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All Journal HAYATI Journal of Biosciences Jurnal Teknologi Dan Industri Pangan Sainteks Microbiology Indonesia BIOTROPIA - The Southeast Asian Journal of Tropical Biology Biotropika Indonesian Journal of Biotechnology JSDH ANNALES BOGORIENSES Marine Research in Indonesia Biosaintifika: Journal of Biology & Biology Education Menara Perkebunan Jurnal Tanah dan Iklim Makara Journal of Science

YULIN LESTARI

Institut Pertanian Bogor

Author-ID : 306475

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Earth & Planetary Sciences Immunology & microbiology Industrial & Manufacturing Engineering Materials Science & Nanotechnology Mechanical Engineering Medicine & Pharmacology Veterinary

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Genetic Diversity of Antifungi-Producing Rhizobacteria of Pseudomonas sp. Isolated from Rhizosphere of Soybean Plant SUSILOWATI1 SUSILOWATI1; ARIS TRI WAHYUDI; YULIN LESTARI; SURYO WIYONO; ANTONIUS SUWANTO
Microbiology Indonesia Vol. 4 No. 1 (2010): April 2010
Publisher : Indonesian Society for microbiology

Antifungi-producing rhizobacteria have been recognized playing an important role in plant disease suppression. In our laboratory, 13 indigenous soybeans' rhizobacteria Pseudomonas sp. that showed strong growth inhibition of root pathogenic fungi, Rhizoctonia solani, Fusarium oxysporum and Sclerotium rolfsii, have been isolated from rhizosphere of soybean plant. For further understanding, the genetic diversity of the antifungi-producing Pseudomonas sp. was investigated using Amplified 16S rDNA Restriction Analysis (ARDRA) and 16S rRNA gene sequences analysis. 16S rDNA were amplified by PCR technique and digested with restriction endonuclease HaeIII, RsaI and AluI. Sequences of 16S rRNA gene were analyzed using the BLAST program for similarity searches on sequence databases. ARDRA based dendrogram analysis was carried out by neighbor-joining of TREECON 1.3b software package. ARDRA indicated the variability of Pseudomonas sp. based on the digestion sites. Dendrogram clustering analysis based on the restriction enzymes profile of the amplified rDNA distinguished Pseudomonas sp. into 7 ribotype groups. The sequences of 16S rRNA gene confirmed that the isolates belonging to Pseudomonas sp. and the phylogenetic tree formed 4 clusters. There was a quite overlap among ARDRA groups and 16S rRNA sequence clusters. This finding suggested that antifungal producing Pseudomonas sp. were present in the rhizosphere of soybean plant and the level of genetic diversity exist within these species. Sequence analysis of the 16S rRNA gene of the Pseudomonas sp. with an identical ARDRA pattern confirmed that members of an ARDRA group were closely related to each other.

Characterization of Micromonospora spp. with Activity Against E.coli ATCC 35218 Resistance β-Lactam Antibiotics DYAH NOOR HIDAYATI; YULIN LESTARI; BAMBANG MARWOTO
Microbiology Indonesia Vol. 7 No. 3 (2013): September 2013
Publisher : Indonesian Society for microbiology

The emerge of antibiotic resistance has been an important issue all over the world, on the other hand, infectious diseases have been one of the highest causes of death causes in the world. Therefore, the discovery of a new antimicrobial drug is very important, and the group of rare actinomycetes are really promising as the producer of new bioactive compounds, in this case antibiotics. In this study we screened and characterized the actinomycetes with antibacterial activity against Escherichia coli ATCC 35218 resistant beta-lactam antibiotics. A total of 96 strains collected in Biotechnology Microbial Culture Collection (BioMCC), BPPT, were screened for their antibacterial activities by the agar plug method. Three strains, at-HH-64, at-HH-78, and at-HH-259, showed antibacterial activity. The selected strains were cultured on four different media, both solid and liquid media, e.g. ISP2, ISP4, Micromonospora Starch Medium (MS), and Bennet’s Medium (BM), and we characterized their morphology and growth patterns. Morphological characterization showed that all strains belonged to the genera Micromonospora. The active strains were also identified based on 16S rRNA partial sequence. BLAST search of the 16S rRNA sequences of all tested strains with the sequences available in the NCBI data bank showed a maximum similarity 99% with Micromonospora chersina.

