SUSAN SOKA
Department of Biology, Faculty of Mathemathics and Natural Sciences, Bogor Agricultural University, Darmaga Campus, Bogor 16680 Faculty of Biotechnology, Atma Jaya Catholic University of Indonesia, Jalan Jenderal Sudirman 51, Jakarta 12930

Published : 4 Documents
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Population Dynamic of Dendronephthya sp.-Associated Bacteria in Natural and Artificial Habitats SOKA, SUSAN; HUTAGALUNG, RORY ANTHONY; YOGIARA, .; ASSISI, CLARA
HAYATI Journal of Biosciences Vol 18, No 2 (2011): June 2011
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (41.545 KB) | DOI: 10.4308/hjb.18.2.57

Abstract

Dendronephthya sp. is a soft coral that has huge distribution starting from Indopacific, Tonga, Solomon Islands to Great Barrier Reef in Australia. However, this soft corals survive only in short period after cultivation in artificial habitat (aquarium). Recent study showed that the soft coral Dendronephtya sp. has an association or symbiotic relationship with several bacteria, commonly known as coral associated bacteria (CAB). In this study, we compared the population dynamic of Dendronephthya sp.-associated bacteria in natural and artificial habitat, resulting different bacterial community profiles using terminal restriction fragment length polymorphism (T-RFLP) analysis of bacterial community DNA. There were 15 main classes of bacterial population identified along with uncultured microorganism, uncultured organism, uncultured bacteria and unidentified organism. Members of Actinobacteria, Arthrobacteria, Chlorobia, Caldilineae, d-proteobacteria and Proteobacteria were predicted to give contributions in the survival ability of both Dendronephthya sp. The cultivation of soft corals after 2 weeks in artificial habitat increases bacterial population similarity on 2 different samples by 10%. Bacterial population similarity in artificial habitat would increase along with the longer cultivation time of soft corals.
Genetic Diversity of Yeasts from Fermented Orange Juice Based on PCR-RFLP and Sequence Analysis of the Internal Transcribed Spacer Regions SOKA, SUSAN; SUSANTO, ANASTASIA
Microbiology Indonesia Vol 4, No 1 (2010): April 2010
Publisher : Indonesian Society for microbiology

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Abstract

Orange is one of the most valuable and common fruits in Indonesia. High glucose level in orange juice provides good growth conditions for yeasts. In this study, yeasts were isolated from fermented orange juice and subjected to diversity analysis. The analysis was conducted using restriction fragment length polymorphism on the internal transcribed spacer (ITS) region (including ITS1, 5.8S rRNA gene and ITS2), which was amplified using PCR with ITS1 and ITS4 primers.Restriction enzymes used in this research were HhaI, HinfI and HaeIII. A total of 24 yeast isolates were obtained from three different kinds of fermented orange juices (Indonesian Medan orange, Sunkist orange and Indonesian Pontianak orange). RFLP analysis of ITS regions revealed different amplified PCR fragment sizes and restriction profiles for each type of orange juice. However, all yeasts isolated from the same type of orange juice showed identical restriction patterns. Sequencing of ITS regions showed that three different yeast species were detected from each type of orange, e.g. Pichia veronae from Indonesian Pontianak orange, Cryptococcus albidosimilis from Sunkist orange and Issatchenkia orientalis from Indonesian Medan orange.
Analysis of Bacterial Community Associated with Aaptos sp. from Rote and Seribu Islands CHASANAH, EKOWATI; PATANTIS, GINTUNG; DEWI, ARIYANTI SUHITA; MARRASKURANTO, ENDAR; JANUAR, HEDI INDRA; STELLA, STELLA; SOKA, SUSAN; YOGIARA, YOGIARA
Microbiology Indonesia Vol 7, No 1 (2013): March 2013
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.7.1.37

Abstract

Aaptos sp. is a marine sponge that could produce bioactive compounds such as aaptamin, aaptosin, and isoaaptamin which have activities as antitumor, antimicrobial, and antiviral. Community of bacteria associated with the sponge might correlate with production of those bioactive compounds and be affected  by  water environment where the sponge grow. The presence of anthropogenic stressor such as pollutans might become a burden to the waters where the biota grown and could affect the microbial biodiversity in the sponge and its active metabolite produced. The objective of this research was to analyze bacterial community associated with Aaptos sp. from Rote Island and Seribu Islands, using T-RFLP method. The results showed that bacterial community associated with Aaptos sp. from both sampling sites shared 40.81% similarity in which they were dominated by the same bacteria class of Actinobacteria, Flavobacteria, α-proteobacteria, δ-proteobacteria, and γ–proteobacteria. The bacteria collected from Rote island  were more highly distributed and diverse than those from Seribu Islands. A total of 23 classes of microorganism were identified in Rote Island waters, while in Seribu Islands was 14 classes of microorganism. The presence of Actinobacteria and Proteobacteria in Aaptos sp., is allegedly involved in the production of secondary metabolites.
Analysis of Intestinal Mucosal Immunoglobulin A in Sprague Dawley Rats Supplemented with Tempeh SOKA, SUSAN; SUWANTO, ANTONIUS; RUSMANA, IMAN; SAJUTHI, DONDIN; ISKANDRIATI, DIAH; JESSICA, KATHARINA
HAYATI Journal of Biosciences Vol 22, No 1 (2015): January 2015
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1507.883 KB) | DOI: 10.4308/hjb.22.1.48

Abstract

Tempeh is a well-known Indonesian fermented food made from soybean. During the fermentation process, microorganisms play an important role in the flavor, texture, and nutritional quality of tempeh. Tempeh has been show to have immuno-modulatory and immune-stimulating properties that may also be caused by the microorganisms in tempeh as they interact between the microbial population in the intestinal tract. The objective of this study was to quantify IgA gene expression at both the transcription and translation levels in Sprague Dawley (SD) rats supplemented with tempeh. A total of 6 female SD rats were divided into 3 groups of 2 rats. The first group was the control and was fed a standard diet without tempeh. The second- and third group were fed with a standard diet supplemented with raw and cooked tempeh, respectively. Ileum tissue samples were collected after tempeh supplementation for 28 days. RNA was extracted from ileum samples, and measurement of IgA gene expression was further analyzed using semi quantitative real-time PCR. The concentration of IgA protein was quantified from ileum lysate using the half sandwich ELISA method. IgA gene expressions in rats supplemented with raw, and with cooked tempeh, were 1.18 and 1.17 fold higher, respectively, compared to the control group. Moreover, IgA protein secretion levels also increased 2.46 and 2.08 fold, respectively, compared to the control group. The result of this study indicates that both raw and cooked tempeh may stimulate IgA secretion, and also that both viable and non-viable microorganisms might stimulate IgA gene expression.