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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Jurnal Teknologi Dan Industri Pangan Sainteks Microbiology Indonesia BIOTROPIA - The Southeast Asian Journal of Tropical Biology Biotropika Indonesian Journal of Biotechnology Jurnal Sumberdaya Hayati Indonesian Journal of Chemistry ANNALES BOGORIENSES Marine Research in Indonesia Biosaintifika: Journal of Biology & Biology Education Menara Perkebunan Jurnal Tanah dan Iklim Makara Journal of Science Annales Bogorienses

YULIN LESTARI

Departemen Biologi, Fakultas Matematika Dan Ilmu Pengetahuan Alam, Institut Pertanian Bogor, Kampus IPB Dramaga, Bogor 16680

Author-ID : 306475

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Earth & Planetary Sciences Economics, Econometrics & Finance 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.

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 A. HAITAMI Abdjad Asih Nawangsih Alifian Ariansyah Amor Tresna Karyawati, Amor Tresna Anas Dinurrohman Susila ANDO KATSUHIKO Ando Katsuhiko Anja Meryandini Anja Meryandini Anja Meryandini Antonius Suwanto 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 Dedy Duryadi Solihin Didy Sopandie DITA, SASMIATI FARACH DWI ANDREAS SANTOSA Dyah Iswantini DYAH NOOR HIDAYATI Efendi, Firda Sri Egra, Saat Elisa Sopiatul Fitriani Endang Sukara Evi Triana EVI TRIANA Farhana Halimah Rusyda Ferry Mutia Fitriandini, Risa GINA KARTINA GINA KARTINA Gina Kartina Hamim Hamim Hastuti, Ratih Dwi HIDEKI YAMAMURA Iman Rusmana Inayah, Mazidah Noer Indah Puspita SARI Irmanida Batubara Isra Janatiningrum 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 MISA OTOGURO MISA OTOGURO MONA PRIMANITA Munif Ghulamahdi N. Nurjanah Niken Financia Gusmawati NITA ROSALINDA PRAYITNO NITA ROSALINDA PRAYITNO Nunuk Widhyastuti NUNUK WIDHYASTUTI NUNUK WIDHYASTUTI PUSPITA LISDIYANTI PUSPITA LISDIYANTI Puspita Lisdiyanti Rahminiwati, Min RASTI SARASWATI RASTI SARASWATI RATIH DEWI HASTUTI RATIH DEWI HASTUTI Ratte, Marina RIKA RAFFIUDIN Risa Fitriandini ROHMATUSSOLIHAT ROHMATUSSOLIHAT RONI RIDWAN RONI RIDWAN Roni Ridwan Saat Egra SHANTI RATNAKOMALA SHANTI RATNAKOMALA Shanti Ratnakomala SHINJI MIYADOH Sipriyadi Sipriyadi Sipriyadi Sri Budiarti Sri Budiarti Poerwanto Suryo Wiyono SUSILOWATI1 SUSILOWATI1 TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN Titi Candra Sunarti TOMOHIKO TAMURA Tomohiko Tamura TOMOHIKO TAMURA TRI RATNA SULISTIYANI TRIO HENDARWIN Umi Fatmawati Winanda, Witri Witri Winanda YANTYATI WIDYASTUTI Yantyati Widyastuti Yantyati Widyastuti Zaenal Abidin

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Journal : Microbiology Indonesia