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Microsatellite Identification Based on Genome Assembly Reveals Potentials Marker of Macassar Ebony (Diospyros celebica Bakh.)

Authors :
Muhammad Majiidu
Deden Derajat Matra
Fifi Gus Dwiyanti
Iskandar Z Siregar
Source :
Journal of Natural Resources and Environmental Management, Vol 14, Iss 2 (2024)
Publication Year :
2024
Publisher :
Bogor Agricultural University, 2024.

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.

Details

Language :
English
ISSN :
20864639 and 24605824
Volume :
14
Issue :
2
Database :
Directory of Open Access Journals
Journal :
Journal of Natural Resources and Environmental Management
Publication Type :
Academic Journal
Accession number :
edsdoj.5dee90bcf5264e57be07878cc5202906
Document Type :
article
Full Text :
https://doi.org/10.29244/jpsl.14.2.399