Population and Diversity of Endophytic Bacteria Associated with Medicinal Plant Curcuma zedoaria TRI RATNA SULISTIYANI; PUSPITA LISDIYANTI; YULIN LESTARI
Microbiology Indonesia Vol. 8 No. 2 (2014): June 2014
Publisher : Indonesian Society for microbiology

Traditionally Curcuma zedoaria (white turmeric) known as herbal medicine which possessing many biological activities. Many endophytic bacteria live in association with their host and may play an important biological roles. The main interest of this study was to investigate the endophytic bacterial diversity associated with white turmeric. White turmerics were collected from three locations in Bogor, West Java, Indonesia. The isolation of endophytic bacteria was carried out using 4 kinds media (Nutrient Agar (NA), NA contained white turmeric extract (NAT), Water Yeast Extract Agar (WYEA), WYEA contained white turmeric extract (WYEAT)), and 2 methods of spread plate and plant piece methods. The identification of selected isolates was conducted by molecular analysis based on 16S DNA. The suitable media and method of isolation endophytic bacteria were NA and spread plate method. A total of 207 bacterial colonies were isolated from rhizomes, stems, and leaves and 73 endophytic bacteria were selected based on morphological characteristics. From them, 32% isolates from Bojong Gede, 22% isolates from Cibinong and 46% isolates from Dramaga were obtained. Endophytic bacteria were predominated 38% in the rhizomes, 32% of stems, and 30% of leaves. Based on 16S rDNA sequence analysis, the isolates were belonging to the cluster Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, Firmicutes, and Actinobacteria, with twenty three different genera includes Stenothropomonas, Pseudomonas, Enterobacter, Providencia, Klebsiella, Dickeya, Pantoea, Bacillus, Acinetobacter, Citrobacter, Mycobacterium, Cellulomonas, Microbacterium, Methylobacterium, Penylobacterium, Roseomonas, Agrobacterium, Bosea, Xanthobacter, Rhizobium, Burkholderia, Ralstonia, and Alcaligenes. The plant location, age, part of plant, media and method of isolation seem to influence the endophytic bacterial communities.

DIVERSITY OF ACTINOMYCETES FROM EKA KARYA BOTANICAL GARDEN, BALI Shanti Ratnakomala; Puspita Lisdiyanti; Nita Rosalinda Prayitno; Evi Triana; Yulin Lestari; Ratih Dwi Hastuti; Yantyati Widyastuti; Misa Otoguro; Katsuhiko Ando; Endang Sukara
BIOTROPIA - The Southeast Asian Journal of Tropical Biology Vol. 23 No. 1 (2016)
Publisher : SEAMEO BIOTROP

A total of 229 strains of actinomycetes were isolated and identified by full sequence of 16S rRNA gene analysis. Samples consisted of 18 soil and 20 leaf-litter were collected from Eka Karya Botanical Garden, Bali Island, Indonesia. Two isolation methods, i.e. SDS-Yeast Extract (SY) and Rehydration-Centrifugation (RC) were used in this study. Based on 16S rRNA gene analysis, isolated actinomycetes may be grouped into 28 genera. Based on molecular analysis of 16S rRNA gene similarities showed that isolated actinomycetes of Eka Karya Botanical Garden origin is diverse. Analysis on 144 isolates from soil samples, resulted in 24 genera and more than 87 species. Streptomyces is the most dominant genus where 65 isolates or 45% from isolated actinomycetes belong to this genus. It was followed by Actinoplanes (25 isolates =17%). From leaf-littersamples, the total number of 85 isolates may be grouped into 9 genera and more than 41 species. The most dominated genus is Actinoplanes (42 isolates =49%) followed by Catenuloplanes (16 isolates=19%).Keywords: 16S rRNA gene analysis, actinomycetes, biodiversity, Eka Karya Botanical Garden

