Antifungal strains and gene mapping of secondary metabolites in mangrove sediments from Semarang city and Karimunjawa islands, Indonesia

Delianis Pringgenies; Wilis Ari Setyati; Delianis Pringgenies; Wilis Ari Setyati

doi:10.3934/microbiol.2021030

AIMS Microbiology

2021, Volume 7, Issue 4: 499-512. doi: 10.3934/microbiol.2021030

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Antifungal strains and gene mapping of secondary metabolites in mangrove sediments from Semarang city and Karimunjawa islands, Indonesia

Department of Marine Science, Faculty of Fisheries and Marine Sciences, Universitas Diponegoro, Semarang, 50275, Indonesia.

Received: 20 September 2021 Accepted: 22 November 2021 Published: 08 December 2021

Infection caused by pathogenic fungal species is one of the most challenging disease to be tackled today. The antifungal bacteria candidate can be found in terrestrial as well as aquatic ecosystems, with mangrove forests being one of them. The purpose of this study is to obtain candidate isolates of antifungal strains with a detection approach and gene mapping simulation of bioactive compounds producers and screening to determine qualitative antifungal activity. The research will be carried out by collecting sediment samples from the mangrove ecosystems of Karimunjawa and Mangkang sub-district of Semarang city, isolating and purifying bacteria with Humic Acid Vitamin Agar (HVA), International Streptomyces Project 1 (ISP 1) and Zobell (Marine Agar). added with antibiotics, qualitative antifungal ability screening of each isolate obtained, detection of the presence of PKS gene and NRPS using special primers using the Polymerase Chain Reaction (PCR) method, and molecular identification of each isolate by 16s rRNA sequencing method. Of the total 59 isolates produced from the sample isolation process, 31 isolates from Karimunjawa sediments and 8 isolates from Semarang sediments showed activity against test pathogenic bacteria, namely Candida albicans, Trichoderma sp., and Aspergillus niger. Detection of Biosynthethic Gene Cluster (BGC) showed that the genes encoding secondary metabolites (NRPS, PKS 1 and PKS 2) were detected in KI 2-2 isolates from Karimunjawa. NRPS were detected only in isolates SP 3-9, SH 3-4, KI 1-6, KI 2-2, KI 2-4. The secondary metabolite-encoding gene, PKS1, was detected in isolates SP 3-5, SP 3-8, KI 2-2. PKS II genes were detected only on isolates SP 2-4, SH 3-8, KI 1-6, KI 2-2, and KI 2-4. Isolate SP 3-5 was revealed as Pseudomonas aeruginosa (93.14%), isolate SP 2-4 was Zhouia amylolytica strain HN-181 (100%) and isolate SP 3-8 was P. aeruginosa strain QK -2 (100%).
- antifungal strains,
- mangrove,
- Pseudomonas aeruginosa,
- sediment,
- Zhouia amylolytica
Citation: Delianis Pringgenies, Wilis Ari Setyati. Antifungal strains and gene mapping of secondary metabolites in mangrove sediments from Semarang city and Karimunjawa islands, Indonesia[J]. AIMS Microbiology, 2021, 7(4): 499-512. doi: 10.3934/microbiol.2021030

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Abstract

Infection caused by pathogenic fungal species is one of the most challenging disease to be tackled today. The antifungal bacteria candidate can be found in terrestrial as well as aquatic ecosystems, with mangrove forests being one of them. The purpose of this study is to obtain candidate isolates of antifungal strains with a detection approach and gene mapping simulation of bioactive compounds producers and screening to determine qualitative antifungal activity. The research will be carried out by collecting sediment samples from the mangrove ecosystems of Karimunjawa and Mangkang sub-district of Semarang city, isolating and purifying bacteria with Humic Acid Vitamin Agar (HVA), International Streptomyces Project 1 (ISP 1) and Zobell (Marine Agar). added with antibiotics, qualitative antifungal ability screening of each isolate obtained, detection of the presence of PKS gene and NRPS using special primers using the Polymerase Chain Reaction (PCR) method, and molecular identification of each isolate by 16s rRNA sequencing method. Of the total 59 isolates produced from the sample isolation process, 31 isolates from Karimunjawa sediments and 8 isolates from Semarang sediments showed activity against test pathogenic bacteria, namely Candida albicans, Trichoderma sp., and Aspergillus niger. Detection of Biosynthethic Gene Cluster (BGC) showed that the genes encoding secondary metabolites (NRPS, PKS 1 and PKS 2) were detected in KI 2-2 isolates from Karimunjawa. NRPS were detected only in isolates SP 3-9, SH 3-4, KI 1-6, KI 2-2, KI 2-4. The secondary metabolite-encoding gene, PKS1, was detected in isolates SP 3-5, SP 3-8, KI 2-2. PKS II genes were detected only on isolates SP 2-4, SH 3-8, KI 1-6, KI 2-2, and KI 2-4. Isolate SP 3-5 was revealed as Pseudomonas aeruginosa (93.14%), isolate SP 2-4 was Zhouia amylolytica strain HN-181 (100%) and isolate SP 3-8 was P. aeruginosa strain QK -2 (100%).

Acknowledgments

The authors would like to thanks the Institute of Research and Community Services. Diponegoro University, Semarang, Indonesia for funding support on contract no. 185-27/UN7.6.1/PP/2021 and Fisheries and Marine Science Faculty to support the laboratory facility.

Conflict of interest

The authors declare that there is no conflict of interest.

Author's contribution

Delianis Pringgenies and Wilis Ari Setyati contributed to the acquisition of data, analysis, and interpretation. Delianis Pringgenies drafted and provided critical revision of the article. Wilis Ari Setyati wrote the paper and contributed to the conception and design of the study. Delianis Pringgenies provided the final approval of the version to publish.

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