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Probiotic Community of Dage Banyumas: Next Generation Sequencing Approach

Biosaintifika: Journal of Biology & Biology Education · Vol. 17 No. 2 (2025) · hlm. 237–248

DOI
10.15294/biosaintifika.v17i2.22518
ISSN
2338-7610, 2085-191X
Terbit
2025-08-01
Penerbit
Universitas Negeri Semarang
Bahasa
eng

Abstrak

Tempeh is known as a traditional fermented food that has been popular in Indonesia for hundreds of years. One of the tempeh that is widely consumed in Banyumas regency is Dage, which is made from fermented coconut waste. Currently, there is no information regarding the presence of probiotics in Dage. Therefore, this study aims to detect the diversity of probiotic types in the Dage tempeh microbiome using the Next Generation Sequencing (NGS) approach. The research stages consisted of sampling, enrichment in MRSB and R2A media, DNA extraction, Polymerase Chain Reaction (PCR), Illumina NGS-based sequencing, and bioinformatics analysis using QIIME2 and MEGA XI software. The results showed that the Dage was dominated by bacteria from the genera Lactobacillus, Weisella, and Acetobacter, which are known as a group of probiotics. In addition, bacteria from the genus Bifidobacterium and Enterococcus were also detected. Diversity analysis showed that Dage enriched in R2A medium had higher species diversity than in MRSB medium. However, the presence of the probiotic bacteria group was more abundant in MRSB medium. The dominant amplicons by phylogenetic analysis were identified as Lactobacillus spicheri, Lactobacillus zymae, Lactobacillus crustorum, Companilactobacillus farciminis, Weisella paramesenteroides, and Acetobacter indonesianensis, which previously have several probiotic properties. These results provide novel information regarding the presence of probiotic bacteria in Dage, which can be explored further using a culturable approach.

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Sumber metadata: OAI-PMH (metadata jurnal) https://journal.unnes.ac.id/journals/biosaintifika/oai, pertama di-harvest 5 Nov 2026, terakhir terlihat 8 Nov 2026.
Metadata asli (oai_dc) 
<oai_dc:dc xmlns="http://www.openarchives.org/OAI/2.0/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:oai_dc="http://www.openarchives.org/OAI/2.0/oai_dc/" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/oai_dc/  http://www.openarchives.org/OAI/2.0/oai_dc.xsd">
	<dc:title xml:lang="en">Probiotic Community of Dage Banyumas: Next Generation Sequencing Approach</dc:title>
	<dc:creator xml:lang="en">Eshananda, Yuriza</dc:creator>
	<dc:creator xml:lang="en">Fadlilah, Synta</dc:creator>
	<dc:creator xml:lang="en">Fikriyya, Nabela</dc:creator>
	<dc:creator xml:lang="en">Fitrianto, Nur </dc:creator>
	<dc:creator xml:lang="en">Kusumaningrum, Hermin</dc:creator>
	<dc:subject xml:lang="en">Dage</dc:subject>
	<dc:subject xml:lang="en">Probiotic</dc:subject>
	<dc:subject xml:lang="en">Lactobacillus</dc:subject>
	<dc:subject xml:lang="en">Next Generation Sequencing</dc:subject>
	<dc:description xml:lang="en">Tempeh is known as a traditional fermented food that has been popular in Indonesia for hundreds of years. One of the tempeh that is widely consumed in Banyumas regency is Dage, which is made from fermented coconut waste. Currently, there is no information regarding the presence of probiotics in Dage. Therefore, this study aims to detect the diversity of probiotic types in the Dage tempeh microbiome using the Next Generation Sequencing (NGS) approach. The research stages consisted of sampling, enrichment in MRSB and R2A media, DNA extraction, Polymerase Chain Reaction (PCR), Illumina NGS-based sequencing, and bioinformatics analysis using QIIME2 and MEGA XI software. The results showed that the Dage was dominated by bacteria from the genera Lactobacillus, Weisella, and Acetobacter, which are known as a group of probiotics. In addition, bacteria from the genus Bifidobacterium and Enterococcus were also detected. Diversity analysis showed that Dage enriched in R2A medium had higher species diversity than in MRSB medium. However, the presence of the probiotic bacteria group was more abundant in MRSB medium. The dominant amplicons by phylogenetic analysis were identified as Lactobacillus spicheri, Lactobacillus zymae, Lactobacillus crustorum, Companilactobacillus farciminis, Weisella paramesenteroides, and Acetobacter indonesianensis, which previously have several probiotic properties. These results provide novel information regarding the presence of probiotic bacteria in Dage, which can be explored further using a culturable approach.</dc:description>
	<dc:publisher xml:lang="en">Universitas Negeri Semarang</dc:publisher>
	<dc:date>2025-08-01</dc:date>
	<dc:type>info:eu-repo/semantics/article</dc:type>
	<dc:type>info:eu-repo/semantics/publishedVersion</dc:type>
	<dc:type xml:lang="en">Peer-reviewed Article</dc:type>
	<dc:format>application/pdf</dc:format>
	<dc:identifier>https://journal.unnes.ac.id/journals/biosaintifika/article/view/22518</dc:identifier>
	<dc:identifier>10.15294/biosaintifika.v17i2.22518</dc:identifier>
	<dc:source xml:lang="en">Biosaintifika: Journal of Biology &amp; Biology Education; Vol. 17 No. 2 (2025): August 2025; 237-248</dc:source>
	<dc:source>2338-7610</dc:source>
	<dc:source>2085-191X</dc:source>
	<dc:source>10.15294/biosaintifika.v17i2</dc:source>
	<dc:language>eng</dc:language>
	<dc:relation>https://journal.unnes.ac.id/journals/biosaintifika/article/view/22518/5552</dc:relation>
	<dc:rights xml:lang="en">Copyright (c) 2025 Biosaintifika: Journal of Biology &amp; Biology Education</dc:rights>
</oai_dc:dc>