Morphological Characterization and Antioxidant Activity of Actinobacteria from Xylocarpus granatum Growing in Mangrove Habitat Marina Ratte; Irmanida Batubara; Yulin Lestari
Biotropika: Journal of Tropical Biology Vol. 10 No. 1 (2022)
Publisher : University of Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.biotropika.2022.010.01.01

Xylocarpus granatum produces various bioactive compounds with diverse biological activities, one of them as an antioxidant. Endophytic actinobacteria can also produce bioactive compounds. This study aimed to explore the existence of the endophytic actinobacteria of X. Granatum and determine its antioxidant activity. The research method begins with the isolation of endophytic actinobacteria from fruits, seeds, and leaves using selective media Humic Acid (HV). Furthermore, characterizing the obtained isolates using four different media, namely YSA, ISP2, ISP3, and ISP4, measured antioxidant activity for actinobacterial supernatants and actinobacterial ethyl acetate extracts using the DPPH method. The results showed that from X. granatum, 15 isolates of endophytic actinobacteria were obtained from fruit, seeds, and leaf. Endophytic actinobacteria isolates from X. granatum showed different colors of aerial mycelium, substrate mycelium, and spore chain type. XGF11, XGF12, and XGF4 isolates produced high antioxidant activity of the supernatant; 57.30%, 49.77%, and 41.90% inhibition, respectively. The antioxidant capacity of XGF12 ethyl acetate extract was 501.60 Î¼g AEAC/mg extract and 465.47 Î¼g AEAC/mg extract for XGF11 ethyl acetate extract. DNA extraction and 16S rRNA amplification from endophytic actinobacteria X. granatum according to Presto Mini gDNA Bacteria Kit Protocol. Based on 16S rDNA gene analysis, isolates XGF12 and XGF11 showed 99.16% and 99.42% similarities with Streptomyces xylanilyticus, respectively. Meanwhile, XGF4 showed to have 99.82% similarities with Brevibacterium sediminis.

Application of silica solubilizing bacteria increases water efficiency in maize Indah Puspita SARI; Yulin LESTARI; HAMIM HAMIM; Laksmita Prima SANTI
E-Journal Menara Perkebunan Vol 90, No 1 (2022): April, 2022
Publisher : INDONESIAN RESEARCH INSTITUTE FOR BIOTECHNOLOGY AND BIOINDUSTRY

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22302/iribb.jur.mp.v90i1.493

