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Microsatellite Identification Based on Genome Assembly Reveals Potentials Marker of Macassar Ebony (Diospyros celebica Bakh.)
- 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.
- Subjects :
- genome
ebony
SSR
sequencing
chroloplast
Environmental sciences
GE1-350
Subjects
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