi Yuliawati