Abstract Global climate change will result in decreased rainfall and increased evaporation. Thus, it is estimated that the frequency and severity of drought stress will get worse. Silica increases plant drought resistance by improving water use efficiency in plants. Despite its abundant availability in soil, most silica sources are not available to plants due to their low solubility. Silica solubilizing bacteria (SSB) have an important role in increasing the available silica. This study aims to observe the silica solubilizing activity of three SSB isolates collections of PPBBI on insoluble silica sources, including magnesium trisilicate, quartz, and feldspar, and see their effects on increasing water use efficiency in corn plants via drought experiments. SSB activity was measured using the modified standard method of 4500-SiO2 D Heteropoly blue. Drought control in the greenhouse follows the Snow and Tingey system. The experimental design used a completely randomized design factorial with irrigation conditions and SSB species as variables. Water use efficiency is measured in real-time with a sap flow meter. The results showed that SSB Pseudomonas fluorescens-B41 had the highest silica dissolving activity 81.93 ppm on Mg-trisilicate. The application of SSB can reduce maize transpiration rate and increase water use efficiency up to 84% under moderate drought stress and 46% under normal irrigation, but in severe drought stress, where the nutrient solution was maintained at 25 cm from plant root, water use efficiency was not significant. This is suspected due to the extreme drought conditions in the potting soil so that the applied SSB cannot maintain its activities.[Keywords: aquaporin, drought stress, Snow and Tingey system, SSB, quartz]AbstrakPerubahan iklim global mengakibatkan penurunan curah hujan dan peningkatan evaporasi, sehingga diperkirakan frekuensi dan tingkat keparahan cekaman kekeringan akan semakin tinggi. Silika (Si) diketahui dapat meningkatkan ketahanan tanaman terhadap kekeringan dengan cara memperbaiki efisiensi penggunaan air pada tanaman. Meskipun ketersediaanya berlimpah di tanah, sebagian besar Si dalam bentuk yang tidak tersedia bagi tanaman, karena sifat kelarutannya yang rendah. Untuk meningkatkan silika tersedia bagi tanaman, bakteri pelarut silika (BPS) memiliki peranan yang penting. Penelitian ini bertujuan menguji aktivitas pelarutan silika dari tiga koleksi isolat BPS Pusat Penelitian Bioteknologi dan Bioindustri Indonesia (PPBBI) pada sumber silika tidak larut berupa magnesium trisilikat, kuarsa, dan feldspar, serta melihat pengaruh aplikasi BPS terhadap efisiensi penggunaan air pada tanaman jagung yang diberi perlakuan cekaman kekeringan. Aktivitas pelarutan silika diukur menggunakan modifikasi metode standar 4500-SiO2 D Heteropoly blue. Pengendalian kekeringan di rumah kaca mengadaptasi sistem Snow dan Tingey. Rancangan percobaan menggunakan rancangan acak lengkap faktorial dengan kondisi kekeringan dan jenis bakteri BPS sebagai peubah bebas. Efisiensi penggunaan air diukur secara real time dengan sap flow meter. Hasil penelitian menunjukkan bahwa BPS dengan kode Pseudomonas fluorescens-B.41 memiliki aktivitas pelarutan silika tertinggi pada susbtrat Mg-trisilika yaitu 81,93 ppm. Aplikasi BPS menurunkan laju transpirasi jagung dan meningkatkan efisiensi penggunaan air hingga 84% pada cekaman kekeringan sedang dan 46% pada irigasi normal, namun pada cekaman kekeringan parah, dimana larutan hara dipertahankan pada jarak 25 cm dari sistem perakaran efisiensi penggunaan air tidak signifikan. Diduga hal ini disebabkan kondisi kekeringan pada media tanam terlalu ekstrim sehingga BPS yang diaplikasi tidak dapat mempertahankan aktivitasnya.[Kata kunci: aquaporin, cekaman kekeringan, sistem Snow dan Tingey, BPS, kuarsa]

Diversty of Actinomycetes from Soil Samples Collected from Lombok Island, Indonesia Puspita Lisdiyanti; Tomohiko Tamura; Shanti Ratnakomala; Roni Ridwan; Gina Kartina; Yulin Lestari; Ando Katsuhiko; Yantyati Widyastuti
ANNALES BOGORIENSES Vol 16, No 1 (2012): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

A total of 137 strains of Actinomycetes were isolated from 14 soil samples collected in 3 part of Lombok Island, Indonesia using SDS-YE (SY) and Rehydration and Centrifugation (RC) isolation methods and Humic Acic Vitamin (HV) agar as isolation media. All the isolates were identified by morphological characteristic and by analysis of 16S rRNA gene sequence. On the basis of their morphology and 16S rRNA gene sequence, 67% of isolates were belonged to the Streptomyces Group and 33% of isolates were belonged to the Rare-Actinomycetes (Non-Streptomyces) Group. Nine families and 15 genera were found from the samples. It is indicated the richness of actinomycetes in these area. The genus Streptomyces is the most abundant in all soil samples, occupying 67% of all isolates by using SY method; while the genusActinoplanes is mainly found by using RC as isolation method. Two strains belong to the genus Virgisporangium and Catenulispora that showed taxonomic interest need further study for describing as ne species. Keywords: Actinomycetes, Streptomyces Group, Non-Streptomyces Group, Diversity

Lactic Acid Bacteria from Apis dorsata Hive Possessed Probiotic and Angiotensin-Converting Enzyme Inhibitor Activity Meryandini, Anja; Karyawati, Amor Tresna; Nuraida, Lilis; Lestari, Yulin
Makara Journal of Science Vol. 24, No. 1
Publisher : UI Scholars Hub

