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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Buletin Agrohorti Jurnal Ilmu Pertanian Indonesia Jurnal Hortikultura Indonesia (JHI) Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (Journal of Natural Resources and Environmental Management) Caraka Tani: Journal of Sustainable Agriculture Journal of Tropical Crop Science
Matra, Deden Derajat
Unknown Affiliation
Agriculture, Biological Sciences & Forestry Earth & Planetary Sciences Economics, Econometrics & Finance Environmental Science

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Microsatellite Identification Based on Genome Assembly Reveals Potentials Marker of Macassar Ebony (Diospyros celebica Bakh.) Majiidu, Muhammad; Matra, Deden Derajat; Dwiyanti, Fifi Gus; Siregar, Iskandar Z
Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (Journal of Natural Resources and Environmental Management) Vol 14 No 2 (2024): Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (JPSL)
Publisher : Pusat Penelitian Lingkungan Hidup, IPB (PPLH-IPB) dan Program Studi Pengelolaan Sumberdaya Alam dan Lingkungan, IPB (PS. PSL, SPs. IPB)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jpsl.14.2.399

Abstract

Macassar ebony (Diospyros celebica Bakh.) is an endemic tree species native to Sulawesi. To date, there are limited comprehensive publications regarding its genome assembly. In this study, we employed paired-end libraries of HiSeq 4000 Illumina, generating 141.2 million paired-end reads (42.4 Gigabases). Our analysis revealed the presence of 950,081 Scaffolds, with an N50 value of 6,023. Notably, BUSCO analysis identified 183 (12.7%) complete and single-copy BUSCOs (S), as well as 9 (0.6%) complete and duplicated BUSCOs (D). Furthermore, we identified 12,890 microsatellites within the Macassar Ebony genome. These microsatellites encompass 14 dinucleotide SSR motifs, 12,090 trinucleotide SSRs, 780 tetranucleotide SSR motifs, and 6 pentanucleotide SSRs. This dataset represents a valuable resource for assessing Macassar Ebony genetic makeup in its natural habitats and for subsequent analyses of the Macassar Ebony genome.
Co-Authors Abdullah Bin Arif, Abdullah Aditya Nugroho Alifiya Herwitarahman Ani Widiastuti, Ani Anita, Vilda Puji Dini Anjalani, Titah Rigel Defitrianida, Asyhuriyah Wardah Dhika Prita Hapsari Didy Sopandie Dr. Dhika Prita Hapsari, S.P., M.Si. Ezura, Hiroshi Fifi Gus Dwiyanti Irsyad Maulana ISKANDAR ZULKARNAEN SIREGAR Kurniawan, Nafi’ Lubis, Wahyu Muhammad Yuha Mahat Magandhi Majiidu, Muhammad Muhamad Ramdan, Muhamad Nurul Jadid Rafsyanyani, Cory Rahayu, Anisa Esti Roedhy Poerwanto Saputra, Maliki Febriantono Slamet Susanto Sobir Sobir Sudarmono Syariful Mubarok Thamara, Aria Ulfah Juniarti Siregar Widayanti, Siti Mariana Widyaswara, Muhammad Heraldi Garda Winarso D. Widodo Yudiwanti Wahyu E. Kusumo