Antibiotic biosynthesis pathways from endophytic streptomyces SUK 48 through metabolomics and genomics approaches

Baba, Mohd Shukri and Mohamad Zin, Noraziah and Ahmad, Siti Junaidah and Mazlan, Noor Wini and Baharum, Syarul Nataqain and Ahmad, Nuraziemah and Azmi, Fazren (2021) Antibiotic biosynthesis pathways from endophytic streptomyces SUK 48 through metabolomics and genomics approaches. Antibiotics, 10 (8). pp. 1-12. ISSN 2079-6382

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Abstract

Streptomyces sp. has been known to be a major antibiotic producer since the 1940s. As the number of cases related to resistance pathogens infection increases yearly, discovering the biosynthesis pathways of antibiotic has become important. In this study, we present the streamline of a project report summary; the genome data and metabolome data of newly isolated Streptomyces SUK 48 strain are also analyzed. The antibacterial activity of its crude extract is also determined. To obtain genome data, the genomic DNA of SUK 48 was extracted using a commercial kit (Promega) and sent for sequencing (Pac Biosciences technology platform, Menlo Park, CA, USA). The raw data were assembled and polished using Hierarchical Genome Assembly Process 4.0 (HGAP 4.0). The assembled data were structurally predicted using tRNAscan-SE and rnammer. Then, the data were analyzed using Kyoto Encyclopedia of Genes and Genomes (KEGG) database and antiSMASH analysis. Meanwhile, the metabolite profile of SUK 48 was determined using liquid chromatographymass spectrophotometry (LC-MS) for both negative and positive modes. The results showed that the presence of kanamycin and gentamicin, as well as the other 11 antibiotics. Nevertheless, the biosynthesis pathways of aurantioclavine were also found. The cytotoxicity activity showed IC50 value was at 0.35 � 1.35 mg/mL on the cell viability of HEK 293. In conclusion, Streptomyces sp. SUK 48 has proven to be a non-toxic antibiotic producer such as auranticlavine and gentamicin.

Item Type:	Article (Journal)
Additional Information:	7342/92027
Uncontrolled Keywords:	Streptomyces sp. SUK 48; biosynthesis pathways; non-toxic isolates; bioinformatics; metabolites profiles
Subjects:	Q Science > QR Microbiology
Kulliyyahs/Centres/Divisions/Institutes (Can select more than one option. Press CONTROL button):	Kulliyyah of Allied Health Sciences Kulliyyah of Allied Health Sciences > Department of Biomedical Science (Effective:1st July 2011)
Depositing User:	Dr Mohd Shukri Baba
Date Deposited:	07 Sep 2021 15:40
Last Modified:	10 Sep 2021 09:49
URI:	http://irep.iium.edu.my/id/eprint/92027

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