Show Abstract | Download Original | Original Source | Check in Google Scholar

One source of bacteria that has not been widely explored is lactic acid bacteria originating from honeycomb (hive). Timor Island has a wealth of giant honey bees (Apis dorsata). Lactic acid bacteria from the Apis dorsata hive in Timor Island need to be investigated to obtain probiotic candidates with specific functional properties. Lactic acid bacteria were isolated from honeycomb by using de Mann, Rogosa, and Sharpe agar supplemented with 1% of CaCO3. Bacterial isolates that formed clear zones and were Gram-positive and catalase-negative were determined as lactic acid bacteria. The probiotic candidates are isolates that are resistant to bile salts and low pH; susceptible to antibiotics; are able to aggregate, autoaggregate, and coaggregate; and have antibacterial activities. Isolate MC7 was selected as a probiotic candidate and had inhibitory activity against angiotensin-converting enzyme (ACE) with IC50 263,098 ppm. Isolate MC7 showed weak inhibition against ɑ-glucosidase activity. Molecular identification based on 16S rRNA gene showed that MC7 isolate was closely related to Lactobacillus rhamnosus with 100% similarity. Therefore, isolate MC7 was recommended as a probiotic candidate with a functional property as an inhibitor of ACE.

Genus Diversity of Actinomycetes in Cibinong Science Center, West Java, Indonesia YANTYATI WIDYASTUTI; PUSPITA LISDIYANTI; SHANTI RATNAKOMALA; GINA KARTINA; RONI RIDWAN; ROHMATUSSOLIHAT ROHMATUSSOLIHAT; NITA ROSALINDA PRAYITNO; EVI TRIANA; NUNUK WIDHYASTUTI; RASTI SARASWATI; RATIH DEWI HASTUTI; YULIN LESTARI; MISA OTOGURO; SHINJI MIYADOH; HIDEKI YAMAMURA; TOMOHIKO TAMURA; KATSUHIKO ANDO
Microbiology Indonesia Vol. 6 No. 4 (2012): December 2012
Publisher : Indonesian Society for microbiology

Actinomycetes are microorganisms that play important role to support human health andÂ known as soil microorganisms. The aim of the research was to describe genus diversity of actinomycetes in Cibinong Science Center (CSC), West Java. Samples for isolation were soil and plant litters. The samples were air dried and ground. We employed isolation methods: dry heat (DH), sodium dodecyl sulphates-yeast extract (SDS-YE), rehydration and centrifugation (RC), and oil separation (OS). A total of 263 isolates of actinomycetes were isolated in CSC, in 2004-2006. Totally 58, 144, 50, and 11 isolates were isolated under each isolation methods, respectively. All isolates were identified using the 16S rRNA gene sequencing method. The results showed that the isolates were belonged to the family Kineosporiaceae, Micromonosporaceae, Nocardiaceae, Pseudonocardiaceae, Streptomycetaceae, Streptosporangiaceae, Mycobacteriaceae, Nocardioidaceae, Nocardiopsaceae, and Thermomonosporaceae. There were 23 genera under those families. Homology value of the isolates based on BLAST search using 16S rRNA gene sequence data as queries showed that 136, 91, 30, and 6 isolates were â‰¥99, 98, 97, and â‰¤96%, respectively, compared to the known sequence in data base. The later 6 isolates were interesting for further identification leading to new taxa. Recognized species of Streptomyces genera under the member of the Streptomycetaceae were dominant among other isolates.

16S rRNA-based Metagenomic Analysis of Endophytic Actinomycetes Diversity from Tinospora crispa L. Miers MONA PRIMANITA; ARIS TRI WAHYUDI; YULIN LESTARI
Microbiology Indonesia Vol. 9 No. 1 (2015): March 2015
Publisher : Indonesian Society for microbiology

Endophytic actinomycetes associated with medicinal plants is very important as source of various bioactive compounds. The fact that more than 99% of microbes that exist in nature may have the potency but still unexplored. Published data regarding diversity of endophytic actinomycetes from T. crispa is mainly based on a culturable approach. This paper describes the first reported data regarding metagenomic analysis on the diversity of endophytic actinomycetes from T.crispa based on 16S rRNA gene using PCR-DGGE. There were some similarities amongst endophytic actinomycetes found in stems, roots, and leaves with soil actinomycetes community in the rhizosphere of T. crispa. There were a total of 21 bands found from the DGGE analysis which were interpreted using Phoretix 1D software. Diversity of actinomycetes in the stems, leaves, roots were represented by 17, 16, and 14 bands, respectively. Whereas only 10 bands represented diversity of actinomycetes in the soil rhizosphere. The 12 dominant and or different bands with 180 bp in size were molecularly sequenced. The A4 and A9 bands have 95% and 86% similarities with Williamsia and Streptomyces, respectively. These similarities were less than 97% thus may indicate novel actinomycetes. The other 10 sequenced bands have closed similarity ranging from 97-100% and they were closely related to the genus Streptomyces, Microbacterium, Amycolatopsis, Actinomadura, Actinoplanes, Actinokineospora, Kibdelosporangium, Williamsia and Kocuria. These findings indicate that diversity of actinomycetes can be found associated with T. crispa.Â

Co-Authors Abdjad Asih Nawangsih Alifian Ariansyah Amor Tresna Karyawati, Amor Tresna Anas, Iswandi ANDO KATSUHIKO Ando Katsuhiko Anja Meryandini Anja Meryandini Anja Meryandini Antonius Suwanto dan Meity S. Sinaga . Budi Tjahjono Andi Khaeruni R ARI SUSILOWATI Ariansyah, Alifian Aris Tri Wahyudi ARTINI PANGASTUTI Arum Asiyanti Suhastyo, Arum Asiyanti Arum Asriyanti Suhastyo BAMBANG MARWOTO Batara, Lily Noviani Budi Wirawan Deden Saprudin DWI ANDREAS SANTOSA Dyah Iswantini Dyah Iswantini DYAH NOOR HIDAYATI Egra, Saat Endang Sukara Evi Triana EVI TRIANA Ferry Mutia Fitriandini, Risa GINA KARTINA Gina Kartina GINA KARTINA Hamim Hamim HIDEKI YAMAMURA Iman Rusmana Indah Puspita SARI Irmanida Batubara Irmanida Batubara Iswandi Anas Iswandi Anas Katsuhiko Ando KATSUHIKO ANDO Laksmita Prima SANTI Lenni Fitri Lenni Fitri Lia Aseptin Murdini Lilis Nuraida Maggy T. Suhartono Maggy Thenawidjaja Suhartono Mahyarudin, Mahyarudin Marina Ratte Mazidah Noer Inayah Min Rahminiwati Misa Otoguro MISA OTOGURO MONA PRIMANITA Niken Financia Gusmawati Nita Rosalinda Prayitno NITA ROSALINDA PRAYITNO Nunuk Widhyastuti NUNUK WIDHYASTUTI PUSPITA LISDIYANTI Puspita Lisdiyanti PUSPITA LISDIYANTI Puspita Lisdiyanti PUSPITA LISDIYANTI RASTI SARASWATI RASTI SARASWATI RATIH DEWI HASTUTI RATIH DEWI HASTUTI Ratih Dwi Hastuti ROHMATUSSOLIHAT ROHMATUSSOLIHAT RONI RIDWAN Roni Ridwan RONI RIDWAN Saat Egra SASMIATI FARACH DITA Shanti Ratnakomala SHANTI RATNAKOMALA Shanti Ratnakomala SHANTI RATNAKOMALA SHINJI MIYADOH Sipriyadi Sri Budiarti Poerwanto Suryo Wiyono SUSILOWATI1 SUSILOWATI1 TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN Titi Candra Sunarti dan Michael (E-Jurnal Agro-Industri Indonesia) TOMOHIKO TAMURA TOMOHIKO TAMURA Tomohiko Tamura TRI RATNA SULISTIYANI TRIO HENDARWIN Umi Fatmawati Winanda, Witri Yantyati Widyastuti Yantyati Widyastuti Yantyati Widyastuti YANTYATI WIDYASTUTI

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